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Conserved domains on  [gi|42567117|ref|NP_194217|]
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P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

Protein Classification

ATP-binding protein( domain architecture ID 15713934)

ATP-binding protein with an AAA (ATPases Associated with various cellular Activities) domain binds ATP and may function as an ATPase

CATH:  3.40.50.300
Gene Ontology:  GO:0005524|GO:0016887
PubMed:  31999255|9927482|9115177|18208389|15037234|18466635
SCOP:  3002019

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 821-987 2.83e-88

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd19520:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 166  Bit Score: 281.24  E-value: 2.83e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19520    1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREhPREHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19520   81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQRS-STDHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRR 159


                 ....*..
gi 42567117  981 LPRRLMV 987
Cdd:cd19520  160 MPKRFHI 166
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 1011-1047 7.62e-10

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


:

Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 55.24  E-value: 7.62e-10
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 42567117   1011 DLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKEILEK 1047
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEA 37
McrB super family cl34253
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 710-878 3.85e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


The actual alignment was detected with superfamily member COG1401:

Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 41.29  E-value: 3.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  710 HLRMVLRRRGLGCEGLETTWSRMCLKDLTLQRDSVEKIIGWAFGNHISKNPDTDPAKvtLSRESIEFGIGLLQNDLKGST 789
Cdd:COG1401   78 VLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLLELAERSDALEALER--ARLLLELADLEERAALETEVL 155

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  790 SSKKDIVVENVFEKRLLSDVILPS----DIDVTFDDIGALEK-VKDILKELVMLPLQRpelFCKGELTKPCkgILLFGPP 864
Cdd:COG1401  156 EALEAELEELLAAPEDLSADALAAelsaAEELYSEDLESEDDyLKDLLREKFEETLEA---FLAALKTKKN--VILAGPP 230

                        170
                 ....*....|....
gi 42567117  865 GTGKTMLAKAVAKE 878
Cdd:COG1401  231 GTGKTYLARRLAEA 244
 
Name Accession Description Interval E-value
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 821-987 2.83e-88

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 281.24  E-value: 2.83e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19520    1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREhPREHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19520   81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQRS-STDHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRR 159


                 ....*..
gi 42567117  981 LPRRLMV 987
Cdd:cd19520  160 MPKRFHI 166
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 816-1043 2.03e-78

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 260.71  E-value: 2.03e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:COG1222   74 DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGI-EPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKY 152

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDE 975
Cdd:COG1222  153 IGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEVQRTVNQLLAELDGF--ESRGDVLIIAATNRPDLLDP 230

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  976 AVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKE 1043
Cdd:COG1222  231 ALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIRE 300
cell_div_CdvC NF041006
cell division protein CdvC;
798-1084 1.54e-68

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 234.63  E-value: 1.54e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   798 ENVFEKRLLSDVILPSDIDVTFDDIGALEKVKDILKELVMLPLQRPELFckgELTKPcKGILLFGPPGTGKTMLAKAVAK 877
Cdd:NF041006   81 GPDVEKESDEELVVKEKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF---PLGWP-RGILLYGPPGCGKTMLAAAVAN 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   878 EADANFINISMSSITSKWFGEGEKYVKAVFSLASKMS-----PSVIFVDEVDSMLGrrEHPREHEASRKIKNEFMMHWDG 952
Cdd:NF041006  157 EIDSEFIHVDAASIMSKWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLG--VYSSEVGGEVRVRNQFLKEMDG 234

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   953 LTTQ-ERERVLVLAATNRPFDLDEAVIRRLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKN 1031
Cdd:NF041006  235 LQDKsENYHVYVIGATNKPWRLDEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRD 314

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 42567117  1032 LcVTAAH-RPIKEILEKekrerdaalaqgkvppplsGSSDLRALNVEDFRDAHK 1084
Cdd:NF041006  315 I-VQAAHmRVVKEMFEK-------------------GLGEPRPITMEDFKEVLK 348
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 816-1036 6.34e-58

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 205.07  E-value: 6.34e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:PRK03992  127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPP-KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPR---EHEASRKiknefMMH----WDGLttQERERVLVLAATN 968
Cdd:PRK03992  206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGtsgDREVQRT-----LMQllaeMDGF--DPRGNVKIIAATN 278

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   969 RPFDLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTA 1036
Cdd:PRK03992  279 RIDILDPAILRpgRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEA 348
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 816-1066 1.60e-54

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 203.60  E-value: 1.60e-54
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:TIGR01243  449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPP-KGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKW 527

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDE 975
Cdd:TIGR01243  528 VGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGI--QELSNVVVIAATNRPDILDP 605

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    976 AVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAA--------HRPIKEIL 1045
Cdd:TIGR01243  606 ALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAmaalresiGSPAKEKL 685

                          250       260       270
                   ....*....|....*....|....*....|
gi 42567117   1046 EKEKRE---------RDAALAQGKVPPPLS 1066
Cdd:TIGR01243  686 EVGEEEflkdlkvemRHFLEALKKVKPSVS 715
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 858-989 2.05e-48

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 168.16  E-value: 2.05e-48
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    858 ILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHpREHE 937
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGS-GGDS 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 42567117    938 ASRKIKNEFMMHWDGLTTQEReRVLVLAATNRPFDLDEAVIRRLPRRLMVGL 989
Cdd:pfam00004   80 ESRRVVNQLLTELDGFTSSNS-KVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 856-991 1.67e-18

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 83.58  E-value: 1.67e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117     856 KGILLFGPPGTGKTMLAKAVAKEADAN---FINISMSSITS--------------KWFGEGEKYVKAVFSLASKMSPSVI 918
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPDVL 82

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 42567117     919 FVDEVDSMLGRRehpreheaSRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIR-RLPRRLMVGLPD 991
Cdd:smart00382   83 ILDEITSLLDAE--------QEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRrRFDRRIVLLLIL 148
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 1011-1047 7.62e-10

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 55.24  E-value: 7.62e-10
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 42567117   1011 DLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKEILEK 1047
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEA 37
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 858-879 1.57e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 41.30  E-value: 1.57e-03
                          10        20
                  ....*....|....*....|..
gi 42567117   858 ILLFGPPGTGKTMLAKAVAKEA 879
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAA 114
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 710-878 3.85e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 41.29  E-value: 3.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  710 HLRMVLRRRGLGCEGLETTWSRMCLKDLTLQRDSVEKIIGWAFGNHISKNPDTDPAKvtLSRESIEFGIGLLQNDLKGST 789
Cdd:COG1401   78 VLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLLELAERSDALEALER--ARLLLELADLEERAALETEVL 155

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  790 SSKKDIVVENVFEKRLLSDVILPS----DIDVTFDDIGALEK-VKDILKELVMLPLQRpelFCKGELTKPCkgILLFGPP 864
Cdd:COG1401  156 EALEAELEELLAAPEDLSADALAAelsaAEELYSEDLESEDDyLKDLLREKFEETLEA---FLAALKTKKN--VILAGPP 230

                        170
                 ....*....|....
gi 42567117  865 GTGKTMLAKAVAKE 878
Cdd:COG1401  231 GTGKTYLARRLAEA 244
 
Name Accession Description Interval E-value
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 821-987 2.83e-88

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 281.24  E-value: 2.83e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19520    1 DIGGLDEVITELKELVILPLQRPELFDNSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREhPREHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19520   81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQRS-STDHEATAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILRR 159


                 ....*..
gi 42567117  981 LPRRLMV 987
Cdd:cd19520  160 MPKRFHI 166
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 816-1043 2.03e-78

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 260.71  E-value: 2.03e-78
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:COG1222   74 DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGI-EPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKY 152

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDE 975
Cdd:COG1222  153 IGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEVQRTVNQLLAELDGF--ESRGDVLIIAATNRPDLLDP 230

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  976 AVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKE 1043
Cdd:COG1222  231 ALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIRE 300
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 822-987 2.39e-72

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 237.25  E-value: 2.39e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  822 IGALEKVKDILKELVMLPLQRPELFcKGeLTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEK 901
Cdd:cd19509    1 IAGLDDAKEALKEAVILPSLRPDLF-PG-LRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEK 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  902 YVKAVFSLASKMSPSVIFVDEVDSMLGRREHpREHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRRL 981
Cdd:cd19509   79 IVRALFALARELQPSIIFIDEIDSLLSERGS-GEHEASRRVKTEFLVQMDGVLNKPEDRVLVLGATNRPWELDEAFLRRF 157


                 ....*.
gi 42567117  982 PRRLMV 987
Cdd:cd19509  158 EKRIYI 163
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 819-1039 4.26e-70

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 240.20  E-value: 4.26e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  819 FDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGE 898
Cdd:COG0464  156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPP-RGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGE 234

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  899 GEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRkIKNEFMMHWDGLttqeRERVLVLAATNRPFDLDEAVI 978
Cdd:COG0464  235 TEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRR-VVNTLLTEMEEL----RSDVVVIAATNRPDLLDPALL 309

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42567117  979 RRLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAAHR 1039
Cdd:COG0464  310 RRFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ 370
cell_div_CdvC NF041006
cell division protein CdvC;
798-1084 1.54e-68

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 234.63  E-value: 1.54e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   798 ENVFEKRLLSDVILPSDIDVTFDDIGALEKVKDILKELVMLPLQRPELFckgELTKPcKGILLFGPPGTGKTMLAKAVAK 877
Cdd:NF041006   81 GPDVEKESDEELVVKEKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF---PLGWP-RGILLYGPPGCGKTMLAAAVAN 156

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   878 EADANFINISMSSITSKWFGEGEKYVKAVFSLASKMS-----PSVIFVDEVDSMLGrrEHPREHEASRKIKNEFMMHWDG 952
Cdd:NF041006  157 EIDSEFIHVDAASIMSKWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLG--VYSSEVGGEVRVRNQFLKEMDG 234

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   953 LTTQ-ERERVLVLAATNRPFDLDEAVIRRLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKN 1031
Cdd:NF041006  235 LQDKsENYHVYVIGATNKPWRLDEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRD 314

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 42567117  1032 LcVTAAH-RPIKEILEKekrerdaalaqgkvppplsGSSDLRALNVEDFRDAHK 1084
Cdd:NF041006  315 I-VQAAHmRVVKEMFEK-------------------GLGEPRPITMEDFKEVLK 348
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 821-987 1.41e-62

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 210.09  E-value: 1.41e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKgeLTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19524    1 DIAGQDLAKQALQEMVILPSLRPELFTG--LRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGE 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHpREHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19524   79 KLVRALFAVARELQPSIIFIDEVDSLLSERSE-GEHEASRRLKTEFLIEFDGVQSNGDDRVLVMGATNRPQELDDAVLRR 157


                 ....*..
gi 42567117  981 LPRRLMV 987
Cdd:cd19524  158 FTKRVYV 164
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 798-987 1.25e-61

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 208.30  E-value: 1.25e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  798 ENVFEkrLLSDVILPSDIDVTFDDIGALEKVKDILKELVMLPLQRPELFCKgeLTKPCKGILLFGPPGTGKTMLAKAVAK 877
Cdd:cd19525    2 PKMIE--LIMSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTG--LRGPPKGILLFGPPGTGKTLIGKCIAS 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  878 EADANFINISMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPrEHEASRKIKNEFMMHWDGLTTQE 957
Cdd:cd19525   78 QSGATFFSISASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEG-EHESSRRIKTEFLVQLDGATTSS 156

                        170       180       190
                 ....*....|....*....|....*....|
gi 42567117  958 RERVLVLAATNRPFDLDEAVIRRLPRRLMV 987
Cdd:cd19525  157 EDRILVVGATNRPQEIDEAARRRLVKRLYI 186
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 816-1036 6.34e-58

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 205.07  E-value: 6.34e-58
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:PRK03992  127 NVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPP-KGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPR---EHEASRKiknefMMH----WDGLttQERERVLVLAATN 968
Cdd:PRK03992  206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGtsgDREVQRT-----LMQllaeMDGF--DPRGNVKIIAATN 278

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   969 RPFDLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTA 1036
Cdd:PRK03992  279 RIDILDPAILRpgRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEA 348
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 821-987 4.02e-55

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 189.04  E-value: 4.02e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFcKGeLTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19522    1 DIADLEEAKKLLEEAVVLPMWMPEFF-KG-IRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESE 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLT-----TQERERVLVLAATNRPFDLDE 975
Cdd:cd19522   79 KLVRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEASRRVKSELLVQMDGVGgasenDDPSKMVMVLAATNFPWDIDE 158

                        170
                 ....*....|..
gi 42567117  976 AVIRRLPRRLMV 987
Cdd:cd19522  159 ALRRRLEKRIYI 170
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 816-1066 1.60e-54

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 203.60  E-value: 1.60e-54
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:TIGR01243  449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPP-KGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKW 527

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDE 975
Cdd:TIGR01243  528 VGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGI--QELSNVVVIAATNRPDILDP 605

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    976 AVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAA--------HRPIKEIL 1045
Cdd:TIGR01243  606 ALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAmaalresiGSPAKEKL 685

                          250       260       270
                   ....*....|....*....|....*....|
gi 42567117   1046 EKEKRE---------RDAALAQGKVPPPLS 1066
Cdd:TIGR01243  686 EVGEEEflkdlkvemRHFLEALKKVKPSVS 715
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 744-1049 1.85e-53

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 200.52  E-value: 1.85e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    744 VEKIIGWAFGNHIS-KNPDTDPA-KVTLS-RESIEFGIG---LLQNDLKGSTSSKKDIVVENVFEKRLLSDVI--LPSDI 815
Cdd:TIGR01243   69 LRANAGVTIGDTVTvERAEVKEAkKVVLApTQPIRFGRDfvdYVKEFLLGKPISKGETVIVPVLEGALPFVVVstQPAGF 148

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    816 -------------------------DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTM 870
Cdd:TIGR01243  149 vyvteateveirekpvreeierkvpKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPP-KGVLLYGPPGTGKTL 227

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    871 LAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPrEHEASRKIKNEFMMHW 950
Cdd:TIGR01243  228 LAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEV-TGEVEKRVVAQLLTLM 306

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    951 DGLttQERERVLVLAATNRPFDLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSD 1028
Cdd:TIGR01243  307 DGL--KGRGRVIVIGATNRPDALDPALRRpgRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGAD 384

                          330       340
                   ....*....|....*....|.
gi 42567117   1029 LKNLCVTAAHRPIKEILEKEK 1049
Cdd:TIGR01243  385 LAALAKEAAMAALRRFIREGK 405
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 816-987 3.56e-53

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 183.52  E-value: 3.56e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGEltKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:cd19521    3 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNR--KPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKW 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHpREHEASRKIKNEFMMHWDGLTTQErERVLVLAATNRPFDLDE 975
Cdd:cd19521   81 MGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGE-GESEASRRIKTELLVQMNGVGNDS-QGVLVLGATNIPWQLDS 158

                        170
                 ....*....|..
gi 42567117  976 AVIRRLPRRLMV 987
Cdd:cd19521  159 AIRRRFEKRIYI 170
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 858-989 2.05e-48

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 168.16  E-value: 2.05e-48
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    858 ILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHpREHE 937
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGS-GGDS 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|..
gi 42567117    938 ASRKIKNEFMMHWDGLTTQEReRVLVLAATNRPFDLDEAVIRRLPRRLMVGL 989
Cdd:pfam00004   80 ESRRVVNQLLTELDGFTSSNS-KVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 821-985 2.16e-48

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 169.39  E-value: 2.16e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19503    1 DIGGLDEQIASLKELIELPLKYPELFRALGL-KPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPReHEASRKIKNEFMMHWDGLTtqERERVLVLAATNRPFDLDEAvIRR 980
Cdd:cd19503   80 KNLREIFEEARSHAPSIIFIDEIDALAPKREEDQ-REVERRVVAQLLTLMDGMS--SRGKVVVIAATNRPDAIDPA-LRR 155


                 ....*
gi 42567117  981 lPRRL 985
Cdd:cd19503  156 -PGRF 159
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 828-987 1.67e-45

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 160.91  E-value: 1.67e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELTKpcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19481    1 LKASLREAVEAPRRGSRLRRYGLGLP--KGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIF 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIR--RLPRRL 985
Cdd:cd19481   79 ERARRLAPCILFIDEIDAIGRKRDSSGESGELRRVLNQLLTELDGV--NSRSKVLVIAATNRPDLLDPALLRpgRFDEVI 156


                 ..
gi 42567117  986 MV 987
Cdd:cd19481  157 EF 158
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 828-987 4.21e-45

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 159.76  E-value: 4.21e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19511    1 VKRELKEAVEWPLKHPDAFKRLGIRPP-KGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIF 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIR--RLPRRL 985
Cdd:cd19511   80 QKARQAAPCIIFFDEIDSLAPRRGQSDSSGVTDRVVSQLLTELDGI--ESLKGVVVIAATNRPDMIDPALLRpgRLDKLI 157


                 ..
gi 42567117  986 MV 987
Cdd:cd19511  158 YV 159
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 828-987 1.14e-44

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 158.81  E-value: 1.14e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19529    1 VKQELKEAVEWPLLKPEVFKRLGI-RPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIF 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIR--RLPRRL 985
Cdd:cd19529   80 RKARQVAPCVIFFDEIDSIAPRRGTTGDSGVTERVVNQLLTELDGL--EEMNGVVVIAATNRPDIIDPALLRagRFDRLI 157


                 ..
gi 42567117  986 MV 987
Cdd:cd19529  158 YI 159
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 816-1036 4.60e-44

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 165.32  E-value: 4.60e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   816 DVTFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:PTZ00454  141 DVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPP-RGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKY 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRReHPREHEASRKIKN---EFMMHWDGLttQERERVLVLAATNRPFD 972
Cdd:PTZ00454  220 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKR-FDAQTGADREVQRillELLNQMDGF--DQTTNVKVIMATNRADT 296

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42567117   973 LDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTA 1036
Cdd:PTZ00454  297 LDPALLRpgRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEA 362
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
806-1058 6.70e-43

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 156.97  E-value: 6.70e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  806 LSDVILPSDidvtfddigALEKVKDILKELVMLplQRPELFCKgeltKPCKGILLFGPPGTGKTMLAKAVAKEADANFIN 885
Cdd:COG1223    1 LDDVVGQEE---------AKKKLKLIIKELRRR--ENLRKFGL----WPPRKILFYGPPGTGKTMLAEALAGELKLPLLT 65

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  886 ISMSSITSKWFGEGEKYVKAVFSLASKMsPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMHWDGLttqeRERVLVLA 965
Cdd:COG1223   66 VRLDSLIGSYLGETARNLRKLFDFARRA-PCVIFFDEFDAIAKDRGDQNDVGEVKRVVNALLQELDGL----PSGSVVIA 140

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  966 ATNRPFDLDEAVIRRLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKEIL 1045
Cdd:COG1223  141 ATNHPELLDSALWRRFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAILEDR 220

                        250
                 ....*....|....
gi 42567117 1046 EK-EKRERDAALAQ 1058
Cdd:COG1223  221 EKvTKEDLEEALKQ 234
ftsH CHL00176
cell division protein; Validated
 814-1048 1.53e-42

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 165.99  E-value: 1.53e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   814 DIDVTFDDIGALEKVKDILKELVMLpLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITS 893
Cdd:CHL00176  177 DTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIP-KGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVE 254

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   894 KWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSmLGRREHPR---EHEASRKIKNEFMMHWDGLttQERERVLVLAATNRP 970
Cdd:CHL00176  255 MFVGVGAARVRDLFKKAKENSPCIVFIDEIDA-VGRQRGAGiggGNDEREQTLNQLLTEMDGF--KGNKGVIVIAATNRV 331

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   971 FDLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNL----CVTAAHRPIKEI 1044
Cdd:CHL00176  332 DILDAALLRpgRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLlneaAILTARRKKATI 411


                  ....
gi 42567117  1045 LEKE 1048
Cdd:CHL00176  412 TMKE 415
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 818-987 2.86e-42

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 152.11  E-value: 2.86e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  818 TFDDIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFG 897
Cdd:cd19502    1 TYEDIGGLDEQIREIREVVELPLKHPELFEELGIEPP-KGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  898 EGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPR---EHEASRKIKnEFMMHWDGLttQERERVLVLAATNRPFDLD 974
Cdd:cd19502   80 EGARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGtggDREVQRTML-ELLNQLDGF--DPRGNIKVIMATNRPDILD 156

                        170
                 ....*....|....*
gi 42567117  975 EAVIR--RLPRRLMV 987
Cdd:cd19502  157 PALLRpgRFDRKIEF 171
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 821-988 1.70e-41

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 149.89  E-value: 1.70e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19519    1 DIGGCRKQLAQIREMVELPLRHPELFKAIGI-KPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPrEHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIR- 979
Cdd:cd19519   80 SNLRKAFEEAEKNAPAIIFIDEIDAIAPKREKT-HGEVERRIVSQLLTLMDGL--KQRAHVIVMAATNRPNSIDPALRRf 156

                        170
                 ....*....|
gi 42567117  980 -RLPRRLMVG 988
Cdd:cd19519  157 gRFDREIDIG 166
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 818-1036 1.71e-40

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 155.70  E-value: 1.71e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   818 TFDDIGALEKVKDILKELVMLPLQRPELFckGEL-TKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWF 896
Cdd:PTZ00361  181 SYADIGGLEQQIQEIKEAVELPLTHPELY--DDIgIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYL 258

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   897 GEGEKYVKAVFSLASKMSPSVIFVDEVDSmLGRREHPREHEASRKIKN---EFMMHWDGLTTqeRERVLVLAATNRPFDL 973
Cdd:PTZ00361  259 GDGPKLVRELFRVAEENAPSIVFIDEIDA-IGTKRYDATSGGEKEIQRtmlELLNQLDGFDS--RGDVKVIMATNRIESL 335

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 42567117   974 DEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTA 1036
Cdd:PTZ00361  336 DPALIRpgRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEA 400
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
804-1049 8.96e-40

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 157.50  E-value: 8.96e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   804 RLLSDvilpSDIDVTFDDIGALEKVKDILKELVMLpLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANF 883
Cdd:PRK10733  140 RMLTE----DQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIP-KGVLMVGPPGTGKTLLAKAIAGEAKVPF 213

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   884 INISMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSmLGRREHP---REHEASRKIKNEFMMHWDGLttQERER 960
Cdd:PRK10733  214 FTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA-VGRQRGAglgGGHDEREQTLNQMLVEMDGF--EGNEG 290

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   961 VLVLAATNRPFDLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSGSDLKNLCVTAA- 1037
Cdd:PRK10733  291 IIVIAATNRPDVLDPALLRpgRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAAl 370

                         250
                  ....*....|....*..
gi 42567117  1038 -----HRPIKEILEKEK 1049
Cdd:PRK10733  371 faargNKRVVSMVEFEK 387
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
812-1037 2.27e-39

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 155.19  E-value: 2.27e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  812 PSDIDVTFDDIGALEKVKDILKELVMLpLQRPELFckgelTK-----PcKGILLFGPPGTGKTMLAKAVAKEADANFINI 886
Cdd:COG0465  134 EDKPKVTFDDVAGVDEAKEELQEIVDF-LKDPEKF-----TRlgakiP-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSI 206

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  887 SMSSITSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSmLGRR----------EhpREH-------EasrkiknefMmh 949
Cdd:COG0465  207 SGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDA-VGRQrgaglggghdE--REQtlnqllvE---------M-- 272

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  950 wDGLTTqeRERVLVLAATNRPfD-LDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKEDLSPDLDIGEIASMTNGYSG 1026
Cdd:COG0465  273 -DGFEG--NEGVIVIAATNRP-DvLDPALLRpgRFDRQVVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSG 348

                        250
                 ....*....|.
gi 42567117 1027 SDLKNLCVTAA 1037
Cdd:COG0465  349 ADLANLVNEAA 359
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 828-985 5.27e-39

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 142.65  E-value: 5.27e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELTkPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19528    1 VKRELQELVQYPVEHPDKFLKFGMT-PSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIF 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRR--EHPREHEASRKIKNEFMMHWDGLTtqERERVLVLAATNRPFDLDEAVIRrlPRRL 985
Cdd:cd19528   80 DKARAAAPCVLFFDELDSIAKARggNIGDAGGAADRVINQILTEMDGMN--TKKNVFIIGATNRPDIIDPAILR--PGRL 155
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 821-987 1.05e-37

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 138.86  E-value: 1.05e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFckGELTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19523    1 DIAGLGALKAAIKEEVLWPLLRPDAF--SGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGE 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHprEHEASRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19523   79 KILQASFLAARCRQPSVLFISDLDALLSSQDD--EASPVGRLQVELLAQLDGVLGSGEDGVLVVCTTSKPEEIDESLRRY 156


                 ....*..
gi 42567117  981 LPRRLMV 987
Cdd:cd19523  157 FSKRLLV 163
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 817-987 1.79e-37

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 138.52  E-value: 1.79e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  817 VTFDDIGALEKVKDILKELVMLpLQRPELFCK-GelTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKW 895
Cdd:cd19501    1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKlG--AKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHP--REHEASRKIKNEFMMHWDGLTTqeRERVLVLAATNRPFDL 973
Cdd:cd19501   78 VGVGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGlgGGHDEREQTLNQLLVEMDGFES--NTGVIVIAATNRPDVL 155

                        170
                 ....*....|....*.
gi 42567117  974 DEAVIR--RLPRRLMV 987
Cdd:cd19501  156 DPALLRpgRFDRQVYV 171
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 825-987 1.14e-36

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 135.69  E-value: 1.14e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  825 LEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVK 904
Cdd:cd19530    1 LDHVREELTMSILRPIKRPDIYKALGIDLP-TGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVR 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  905 AVFSLASKMSPSVIFVDEVDSMLGRREHpREHEASRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIR--RLP 982
Cdd:cd19530   80 QVFQRARASAPCVIFFDEVDALVPKRGD-GGSWASERVVNQLLTEMDGL--EERSNVFVIAATNRPDIIDPAMLRpgRLD 156


                 ....*
gi 42567117  983 RRLMV 987
Cdd:cd19530  157 KTLYV 161
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 821-983 1.11e-34

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 130.60  E-value: 1.11e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELtKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGE 900
Cdd:cd19518    1 DIGGMDSTLKELCELLIHPILPPEYFQHLGV-EPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESE 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  901 KYVKAVFSLASKMSPSVIFVDEVDSMLGRREHP-REHEasRKIKNEFMMHWDGLTTQER--ERVLVLAATNRPFDLDEAv 977
Cdd:cd19518   80 EKIRELFDQAISNAPCIVFIDEIDAITPKRESAqREME--RRIVSQLLTCMDELNNEKTagGPVLVIGATNRPDSLDPA- 156


                 ....*.
gi 42567117  978 IRRLPR 983
Cdd:cd19518  157 LRRAGR 162
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 821-979 3.64e-31

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 120.31  E-value: 3.64e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEA--DANFINISM---SSITSKW 895
Cdd:cd19517    1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPP-RGVLFHGPPGTGKTLMARALAAECskGGQKVSFFMrkgADCLSKW 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  896 FGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASrKIKNEFMMHWDGLTTqeRERVLVLAATNRPFDLDE 975
Cdd:cd19517   80 VGEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHA-SIVSTLLALMDGLDN--RGQVVVIGATNRPDALDP 156


                 ....
gi 42567117  976 AVIR 979
Cdd:cd19517  157 ALRR 160
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 828-985 1.04e-29

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 115.99  E-value: 1.04e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19526    1 VKKALEETIEWPSKYPKIFASSPLRLR-SGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLF 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRREHPREHEASRkIKNEFMMHWDGltTQERERVLVLAATNRPFDLDEAVIRrlPRRL 985
Cdd:cd19526   80 SRAQSAKPCILFFDEFDSIAPKRGHDSTGVTDR-VVNQLLTQLDG--VEGLDGVYVLAATSRPDLIDPALLR--PGRL 152
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 828-985 4.70e-28

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 111.07  E-value: 4.70e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGelTKPCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEGEKYVKAVF 907
Cdd:cd19527    1 VKKEILDTIQLPLEHPELFSSG--LRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVF 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 42567117  908 SLASKMSPSVIFVDEVDSMLGRREHPREHEASR-KIKNEFMMHWDGLTTQErERVLVLAATNRPFDLDEAVIRrlPRRL 985
Cdd:cd19527   79 QKARDAKPCVIFFDELDSLAPSRGNSGDSGGVMdRVVSQLLAELDGMSSSG-QDVFVIGATNRPDLLDPALLR--PGRF 154
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 856-989 3.45e-24

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 99.91  E-value: 3.45e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  856 KGILLFGPPGTGKTMLAKAVAKEA---DANFINISMSSITSKWFGEGEK---YVKAVFSLASKMSPSVIFVDEVDSMlgr 929
Cdd:cd00009   20 KNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFghfLVRLLFELAEKAKPGVLFIDEIDSL--- 96

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 42567117  930 reHPREHEASRKIKNEFMMhwdglTTQERERVLVLAATNRPF--DLDEAVIRRLPRRLMVGL 989
Cdd:cd00009   97 --SRGAQNALLRVLETLND-----LRIDRENVRVIGATNRPLlgDLDRALYDRLDIRIVIPL 151
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 856-991 1.67e-18

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 83.58  E-value: 1.67e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117     856 KGILLFGPPGTGKTMLAKAVAKEADAN---FINISMSSITS--------------KWFGEGEKYVKAVFSLASKMSPSVI 918
Cdd:smart00382    3 EVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPDVL 82

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 42567117     919 FVDEVDSMLGRRehpreheaSRKIKNEFMMHWDGLTTQERERVLVLAATNRPFDLDEAVIR-RLPRRLMVGLPD 991
Cdd:smart00382   83 ILDEITSLLDAE--------QEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRrRFDRRIVLLLIL 148
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 821-986 2.95e-17

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 80.11  E-value: 2.95e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  821 DIGALEKVKDILKelvmlplQRPELFCKGE----LTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWF 896
Cdd:cd19507    1 DVGGLDNLKDWLK-------KRKAAFSKQAsaygLPTP-KGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLV 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  897 GEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFmMHWdgltTQERER-VLVLAATNRpfdlde 975
Cdd:cd19507   73 GESESRLRQMIQTAEAIAPCVLWIDEIEKGFSNADSKGDSGTSSRVLGTF-LTW----LQEKKKpVFVVATANN------ 141

                        170
                 ....*....|.
gi 42567117  976 avIRRLPRRLM 986
Cdd:cd19507  142 --VQSLPPELL 150
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 853-987 2.04e-14

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 72.52  E-value: 2.04e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  853 KPCKGILLFGPPGTGKTMLAKAVAKEADANFINI-SMSSITSKWFGEGEKYVKAVFS--------LASKMSPSVIFVDEV 923
Cdd:cd19504   33 KHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIvNGPEILNKYVGESEANIRKLFAdaeeeqrrLGANSGLHIIIFDEI 112

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 42567117  924 DSMLGRREHPREHEA-SRKIKNEFMMHWDGLttQERERVLVLAATNRPFDLDEAVIRrlPRRLMV 987
Cdd:cd19504  113 DAICKQRGSMAGSTGvHDTVVNQLLSKIDGV--EQLNNILVIGMTNRKDLIDEALLR--PGRLEV 173
ycf46 CHL00195
Ycf46; Provisional
 816-1063 7.16e-14

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 75.44  E-value: 7.16e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   816 DVTFDDIGALEKVKDILKelvmlplQRPELFCKGE----LTKPcKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSI 891
Cdd:CHL00195  224 NEKISDIGGLDNLKDWLK-------KRSTSFSKQAsnygLPTP-RGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKL 295

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   892 TSKWFGEGEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPREHEASRKIKNEFMMhWdglTTQERERVLVLAATNRPF 971
Cdd:CHL00195  296 FGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFIT-W---LSEKKSPVFVVATANNID 371

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   972 DLDEAVIR--RLPRRLMVGLPDTSNRAFILKVILAKedLSPD----LDIGEIASMTNGYSGSDLKNLCVTAAHrpikeIL 1045
Cdd:CHL00195  372 LLPLEILRkgRFDEIFFLDLPSLEEREKIFKIHLQK--FRPKswkkYDIKKLSKLSNKFSGAEIEQSIIEAMY-----IA 444

                         250       260
                  ....*....|....*....|.
gi 42567117  1046 EKEKRE---RDAALAQGKVPP 1063
Cdd:CHL00195  445 FYEKREfttDDILLALKQFIP 465
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 854-981 6.10e-13

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 67.55  E-value: 6.10e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  854 PCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSkwFG-EGEKYVKAVFSLASKMSPSVI-FVDEVDSMLGRRE 931
Cdd:cd19512   21 LYRNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAP--MGrEGVTAIHKVFDWANTSRRGLLlFVDEADAFLRKRS 98

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 42567117  932 HPREHEASRKIKNEFMMHwdglTTQERERVLVLAATNRPFDLDEAVIRRL 981
Cdd:cd19512   99 TEKISEDLRAALNAFLYR----TGEQSNKFMLVLASNQPEQFDWAINDRI 144
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 828-974 1.60e-12

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 66.40  E-value: 1.60e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  828 VKDILKELVMLPLQRPELFCKGELTKpckGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWFGEG--EKYVKA 905
Cdd:cd19506    2 VRQLLTLYGILPLGSQAVHEKAPLVK---SLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHL 78

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  906 VFSLASKMSPSVIFVDEVDSMLGRREHPREHEAS-RKIKNEFMMHWDGLTTQerERVLVLAATNRPFDLD 974
Cdd:cd19506   79 VLKVARQLQPSVIWIGDAEKTFYKKVPKTEKQLDpKRLKKDLPKILKSLKPE--DRVLIVGTTSRPFEAD 146
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 858-980 4.26e-11

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 63.62  E-value: 4.26e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  858 ILLFGPPGTGKTMLAKAVAKE---------ADANFINISMSSITSKWFGEGEKYVKAVFSLASKM---SPSVIFV--DEV 923
Cdd:cd19508   55 VLLHGPPGTGKTSLCKALAQKlsirlssryRYGQLIEINSHSLFSKWFSESGKLVTKMFQKIQELiddKDALVFVliDEV 134

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  924 DSMLGRREHPRE-HEASRKIK--NEFMMHWDGLTTqeRERVLVLAATNRPFDLDEAVIRR 980
Cdd:cd19508  135 ESLAAARSASSSgTEPSDAIRvvNAVLTQIDRIKR--YHNNVILLTSNLLEKIDVAFVDR 192
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 1011-1047 7.62e-10

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 55.24  E-value: 7.62e-10
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 42567117   1011 DLDIGEIASMTNGYSGSDLKNLCVTAAHRPIKEILEK 1047
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEA 37
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 858-923 7.27e-09

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 59.33  E-value: 7.27e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   858 ILLFGPPGTGKTMLAKAVAKEADANFINIsmSSITSkwfgeGEKYVKAVFSLASKMSPS----VIFVDEV 923
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGATDAPFEAL--SAVTS-----GVKDLREVIEEARQRRSAgrrtILFIDEI 101
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 858-923 1.37e-08

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 58.53  E-value: 1.37e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  858 ILLFGPPGTGKTMLAKAVAKEADANFINIsmSSITSkwfgeGEKYVKAVFSLASKMS----PSVIFVDEV 923
Cdd:COG2256   52 MILWGPPGTGKTTLARLIANATDAEFVAL--SAVTS-----GVKDIREVIEEARERRaygrRTILFVDEI 114
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 856-980 2.37e-08

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 54.28  E-value: 2.37e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  856 KGILLFGPPGTGKTMLAKAVAKEADANF--INISMSSITSkwfgegeKYVKAVFSLASKmsPSVIFVDEVDSMLGRREHP 933
Cdd:cd19510   24 RGYLLYGPPGTGKSSFIAALAGELDYDIcdLNLSEVVLTD-------DRLNHLLNTAPK--QSIILLEDIDAAFESREHN 94

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 42567117  934 REHEASRKIKNEFMMH-----WDGLTTQErERVLVLaATNRPFDLDEAVIRR 980
Cdd:cd19510   95 KKNPSAYGGLSRVTFSgllnaLDGVASSE-ERIVFM-TTNHIERLDPALIRP 144
PRK04195 PRK04195
replication factor C large subunit; Provisional
 818-1023 5.82e-08

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 56.47  E-value: 5.82e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   818 TFDDIGALEKVKDILKELVmlplqrpELFCKGELTKPckgILLFGPPGTGKTMLAKAVAKEADANFI--NIS----MSSI 891
Cdd:PRK04195   12 TLSDVVGNEKAKEQLREWI-------ESWLKGKPKKA---LLLYGPPGVGKTSLAHALANDYGWEVIelNASdqrtADVI 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   892 tskwfgegEKYVKAvfslASKMSP------SVIFVDEVDSMlgrreHPRE-----HEASRKIKNefmmhwdglTTQErer 960
Cdd:PRK04195   82 --------ERVAGE----AATSGSlfgarrKLILLDEVDGI-----HGNEdrggaRAILELIKK---------AKQP--- 132

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 42567117   961 vLVLAAtNRPFDLDEAVIRrlPRRLMVGLPDTSNRAFI--LKVILAKEDLS-PDLDIGEIASMTNG 1023
Cdd:PRK04195  133 -IILTA-NDPYDPSLRELR--NACLMIEFKRLSTRSIVpvLKRICRKEGIEcDDEALKEIAERSGG 194
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 858-1020 8.15e-07

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 52.09  E-value: 8.15e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  858 ILLFGPPGTGKTMLAKAVAKEADANFINI-----SM-SSITSKWF---GEGEKYVK--AVFSlaskmspSVIFVDEVDsm 926
Cdd:COG0714   34 LLLEGVPGVGKTTLAKALARALGLPFIRIqftpdLLpSDILGTYIydqQTGEFEFRpgPLFA-------NVLLADEIN-- 104

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  927 lgRrehpreheASRKIKN---EFMMHW----DGLTTQERERVLVLAATNRP-----FDLDEAVIRRLPRRLMVGLPDTSN 994
Cdd:COG0714  105 --R--------APPKTQSallEAMEERqvtiPGGTYKLPEPFLVIATQNPIeqegtYPLPEAQLDRFLLKLYIGYPDAEE 174

                        170       180
                 ....*....|....*....|....*...
gi 42567117  995 RAFILKVILA--KEDLSPDLDIGEIASM 1020
Cdd:COG0714  175 EREILRRHTGrhLAEVEPVLSPEELLAL 202
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
856-893 1.27e-06

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 52.28  E-value: 1.27e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 42567117  856 KGILLFGPPGTGKTMLAKAVAKE--ADANFINISMSSITS 893
Cdd:COG1224   65 KGILIVGPPGTGKTALAVAIARElgEDTPFVAISGSEIYS 104
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 825-926 1.64e-06

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 49.48  E-value: 1.64e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  825 LEKVKD-ILkelvmlplqrpELFCKGELTKPCKG-ILLF-GPPGTGKTMLAKAVAKEADANFINISMSSIT--SKWFGEG 899
Cdd:cd19500   15 LEDVKErIL-----------EYLAVRKLKGSMKGpILCLvGPPGVGKTSLGKSIARALGRKFVRISLGGVRdeAEIRGHR 83

                         90       100       110
                 ....*....|....*....|....*....|....
gi 42567117  900 EKYVKAV-------FSLASKMSPsVIFVDEVDSM 926
Cdd:cd19500   84 RTYVGAMpgriiqaLKKAGTNNP-VFLLDEIDKI 116
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 854-920 2.01e-06

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 48.91  E-value: 2.01e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  854 PCKGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKWF--------------GEGEKYVKAVFSLASKMSPSVIF 919
Cdd:cd19505   11 PSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYNKPdfgnddwidgmlilKESLHRLNLQFELAKAMSPCIIW 90


                 .
gi 42567117  920 V 920
Cdd:cd19505   91 I 91
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 856-940 9.66e-06

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 47.37  E-value: 9.66e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  856 KGILLFGPPGTGKTMLAKAVAKEADANFINISMSSITSKwfgegeKYV-KAVFSLASKMSPSVIFVDEVDSMLGRREHPR 934
Cdd:cd19498   47 KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEV------GYVgRDVESIIRDLVEGIVFIDEIDKIAKRGGSSG 120


                 ....*.
gi 42567117  935 eHEASR 940
Cdd:cd19498  121 -PDVSR 125
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 858-924 1.41e-05

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 46.42  E-value: 1.41e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    858 ILLFGPPGTGKTMLAKAVAKEAD---ANFINISMSSITSKW--------------FGEGEKYVKAVfslaSKMSPSVIFV 920
Cdd:pfam07724    6 FLFLGPTGVGKTELAKALAELLFgdeRALIRIDMSEYMEEHsvsrligappgyvgYEEGGQLTEAV----RRKPYSIVLI 81


                   ....
gi 42567117    921 DEVD 924
Cdd:pfam07724   82 DEIE 85
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 847-924 1.47e-05

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 46.79  E-value: 1.47e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  847 CKGELTKPCKGI---LLFGPPGTGKTMLAKAVAKE---ADANFINISMSSI-----TSKWFGEGEKYV--KAVFSLASKM 913
Cdd:cd19499   30 ARAGLSDPNRPIgsfLFLGPTGVGKTELAKALAELlfgDEDNLIRIDMSEYmekhsVSRLIGAPPGYVgyTEGGQLTEAV 109

                         90
                 ....*....|....
gi 42567117  914 S---PSVIFVDEVD 924
Cdd:cd19499  110 RrkpYSVVLLDEIE 123
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 857-981 1.15e-04

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 43.05  E-value: 1.15e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    857 GILLFGPPGTGKTMLAKAVAKE-ADANFINISMSSITSK------W--FGEGEKYVKAVFSLASKmSPSVIFVDEVDsml 927
Cdd:pfam07728    1 GVLLVGPPGTGKTELAERLAAAlSNRPVFYVQLTRDTTEedlfgrRniDPGGASWVDGPLVRAAR-EGEIAVLDEIN--- 76

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42567117    928 grrehprehEASRKIKNEFM-------MHWDGLTTQERER---VLVLAATNRP----FDLDEAVIRRL 981
Cdd:pfam07728   77 ---------RANPDVLNSLLsllderrLLLPDGGELVKAApdgFRLIATMNPLdrglNELSPALRSRF 135
44 PHA02544
clamp loader, small subunit; Provisional
 789-924 1.25e-04

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 45.37  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   789 TSSKKDIVVENVFEKRLLSDVILPSDIDVTFddigalekvKDILKelvmlplqrpelfcKGELTKpckgILLFGP-PGTG 867
Cdd:PHA02544    3 TVNPNEFMWEQKYRPSTIDECILPAADKETF---------KSIVK--------------KGRIPN----MLLHSPsPGTG 55

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42567117   868 KTMLAKAVAKEADAN--FINISMSSITskwFGEGEkyvkaVFSLASKMS----PSVIFVDEVD 924
Cdd:PHA02544   56 KTTVAKALCNEVGAEvlFVNGSDCRID---FVRNR-----LTRFASTVSltggGKVIIIDEFD 110
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 856-893 1.78e-04

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 44.99  E-value: 1.78e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 42567117    856 KGILLFGPPGTGKTMLAKAVAKE--ADANFINISMSSITS 893
Cdd:pfam06068   51 RAVLIAGPPGTGKTALAIAISKElgEDTPFTSISGSEVYS 90
Lon COG0466
ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, ...
 825-887 1.99e-04

ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440234 [Multi-domain]  Cd Length: 785  Bit Score: 45.39  E-value: 1.99e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 42567117  825 LEKVKD-ILKEL-VMlplqrpelfckgELTKPCKG-ILLF-GPPGTGKTMLAKAVAKEADANFINIS 887
Cdd:COG0466  330 LEKVKErILEYLaVR------------KLKKKLKGpILCLvGPPGVGKTSLGKSIARALGRKFVRIS 384
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 818-905 2.21e-04

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 44.59  E-value: 2.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117   818 TFDDIGALEKVKDILKELVMLPLQrPELfckgeltkpckgiLLFGPPGTGKTMLAKAVAKEA-----DANFINISMSSIt 892
Cdd:PRK12402   13 LLEDILGQDEVVERLSRAVDSPNL-PHL-------------LVQGPPGSGKTAAVRALARELygdpwENNFTEFNVADF- 77

                          90
                  ....*....|...
gi 42567117   893 skwFGEGEKYVKA 905
Cdd:PRK12402   78 ---FDQGKKYLVE 87
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 818-883 2.90e-04

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 42.49  E-value: 2.90e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 42567117    818 TFDD-IGAlEKVKDILKELVMLPLQRPElfckgeltkPCKGILLFGPPGTGKTMLAKAVAKEADANF 883
Cdd:pfam05496    5 TLDEyIGQ-EKVKENLKIFIEAAKQRGE---------ALDHVLLYGPPGLGKTTLANIIANEMGVNI 61
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
858-883 2.93e-04

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 44.35  E-value: 2.93e-04
                          10        20
                  ....*....|....*....|....*.
gi 42567117   858 ILLFGPPGTGKTMLAKAVAKEADANF 883
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANEMGVNI 79
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
856-879 4.35e-04

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 43.23  E-value: 4.35e-04
                         10        20
                 ....*....|....*....|....
gi 42567117  856 KGILLFGPPGTGKTMLAKAVAKEA 879
Cdd:COG1484  100 ENLILLGPPGTGKTHLAIALGHEA 123
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 858-873 1.04e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 43.11  E-value: 1.04e-03
                         10
                 ....*....|....*.
gi 42567117  858 ILLFGPPGTGKTMLAK 873
Cdd:COG0606  214 LLMIGPPGSGKTMLAR 229
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 858-879 1.57e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 41.30  E-value: 1.57e-03
                          10        20
                  ....*....|....*....|..
gi 42567117   858 ILLFGPPGTGKTMLAKAVAKEA 879
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAA 114
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 858-883 1.64e-03

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 41.99  E-value: 1.64e-03
                         10        20
                 ....*....|....*....|....*.
gi 42567117  858 ILLFGPPGTGKTMLAKAVAKEADANF 883
Cdd:COG2255   57 VLLYGPPGLGKTTLAHIIANEMGVNI 82
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 858-874 2.09e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 40.60  E-value: 2.09e-03
                           10
                   ....*....|....*..
gi 42567117    858 ILLFGPPGTGKTMLAKA 874
Cdd:pfam01078   25 LLMIGPPGSGKTMLAKR 41
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 858-946 2.27e-03

RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 39.02  E-value: 2.27e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  858 ILLFGPPGTGKTMLAKAVAKEA---DANFINISMSsitskwfgegEKYVKAVFSLASKMSPSVIFVDEVDSMLGRREHPR 934
Cdd:cd01120    1 ILITGPPGSGKTTLLLQFAEQAllsDEPVIFISFL----------DTILEAIEDLIEEKKLDIIIIDSLSSLARASQGDR 70

                         90
                 ....*....|..
gi 42567117  935 EHEASRKIKNEF 946
Cdd:cd01120   71 SSELLEDLAKLL 82
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 710-878 3.85e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 41.29  E-value: 3.85e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  710 HLRMVLRRRGLGCEGLETTWSRMCLKDLTLQRDSVEKIIGWAFGNHISKNPDTDPAKvtLSRESIEFGIGLLQNDLKGST 789
Cdd:COG1401   78 VLLLDLEKVELNEKLALSEAAVAIEELYELEADSEIEAVGLLLELAERSDALEALER--ARLLLELADLEERAALETEVL 155

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117  790 SSKKDIVVENVFEKRLLSDVILPS----DIDVTFDDIGALEK-VKDILKELVMLPLQRpelFCKGELTKPCkgILLFGPP 864
Cdd:COG1401  156 EALEAELEELLAAPEDLSADALAAelsaAEELYSEDLESEDDyLKDLLREKFEETLEA---FLAALKTKKN--VILAGPP 230

                        170
                 ....*....|....
gi 42567117  865 GTGKTMLAKAVAKE 878
Cdd:COG1401  231 GTGKTYLARRLAEA 244
AAA_7 pfam12775
P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 ...
 856-893 3.92e-03

P-loop containing dynein motor region; This domain is found in human cytoplasmic dynein-2 proteins. Cytoplasmic dynein-2 (dynein-2) performs intraflagellar transport and is associated with human skeletal ciliopathies. Dyneins share a conserved motor domain that couples cycles of ATP hydrolysis with conformational changes to produce movement. Structural analysis reveal that the motor's ring consists of six AAA+ domains (ATPases associated with various cellular activities (AAA1-AAA6). This is the third nucleotide binding sites in the dynein motor. However, AAA3 has lost the catalytic residues necessary for ATP hydrolysis (the Walker B glutamate, the arginine finger, sensor-I and sensor-II motifs).


Pssm-ID: 463698 [Multi-domain]  Cd Length: 179  Bit Score: 39.68  E-value: 3.92e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 42567117    856 KGILLFGPPGTGKTMLAKAVAKEADAN---FINISMSSITS 893
Cdd:pfam12775   32 KPVLLVGPTGTGKTVIIQNLLRKLDKEkylPLFINFSAQTT 72
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 825-930 4.00e-03

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 40.98  E-value: 4.00e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42567117    825 LEKVKD---ILKELVMLPLQRPELFCKGELTKpcKGILLFGPPGTGKTMLAKAVAKE-------ADANFINISMSSITSK 894
Cdd:TIGR03922  281 LERVKRqvaALKSSTAMALARAERGLPVAQTS--NHMLFAGPPGTGKTTIARVVAKIycglgvlRKPLVREVSRADLIGQ 358

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 42567117    895 WFGEGEKYVKAVFSLASKmspSVIFVDEVDSMLGRR 930
Cdd:TIGR03922  359 YIGESEAKTNEIIDSALG---GVLFLDEAYTLVETG 391
PRK06835 PRK06835
DNA replication protein DnaC; Validated
 852-878 4.34e-03

DNA replication protein DnaC; Validated


Pssm-ID: 235871 [Multi-domain]  Cd Length: 329  Bit Score: 40.65  E-value: 4.34e-03
                          10        20
                  ....*....|....*....|....*..
gi 42567117   852 TKPCKGILLFGPPGTGKTMLAKAVAKE 878
Cdd:PRK06835  180 DKNNENLLFYGNTGTGKTFLSNCIAKE 206
 
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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