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Conserved domains on  [gi|115502143|sp|Q2NL08|]
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RecName: Full=ATP-dependent RNA helicase DDX55; AltName: Full=DEAD box protein 55

Protein Classification

DDX55/SPB4 family DEAD/DEAH box RNA helicase( domain architecture ID 13028873)

DDX55/SPB4 family DEAD/DEAH box containing ATP-dependent RNA helicase catalyzes the unwinding of RNA, similar to ATP-dependent rRNA helicase SPB4 that is involved in the biogenesis of 60S ribosomal subunits

CATH:  3.40.50.300
EC:  3.6.4.13
Gene Ontology:  GO:0016887|GO:0003723|GO:0003724|GO:0005524
PubMed:  20206133|21779027|20225155

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 20-224 1.20e-121

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


:

Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 357.66  E-value: 1.20e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVGAIIITPTRELAVQIE 99
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKP-FPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEgldlASCVRSLEVLVLDEADRLLD 178
Cdd:cd17960   81 EVLQSFLEHhLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 242-372 1.13e-49

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 168.45  E-value: 1.13e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 242 LENHYMVCKADEKFNQL-VHFLRNHKQEKHLVFFSTCACVEYYGKALETLvkGVKIMCIHGKMKYK-RNKIFMEFRKLQS 319
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 115502143 320 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 405-462 1.05e-20

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


:

Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 85.53  E-value: 1.05e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143  405 PKLKAMALGDRAVFEKGMKAFVSYVQAYAKHECNLIFRLKDLDFASLARGFALLRMPK 462
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 20-224 1.20e-121

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 357.66  E-value: 1.20e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVGAIIITPTRELAVQIE 99
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKP-FPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEgldlASCVRSLEVLVLDEADRLLD 178
Cdd:cd17960   81 EVLQSFLEHhLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
16-420 3.84e-118

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 357.15  E-value: 3.84e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKfkksQVGAIIITPTRELA 95
Cdd:COG0513    9 LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPR----APQALILAPTRELA 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKPFPQFSQILwIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegLDLascvRSLEVLVLDEADR 175
Cdd:COG0513   85 LQVAEELRKLAKYLGLRVATV-YGGVSIGRQIRALKR-GVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADR 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 176 LLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMVCKADEKF 255
Cdd:COG0513  157 MLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKL 229

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 256 NQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDI 334
Cdd:COG0513  230 ELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDI 307

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 335 PEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEESYISFL--AINQKCPLQEM-----KLQKNTADLLPKL 407
Cdd:COG0513  308 DDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELpgfepVEEKRLERLKPKI 387

                        410
                 ....*....|...
gi 115502143 408 KAMALGDRAVFEK 420
Cdd:COG0513  388 KEKLKGKKAGRGG 400
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 15-407 2.04e-66

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 223.91  E-value: 2.04e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  15 PLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieeiLLRREEkFKKSQVGAIIITPTREL 94
Cdd:PRK11776  10 PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLG----LLQKLD-VKRFRVQALVLCPTREL 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  95 AVQIEEVL------SHFTKpfpqfsqILWIGGRNP-GEDVARFkELGGNIIVATPGRLEDMFRRkaEGLDLAScvrsLEV 167
Cdd:PRK11776  85 ADQVAKEIrrlarfIPNIK-------VLTLCGGVPmGPQIDSL-EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNT 150

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 168 LVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasSTQKTPSrLENHYM 247
Cdd:PRK11776 151 LVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------STHDLPA-IEQRFY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 248 VCKADEKFNQLVHFLRNHKQEKHLVFFSTCA-CVEYYgKALEtlVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCT 325
Cdd:PRK11776 223 EVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALN--AQGFSALALHGDLeQRDRDQVLVRFANRSCSVLVAT 299

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 326 DVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEESYISFLAINQKCPLQEMKLQ----KNTA 401
Cdd:PRK11776 300 DVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLNWEPLPslspLSGV 379


                 ....*.
gi 115502143 402 DLLPKL 407
Cdd:PRK11776 380 PLLPEM 385
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 242-372 1.13e-49

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 168.45  E-value: 1.13e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 242 LENHYMVCKADEKFNQL-VHFLRNHKQEKHLVFFSTCACVEYYGKALETLvkGVKIMCIHGKMKYK-RNKIFMEFRKLQS 319
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 115502143 320 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 33-212 9.58e-49

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 167.03  E-value: 9.58e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   33 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKksqvgAIIITPTRELAVQIEEVLSHFTKPFPQF 112
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLGLK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  113 SqILWIGGRNPGEDVARFKelGGNIIVATPGRLEDMFRRKAEgldlascVRSLEVLVLDEADRLLDMGFETSINTILEFL 192
Cdd:pfam00270  76 V-ASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 115502143  193 PKQRRTGLFSATQTQEVENL 212
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
DEXDc smart00487
DEAD-like helicases superfamily;
24-228 1.07e-41

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 149.56  E-value: 1.07e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143    24 LRELGFPYMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPIEEILLRREEKfkksqvGAIIITPTRELAVQIEEVL 102
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   103 SHFTKPFPqFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEGLdlascvRSLEVLVLDEADRLLDMGFE 182
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 115502143   183 TSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 228
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 253-363 2.37e-28

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 109.22  E-value: 2.37e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  253 EKFNQLVHFLRNHKQEKHLVFFSTCACVEYygKALETLvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARG 331
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA--ELLLEK-EGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77

                          90       100       110
                  ....*....|....*....|....*....|..
gi 115502143  332 IDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 363
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
292-363 4.86e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 93.05  E-value: 4.86e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 115502143   292 KGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 363
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 405-462 1.05e-20

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 85.53  E-value: 1.05e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143  405 PKLKAMALGDRAVFEKGMKAFVSYVQAYAKHECNLIFRLKDLDFASLARGFALLRMPK 462
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
321-365 7.23e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.42  E-value: 7.23e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 321 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHG 365
Cdd:COG1111  414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKREG 458
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 280-338 3.88e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 50.05  E-value: 3.88e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  280 VEYYGKALETLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 338
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
PRK13766 PRK13766
Hef nuclease; Provisional
 313-370 2.38e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 2.38e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 115502143 313 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 370
Cdd:PRK13766 418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
 
Name Accession Description Interval E-value
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 20-224 1.20e-121

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 357.66  E-value: 1.20e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVGAIIITPTRELAVQIE 99
Cdd:cd17960    1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLEILLKRKANLKKGQVGALIISPTRELATQIY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKP-FPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEgldlASCVRSLEVLVLDEADRLLD 178
Cdd:cd17960   81 EVLQSFLEHhLPKLKCQLLIGGTNVEEDVKKFKRNGPNILVGTPGRLEELLSRKAD----KVKVKSLEVLVLDEADRLLD 156

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17960  157 LGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
16-420 3.84e-118

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 357.15  E-value: 3.84e-118
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKfkksQVGAIIITPTRELA 95
Cdd:COG0513    9 LSPPLLKALAELGYTTPTPIQAQAIPLILAGRDVLGQAQTGTGKTAAFLLPLLQRLDPSRPR----APQALILAPTRELA 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKPFPQFSQILwIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegLDLascvRSLEVLVLDEADR 175
Cdd:COG0513   85 LQVAEELRKLAKYLGLRVATV-YGGVSIGRQIRALKR-GVDIVVATPGRLLDLIERGA--LDL----SGVETLVLDEADR 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 176 LLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMVCKADEKF 255
Cdd:COG0513  157 MLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAPE-------NATAETIEQRYYLVDKRDKL 229

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 256 NQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDI 334
Cdd:COG0513  230 ELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQRERALDAFRNGKIRVLVATDVAARGIDI 307

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 335 PEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEESYISFL--AINQKCPLQEM-----KLQKNTADLLPKL 407
Cdd:COG0513  308 DDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekLIGQKIEEEELpgfepVEEKRLERLKPKI 387

                        410
                 ....*....|...
gi 115502143 408 KAMALGDRAVFEK 420
Cdd:COG0513  388 KEKLKGKKAGRGG 400
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 20-224 7.63e-74

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 234.26  E-value: 7.63e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKsQVGAIIITPTRELAVQIE 99
Cdd:cd00268    1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILEKLLPEPKKKGR-GPQALVLAPTRELAMQIA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKpFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegLDLascvRSLEVLVLDEADRLLDM 179
Cdd:cd00268   80 EVARKLGK-GTGLKVAAIYGGAPIKKQIEALKK-GPDIVVGTPGRLLDLIERGK--LDL----SNVKYLVLDEADRMLDM 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 180 GFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd00268  152 GFEEDVEKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 15-407 2.04e-66

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 223.91  E-value: 2.04e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  15 PLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieeiLLRREEkFKKSQVGAIIITPTREL 94
Cdd:PRK11776  10 PLPPALLANLNELGYTEMTPIQAQSLPAILAGKDVIAQAKTGSGKTAAFGLG----LLQKLD-VKRFRVQALVLCPTREL 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  95 AVQIEEVL------SHFTKpfpqfsqILWIGGRNP-GEDVARFkELGGNIIVATPGRLEDMFRRkaEGLDLAScvrsLEV 167
Cdd:PRK11776  85 ADQVAKEIrrlarfIPNIK-------VLTLCGGVPmGPQIDSL-EHGAHIIVGTPGRILDHLRK--GTLDLDA----LNT 150

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 168 LVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasSTQKTPSrLENHYM 247
Cdd:PRK11776 151 LVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------STHDLPA-IEQRFY 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 248 VCKADEKFNQLVHFLRNHKQEKHLVFFSTCA-CVEYYgKALEtlVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCT 325
Cdd:PRK11776 223 EVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALN--AQGFSALALHGDLeQRDRDQVLVRFANRSCSVLVAT 299

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 326 DVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEESYISFLAINQKCPLQEMKLQ----KNTA 401
Cdd:PRK11776 300 DVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLNWEPLPslspLSGV 379


                 ....*.
gi 115502143 402 DLLPKL 407
Cdd:PRK11776 380 PLLPEM 385
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 16-218 4.97e-62

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 203.97  E-value: 4.97e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATI-PLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVGAIIITPTREL 94
Cdd:cd17964    1 LDPSLLKALTRMGFETMTPVQQKTLkPILSTGDDVLARAKTGTGKTLAFLLPAIQSLLNTKPAGRRSGVSALIISPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  95 AVQIEE----VLSHFTKpfpqFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEGLDLascvRSLEVLVL 170
Cdd:cd17964   81 ALQIAAeakkLLQGLRK----LRVQSAVGGTSRRAELNRLRRGRPDILVATPGRLIDHLENPGVAKAF----TDLDYLVL 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 115502143 171 DEADRLLDMGFETSINTILEFLPK----QRRTGLFSATQTQEVENLVRAGLR 218
Cdd:cd17964  153 DEADRLLDMGFRPDLEQILRHLPEknadPRQTLLFSATVPDEVQQIARLTLK 204
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 21-225 1.37e-61

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 202.52  E-value: 1.37e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  21 LSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRreEKFKKSQ-VGAIIITPTRELAVQIE 99
Cdd:cd17941    2 LKGLKEAGFIKMTEIQRDSIPHALQGRDILGAAKTGSGKTLAFLVPLLEKLYR--ERWTPEDgLGALIISPTRELAMQIF 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKpFPQFSQILWIGGRNPGEDVARFKELggNIIVATPGR-LEDMfrRKAEGLDLAScvrsLEVLVLDEADRLLD 178
Cdd:cd17941   80 EVLRKVGK-YHSFSAGLIIGGKDVKEEKERINRM--NILVCTPGRlLQHM--DETPGFDTSN----LQMLVLDEADRILD 150

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*..
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd17941  151 MGFKETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 16-372 1.24e-60

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 209.00  E-value: 1.24e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLR---REEKFkKSQVGAIIITPTR 92
Cdd:PRK01297  94 LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIGRAQTGTGKTAAFLISIINQLLQtppPKERY-MGEPRALIIAPTR 172

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  93 ELAVQIEEVLSHFTKpFPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEGLDLascvrsLEVLVLDE 172
Cdd:PRK01297 173 ELVVQIAKDAAALTK-YTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDM------VEVMVLDE 245

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 173 ADRLLDMGFETSINTILEFLPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASStqktpsrLENH-YMVC 249
Cdd:PRK01297 246 ADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDT-------VEQHvYAVA 318

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 250 KADeKFNQLVHFLRNHKQEKHLVFFSTCACVEyygKALETLVK-GVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDV 327
Cdd:PRK01297 319 GSD-KYKLLYNLVTQNPWERVMVFANRKDEVR---RIEERLVKdGINAAQLSGDVpQHKRIKTLEGFREGKIRVLVATDV 394

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 328 MARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:PRK01297 395 AGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFA 439
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 20-224 2.25e-60

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 199.02  E-value: 2.25e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVgaIIITPTRELAVQIE 99
Cdd:cd17947    1 LLRALSSLGFTKPTPIQAAAIPLALLGKDICASAVTGSGKTAAFLLPILERLLYRPKKKAATRV--LVLVPTRELAMQCF 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLshftKPFPQFSQI---LWIGGRNPGEDVARFKeLGGNIIVATPGRLEDMFRrKAEGLDLAScvrsLEVLVLDEADRL 176
Cdd:cd17947   79 SVL----QQLAQFTDItfaLAVGGLSLKAQEAALR-ARPDIVIATPGRLIDHLR-NSPSFDLDS----IEILVLDEADRM 148

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 177 LDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17947  149 LEEGFADELKEILRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 16-407 1.22e-59

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 208.65  E-value: 1.22e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREE--KFKKSQVGAIIITPTRE 93
Cdd:PRK04537  16 LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPAlaDRKPEDPRALILAPTRE 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  94 LAVQIEEVLSHFTKPFP-QFSQILwiggrnPGEDVARFKEL---GGNIIVATPGRLEDmFRRKAEGLDLASCvrslEVLV 169
Cdd:PRK04537  96 LAIQIHKDAVKFGADLGlRFALVY------GGVDYDKQRELlqqGVDVIIATPGRLID-YVKQHKVVSLHAC----EICV 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 170 LDEADRLLDMGFETSINTILEFLPKQ--RRTGLFSATQTQEVENLVRAGLRNPvrisvkEKGVAASSTqKTPSRLENHYM 247
Cdd:PRK04537 165 LDEADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHMNEP------EKLVVETET-ITAARVRQRIY 237

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 248 VCKADEKFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTD 326
Cdd:PRK04537 238 FPADEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLER--HGYRVGVLSGDVpQKKRESLLNRFQKGQLEILVATD 315

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 327 VMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEESYISflainQKCPLQEMklqkn 399
Cdd:PRK04537 316 VAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFAceryamsLPDIEAYIE-----QKIPVEPV----- 385


                 ....*...
gi 115502143 400 TADLLPKL 407
Cdd:PRK04537 386 TAELLTPL 393
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 16-368 1.55e-59

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 204.79  E-value: 1.55e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILL---RReekfKKSQVGAIIITPTR 92
Cdd:PRK11192   8 LDESLLEALQDKGYTRPTAIQAEAIPPALDGRDVLGSAPTGTGKTAAFLLPALQHLLdfpRR----KSGPPRILILTPTR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  93 ELAVQIEEVLSHFTKpFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLedMFRRKAEGLDLascvRSLEVLVLDE 172
Cdd:PRK11192  84 ELAMQVADQARELAK-HTHLDIATITGGVAYMNHAEVFSE-NQDIVVATPGRL--LQYIKEENFDC----RAVETLILDE 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 173 ADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQE-VENLVRAGLRNPVRISVKekgvaasstqktPSRLEN---HYMV 248
Cdd:PRK11192 156 ADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDaVQDFAERLLNDPVEVEAE------------PSRRERkkiHQWY 223

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 249 CKADE---KFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVC 324
Cdd:PRK11192 224 YRADDlehKTALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRK--AGINCCYLEGEMvQAKRNEAIKRLTDGRVNVLVA 301

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....
gi 115502143 325 TDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSA 368
Cdd:PRK11192 302 TDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTA 345
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 3-380 1.93e-55

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 193.65  E-value: 1.93e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   3 HVTEGSWESLPvpLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRRE--EKFKK 80
Cdd:PRK04837   4 HLTEQKFSDFA--LHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPapEDRKV 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  81 SQVGAIIITPTRELAVQIE---EVLSHFTKpfpqFSQILWIGGRnpGEDVARFK-ELGGNIIVATPGRLEDMFRRKAEGL 156
Cdd:PRK04837  82 NQPRALIMAPTRELAVQIHadaEPLAQATG----LKLGLAYGGD--GYDKQLKVlESGVDILIGTTGRLIDYAKQNHINL 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 157 DlascvrSLEVLVLDEADRLLDMGFETSINTILEFLP--KQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaass 234
Cdd:PRK04837 156 G------AIQVVVLDEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPE------ 223

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 235 tQKTPSRLENHYMVCKADEKFNQLVHFLRNHKQEKHLVFFST---CACVEYYGKAletlvKGVKIMCIHGKM-KYKRNKI 310
Cdd:PRK04837 224 -QKTGHRIKEELFYPSNEEKMRLLQTLIEEEWPDRAIIFANTkhrCEEIWGHLAA-----DGHRVGLLTGDVaQKKRLRI 297

                        330       340       350       360       370       380       390
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 115502143 311 FMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEESYI 380
Cdd:PRK04837 298 LEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAceeyalnLPAIETYI 374
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 24-220 6.32e-55

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 184.87  E-value: 6.32e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  24 LRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRReeKFK-KSQVGAIIITPTRELAVQIEEVL 102
Cdd:cd17942    5 IEEMGFTKMTEIQAKSIPPLLEGRDVLGAAKTGSGKTLAFLIPAIELLYKL--KFKpRNGTGVIIISPTRELALQIYGVA 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 103 SHFTKPFPQFSQILwIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLdlascVRSLEVLVLDEADRLLDMGFE 182
Cdd:cd17942   83 KELLKYHSQTFGIV-IGGANRKAEAEKLGK-GVNILVATPGRLLDHLQNTKGFL-----YKNLQCLIIDEADRILEIGFE 155

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 115502143 183 TSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 220
Cdd:cd17942  156 EEMRQIIKLLPKRRQTMLFSATQTRKVEDLARISLKKK 193
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 16-224 8.12e-54

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 182.13  E-value: 8.12e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKksqvgAIIITPTRELA 95
Cdd:cd17954    7 VCEELCEACEKLGWKKPTKIQEEAIPVALQGRDIIGLAETGSGKTAAFALPILQALLENPQRFF-----ALVLAPTRELA 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKPFPQFSQILwIGGRNPgedVARFKELGGN--IIVATPGRLEDMFRRkAEGLDLascvRSLEVLVLDEA 173
Cdd:cd17954   82 QQISEQFEALGSSIGLKSAVL-VGGMDM---MAQAIALAKKphVIVATPGRLVDHLEN-TKGFSL----KSLKFLVMDEA 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 115502143 174 DRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17954  153 DRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 8-369 9.12e-54

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 190.02  E-value: 9.12e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   8 SWESLPvpLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFK-KSQVGAI 86
Cdd:PRK10590   2 SFDSLG--LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKgRRPVRAL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  87 IITPTRELAVQIEEVLSHFTKPFPQFSQILWIG-GRNPgedvARFKELGG-NIIVATPGRLEDMFRRKAEGLDlascvrS 164
Cdd:PRK10590  80 ILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGvSINP----QMMKLRGGvDVLVATPGRLLDLEHQNAVKLD------Q 149

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 165 LEVLVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAAsstqktpsrlen 244
Cdd:PRK10590 150 VEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTAS------------ 217

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 245 hymvckadEKFNQLVHFL-RNHKQE------------KHLVFFSTCACVEYYGKALETlvKGVKIMCIHG-KMKYKRNKI 310
Cdd:PRK10590 218 --------EQVTQHVHFVdKKRKREllsqmigkgnwqQVLVFTRTKHGANHLAEQLNK--DGIRSAAIHGnKSQGARTRA 287

                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 115502143 311 FMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSAL 369
Cdd:PRK10590 288 LADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEAL 346
PTZ00110 PTZ00110
helicase; Provisional
 20-374 5.39e-53

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 189.98  E-value: 5.39e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-IEEILLRREEKFKKSQVgAIIITPTRELAVQI 98
Cdd:PTZ00110 141 ILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPaIVHINAQPLLRYGDGPI-VLVLAPTRELAEQI 219

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  99 EEVLSHFTKPFPQFSQILWIGGRNPGEDVARfkELGGNIIVATPGRLEDMFRRKAEGLdlascvRSLEVLVLDEADRLLD 178
Cdd:PTZ00110 220 REQCNKFGASSKIRNTVAYGGVPKRGQIYAL--RRGVEILIACPGRLIDFLESNVTNL------RRVTYLVLDEADRMLD 291

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRN-PVRISVkekgvaASSTQKTPSRLENHYMVCKADEKFNQ 257
Cdd:PTZ00110 292 MGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNV------GSLDLTACHNIKQEVFVVEEHEKRGK 365

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 258 LVHFLRN--HKQEKHLVFFSTCACVEYYGKALEtlVKGVKIMCIHG-KMKYKRNKIFMEFRKLQSGILVCTDVMARGIDI 334
Cdd:PTZ00110 366 LKMLLQRimRDGDKILIFVETKKGADFLTKELR--LDGWPALCIHGdKKQEERTWVLNEFKTGKSPIMIATDVASRGLDV 443

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|
gi 115502143 335 PEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLP 374
Cdd:PTZ00110 444 KDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTP 483
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 16-372 1.10e-49

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 182.36  E-value: 1.10e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIeeiLLRREEKFKKSQVgaIIITPTRELA 95
Cdd:PRK11634  13 LKAPILEALNDLGYEKPSPIQAECIPHLLNGRDVLGMAQTGSGKTAAFSLPL---LHNLDPELKAPQI--LVLAPTRELA 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKPFPQFSQILWIGGRNpgEDVA-RFKELGGNIIVATPGRLEDMFRRKAegLDLAScvrsLEVLVLDEAD 174
Cdd:PRK11634  88 VQVAEAMTDFSKHMRGVNVVALYGGQR--YDVQlRALRQGPQIVVGTPGRLLDHLKRGT--LDLSK----LSGLVLDEAD 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 175 RLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP--VRISvkekgvaaSSTQKTPSRLENHYMVcKAD 252
Cdd:PRK11634 160 EMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPqeVRIQ--------SSVTTRPDISQSYWTV-WGM 230

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 253 EKFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKMkykrNKIFME--FRKLQSG---ILVCTDV 327
Cdd:PRK11634 231 RKNEALVRFLEAEDFDAAIIFVRTKNATLEVAEALER--NGYNSAALNGDM----NQALREqtLERLKDGrldILIATDV 304

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 328 MARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:PRK11634 305 AARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFV 349
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 242-372 1.13e-49

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 168.45  E-value: 1.13e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 242 LENHYMVCKADEKFNQL-VHFLRNHKQEKHLVFFSTCACVEYYGKALETLvkGVKIMCIHGKMKYK-RNKIFMEFRKLQS 319
Cdd:cd18787    1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 115502143 320 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:cd18787   79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 27-224 1.76e-49

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 170.84  E-value: 1.76e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  27 LGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQ-VGAIIITPTRELAVQIEEVLSHF 105
Cdd:cd17949    9 MGIEKPTAIQKLAIPVLLQGRDVLVRSQTGSGKTLAYLLPIIQRLLSLEPRVDRSDgTLALVLVPTRELALQIYEVLEKL 88

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 106 TKPFPqfsqilWI------GGRNPGEDVARFKElGGNIIVATPGRLEDMFrRKAEGLDLAscvrSLEVLVLDEADRLLDM 179
Cdd:cd17949   89 LKPFH------WIvpgyliGGEKRKSEKARLRK-GVNILIATPGRLLDHL-KNTQSFDVS----NLRWLVLDEADRLLDM 156

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143 180 GFETSINTILEFL-------------PKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17949  157 GFEKDITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 33-212 9.58e-49

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 167.03  E-value: 9.58e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   33 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKksqvgAIIITPTRELAVQIEEVLSHFTKPFPQF 112
Cdd:pfam00270   1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPQ-----ALVLAPTRELAEQIYEELKKLGKGLGLK 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  113 SqILWIGGRNPGEDVARFKelGGNIIVATPGRLEDMFRRKAEgldlascVRSLEVLVLDEADRLLDMGFETSINTILEFL 192
Cdd:pfam00270  76 V-ASLLGGDSRKEQLEKLK--GPDILVGTPGRLLDLLQERKL-------LKNLKLLVLDEAHRLLDMGFGPDLEEILRRL 145

                         170       180
                  ....*....|....*....|
gi 115502143  193 PKQRRTGLFSATQTQEVENL 212
Cdd:pfam00270 146 PKKRQILLLSATLPRNLEDL 165
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 7-223 1.49e-48

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 168.25  E-value: 1.49e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   7 GSWESLPvpLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREekfKKSQVGAI 86
Cdd:cd17959    1 GGFQSMG--LSPPLLRAIKKKGYKVPTPIQRKTIPLILDGRDVVAMARTGSGKTAAFLIPMIEKLKAHS---PTVGARAL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  87 IITPTRELAVQIEEvlshFTKPFPQFSQILW--IGGRNPGEDvaRFKELGGN--IIVATPGRLedmFRRKAE-GLDLasc 161
Cdd:cd17959   76 ILSPTRELALQTLK----VTKELGKFTDLRTalLVGGDSLEE--QFEALASNpdIIIATPGRL---LHLLVEmNLKL--- 143

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 115502143 162 vRSLEVLVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17959  144 -SSVEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLI 204
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 20-224 3.02e-48

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 167.88  E-value: 3.02e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLR---REEKFKKSQVGAIIITPTRELAV 96
Cdd:cd17945    1 LLRVIRKLGYKEPTPIQRQAIPIGLQNRDIIGIAETGSGKTAAFLIPLLVYISRlppLDEETKDDGPYALILAPTRELAQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  97 QIEEVLSHFTKPFPqFSQILWIGGRNPgEDVARFKELGGNIIVATPGRLEDMFRRKAegLDLASCvrslEVLVLDEADRL 176
Cdd:cd17945   81 QIEEETQKFAKPLG-IRVVSIVGGHSI-EEQAFSLRNGCEILIATPGRLLDCLERRL--LVLNQC----TYVVLDEADRM 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143 177 LDMGFETSINTILEFLP--------------------KQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17945  153 IDMGFEPQVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPVVVT 220
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 16-372 2.05e-46

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 171.12  E-value: 2.05e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEE--ILLRREEKFKKSQVGAIIITPTRE 93
Cdd:PLN00206 128 LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIISrcCTIRSGHPSEQRNPLAMVLTPTRE 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  94 LAVQIEEVLSHFTKPFPqFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDLAScvrsleVLVLDEA 173
Cdd:PLN00206 208 LCVQVEDQAKVLGKGLP-FKTALVVGGDAMPQQLYRIQQ-GVELIVGTPGRLIDLLSKHDIELDNVS------VLVLDEV 279

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 174 DRLLDMGFETSINTILEFLPkQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASSTQKTPSRLEnhymvckADE 253
Cdd:PLN00206 280 DCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVE-------TKQ 351

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 254 KFNQLVHFL--RNHKQEKHLVFFSTCACVEYYGKALeTLVKGVKIMCIHGK--MKyKRNKIFMEFRKLQSGILVCTDVMA 329
Cdd:PLN00206 352 KKQKLFDILksKQHFKPPAVVFVSSRLGADLLANAI-TVVTGLKALSIHGEksMK-ERREVMKSFLVGEVPVIVATGVLG 429

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|...
gi 115502143 330 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:PLN00206 430 RGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 15-225 2.94e-45

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 159.57  E-value: 2.94e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  15 PLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILL--------RREEKFKKSqvgAI 86
Cdd:cd17967    6 GLRELLLENIKRAGYTKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPIISKLLedgppsvgRGRRKAYPS---AL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  87 IITPTRELAVQIEEVLSHFTKPFPQFSQILWiGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDlascvrSLE 166
Cdd:cd17967   83 ILAPTRELAIQIYEEARKFSYRSGVRSVVVY-GGADVVHQQLQLLR-GCDILVATPGRLVDFIERGRISLS------SIK 154

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 115502143 167 VLVLDEADRLLDMGFETSINTILEF--LPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd17967  155 FLVLDEADRMLDMGFEPQIRKIVEHpdMPPkgERQTLMFSATFPREIQRLAADFLKNYIFLTV 217
PTZ00424 PTZ00424
helicase 45; Provisional
 28-404 4.06e-45

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 165.00  E-value: 4.06e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  28 GFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIpieEILLRREEKFKKSQVgaIIITPTRELAVQIEEVlshfTK 107
Cdd:PTZ00424  47 GFEKPSAIQQRGIKPILDGYDTIGQAQSGTGKTATFVI---AALQLIDYDLNACQA--LILAPTRELAQQIQKV----VL 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 108 PFPQFSQI---LWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDlascvrSLEVLVLDEADRLLDMGFETS 184
Cdd:PTZ00424 118 ALGDYLKVrchACVGGTVVRDDINKLKA-GVHMVVGTPGRVYDMIDKRHLRVD------DLKLFILDEADEMLSRGFKGQ 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 185 INTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSRLENHYMVCKADE-KFNQLVHFLR 263
Cdd:PTZ00424 191 IYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKD-------ELTLEGIRQFYVAVEKEEwKFDTLCDLYE 263

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 264 NHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQ 342
Cdd:PTZ00424 264 TLTITQAIIYCNTRRKVDYLTKKMHE--RDFTVSCMHGDMDQKdRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVIN 341

                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 115502143 343 YDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEESYISFLAINQKCPLQEMKLQknTADLL 404
Cdd:PTZ00424 342 YDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEMPME--VADYL 401
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 16-221 4.62e-44

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 155.82  E-value: 4.62e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPI-EEILLRREEKFKKSQVGAIIITPTREL 94
Cdd:cd17961    1 LDPRLLKAIAKLGWEKPTLIQSKAIPLALEGKDILARARTGSGKTAAYALPIiQKILKAKAESGEEQGTRALILVPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  95 AVQIEEVLSHFTKPFPQFSQILWIGGrNPGEDVARFKeLGGN--IIVATPGRLEDMFRRKAEGLdlascVRSLEVLVLDE 172
Cdd:cd17961   81 AQQVSKVLEQLTAYCRKDVRVVNLSA-SSSDSVQRAL-LAEKpdIVVSTPARLLSHLESGSLLL-----LSTLKYLVIDE 153

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 115502143 173 ADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 221
Cdd:cd17961  154 ADLVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPA 202
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 20-223 3.14e-43

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 153.65  E-value: 3.14e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEK--FKKSQvG--AIIITPTRELA 95
Cdd:cd17951    1 ILKGLKKKGIKKPTPIQMQGLPTILSGRDMIGIAFTGSGKTLVFTLPLIMFALEQEKKlpFIKGE-GpyGLIVCPSRELA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKP-----FPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDLasCvrslEVLVL 170
Cdd:cd17951   80 RQTHEVIEYYCKAlqeggYPQLRCLLCIGGMSVKEQLEVIRK-GVHIVVATPGRLMDMLNKKKINLDI--C----RYLCL 152

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 115502143 171 DEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17951  153 DEADRMIDMGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 10-221 5.73e-43

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 152.76  E-value: 5.73e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  10 ESLPvpLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILlrREEKFKksqVGAIIIT 89
Cdd:cd17955    2 EDLG--LSSWLVKQCASLGIKEPTPIQKLCIPEILAGRDVIGGAKTGSGKTAAFALPILQRL--SEDPYG---IFALVLT 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  90 PTRELAVQIEEVLSHFTKPfPQFSQILWIGGRnpgEDVARFKELGG--NIIVATPGRLEDMFRrkaEGLDLASCVRSLEV 167
Cdd:cd17955   75 PTRELAYQIAEQFRALGAP-LGLRCCVIVGGM---DMVKQALELSKrpHIVVATPGRLADHLR---SSDDTTKVLSRVKF 147

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115502143 168 LVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 221
Cdd:cd17955  148 LVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPF 201
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 24-225 1.13e-42

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 151.97  E-value: 1.13e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  24 LRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieeILLRREEKFKKSQVGAIIITPTRELAVQIEEVLS 103
Cdd:cd17957    5 LEESGYREPTPIQMQAIPILLHGRDLLACAPTGSGKTLAFLIP---ILQKLGKPRKKKGLRALILAPTRELASQIYRELL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 104 HFTKPFPQFSQILwiggRNPGEDVARFKELGGN---IIVATPGRLEDMFRRKAegLDLAscvrSLEVLVLDEADRLLDMG 180
Cdd:cd17957   82 KLSKGTGLRIVLL----SKSLEAKAKDGPKSITkydILVSTPLRLVFLLKQGP--IDLS----SVEYLVLDEADKLFEPG 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 181 FETSINTILEFLP-KQRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd17957  152 FREQTDEILAACTnPNLQRSLFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 8-223 4.04e-42

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 151.38  E-value: 4.04e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   8 SWESLPVPLhpKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieeiLLR--REEKFKKSQVG- 84
Cdd:cd17953   13 KWSQCGLSE--KVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLP----MFRhiKDQRPVKPGEGp 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  85 -AIIITPTRELAVQIEEVLSHFTKPFpQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFrrKAEGLDLAScVR 163
Cdd:cd17953   87 iGLIMAPTRELALQIYVECKKFSKAL-GLRVVCVYGGSGISEQIAELKR-GAEIVVCTPGRMIDIL--TANNGRVTN-LR 161

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 164 SLEVLVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17953  162 RVTYVVLDEADRMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEXDc smart00487
DEAD-like helicases superfamily;
24-228 1.07e-41

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 149.56  E-value: 1.07e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143    24 LRELGFPYMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPIEEILLRREEKfkksqvGAIIITPTRELAVQIEEVL 102
Cdd:smart00487   1 IEKFGFEPLRPYQKEAIEALLSGlRDVILAAPTGSGKTLAALLPALEALKRGKGG------RVLVLVPTRELAEQWAEEL 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   103 SHFTKPFPqFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEGLdlascvRSLEVLVLDEADRLLDMGFE 182
Cdd:smart00487  75 KKLGPSLG-LKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDKLSL------SNVDLVILDEAHRLLDGGFG 147

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 115502143   183 TSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 228
Cdd:smart00487 148 DQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 16-223 2.54e-40

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 145.52  E-value: 2.54e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILlrreeKFKKSQVGAIIITPTRELA 95
Cdd:cd17940    6 LKRELLMGIFEKGFEKPSPIQEESIPIALSGRDILARAKNGTGKTGAYLIPILEKI-----DPKKDVIQALILVPTRELA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKpFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegLDLASCvrslEVLVLDEADR 175
Cdd:cd17940   81 LQTSQVCKELGK-HMGVKVMVTTGGTSLRDDIMRLYQ-TVHVLVGTPGRILDLAKKGV--ADLSHC----KTLVLDEADK 152

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 176 LLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17940  153 LLSQDFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 20-224 3.56e-40

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 145.25  E-value: 3.56e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-IEEILLRREEKFKKSQVGaIIITPTRELAVQI 98
Cdd:cd17952    1 LLNAIRKQEYEQPTPIQAQALPVALSGRDMIGIAKTGSGKTAAFIWPmLVHIMDQRELEKGEGPIA-VIVAPTRELAQQI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  99 EEVLSHFTKPFpQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDLAScvrsleVLVLDEADRLLD 178
Cdd:cd17952   80 YLEAKKFGKAY-NLRVVAVYGGGSKWEQAKALQE-GAEIVVATPGRLIDMVKKKATNLQRVT------YLVLDEADRMFD 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17952  152 MGFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRVV 197
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 20-224 5.93e-39

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 141.74  E-value: 5.93e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-IEEI----LLRREEkfkksqvGAI--IITPTR 92
Cdd:cd17966    1 VMDELKRQGFTEPTAIQAQGWPMALSGRDMVGIAQTGSGKTLAFLLPaIVHInaqpPLERGD-------GPIvlVLAPTR 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  93 ELAVQIEEVLSHFTKPFPQFSQILWiGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLdlascvRSLEVLVLDE 172
Cdd:cd17966   74 ELAQQIQQEANKFGGSSRLRNTCVY-GGAPKGPQIRDLRR-GVEICIATPGRLIDFLDQGKTNL------RRVTYLVLDE 145

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 115502143 173 ADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17966  146 ADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRRLAEDFLKDYIQVN 197
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 14-218 2.81e-38

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 142.03  E-value: 2.81e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  14 VPLHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRreEKFKKSQVG------AII 87
Cdd:cd18052   48 ANLCETLLKNIRKAGYEKPTPVQKYAIPIILAGRDLMACAQTGSGKTAAFLLPVLTGMMK--EGLTASSFSevqepqALI 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  88 ITPTRELAVQIEEVLSHFTKPFPQFSQILWiGGRNPGEDVARFkELGGNIIVATPGRLEDMFRRKAEGLDlascvrSLEV 167
Cdd:cd18052  126 VAPTRELANQIFLEARKFSYGTCIRPVVVY-GGVSVGHQIRQI-EKGCHILVATPGRLLDFIGRGKISLS------KLKY 197

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 115502143 168 LVLDEADRLLDMGFETSINTILEFL---PKQRR-TGLFSATQTQEVENLVRAGLR 218
Cdd:cd18052  198 LILDEADRMLDMGFGPEIRKLVSEPgmpSKEDRqTLMFSATFPEEIQRLAAEFLK 252
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 22-223 4.97e-38

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 139.38  E-value: 4.97e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  22 SVLREL---GFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIpieEILLRREEKFKKSQvgAIIITPTRELAVQI 98
Cdd:cd17939    7 DLLRGIyayGFEKPSAIQQRAIVPIIKGRDVIAQAQSGTGKTATFSI---GALQRIDTTVRETQ--ALVLAPTRELAQQI 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  99 EEVLshftKPFPQFSQI---LWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegldlaSCVRSLEVLVLDEADR 175
Cdd:cd17939   82 QKVV----KALGDYMGVkvhACIGGTSVREDRRKLQY-GPHIVVGTPGRVFDMLQRRS------LRTDKIKMFVLDEADE 150

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 176 LLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17939  151 MLSRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 20-266 4.51e-37

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 137.76  E-value: 4.51e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKN-KDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQ----VGAIIITPTREL 94
Cdd:cd17946    1 ILRALADLGFSEPTPIQALALPAAIRDgKDVIGAAETGSGKTLAFGIPILERLLSQKSSNGVGGkqkpLRALILTPTREL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  95 AVQIEEvlsHFTK--PFPQFSQILWIGGrnpgedVA-----RFKELGGNIIVATPGRLEDMFrrkAEGLDLASCVRSLEV 167
Cdd:cd17946   81 AVQVKD---HLKAiaKYTNIKIASIVGG------LAvqkqeRLLKKRPEIVVATPGRLWELI---QEGNEHLANLKSLRF 148

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 168 LVLDEADRLLDMGFETSINTILEFLP-------KQRRTGLFSATQTQEvenlvragLRNPVRISVKEKgvaaSSTQKTPS 240
Cdd:cd17946  149 LVLDEADRMLEKGHFAELEKILELLNkdragkkRKRQTFVFSATLTLD--------HQLPLKLNSKKK----KKKKEKKQ 216

                        250       260
                 ....*....|....*....|....*.
gi 115502143 241 RLENhymvckadekFNQLVHFLRNHK 266
Cdd:cd17946  217 KLEL----------LIEKVGFRKKPK 232
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 20-224 6.94e-37

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 135.85  E-value: 6.94e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRReekfkKSQVGAIIITPTRELAVQIE 99
Cdd:cd17943    1 VLEGLKAAGFQRPSPIQLAAIPLGLAGHDLIVQAKSGTGKTLVFVVIALESLDLE-----RRHPQVLILAPTREIAVQIH 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKPFPQFSQILWIGGRNPGEDVARFKelGGNIIVATPGRLEDMFRrkaeglDLASCVRSLEVLVLDEADRLLDM 179
Cdd:cd17943   76 DVFKKIGKKLEGLKCEVFIGGTPVKEDKKKLK--GCHIAVGTPGRIKQLIE------LGALNVSHVRLFVLDEADKLMEG 147

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 180 GFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17943  148 SFQKDVNWIFSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 33-219 1.14e-36

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 137.09  E-value: 1.14e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  33 TPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPI-EEILLRREEKFKKSQVG----------AIIITPTRELAVQI-EE 100
Cdd:cd18051   45 TPVQKHAIPIIKSKRDLMACAQTGSGKTAAFLLPIlSQIYEQGPGESLPSESGyygrrkqyplALVLAPTRELASQIyDE 124

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 101 vlshfTKPFPQFSQI---LWIGGRNPGEDVaRFKELGGNIIVATPGRLEDMFRRKAEGLDlasCVRsleVLVLDEADRLL 177
Cdd:cd18051  125 -----ARKFAYRSRVrpcVVYGGADIGQQM-RDLERGCHLLVATPGRLVDMLERGKIGLD---YCK---YLVLDEADRML 192

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 178 DMGFETSINTILE--FLPK--QRRTGLFSATQTQEVENLVRAGLRN 219
Cdd:cd18051  193 DMGFEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDFLDN 238
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 20-224 1.82e-36

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 134.60  E-value: 1.82e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIeeiLLRreEKFKKSQVGAIIITPTRELAVQIE 99
Cdd:cd17962    1 LSSNLKKAGYEVPTPIQMQMIPVGLLGRDILASADTGSGKTAAFLLPV---IIR--CLTEHRNPSALILTPTRELAVQIE 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKPFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDlascvrSLEVLVLDEADRLLDM 179
Cdd:cd17962   76 DQAKELMKGLPPMKTALLVGGLPLPPQLYRLQQ-GVKVIIATPGRLLDILKQSSVELD------NIKIVVVDEADTMLKM 148

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 180 GFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 224
Cdd:cd17962  149 GFQQQVLDILENISHDHQTILVSATIPRGIEQLAGQLLQNPVRIT 193
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 20-223 5.11e-35

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 131.05  E-value: 5.11e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIP-IEEILLRREEKFKKSQVGAIIITPTRELAVQI 98
Cdd:cd17958    1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPgFIHLDLQPIPREQRNGPGVLVLTPTRELALQI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  99 EEVLSHFTkpFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDlascvrSLEVLVLDEADRLLD 178
Cdd:cd17958   81 EAECSKYS--YKGLKSVCVYGGGNRNEQIEDLSK-GVDIIIATPGRLNDLQMNNVINLK------SITYLVLDEADRMLD 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 179 MGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17958  152 MGFEPQIRKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIV 196
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 18-221 6.03e-35

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 130.90  E-value: 6.03e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  18 PKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEIllrreekfkksqVGAIIITPTRELAVQ 97
Cdd:cd17938    8 PELIKAVEELDWLLPTDIQAEAIPLILGGGDVLMAAETGSGKTGAFCLPVLQI------------VVALILEPSRELAEQ 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  98 IEEVLSHFTKPF--PQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFrrKAEGLDLASCvrslEVLVLDEADR 175
Cdd:cd17938   76 TYNCIENFKKYLdnPKLRVALLIGGVKAREQLKRLES-GVDIVVGTPGRLEDLI--KTGKLDLSSV----RFFVLDEADR 148

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|...
gi 115502143 176 LLDMGFETSINTILEFLPKQRRTG------LFSAT-QTQEVENLVRAGLRNPV 221
Cdd:cd17938  149 LLSQGNLETINRIYNRIPKITSDGkrlqviVCSATlHSFEVKKLADKIMHFPT 201
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 20-220 6.02e-33

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 126.21  E-value: 6.02e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKN---------KDVAAEAVTGSGKTLAFVIPIEEILLRReekfKKSQVGAIIITP 90
Cdd:cd17956    1 LLKNLQNNGITSAFPVQAAVIPWLLPSskstppyrpGDLCVSAPTGSGKTLAYVLPIVQALSKR----VVPRLRALIVVP 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  91 TRELAVQIEEVLSHFTKPFPqfSQILWIGGRN--PGEDVARFKELGGN------IIVATPGRLEDMFRRKaEGLDLascv 162
Cdd:cd17956   77 TKELVQQVYKVFESLCKGTG--LKVVSLSGQKsfKKEQKLLLVDTSGRylsrvdILVATPGRLVDHLNST-PGFTL---- 149

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143 163 RSLEVLVLDEADRLLDMGFE--------------------TSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 220
Cdd:cd17956  150 KHLRFLVIDEADRLLNQSFQdwletvmkalgrptapdlgsFGDANLLERSVRPLQKLLFSATLTRDPEKLSSLKLHRP 227
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 16-225 2.05e-30

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 118.22  E-value: 2.05e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILlrreeKFKKSQVGAIIITPTRELA 95
Cdd:cd17950    9 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLSTLQQL-----EPVDGQVSVLVICHTRELA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  96 VQIEEVLSHFTKPFPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAegLDLascvRSLEVLVLDEADR 175
Cdd:cd17950   84 FQISNEYERFSKYMPNVKTAVFFGGVPIKKDIEVLKNKCPHIVVGTPGRILALVREKK--LKL----SHVKHFVLDECDK 157

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 115502143 176 LL-DMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd17950  158 MLeQLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 28-223 1.08e-29

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 116.03  E-value: 1.08e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  28 GFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILlrrEEKFKKSQVgaIIITPTRELAVQIEEVLSHFTK 107
Cdd:cd18045   18 GFEKPSAIQQRAIKPIIKGRDVIAQSQSGTGKTATFSISVLQCL---DIQVRETQA--LILSPTRELAVQIQKVLLALGD 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 108 pFPQFSQILWIGGRNPGEDVARFkELGGNIIVATPGRLEDMFRRKAEGldlascVRSLEVLVLDEADRLLDMGFETSINT 187
Cdd:cd18045   93 -YMNVQCHACIGGTSVGDDIRKL-DYGQHIVSGTPGRVFDMIRRRSLR------TRHIKMLVLDEADEMLNKGFKEQIYD 164

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 115502143 188 ILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd18045  165 VYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 16-223 7.20e-29

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 113.44  E-value: 7.20e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVIpieEILLRREEKFKKSQvgAIIITPTRE 93
Cdd:cd17963    1 LKPELLKGLYAMGFNKPSKIQETALPLILSDppENLIAQSQSGTGKTAAFVL---AMLSRVDPTLKSPQ--ALCLAPTRE 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  94 LAVQIEEVLSHFTKpFPQFSQILWIggrnPGEDVARFKELGGNIIVATPGRLEDMFRRKAegLDLascvRSLEVLVLDEA 173
Cdd:cd17963   76 LARQIGEVVEKMGK-FTGVKVALAV----PGNDVPRGKKITAQIVIGTPGTVLDWLKKRQ--LDL----KKIKILVLDEA 144

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 115502143 174 DRLLDM-GFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17963  145 DVMLDTqGHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTI 195
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 20-225 7.40e-29

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 114.72  E-value: 7.40e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieEILLRREEKFKKSQVGAI--IITPTRELAVQ 97
Cdd:cd18049   35 VMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLP--AIVHINHQPFLERGDGPIclVLAPTRELAQQ 112

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  98 IEEVLSHFTKPFPQFSQILWiGGRNPGEDVaRFKELGGNIIVATPGRLEDMFrrKAEGLDLASCVrsleVLVLDEADRLL 177
Cdd:cd18049  113 VQQVAAEYGRACRLKSTCIY-GGAPKGPQI-RDLERGVEICIATPGRLIDFL--EAGKTNLRRCT----YLVLDEADRML 184

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 178 DMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd18049  185 DMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 28-223 1.06e-28

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 113.31  E-value: 1.06e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  28 GFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIpieEILLRREEKFKKSQvgAIIITPTRELAVQIEEVLSHFTK 107
Cdd:cd18046   18 GFEKPSAIQQRAIMPCIKGYDVIAQAQSGTGKTATFSI---SILQQIDTSLKATQ--ALVLAPTRELAQQIQKVVMALGD 92

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 108 pFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAEGLDlascvrSLEVLVLDEADRLLDMGFETSINT 187
Cdd:cd18046   93 -YMGIKCHACIGGTSVRDDAQKLQA-GPHIVVGTPGRVFDMINRRYLRTD------YIKMFVLDEADEMLSRGFKDQIYD 164

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 115502143 188 ILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd18046  165 IFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIRI 200
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 253-363 2.37e-28

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 109.22  E-value: 2.37e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  253 EKFNQLVHFLRNHKQEKHLVFFSTCACVEYygKALETLvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARG 331
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLEA--ELLLEK-EGIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAERG 77

                          90       100       110
                  ....*....|....*....|....*....|..
gi 115502143  332 IDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 363
Cdd:pfam00271  78 LDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 20-225 4.70e-28

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 113.57  E-value: 4.70e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPieEILLRREEKFKKSQVGAI--IITPTRELAVQ 97
Cdd:cd18050   73 VMDVLLDQNFKEPTPIQCQGFPLALSGRDMVGIAQTGSGKTLAYLLP--AIVHINHQPYLERGDGPIclVLAPTRELAQQ 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  98 IEEVLSHFTKPFPQFSQILWiGGRNPGEDVaRFKELGGNIIVATPGRLEDMFRRKAEGLdlascvRSLEVLVLDEADRLL 177
Cdd:cd18050  151 VQQVADDYGKSSRLKSTCIY-GGAPKGPQI-RDLERGVEICIATPGRLIDFLEAGKTNL------RRCTYLVLDEADRML 222

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 178 DMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 225
Cdd:cd18050  223 DMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX21_DDX50 cd17944
DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and ...
 21-218 2.86e-24

DEAD-box helicase domain of DEAD box proteins 21 and 50; DDX21 (also called Gu-Alpha and nucleolar RNA helicase 2) is an RNA helicase that acts as a sensor of the transcriptional status of both RNA polymerase (Pol) I and II. It promotes ribosomal RNA (rRNA) processing and transcription from polymerase II (Pol II) and binds various RNAs, such as rRNAs, snoRNAs, 7SK and, at lower extent, mRNAs. DDX50 (also called Gu-Beta, Nucleolar Protein Gu2, and malignant cell derived RNA helicase). DDX21 and DDX50 have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. Diseases associated with DDX21 include stomach disease and cerebral creatine deficiency syndrome 3. Diseases associated with DDX50 include rectal disease. Both are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. Their name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350702 [Multi-domain]  Cd Length: 202  Bit Score: 100.69  E-value: 2.86e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  21 LSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQV-GAIIITPTRELAVQIE 99
Cdd:cd17944    2 IKLLQARGVTYLFPIQVKTFHPVYSGKDLIAQARTGTGKTFSFAIPLIEKLQEDQQPRKRGRApKVLVLAPTRELANQVT 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 100 EVLSHFTKpfpQFSQILWIGGRNPGEDVARFKElGGNIIVATPGRLEDMFRRKAegLDLAscvrSLEVLVLDEADRLLDM 179
Cdd:cd17944   82 KDFKDITR---KLSVACFYGGTPYQQQIFAIRN-GIDILVGTPGRIKDHLQNGR--LDLT----KLKHVVLDEVDQMLDM 151

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....
gi 115502143 180 GFETSINTILEFLPKQR-----RTGLFSATQTQEVENLVRAGLR 218
Cdd:cd17944  152 GFAEQVEEILSVSYKKDsednpQTLLFSATCPDWVYNVAKKYMK 195
DEADc_DDX28 cd17948
DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box ...
 20-205 3.46e-24

DEAD-box helicase domain of DEAD box protein 28; DDX28 (also called mitochondrial DEAD-box polypeptide 28) plays an essential role in facilitating the proper assembly of the mitochondrial large ribosomal subunit and its helicase activity is essential for this function. DDX28 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350706 [Multi-domain]  Cd Length: 231  Bit Score: 101.29  E-value: 3.46e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  20 VLSVLRELGFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFKKSQVG--AIIITPTRELAVQ 97
Cdd:cd17948    1 LVEILQRQGITKPTTVQKQGIPSILRGRNTLCAAETGSGKTLTYLLPIIQRLLRYKLLAEGPFNAprGLVITPSRELAEQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  98 IEEVLSHFTKPFPQFSQILwIGGRNPGEDV-ARFKELggNIIVATPGRLEDMFRRKAEGLDLASCvrslevLVLDEADRL 176
Cdd:cd17948   81 IGSVAQSLTEGLGLKVKVI-TGGRTKRQIRnPHFEEV--DILVATPGALSKLLTSRIYSLEQLRH------LVLDEADTL 151

                        170       180       190
                 ....*....|....*....|....*....|....
gi 115502143 177 LDMGFETSINTILE-----FLPKQRRTGLFSATQ 205
Cdd:cd17948  152 LDDSFNEKLSHFLRrfplaSRRSENTDGLDPGTQ 185
HELICc smart00490
helicase superfamily c-terminal domain;
292-363 4.86e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 93.05  E-value: 4.86e-23
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 115502143   292 KGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 363
Cdd:smart00490  10 LGIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 405-462 1.05e-20

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 85.53  E-value: 1.05e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 115502143  405 PKLKAMALGDRAVFEKGMKAFVSYVQAYAKHECNLIFRLKDLDFASLARGFALLRMPK 462
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
45-372 2.74e-20

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 94.71  E-value: 2.74e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  45 KNKDVAAEAVTGSGKTLAFVIPIEEILLRREekfkksqvgAIIITPTRELAVQIEEVLSHFTkpfpqfsqilwiggrNPG 124
Cdd:COG1061   99 GGGRGLVVAPTGTGKTVLALALAAELLRGKR---------VLVLVPRRELLEQWAEELRRFL---------------GDP 154

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 125 EDVARFKELGGNIIVATPgrleDMFRRKAEgldLASCVRSLEVLVLDEADRLLDMGFETsintILEFLPKQRRTGLfSAT 204
Cdd:COG1061  155 LAGGGKKDSDAPITVATY----QSLARRAH---LDELGDRFGLVIIDEAHHAGAPSYRR----ILEAFPAAYRLGL-TAT 222

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 205 ------QTQEVEN------------LVRAG-LRNPVRISVKEKGVAASSTQKTPSRLENHYMVCKADEKFNQLVHFLRNH 265
Cdd:COG1061  223 pfrsdgREILLFLfdgivyeyslkeAIEDGyLAPPEYYGIRVDLTDERAEYDALSERLREALAADAERKDKILRELLREH 302

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 266 KQEKH-LVFFSTCACVEYYGKALETlvKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQY 343
Cdd:COG1061  303 PDDRKtLVFCSSVDHAEALAELLNE--AGIRAAVVTGDTPKKeREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILL 380

                        330       340
                 ....*....|....*....|....*....
gi 115502143 344 DPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:COG1061  381 RPTGSPREFIQRLGRGLRPAPGKEDALVY 409
DEADc_MRH4 cd17965
DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 ...
 33-223 2.67e-17

DEAD-box helicase domain of ATP-dependent RNA helicase MRH4; Mitochondrial RNA helicase 4 (MRH4) plays an essential role during the late stages of mitochondrial ribosome or mitoribosome assembly by promoting remodeling of the 21S rRNA-protein interactions. MRH4 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350723 [Multi-domain]  Cd Length: 251  Bit Score: 81.65  E-value: 2.67e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  33 TPVQSATIPLFMKN---------KD---------VAAEavTGSGKTLAFVIPIEEILLRRE-----------EKFKKS-Q 82
Cdd:cd17965   32 SPIQTLAIKKLLKTlmrkvtkqtSNeepklevflLAAE--TGSGKTLAYLAPLLDYLKRQEqepfeeaeeeyESAKDTgR 109

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  83 VGAIIITPTRELAVQIEEVLSHFTKPFPQFSQILWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFrrKAEGLDLASCv 162
Cdd:cd17965  110 PRSVILVPTHELVEQVYSVLKKLSHTVKLGIKTFSSGFGPSYQRLQLAFKGRIDILVTTPGKLASLA--KSRPKILSRV- 186

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 115502143 163 rslEVLVLDEADRLLDMGFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 223
Cdd:cd17965  187 ---THLVVDEADTLFDRSFLQDTTSIIKRAPKLKHLILCSATIPKEFDKTLRKLFPDVVRI 244
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 46-204 4.20e-16

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 75.52  E-value: 4.20e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  46 NKDVAAEAVTGSGKTLAFVIPIEEILLRREEKFkksqvgaIIITPTRELAVQIEEVLShftKPFPQFSQILWIGGRNPGE 125
Cdd:cd00046    1 GENVLITAPTGSGKTLAALLAALLLLLKKGKKV-------LVLVPTKALALQTAERLR---ELFGPGIRVAVLVGGSSAE 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 126 DVARFKELGGNIIVATPGRLEDMFRRkaeglDLASCVRSLEVLVLDEADRLLDMGFETSIN--TILEFLPKQRRTGLFSA 203
Cdd:cd00046   71 EREKNKLGDADIIIATPDMLLNLLLR-----EDRLFLKDLKLIIVDEAHALLIDSRGALILdlAVRKAGLKNAQVILLSA 145


                 .
gi 115502143 204 T 204
Cdd:cd00046  146 T 146
DEADc_DDX19 cd18047
DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both ...
 16-204 7.12e-12

DEAD-box helicase domain of DEAD box protein 19; DDX19 is an RNA helicase involved in both mRNA (mRNA) export from the nucleus into the cytoplasm and in mRNA translation. DDX19 functions in the nucleus in resolving RNA:DNA hybrids (R-loops). Activation of a DNA damage response pathway dependent upon the ATR kinase, a major regulator of replication fork progression, stimulates translocation of DDX19 from the cytoplasm into the nucleus. Only nuclear Ddx19 is competent to resolve R-loops. DDX19 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350805 [Multi-domain]  Cd Length: 205  Bit Score: 65.13  E-value: 7.12e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVIPIeeiLLRREEKFKKSQvgAIIITPTRE 93
Cdd:cd18047    8 LKPQLLQGVYAMGFNRPSKIQENALPLMLAEppQNLIAQSQSGTGKTAAFVLAM---LSQVEPANKYPQ--CLCLSPTYE 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  94 LAVQIEEVLSHFTKPFPQFSQILWIGGRNPGEDVaRFKElggNIIVATPGRLEDmFRRKAEGLDlascVRSLEVLVLDEA 173
Cdd:cd18047   83 LALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ-KISE---QIVIGTPGTVLD-WCSKLKFID----PKKIKVFVLDEA 153

                        170       180       190
                 ....*....|....*....|....*....|..
gi 115502143 174 DRLL-DMGFETSINTILEFLPKQRRTGLFSAT 204
Cdd:cd18047  154 DVMIaTQGHQDQSIRIQRMLPRNCQMLLFSAT 185
DEADc_DDX25 cd18048
DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated ...
 16-228 8.84e-12

DEAD-box helicase domain of DEAD box protein 25; DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH) is a testis-specific protein essential for completion of spermatogenesis. DDX25 is also a novel negative regulator of IFN pathway and facilitates RNA virus infection. Diseases associated with DDX25 include hydrolethalus syndrome, an autosomal recessive lethal malformation syndrome characterized by multiple developmental defects of fetus.. DDX25 (also called gonadotropin-regulated testicular RNA helicase) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350806 [Multi-domain]  Cd Length: 229  Bit Score: 65.04  E-value: 8.84e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  16 LHPKVLSVLRELGFPYMTPVQSATIPLFMKN--KDVAAEAVTGSGKTLAFVIPieeILLRREEKFKKSQvgAIIITPTRE 93
Cdd:cd18048   25 LKEELLRGIYAMGFNRPSKIQENALPMMLADppQNLIAQSQSGTGKTAAFVLA---MLSRVDALKLYPQ--CLCLSPTFE 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  94 LAVQIEEVLSHFTKPFPQFSQILWIGGRNPGedvaRFKELGGNIIVATPGRLED-MFRrkaegLDLAScVRSLEVLVLDE 172
Cdd:cd18048  100 LALQTGKVVEEMGKFCVGIQVIYAIRGNRPG----KGTDIEAQIVIGTPGTVLDwCFK-----LRLID-VTNISVFVLDE 169

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 115502143 173 ADRLLDM-GFETSINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 228
Cdd:cd18048  170 ADVMINVqGHSDHSVRVKRSMPKECQMLLFSATFEDSVWAFAERIVPDPNIIKLKKE 226
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
18-204 1.15e-09

Replicative superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 61.06  E-value: 1.15e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  18 PKVLSVLRELGFPYMTPVQSATIP-LFMKNKDVAAEAVTGSGKTLAfvipIEEILLRREEKFKKsqvgAIIITPTRELAv 96
Cdd:COG1204    9 EKVIEFLKERGIEELYPPQAEALEaGLLEGKNLVVSAPTASGKTLI----AELAILKALLNGGK----ALYIVPLRALA- 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  97 qiEEVLSHFTKPFPQFSQILwigGRNPGEDVARFKELGGN-IIVATPGRLEDMFRRKAEGLDLASCVrslevlVLDEAdR 175
Cdd:COG1204   80 --SEKYREFKRDFEELGIKV---GVSTGDYDSDDEWLGRYdILVATPEKLDSLLRNGPSWLRDVDLV------VVDEA-H 147

                        170       180       190
                 ....*....|....*....|....*....|....
gi 115502143 176 LLD-----MGFETSINTILEFLPKQRRTGLfSAT 204
Cdd:COG1204  148 LIDdesrgPTLEVLLARLRRLNPEAQIVAL-SAT 180
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 55-173 2.00e-09

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 57.21  E-value: 2.00e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  55 TGSGKTLAFVIPIEEILLRReekfkkSQVGAIIITPTRELAVQIEEVLSHFTKPFPQFSQILWIGGRNPGEDVARFKELG 134
Cdd:cd17923   24 TASGKSLCYQLPILEALLRD------PGSRALYLYPTKALAQDQLRSLRELLEQLGLGIRVATYDGDTPREERRAIIRNP 97

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 115502143 135 GNIIVATPGRLEDMFRRKAEGldLASCVRSLEVLVLDEA 173
Cdd:cd17923   98 PRILLTNPDMLHYALLPHHDR--WARFLRNLRYVVLDEA 134
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 31-204 1.63e-08

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 54.58  E-value: 1.63e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  31 YMTPVQSATI-PLFMKNKDVAAEAVTGSGKTLAfvipIEEILLRREEKFKKSqvgAIIITPTRELAVQIEEVLSHFTKPF 109
Cdd:cd17921    1 LLNPIQREALrALYLSGDSVLVSAPTSSGKTLI----AELAILRALATSGGK---AVYIAPTRALVNQKEADLRERFGPL 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 110 PqfsqiLWIGGRNPGEDVARFKELGGNIIVATPGRLEDMFRRKAEGLdlascVRSLEVLVLDEAdRLLDMG-----FETS 184
Cdd:cd17921   74 G-----KNVGLLTGDPSVNKLLLAEADILVATPEKLDLLLRNGGERL-----IQDVRLVVVDEA-HLIGDGergvvLELL 142

                        170       180
                 ....*....|....*....|
gi 115502143 185 INTILEFLPKQRRTGLfSAT 204
Cdd:cd17921  143 LSRLLRINKNARFVGL-SAT 161
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
 53-360 2.27e-08

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 56.81  E-value: 2.27e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  53 AVTGSGKT-LAFVIpIEEILLRREekfkksQVGaiIITPTRELavqIEEVLSHFTKPFPQFSQILWIGGrnpgedvARFK 131
Cdd:COG4098  136 AVCGAGKTeMLFPA-IAEALKQGG------RVC--IATPRVDV---VLELAPRLQQAFPGVDIAALYGG-------SEEK 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 132 ELGGNIIVATPG---RLEDMFrrkaegldlascvrslEVLVLDEADrlldmGFETSINTILEFLPKQ-RRTG----LFSA 203
Cdd:COG4098  197 YRYAQLVIATTHqllRFYQAF----------------DLLIIDEVD-----AFPYSGDPMLQYAVKRaRKPDgkliYLTA 255

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 204 TQTQEVENLVRAGLRN-------------PVRISVKEKGVAASSTQKTPSRlenhymvckadekfnQLVHFLRNHKQEKH 270
Cdd:COG4098  256 TPSKALQRQVKRGKLKvvklparyhghplPVPKFKWLGNWKKRLRRGKLPR---------------KLLKWLKKRLKEGR 320

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 271 --LVFFSTCACVEYYGKALETLVKGVKIMCIHGKMKYKRNKIfMEFRKLQSGILVCTDVMARGIDIPEVN-WVLQYDPPS 347
Cdd:COG4098  321 qlLIFVPTIELLEQLVALLQKLFPEERIAGVHAEDPERKEKV-QAFRDGEIPILVTTTILERGVTFPNVDvAVLGADHPV 399

                        330
                 ....*....|....*..
gi 115502143 348 -NASAFVH---RCGRTA 360
Cdd:COG4098  400 fTEAALVQiagRVGRSA 416
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 6-173 3.95e-08

ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 56.38  E-value: 3.95e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143   6 EGSWESLPVPLHPKVLSVLRELGF--PYmtPVQSATIPLFMKNKDVAAEAVTGSGKTLAFVIPI-EEILLRREEKfkksq 82
Cdd:COG1205   31 EARYAPWPDWLPPELRAALKKRGIerLY--SHQAEAIEAARAGKNVVIATPTASGKSLAYLLPVlEALLEDPGAT----- 103

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  83 vgAIIITPTRELAV-QIEEvLSHFTKPFPQFSQILWIGGRNPGEDVARFKElGGNIIVATPgrleDM-----------FR 150
Cdd:COG1205  104 --ALYLYPTKALARdQLRR-LRELAEALGLGVRVATYDGDTPPEERRWIRE-HPDIVLTNP----DMlhygllphhtrWA 175

                        170       180
                 ....*....|....*....|...
gi 115502143 151 RkaegldlasCVRSLEVLVLDEA 173
Cdd:COG1205  176 R---------FFRNLRYVVIDEA 189
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 48-363 5.68e-08

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 55.13  E-value: 5.68e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  48 DVAAEAVTGSGKTLAFVIpieeILLRREEKFKKSQVgaIIITPTRELA-VQIEEVLSHFTKPFPQFSQIL---------- 116
Cdd:cd09639    1 LLVIEAPTGYGKTEAALL----WALHSLKSQKADRV--IIALPTRATInAMYRRAKEAFGETGLYHSSILssrikemgds 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 117 --WIGGR-NPGEDVARFkeLGGNIIVATPGRLEDMFRRKAEGLDLASCVRSLEVLVLDEADrlldmGFETSINTILEFLP 193
Cdd:cd09639   75 eeFEHLFpLYIHSNDTL--FLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVH-----FYDEYTLALILAVL 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 194 K-QRRTG----LFSATQTqevENLVRAGLRNpvRISVKEKGVAASSTQKTPSRLEnhymVCKADEKFNQLVHFLRNHKQE 268
Cdd:cd09639  148 EvLKDNDvpilLMSATLP---KFLKEYAEKI--GYVEENEPLDLKPNERAPFIKI----ESDKVGEISSLERLLEFIKKG 218

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 269 -KHLVFFSTC-ACVEYYGKALEtLVKGVKIMCIHGKMKY-----KRNKIFMEFRKLQSGILVCTDVMARGIDIpEVNWVl 341
Cdd:cd09639  219 gSVAIIVNTVdRAQEFYQQLKE-KGPEEEIMLIHSRFTEkdrakKEAELLLEFKKSEKFVIVATQVIEASLDI-SVDVM- 295

                        330       340
                 ....*....|....*....|..
gi 115502143 342 qYDPPSNASAFVHRCGRTARIG 363
Cdd:cd09639  296 -ITELAPIDSLIQRLGRLHRYG 316
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 321-374 5.98e-08

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 50.01  E-value: 5.98e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 115502143 321 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARiGHGGSALVFLLP 374
Cdd:cd18785   25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGR-GGKDEGEVILFV 77
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 256-372 9.19e-08

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 51.50  E-value: 9.19e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 256 NQLVHFLRNHKqeKHLVFFSTCACVEYYGKAL----ETLVKGVKIMCIHGKM-KYKRNKIfmEfRKLQSG---ILVCTDV 327
Cdd:cd18796   29 AEVIFLLERHK--STLVFTNTRSQAERLAQRLrelcPDRVPPDFIALHHGSLsRELREEV--E-AALKRGdlkVVVATSS 103

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 328 MARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 372
Cdd:cd18796  104 LELGIDIGDVDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRLV 148
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 250-361 1.18e-07

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 51.20  E-value: 1.18e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 250 KADEKFNQLVHFLRNH-------KQEKHLVFFSTCACVEYYGKALETLVKGVKIMCIHGKMKYKRNK---------IFME 313
Cdd:cd18801    6 KIHPKLEKLEEIVKEHfkkkqegSDTRVIIFSEFRDSAEEIVNFLSKIRPGIRATRFIGQASGKSSKgmsqkeqkeVIEQ 85

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 115502143 314 FRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTAR 361
Cdd:cd18801   86 FRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
321-365 7.23e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.42  E-value: 7.23e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 115502143 321 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHG 365
Cdd:COG1111  414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRKREG 458
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 46-215 1.09e-06

DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases from the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350680 [Multi-domain]  Cd Length: 166  Bit Score: 48.73  E-value: 1.09e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  46 NKDVAAEAVTGSGKTLAFVIPIeeilLRREEKFKKSQVGAIIITPTRELAVQI----EEVLSHFTKPFPqfsQILWIGGR 121
Cdd:cd17922    1 GRNVLIAAPTGSGKTEAAFLPA----LSSLADEPEKGVQVLYISPLKALINDQerrlEEPLDEIDLEIP---VAVRHGDT 73

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 122 NPGEDvARFKELGGNIIVATPGRLEDMF-RRKAEGLdlascVRSLEVLVLDEADRLLD----MGFETSINTILEFL-PKQ 195
Cdd:cd17922   74 SQSEK-AKQLKNPPGILITTPESLELLLvNKKLREL-----FAGLRYVVVDEIHALLGskrgVQLELLLERLRKLTgRPL 147

                        170       180
                 ....*....|....*....|
gi 115502143 196 RRTGLfSATqtqeVENLVRA 215
Cdd:cd17922  148 RRIGL-SAT----LGNLEEA 162
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
 280-338 2.05e-06

C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair coupling factor (TrcF) dissociates transcription elongation complexes blocked at nonpairing lesions and mediates recruitment of DNA repair proteins. TrcF is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350197 [Multi-domain]  Cd Length: 151  Bit Score: 47.72  E-value: 2.05e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 280 VEYYGKALETLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 338
Cdd:cd18810   38 IEKLATQLRQLVPEARIAIAHGQMtENELEEVMLEFAKGEYDILVCTTIIESGIDIPNAN 97
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 280-338 3.88e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 50.05  E-value: 3.88e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  280 VEYYGKALETLVKGVKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 338
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 315-361 5.64e-06

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 46.43  E-value: 5.64e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 115502143 315 RKLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRtAR 361
Cdd:cd18802   84 DKFRDGelnLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-AR 132
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
245-358 8.18e-06

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 48.60  E-value: 8.18e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 245 HYMV--CKADEKFNQLVHFLRNHKQEKHLVFFSTCACVEYYGKALEtlVKGVKIMCIHGKMKYK-RNKIFMEFRKLQSGI 321
Cdd:COG0514  206 RLEVvpKPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLR--EAGIRAAAYHAGLDAEeREANQDRFLRDEVDV 283

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 115502143 322 LVCTdV---MarGIDIPEVNWVLQYDPPSNASAF---VHRCGR 358
Cdd:COG0514  284 IVAT-IafgM--GIDKPDVRFVIHYDLPKSIEAYyqeIGRAGR 323
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
 280-338 8.81e-06

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 46.11  E-value: 8.81e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 280 VEYYGKALETLVKGVKIMCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 338
Cdd:cd18792   47 IEALAEELKELVPEARVALLHGKMTEdEKEAVMLEFREGEYDILVSTTVIEVGIDVPNAN 106
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 31-172 1.04e-05

DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box helicase, required for crossover formation and complete synapsis of homologous chromosomes during meiosis. HFM1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350781 [Multi-domain]  Cd Length: 206  Bit Score: 46.58  E-value: 1.04e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  31 YMTPVQSATIP-LFMKNKDVAAEAVTGSGKTLAFVIPIEEILLRREEKfKKSQVGAIIITPTRELAVQieevlsHFTKPF 109
Cdd:cd18023    1 YFNRIQSEVFPdLLYSDKNFVVSAPTGSGKTVLFELAILRLLKERNPL-PWGNRKVVYIAPIKALCSE------KYDDWK 73

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 115502143 110 PQFSQIlwigGRNPGE-----DVARFKEL-GGNIIVATPGRLEDMFRRKAEGLDLASCVRsleVLVLDE 172
Cdd:cd18023   74 EKFGPL----GLSCAEltgdtEMDDTFEIqDADIILTTPEKWDSMTRRWRDNGNLVQLVA---LVLIDE 135
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 19-99 1.19e-05

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 48.34  E-value: 1.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  19 KVLSVLREL-------GFPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTL-AFVIPIEEILLRREEKFKKSQVGAIIITP 90
Cdd:PRK13767  13 EILDLLRPYvrewfkeKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLaAFLAIIDELFRLGREGELEDKVYCLYVSP 92


                 ....*....
gi 115502143  91 TRELAVQIE 99
Cdd:PRK13767  93 LRALNNDIH 101
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
29-99 4.87e-05

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 46.63  E-value: 4.87e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 115502143  29 FPYMTPVQSATIPLFMKNKDVAAEAVTGSGKTLA-FVIPIEEILLRREEKFKKSQVGAIIITPTRELAVQIE 99
Cdd:COG1201   22 FGAPTPPQREAWPAIAAGESTLLIAPTGSGKTLAaFLPALDELARRPRPGELPDGLRVLYISPLKALANDIE 93
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 53-204 1.02e-04

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 42.68  E-value: 1.02e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  53 AVTGSGKTL-AFVIpieeILLRREEKFkksqvgaIIITPTRELAVQIEEvlsHFTKPFPQfSQILWIGGrnpgedVARFK 131
Cdd:cd17926   25 LPTGSGKTLtALAL----IAYLKELRT-------LIVVPTDALLDQWKE---RFEDFLGD-SSIGLIGG------GKKKD 83

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 115502143 132 ELGGNIIVATPGRLEdmFRRKAEGLDLASCvrslEVLVLDEADRLLDMGFEtsinTILEFLPKQRRTGlFSAT 204
Cdd:cd17926   84 FDDANVVVATYQSLS--NLAEEEKDLFDQF----GLLIVDEAHHLPAKTFS----EILKELNAKYRLG-LTAT 145
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 254-373 1.39e-04

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 42.62  E-value: 1.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 254 KFNQLVHFLRNHKQ-EKHLVFFSTCACVEYYGKALetlvkgvKIMCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARG 331
Cdd:cd18789   35 KLRALEELLKRHEQgDKIIVFTDNVEALYRYAKRL-------LKPFITGETpQSEREEILQNFREGEYNTLVVSKVGDEG 107

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
gi 115502143 332 IDIPEVNWVLQYDpPSNASA--FVHRCGRTARIGHGGSALVFLL 373
Cdd:cd18789  108 IDLPEANVAIQIS-GHGGSRrqEAQRLGRILRPKKGGGKNAFFY 150
PRK13766 PRK13766
Hef nuclease; Provisional
 313-370 2.38e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 2.38e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 115502143 313 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 370
Cdd:PRK13766 418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
 295-373 2.89e-04

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 41.56  E-value: 2.89e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 295 KIMCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRCGRTA------RIGHGGS 367
Cdd:cd18811   63 NVGLLHGRLKSDeKDAVMAEFREGEVDILVSTTVIEVGVDVPNATVMVIEDA--------ERFGLSQlhqlrgRVGRGDH 134


                 ....*.
gi 115502143 368 ALVFLL 373
Cdd:cd18811  135 QSYCLL 140
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 254-363 7.94e-04

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 39.77  E-value: 7.94e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 254 KFNQLVHFLRNHKQEKH-LVFFSTCACV-EYYGKALETlvKGVKIMCIHGKMK-YKRNKIFMEFRKLQSG--ILVCTDVM 328
Cdd:cd18793   12 KLEALLELLEELREPGEkVLIFSQFTDTlDILEEALRE--RGIKYLRLDGSTSsKERQKLVDRFNEDPDIrvFLLSTKAG 89

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 115502143 329 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 363
Cdd:cd18793   90 GVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIG 124
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 31-204 3.45e-03

DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play an important role in RNA degradation, processing and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350786 [Multi-domain]  Cd Length: 177  Bit Score: 38.85  E-value: 3.45e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  31 YMTPVQSATI-PLFMKNKDVAAEAVTGSGKTLafvipIEEI-LLRREEKFKKsqvgAIIITPTRELAvqiEEVLSHFTKp 108
Cdd:cd18028    1 ELYPPQAEAVrAGLLKGENLLISIPTASGKTL-----IAEMaMVNTLLEGGK----ALYLVPLRALA---SEKYEEFKK- 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 109 fpqFSQILWIGGRNPGEDVARFKELGGN-IIVATPGRLEDMFRRKAEGLDLASCVRSLEVLVLDEADRLLDMgfETSINT 187
Cdd:cd18028   68 ---LEEIGLKVGISTGDYDEDDEWLGDYdIIVATYEKFDSLLRHSPSWLRDVGVVVVDEIHLISDEERGPTL--ESIVAR 142

                        170
                 ....*....|....*..
gi 115502143 188 ILEFLPKQRRTGLfSAT 204
Cdd:cd18028  143 LRRLNPNTQIIGL-SAT 158
PRK02362 PRK02362
ATP-dependent DNA helicase;
10-175 3.99e-03

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 40.33  E-value: 3.99e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  10 ESLPVPlhPKVLSVLRELGFPYMTPVQSATIPL-FMKNKDVAAEAVTGSGKTLafvipIEEI-LLRREEKFKKsqvgAII 87
Cdd:PRK02362   4 AELPLP--EGVIEFYEAEGIEELYPPQAEAVEAgLLDGKNLLAAIPTASGKTL-----IAELaMLKAIARGGK----ALY 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143  88 ITPTRELAvqieevlshfTKPFPQFSQILWIG---GRNPGEDVARFKELGGN-IIVATPGRLEDMFRRKAEGLDLASCVR 163
Cdd:PRK02362  73 IVPLRALA----------SEKFEEFERFEELGvrvGISTGDYDSRDEWLGDNdIIVATSEKVDSLLRNGAPWLDDITCVV 142

                        170
                 ....*....|..
gi 115502143 164 SLEVLVLDEADR 175
Cdd:PRK02362 143 VDEVHLIDSANR 154
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 253-374 6.37e-03

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 39.31  E-value: 6.37e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 253 EKF---NQLVHFLRNHKQEKHLVFFSTCACVEYYGKALETlvKGVKIMCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVM 328
Cdd:PRK11057 219 EKFkplDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQS--RGISAAAYHAGLDNdVRADVQEAFQRDDLQIVVATVAF 296

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 115502143 329 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLP 374
Cdd:PRK11057 297 GMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDP 342
ABC_NatA_sodium_exporter cd03266
ATP-binding cassette domain of the Na+ transporter; NatA is the ATPase component of a ...
 120-212 7.37e-03

ATP-binding cassette domain of the Na+ transporter; NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the proton-motive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunorubicin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single integral membrane protein.


Pssm-ID: 213233 [Multi-domain]  Cd Length: 218  Bit Score: 38.12  E-value: 7.37e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 115502143 120 GRNPGEDVARFKELGGNIivatpgRLEDMFRRKAEGLDL-----ASCVRSL----EVLVLDEADRLLDMgfeTSINTILE 190
Cdd:cd03266  107 GLKGDELTARLEELADRL------GMEELLDRRVGGFSTgmrqkVAIARALvhdpPVLLLDEPTTGLDV---MATRALRE 177

                         90       100
                 ....*....|....*....|....*
gi 115502143 191 FLPKQRRTG---LFSATQTQEVENL 212
Cdd:cd03266  178 FIRQLRALGkciLFSTHIMQEVERL 202
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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