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Conserved domains on  [gi|1525863071|ref|WP_124486852|]
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MULTISPECIES: UvrD-helicase domain-containing protein [unclassified Burkholderia]

Protein Classification

Graphical summary

 Zoom to residue level

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List of domain hits

Name Accession Description Interval E-value
rep super family cl31058
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ...
4-665 0e+00

ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]


The actual alignment was detected with superfamily member TIGR01074:

Pssm-ID: 130146 [Multi-domain]  Cd Length: 664  Bit Score: 868.30  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLegktlttPGK 83
Cdd:TIGR01074   1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL-------GKG 73
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  84 EGRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIG---TTDKGLIRKIQSTISLWKNGLIMP 160
Cdd:TIGR01074  74 EARG-----LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEgliKDDKDLLDKLISTISNWKNDLLTP 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 161 EEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKL 240
Cdd:TIGR01074 149 EQALASARGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKL 228
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 241 LAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMG 320
Cdd:TIGR01074 229 LVGDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYG 308
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 321 DSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAY 400
Cdd:TIGR01074 309 EKIKVIECNNEEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSY 388
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 401 LRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADK 480
Cdd:TIGR01074 389 LRLLVNPDDDAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAER 468
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 481 EPATVVLDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLKRkgtkpeteavDGEADGFhnadglaDTGKNLLGLI 559
Cdd:TIGR01074 469 SEPIEAVRSLIEDIDYENWLYEtSPSPKAAEMRMKNVNTLFSWFKE----------MLEGDEE-------DEPMTLTQVV 531
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGK--DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQR 637
Cdd:TIGR01074 532 TRLTLRDMLERGedEEELDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSS------IEEDNVEEERRLAYVGITRAQK 605
                         650       660
                  ....*....|....*....|....*...
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01074 606 ELTFTLCKERRQYGELVRPEPSRFLDEL 633
 
Name Accession Description Interval E-value
rep TIGR01074
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ...
4-665 0e+00

ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 130146 [Multi-domain]  Cd Length: 664  Bit Score: 868.30  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLegktlttPGK 83
Cdd:TIGR01074   1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL-------GKG 73
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  84 EGRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIG---TTDKGLIRKIQSTISLWKNGLIMP 160
Cdd:TIGR01074  74 EARG-----LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEgliKDDKDLLDKLISTISNWKNDLLTP 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 161 EEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKL 240
Cdd:TIGR01074 149 EQALASARGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKL 228
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 241 LAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMG 320
Cdd:TIGR01074 229 LVGDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYG 308
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 321 DSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAY 400
Cdd:TIGR01074 309 EKIKVIECNNEEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSY 388
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 401 LRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADK 480
Cdd:TIGR01074 389 LRLLVNPDDDAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAER 468
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 481 EPATVVLDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLKRkgtkpeteavDGEADGFhnadglaDTGKNLLGLI 559
Cdd:TIGR01074 469 SEPIEAVRSLIEDIDYENWLYEtSPSPKAAEMRMKNVNTLFSWFKE----------MLEGDEE-------DEPMTLTQVV 531
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGK--DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQR 637
Cdd:TIGR01074 532 TRLTLRDMLERGedEEELDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSS------IEEDNVEEERRLAYVGITRAQK 605
                         650       660
                  ....*....|....*....|....*...
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01074 606 ELTFTLCKERRQYGELVRPEPSRFLDEL 633
UvrD COG0210
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
3-668 0e+00

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


Pssm-ID: 439980 [Multi-domain]  Cd Length: 721  Bit Score: 820.72  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   3 AGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTlttpg 82
Cdd:COG0210     5 AGLNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLA----- 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  83 kegrkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGT----TDKGLIRKIQSTISLWKNGLI 158
Cdd:COG0210    80 --------RGLWVGTFHSLALRILRRHAELLGLPPNFTILDGDDQLRLIKELLKElgldEKRFPPRELLSLISRAKNEGL 151
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAM-TIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYEL 237
Cdd:COG0210   152 TPEELAeLLAADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYEL 231
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 238 LKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEH 317
Cdd:COG0210   232 LRLLAGDGRNLCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDN 311
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 318 GMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDL 397
Cdd:COG0210   312 GEGEKVRLYVAPDEEEEARFVADEIRELH-EEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDL 390
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 398 CAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDR 477
Cdd:COG0210   391 LAYLRLLANPDDDVALLRILNVPRRGIGAATLERLREAAREEGISLLEALRDLGELAGLSGRAAKALRRFAELLEALRAA 470
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 478 ADKEPATVVLDDMMEAIHYEAYLYDAFDErQAQSKWQNVLEFLEWLKRKGTKPEteavdgeadgfhnadgladtGKNLLG 557
Cdd:COG0210   471 AERLPLEELLEALLDESGYEEELREEAGE-EAERRLENLEELVDAAARFEERNP--------------------GASLEA 529
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 558 LIQTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDgpidnERIEEERRLMYVAITRAQR 637
Cdd:COG0210   530 FLEELALLSDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE-----EELEEERRLFYVAITRARE 604
                         650       660       670
                  ....*....|....*....|....*....|.
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEMGLD 668
Cdd:COG0210   605 RLYLTYAASRRLWGETQDNEPSRFLDELPEE 635
PRK10919 PRK10919
ATP-dependent DNA helicase Rep; Provisional
5-695 0e+00

ATP-dependent DNA helicase Rep; Provisional


Pssm-ID: 182838 [Multi-domain]  Cd Length: 672  Bit Score: 703.14  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLeGKtlttpgKE 84
Cdd:PRK10919    3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL-GR------KE 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  85 GRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQ---EQIGTTDKGLIRKIQSTISLWKNGLIMPE 161
Cdd:PRK10919   76 ARG-----LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKeltEGLIEDDKVLLQQLISTISNWKNDLKTPA 150
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 162 EAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLL 241
Cdd:PRK10919  151 QAAAGAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLL 230
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 242 AGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMGD 321
Cdd:PRK10919  231 VGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGD 310
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 322 SITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYL 401
Cdd:PRK10919  311 ELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYL 390
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 402 RLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADKE 481
Cdd:PRK10919  391 RVLTNPDDDSAFLRIVNTPKREIGPATLQKLGEWAMTRNKSLFTASFDMGLSQTLSGRGYESLTRFTHWLAEIQRLAERE 470
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 482 PATVVlDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLkrkgtkpeTEAVDGEAdgfhnadglADTGKNLLGLIQ 560
Cdd:PRK10919  471 PVAAV-RDLIHGIDYESWLYEtSPSPKAAEMRMKNVNQLFSWM--------TEMLEGSE---------LDEPMTLTQVVT 532
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 561 TVALMSMLE--GKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQRS 638
Cdd:PRK10919  533 RFTLRDMMErgESEEELDQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQSS------IDEDNIDEERRLAYVGITRAQKE 606
                         650       660       670       680       690       700
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 639 LHLNWCKKRKRARETVVCEPSRFIPEMGLDeAPPPTPEEAPMTPKDR-------LASLKALLQK 695
Cdd:PRK10919  607 LTFTLCKERRQYGELVRPEPSRFLLELPQD-DLIWEQERKVVSAEERmqkgqshLANLKAMLAA 669
UvrD-helicase pfam00580
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...
5-277 4.03e-101

UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.


Pssm-ID: 395462 [Multi-domain]  Cd Length: 267  Bit Score: 310.33  E-value: 4.03e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTLttpgke 84
Cdd:pfam00580   1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAEL------ 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  85 grkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGTTDKGL------IRKIQSTISLWKNGLI 158
Cdd:pfam00580  75 ------SELNISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEKDRLNLdpkllrKLELKELISKAKNRLL 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELL 238
Cdd:pfam00580 149 SPEELQQGAADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLL 228
                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 1525863071 239 KLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFP 277
Cdd:pfam00580 229 KLLAGGHENLFLVGDPDQSIYGFRGADIENILKFEKDFP 267
DEXQc_UvrD cd17932
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...
6-288 2.11e-80

DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350690 [Multi-domain]  Cd Length: 189  Bit Score: 253.59  E-value: 2.11e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   6 NSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEgktlttpgkeg 85
Cdd:cd17932     1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLG----------- 69
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  86 rKVPVNQLTVCTFHSLGVQILRQEAehvglkpqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeamt 165
Cdd:cd17932    70 -EQLASGVWIGTFHSFALRILRRYG------------------------------------------------------- 93
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 166 iaanedehqaalvyrnyvatlhayqavDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLLAGPR 245
Cdd:cd17932    94 ---------------------------DFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDG 146
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1525863071 246 AAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNY 288
Cdd:cd17932   147 KNLFVVGDDDQSIYGFRGADPENILDFEKDFPDAKVIKLEENY 189
 
Name Accession Description Interval E-value
rep TIGR01074
ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. ...
4-665 0e+00

ATP-dependent DNA helicase Rep; Designed to identify rep members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 130146 [Multi-domain]  Cd Length: 664  Bit Score: 868.30  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLegktlttPGK 83
Cdd:TIGR01074   1 KLNPQQQEAVEYVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL-------GKG 73
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  84 EGRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIG---TTDKGLIRKIQSTISLWKNGLIMP 160
Cdd:TIGR01074  74 EARG-----LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQLALLKELTEgliKDDKDLLDKLISTISNWKNDLLTP 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 161 EEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKL 240
Cdd:TIGR01074 149 EQALASARGEREQTFAHCYALYQAHLRAYNALDFDDLILLPTLLLQQNEEVRNRWQNKIRYLLVDEYQDTNTSQYELVKL 228
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 241 LAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMG 320
Cdd:TIGR01074 229 LVGDRARFTVVGDDDQSIYSWRGARPENLVLLKEDFPQLKVIKLEQNYRSTGRILKAANILIANNPHVFEKKLFSELGYG 308
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 321 DSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAY 400
Cdd:TIGR01074 309 EKIKVIECNNEEHEAERIAGEIIAHKLVNKTQYKDYAILYRGNHQSRLLEKALMQNRIPYKLSGGTSFFSRPEIKDLLSY 388
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 401 LRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADK 480
Cdd:TIGR01074 389 LRLLVNPDDDAAFLRIVNTPKREIGPATLEKLGELAMERNKSLFTASFDMGLLQTLSGRGYESLQRFTDWLVEIRRLAER 468
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 481 EPATVVLDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLKRkgtkpeteavDGEADGFhnadglaDTGKNLLGLI 559
Cdd:TIGR01074 469 SEPIEAVRSLIEDIDYENWLYEtSPSPKAAEMRMKNVNTLFSWFKE----------MLEGDEE-------DEPMTLTQVV 531
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGK--DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQR 637
Cdd:TIGR01074 532 TRLTLRDMLERGedEEELDQVQLMTLHASKGLEFPYVFIVGMEEGILPHQSS------IEEDNVEEERRLAYVGITRAQK 605
                         650       660
                  ....*....|....*....|....*...
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01074 606 ELTFTLCKERRQYGELVRPEPSRFLDEL 633
UvrD COG0210
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
3-668 0e+00

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


Pssm-ID: 439980 [Multi-domain]  Cd Length: 721  Bit Score: 820.72  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   3 AGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTlttpg 82
Cdd:COG0210     5 AGLNPEQRAAVEHPEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGVDPEQILAVTFTNKAAREMRERIEALLGRLA----- 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  83 kegrkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGT----TDKGLIRKIQSTISLWKNGLI 158
Cdd:COG0210    80 --------RGLWVGTFHSLALRILRRHAELLGLPPNFTILDGDDQLRLIKELLKElgldEKRFPPRELLSLISRAKNEGL 151
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAM-TIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYEL 237
Cdd:COG0210   152 TPEELAeLLAADPEWRAAAELYEAYQERLRANNALDFDDLLLLAVRLLEENPEVLEKYQNRFRYILVDEYQDTNPAQYEL 231
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 238 LKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEH 317
Cdd:COG0210   232 LRLLAGDGRNLCVVGDDDQSIYGFRGADPENILRFEKDFPDAKVIKLEQNYRSTQNILDAANAVIANNPGRLGKNLWTDN 311
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 318 GMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDL 397
Cdd:COG0210   312 GEGEKVRLYVAPDEEEEARFVADEIRELH-EEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYRVVGGLRFYERAEIKDL 390
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 398 CAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDR 477
Cdd:COG0210   391 LAYLRLLANPDDDVALLRILNVPRRGIGAATLERLREAAREEGISLLEALRDLGELAGLSGRAAKALRRFAELLEALRAA 470
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 478 ADKEPATVVLDDMMEAIHYEAYLYDAFDErQAQSKWQNVLEFLEWLKRKGTKPEteavdgeadgfhnadgladtGKNLLG 557
Cdd:COG0210   471 AERLPLEELLEALLDESGYEEELREEAGE-EAERRLENLEELVDAAARFEERNP--------------------GASLEA 529
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 558 LIQTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDgpidnERIEEERRLMYVAITRAQR 637
Cdd:COG0210   530 FLEELALLSDLDAADEDEDAVTLMTLHAAKGLEFPVVFLVGLEEGLFPHQRSLDDE-----EELEEERRLFYVAITRARE 604
                         650       660       670
                  ....*....|....*....|....*....|.
gi 1525863071 638 SLHLNWCKKRKRARETVVCEPSRFIPEMGLD 668
Cdd:COG0210   605 RLYLTYAASRRLWGETQDNEPSRFLDELPEE 635
PRK10919 PRK10919
ATP-dependent DNA helicase Rep; Provisional
5-695 0e+00

ATP-dependent DNA helicase Rep; Provisional


Pssm-ID: 182838 [Multi-domain]  Cd Length: 672  Bit Score: 703.14  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLeGKtlttpgKE 84
Cdd:PRK10919    3 LNPGQQQAVEFVTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL-GR------KE 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  85 GRKvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQ---EQIGTTDKGLIRKIQSTISLWKNGLIMPE 161
Cdd:PRK10919   76 ARG-----LMISTFHTLGLDIIKREYAALGMKSNFSLFDDTDQLALLKeltEGLIEDDKVLLQQLISTISNWKNDLKTPA 150
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 162 EAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLL 241
Cdd:PRK10919  151 QAAAGAKGERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQRNEEVRERWQNKIRYLLVDEYQDTNTSQYELVKLL 230
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 242 AGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMGD 321
Cdd:PRK10919  231 VGSRARFTVVGDDDQSIYSWRGARPQNLVLLSQDFPALQVIKLEQNYRSSGRILKAANILIANNPHVFEKRLFSELGYGD 310
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 322 SITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYL 401
Cdd:PRK10919  311 ELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGNHQSRVFEKFLMQNRIPYKISGGTSFFSRPEIKDLLAYL 390
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 402 RLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFCDFIQRLTDRADKE 481
Cdd:PRK10919  391 RVLTNPDDDSAFLRIVNTPKREIGPATLQKLGEWAMTRNKSLFTASFDMGLSQTLSGRGYESLTRFTHWLAEIQRLAERE 470
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 482 PATVVlDDMMEAIHYEAYLYD-AFDERQAQSKWQNVLEFLEWLkrkgtkpeTEAVDGEAdgfhnadglADTGKNLLGLIQ 560
Cdd:PRK10919  471 PVAAV-RDLIHGIDYESWLYEtSPSPKAAEMRMKNVNQLFSWM--------TEMLEGSE---------LDEPMTLTQVVT 532
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 561 TVALMSMLE--GKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGseddgpIDNERIEEERRLMYVAITRAQRS 638
Cdd:PRK10919  533 RFTLRDMMErgESEEELDQVQLMTLHASKGLEFPYVYLVGMEEGLLPHQSS------IDEDNIDEERRLAYVGITRAQKE 606
                         650       660       670       680       690       700
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 639 LHLNWCKKRKRARETVVCEPSRFIPEMGLDeAPPPTPEEAPMTPKDR-------LASLKALLQK 695
Cdd:PRK10919  607 LTFTLCKERRQYGELVRPEPSRFLLELPQD-DLIWEQERKVVSAEERmqkgqshLANLKAMLAA 669
pcrA TIGR01073
ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. ...
3-665 0e+00

ATP-dependent DNA helicase PcrA; Designed to identify pcrA members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273429 [Multi-domain]  Cd Length: 726  Bit Score: 583.65  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   3 AGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTlttpg 82
Cdd:TIGR01073   3 AHLNPEQREAVKTTEGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGPVA----- 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  83 kegrkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIgtTDKGL------IRKIQSTISLWKNG 156
Cdd:TIGR01073  78 --------EDIWISTFHSMCVRILRRDIDRIGINRNFSIIDPTDQLSLMKTIL--KDKNLdpkkfePRSILGTISNAKNE 147
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 157 LIMPEEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYE 236
Cdd:TIGR01073 148 LLPPEDFAKEATNYFEKVVAEVYQEYQKRLLRNNALDFDDLIMTTINLFQRVPDVLEYYQRKFQYIHVDEYQDTNRAQYT 227
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 237 LLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSE 316
Cdd:TIGR01073 228 LVRLLASRFRNLCVVGDADQSIYGWRGADIQNILSFEKDYPNATTILLEQNYRSTKNILQAANEVIEHNSNRKPKNLWTE 307
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 317 HGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKD 396
Cdd:TIGR01073 308 NSSGDKITYYEADTERDEAQFVAGEIDKLVKNGERKYGDFAILYRTNAQSRVFEETLLKANIPYKIVGGLKFYDRKEIKD 387
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 397 LCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVymGGIE--ARLSARQVEPLRMFCDFIQRL 474
Cdd:TIGR01073 388 ILAYLRVIANPDDDLSLLRIINVPKRGIGASSLEKIVNYALELNISLFEAI--GEIDeiGGLAAKSANALLAFATMIENL 465
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 475 TDRADKEPATVVLDDMMEAIHYEAYLYDAFDErQAQSKWQNVLEFLewlkrkgtkpeteAVDGEADGFHNADGLADtgkn 554
Cdd:TIGR01073 466 RQQQEYLSPTELVEEVLDKSGYREMLKAEKTE-EAQSRLENLDEFL-------------SVTKEFEDESEDKSLID---- 527
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 555 llgLIQTVALMSMLEGKD--EDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDgpidnERIEEERRLMYVAI 632
Cdd:TIGR01073 528 ---FLTDLALVSDLDELEetEEGGAVTLMTLHAAKGLEFPVVFLIGMEEGVFPHSRSLMDE-----KELEEERRLAYVGI 599
                         650       660       670
                  ....*....|....*....|....*....|...
gi 1525863071 633 TRAQRSLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01073 600 TRAEEELYLTHATMRTLFGRIQMNPPSRFLNEI 632
uvrD PRK11773
DNA-dependent helicase II; Provisional
4-664 1.21e-163

DNA-dependent helicase II; Provisional


Pssm-ID: 236976 [Multi-domain]  Cd Length: 721  Bit Score: 487.84  E-value: 1.21e-163
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGktlttpgk 83
Cdd:PRK11773    9 SLNDKQREAVAAPLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGT-------- 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  84 egrkvPVNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIqeqigttdKGLIRKIQSTISLWKnglimPEEA 163
Cdd:PRK11773   81 -----SQGGMWVGTFHGLAHRLLRAHWQDANLPQDFQILDSDDQLRLL--------KRLIKALNLDEKQWP-----PRQA 142
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 164 M-TIAANEDE--------HQAALVYRNYVATLHAYQA-------VDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEY 227
Cdd:PRK11773  143 QwYINGQKDEglrpqhiqSYGDPVEQTWLKIYQAYQEacdraglVDFAELLLRAHELWLNKPHILQHYQERFTHILVDEF 222
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 228 QDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPK 307
Cdd:PRK11773  223 QDTNAIQYAWIRLLAGDTGKVMIVGDDDQSIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTANILKAANALIANNNG 302
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 308 LFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQS 387
Cdd:PRK11773  303 RLGKELWTDGGDGEPISLYCAFNELDEARFVVERIKTWQ-DNGGALSDCAILYRSNAQSRVLEEALLQAGIPYRIYGGMR 381
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 388 FFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVyMGGIEAR-LSARQVEPLRM 466
Cdd:PRK11773  382 FFERQEIKDALAYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQTARDRQLTLWQAC-RALLQEKvLAGRAASALQR 460
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 467 FCDFIQRLTDRADKEPATVVLDDMMEA----IHYEAylydafdER--QAQSKWQNvLEFLEWLKRKGTKPETEAVDGEAD 540
Cdd:PRK11773  461 FIELIDALAQETADMPLHEQTDRVIKDsglrAMYEQ-------EKgeKGQARIEN-LEELVTATRQFSYPDEDEDLTPLQ 532
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 541 GFhnadgLAdtgknllgliqTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneR 620
Cdd:PRK11773  533 AF-----LS-----------HAALEAGEGQADAHEDAVQLMTLHSAKGLEFPLVFIVGMEEGLFPSQMSLEEGG-----R 591
                         650       660       670       680       690
                  ....*....|....*....|....*....|....*....|....*....|
gi 1525863071 621 IEEERRLMYVAITRAQRSLHLNWCKKR------KRARetvvcePSRFIPE 664
Cdd:PRK11773  592 LEEERRLAYVGITRAMQKLTLTYAESRrlygkeVYHR------PSRFIRE 635
uvrD TIGR01075
DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, ...
4-665 8.38e-147

DNA helicase II; Designed to identify uvrD members of the uvrD/rep subfamily. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 130147 [Multi-domain]  Cd Length: 715  Bit Score: 444.25  E-value: 8.38e-147
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   4 GLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGktlttpGK 83
Cdd:TIGR01075   4 GLNDKQREAVAAPPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT------SA 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  84 EGrkvpvnqLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIqeqigttdKGLIRKIQSTISLWKnglimPEEA 163
Cdd:TIGR01075  78 RG-------MWIGTFHGLAHRLLRAHHLDAGLPQDFQILDSDDQLRLL--------KRLIKALNLDEKQWP-----PRQA 137
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 164 M-TIAANEDE-----HQAAL---VYRNYVATLHAYQA-------VDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEY 227
Cdd:TIGR01075 138 MwYINNQKDEglrpsHIQAFdnpVERTWIKIYQAYQEacdraglVDFAELLLRAHELLRNKPHILQHYQERFTHILVDEF 217
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 228 QDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNYRSTVRILTAANNVIANNPK 307
Cdd:TIGR01075 218 QDTNKIQYAWIRLLAGNTGNVMIVGDDDQSIYGWRGAQVENIQKFLKDFPGAETIRLEQNYRSTANILAAANALIANNDE 297
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 308 LFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKfERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVLSGGQS 387
Cdd:TIGR01075 298 RLGKNLWTDGEVGEPISLYSAFNELDEARFVVSRIKTWQ-RNGGALDECAVLYRSNAQSRVLEEALLQASIPYRIYGGMR 376
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 388 FFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMF 467
Cdd:TIGR01075 377 FFERQEIKDALAYLRLIANRNDDAAFERVINTPTRGIGDRTLDVVRQAARDRGLTLWQAARELTQEKVLAGRAASALQRF 456
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 468 CDFIQRLTDRADKEPATVVLDDMMEaihyEAYLYDAFdERQAQSKWQNVLEFLEWL---KRKGTKPEteavdgeadgfhN 544
Cdd:TIGR01075 457 VELIEALANETADMPLHVQTDHVIK----DSGLREMY-QQEKGEKGQARIENLEELvtaTRQFSLPE------------N 519
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 545 ADGLADtgknLLGLIQTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneRIEEE 624
Cdd:TIGR01075 520 DEDMTP----LTAFLSHAALEAGEGQADAGQDAVQLMTLHSAKGLEFPLVFLVGMEEGMFPSQMSLDEGG-----RLEEE 590
                         650       660       670       680
                  ....*....|....*....|....*....|....*....|.
gi 1525863071 625 RRLMYVAITRAQRSLHLNWCKKRKRARETVVCEPSRFIPEM 665
Cdd:TIGR01075 591 RRLAYVGITRAMQKLTITYAETRRLYGKEVYHIPSRFIREL 631
RecB COG1074
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ...
1-652 1.67e-102

3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440692 [Multi-domain]  Cd Length: 866  Bit Score: 333.08  E-value: 1.67e-102
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   1 MSAG-LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERV-SKLLEGKTL 78
Cdd:COG1074     1 MSEPpWTDAQRRALDPLGGSVLVEASAGSGKTYTLVARYLRLLLERGLDPEEILVVTFTRAAAAEMRERIrERLAEAADL 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  79 TTPGKEGRKVP----------VNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDD---------------------- 126
Cdd:COG1074    81 EDPDLEELARArrrlaralenLDRAAISTIHSFCQRLLREFAFEAGLDPNFELLDDAEallleeavddllreayapldal 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 127 CFGMIQEQIGTTDKGLIRKIQSTISLWKNGLIMPEEAMTIAANED----------------EHQAALVYRNYVATLHAYQ 190
Cdd:COG1074   161 ALARLLDAFGRDDDSLEELLLALYKLRSRPDWLEELAELDEALEAlreallkakealaalrEALAAAAAPLLAALLRLLA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 191 AV--------------DFDDLIRLPAELFAKN--EQVRDRWQNKLRYLLIDEYQDTNACQYELLKLLAGPRAA----FTA 250
Cdd:COG1074   241 AVlaryerrkrergllDFDDLLHRALRLLRDEdaPWVAERLRERYRHILVDEFQDTSPLQWEILRRLAGEALAdgrtLFL 320
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 251 VGDDDQAIYGWRGATLENLAQLGKDF---PKLHVIKLEQNYRSTVRILTAANNVIAnnpKLFEKKLWS---------EHG 318
Cdd:COG1074   321 VGDPKQSIYRFRGADPELFLEARRALegrVDGERLTLTTNFRSTPEVVDAVNALFA---QLMGAGFGEipyepvealRPG 397
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 319 MGDSITVTPCNDEEHEAESVVFRLSAH----------------KFERRAQFRDYAILYRGNFQARIFEQVLRRERIPYVL 382
Cdd:COG1074   398 AYPAVELWPLEPDDVSEEDAREREARAvaarirrllaegttveGGGRPVRPGDIAVLVRTRSEAAAIARALKAAGIPVAA 477
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 383 SGGQSFFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEALgsFAGQAKVSLFEAVymggiearlsaRQVE 462
Cdd:COG1074   478 SDRLSLFESPEVRDLLALLRALLNPEDDLALAAVLRSPLFGLSDEDLAAL--AADRKGESLWEAL-----------RAYE 544
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 463 PLRMFCDFIQRLTDRADKEPATVVLDDMMEAIHYEAYLYDAFDERQAQSKWQNVLEFLEwlkrkgtkpetEAVDGEADGF 542
Cdd:COG1074   545 RLARALERLRALRELARRLGLAELLERLLEETGLLERLLALPGGERRLANLLHLDELLQ-----------LALEYEQTGG 613
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 543 hnaDGLADtgknLLGLIQTVALMSMLEGK---DEDPDAVRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpIDNE 619
Cdd:COG1074   614 ---PGLAG----FLRWLERLIEDGGDEEKrrlESDADAVRIMTIHKSKGLEFPVVFLPALRER-------------ARAE 673
                         730       740       750
                  ....*....|....*....|....*....|...
gi 1525863071 620 RIEEERRLMYVAITRAQRSLHLNWCKKRKRARE 652
Cdd:COG1074   674 ELAEELRLLYVALTRARDRLVLSGAVKKKDAEK 706
UvrD-helicase pfam00580
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...
5-277 4.03e-101

UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.


Pssm-ID: 395462 [Multi-domain]  Cd Length: 267  Bit Score: 310.33  E-value: 4.03e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   5 LNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEGKTLttpgke 84
Cdd:pfam00580   1 LNPEQRKAVTHLGGPLLVLAGAGSGKTRVLTERIAYLILEGGIDPEEILAVTFTNKAAREMKERILKLLGKAEL------ 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  85 grkvpvNQLTVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDCFGMIQEQIGTTDKGL------IRKIQSTISLWKNGLI 158
Cdd:pfam00580  75 ------SELNISTFHSFCLRILRKYANRIGLLPNFSILDELDQLALLKELLEKDRLNLdpkllrKLELKELISKAKNRLL 148
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 159 MPEEAMTIAANEDEHQAALVYRNYVATLHAYQAVDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELL 238
Cdd:pfam00580 149 SPEELQQGAADPRDKLAAEFYQEYQERLKENNALDFDDLLLLTLELLRSDPELLEAYRERFKYILVDEFQDTNPIQYRLL 228
                         250       260       270
                  ....*....|....*....|....*....|....*....
gi 1525863071 239 KLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFP 277
Cdd:pfam00580 229 KLLAGGHENLFLVGDPDQSIYGFRGADIENILKFEKDFP 267
DEXQc_UvrD cd17932
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...
6-288 2.11e-80

DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. UvrD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350690 [Multi-domain]  Cd Length: 189  Bit Score: 253.59  E-value: 2.11e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   6 NSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKLLEgktlttpgkeg 85
Cdd:cd17932     1 NPEQREAVTHPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGVPPERILAVTFTNKAAKEMRERLRKLLG----------- 69
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  86 rKVPVNQLTVCTFHSLGVQILRQEAehvglkpqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeamt 165
Cdd:cd17932    70 -EQLASGVWIGTFHSFALRILRRYG------------------------------------------------------- 93
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 166 iaanedehqaalvyrnyvatlhayqavDFDDLIRLPAELFAKNEQVRDRWQNKLRYLLIDEYQDTNACQYELLKLLAGPR 245
Cdd:cd17932    94 ---------------------------DFDDLLLYALELLEENPDVREKLQSRFRYILVDEYQDTNPLQYELLKLLAGDG 146
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1525863071 246 AAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVIKLEQNY 288
Cdd:cd17932   147 KNLFVVGDDDQSIYGFRGADPENILDFEKDFPDAKVIKLEENY 189
UvrD_C pfam13361
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...
282-646 1.41e-63

UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.


Pssm-ID: 433145 [Multi-domain]  Cd Length: 377  Bit Score: 215.73  E-value: 1.41e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 282 IKLEQNYRSTVRILTAANNVIANN----PKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVV---FRLSAHKFERRaqfr 354
Cdd:pfam13361   1 IHLEINYRSTKNLLKAANEFINNNfgraTIYPKKILAETVEDGEKIKIIEAETEEEEAEWIAleiKKLVARDEKYN---- 76
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 355 DYAILYRGNFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYLRLIANADDDPAFIRAVTTPRRGIGNTTLEA--- 431
Cdd:pfam13361  77 DIAVLTRSNSDADLIEEALKKLGIPYFVVGQTKFFRREEIKDILAYLRLIANKHDSISLKRILNGPKRGIGNATLERire 156
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 432 -------LGSFAGQAKVSLFEAVYMGGIEARLSARQVEPLRMFC---DFIQ----RLTDRADKE-------PATVVLDDM 490
Cdd:pfam13361 157 ykkrglrLSDFINPDTLTYGDPFVIALEQDNIVVFDVETTGLDTtedEIIQiaaiKLNKKGVVIesferflRLKKPVGDS 236
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 491 MEAIHYEaylyDAFDERQAQ----------SKWQNVLEFLEWLKRKgtkpeteavDGEADGFHNADGLADtgknllgLIQ 560
Cdd:pfam13361 237 LQVHGFS----DEFLQENGEtpaealrdflEKLENLRELYSILREY---------DDIEETPEPEDALRN-------FLE 296
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 561 TVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGGSEDDGpidneRIEEERRLMYVAITRAQRSLH 640
Cdd:pfam13361 297 IATLSNSELEGSDIKERIPIMTIHQAKGLEFDTVFLAGLEEGIFPSYRSIKDEG-----NLEEERRLFYVAITRAKKRLY 371

                  ....*.
gi 1525863071 641 LNWCKK 646
Cdd:pfam13361 372 ISYSKS 377
recB TIGR00609
exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with ...
16-643 1.21e-31

exodeoxyribonuclease V, beta subunit; The RecBCD holoenzyme is a multifunctional nuclease with potent ATP-dependent exodeoxyribonuclease activity. Ejection of RecD, as occurs at chi recombinational hotspots, cripples exonuclease activity in favor of recombinagenic helicase activity. All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273172 [Multi-domain]  Cd Length: 1087  Bit Score: 132.17  E-value: 1.21e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   16 LDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFE-PRHIAAVTFTNKAAAEMRERVSK-------LLEGKTLTTP------ 81
Cdd:TIGR00609    8 LNGTFLIEASAGTGKTFTIAQLYLRLLLEGGPLtVEEILVVTFTNAATEELKTRIRGrihqalrALKAALTSQElpeplk 87
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   82 -GKEGRKVP------------VNQLTVCTFHSLGVQILRQEAEHVG-LKPQFSIMDSDDcfgmIQEQI------------ 135
Cdd:TIGR00609   88 eAIQDEKVKqaitrlrnalatMDEAAIYTIHGFCQRMLEQHAFESDeIFDVELIEDESL----LLAEItkdfwrrnfynl 163
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  136 ------------------GTTDKGLIR----------------------KIQSTISLWKNGLIMPEEAMTIAANEDEHQA 175
Cdd:TIGR00609  164 pfdiaqivlktkkspqavLTQILADLLlqsylafpsppldleqlikwheQIYKDLDKLDHAVFEEIDKLNAERNNLFCLK 243
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  176 ALVYRNYVATLHAY--------QAVDFDDLIRLPAELFAKN--EQVRDRWQNKLRYLLIDEYQDTNACQYELLKLL--AG 243
Cdd:TIGR00609  244 DRVFLTLLKEVQEElkkekkrrREIGFDDLLSRLETALKSAegEKLAQAIREQYPIALIDEFQDTDPQQYRIFSKLfiAQ 323
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  244 PRAAFTAVGDDDQAIYGWRGATLENLAQLGKDFPKLHVikLEQNYRSTVRILTAANNVIAN--NPKLFE---------KK 312
Cdd:TIGR00609  324 KETSLFLIGDPKQAIYSFRGADIFTYLQAKSKADARYT--LGTNWRSTPALVGSLNKLFSLisNPFLEKpifipvlahQK 401
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  313 LWSEHGMGDSITVTP--CNDEEHEAESVVF------------------------RLSAHKFERRA-QFRDYAILYRGNFQ 365
Cdd:TIGR00609  402 NSKGSFVINGQEQPPihFFTTEVESEGVDDyrqtiaqkcareialwlasaalglANFIATFGGRPlRAGDIAVLVRGRKE 481
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  366 ARIFEQVLRRERIPYVLSGGQS-FFDKAEIKDLCAYLRLIanadDDP---AFIRAVTTPRrgIGNTTLEALGSFAGQAKV 441
Cdd:TIGR00609  482 ANQIRKALKKAQIPSVYLSDKSsVFATEEAQELLALLEAL----LEPeneGTLRAALASS--IFGLSALELETLNQDEIT 555
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  442 SLFEAVYMggIEARLSARQVEPLRMFcdfiQRLtdradkepatvvlddMMEAIHYEAYLYDAFDERQaqskWQNVLEFLE 521
Cdd:TIGR00609  556 WERVVEKF--REYHDIWRKIGVLAMF----QRL---------------MLEKGIGERLLSQPGGERI----LTNLLHLAE 610
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  522 WLKRKGTKPEteavdgeadgfHNADGLadtgKNLLGLIQTV-ALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGV- 599
Cdd:TIGR00609  611 LLQEAAHQER-----------NKLSLL----RWLEDQISNEeEEEEEIIRLESDAELVKIVTIHKSKGLEYPIVFLPFIt 675
                          730       740       750       760       770       780
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  600 ----------------EEGIMPHRGGSEDDGPIDNERIEEERRLMYVAITRAQRSLHLNW 643
Cdd:TIGR00609  676 dakksnfaslhdqhshEYQLYDFNQSEENQKLARVERLAEDLRLLYVALTRAKKQLFIGI 735
AddB COG3857
ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];
21-695 2.22e-25

ATP-dependent helicase/DNAse subunit B [Replication, recombination and repair];


Pssm-ID: 443066 [Multi-domain]  Cd Length: 1019  Bit Score: 112.53  E-value: 2.22e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   21 LVLAGAGSGKTRVITQKIAHLIEAKgfepRHIAAVTfTNKAAAEMRERVSKLLEGKTLTtpgkegrkvpvnQLTVCTFHS 100
Cdd:COG3857      2 FILGRAGSGKTTYLLEEIKEELKEG----KPIILLV-PEQMTFQAERALLKRLGLGGSI------------RAQVLSFSR 64
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  101 LGVQILRqeaEHVGLKPQF------------SIMDSDDCFGMIQEQIGTtdKGLIRKIQSTISLWKNGLIMPEEAMTIAA 168
Cdd:COG3857     65 LAWRVLQ---ETGGATRPLlsdagkrmllrkILEEHKDELKVFARAADK--PGFIEQLAELITELKRYGITPEDLEEAAE 139
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  169 NEDE--HQAALVYRNYVATLHAYQaVDFDDLIRLPAELFAKNEQVRDRwqnklrYLLIDEYQDTNACQYELLKLLA--GP 244
Cdd:COG3857    140 LLKEklRDLALIYEAYEEKLAGRY-IDSEDLLRLLAEKLEKSEFLEGA------EIYIDGFTDFTPQELELLEALLkkAK 212
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  245 RAAFTAVGD-DDQAIYGWRGATLENLAQLGKDfpklHVIKLEQNYRSTVRILTAAnnviannpkLFEkklWSEHGMGDSI 323
Cdd:COG3857    213 EVTITLTLDpDELDLFSATGETYERLLELAKE----NGVEVEFKKSPELAHLERN---------LFA---YPPEEEPEGI 276
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  324 TVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRG-NFQARIFEQVLRRERIPYVLSGGQSFFDKAEIKDLCAYLR 402
Cdd:COG3857    277 EIIEAANRRAEVEAVAREIRRLVREEGYRYRDIAVVVRDlEAYAPLIERVFAEYGIPYFIDEKRPLSHHPLVELILSLLE 356
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  403 LIANADDDPAFIRAVTTP-RRGIGNTTLEALGSFA------GQA--KVSLFEAVYMGGIEA-------RLSARQVEPLRm 466
Cdd:COG3857    357 LVRSNFRYEDVFRLLKTGlLRPLSREEIDRLENYVlaygirGRRwlERYLEEEEELTDEEEedlerlnELRDRLLEPLL- 435
                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  467 fcDFIQRLTDRADKEPATVVLDDMMEAIHYEAYLY------------DAFDERQAQSKWQNVLEflewlkrkgtkpetEA 534
Cdd:COG3857    436 --PLRERLKKAKTVREWAEALYEFLEELGVPEKLEewreaeeagdleEAREHEQAWNALIELLD--------------EL 499
                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  535 VDGEADGFHNADGLADTgknllgliqtvaLMSMLEGKD-----EDPDAVRLSTVHASKGLEYPHVFLVGVEEGIMPHRGG 609
Cdd:COG3857    500 VEVLGDEKLSLEEFLRI------------LESGLEELTfglipPSLDQVQVGGLDRARGLDFKAVFVLGLNEGVFPARPR 567
                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  610 -----SEDD-----------GPIDNERIEEERRLMYVAITRAQRSLHLNWCKKRKRARETvvcEPSRFIPEMGL------ 667
Cdd:COG3857    568 edgllSDEErerlnelglelPPTSRERLLEERFLFYRALTRASERLYLSYPLADEEGKAL---LPSPLIDRLRElfpele 644
                          730       740
                   ....*....|....*....|....*...
gi 1525863071  668 DEAPPPTPEEAPMTPKDRLASLKALLQK 695
Cdd:COG3857    645 ERSLLEEELEYIGTPESALSELAAALRQ 672
SF1_C_UvrD cd18807
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ...
578-641 2.29e-25

C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350194 [Multi-domain]  Cd Length: 150  Bit Score: 102.31  E-value: 2.29e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVGVEEGIMPHRgGSEDDGPIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:cd18807    86 VTLMTIHASKGLEFPVVFIVGLGEGFIPSD-ASYHAAKEDEERLEEERRLLYVALTRAKKELYL 148
helD PRK11054
DNA helicase IV; Provisional
1-336 4.39e-24

DNA helicase IV; Provisional


Pssm-ID: 182930 [Multi-domain]  Cd Length: 684  Bit Score: 107.73  E-value: 4.39e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   1 MSAGLNSAQNEAVRYLDGPCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRERVSKllegktltt 80
Cdd:PRK11054  193 ESSPLNPSQARAVVNGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRE--------- 263
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  81 pgkegrKVPVNQLTVCTFHSLGVQILRQEAEHVglkPQFSIMDSDD------CFGMIQEQIGTT---------------- 138
Cdd:PRK11054  264 ------RLGTEDITARTFHALALHIIQQGSKKV---PVISKLENDSkarhalLIAEWRKQCSEKkaqakgwrqwlteelq 334
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 139 ----------DKGLIRKIQSTISLWkNGLIM----PEEAMTIAANEDEHQA--------ALVYRNYVATLHAYQAVDFDD 196
Cdd:PRK11054  335 wdvpegnfwdDEKLQRRLASRLERW-VSLMRmhggSQAEMIAQAPEEVRDLfqkrlklmAPLLKAWKKALKAENAVDFSG 413
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 197 LIRLPAELFAKNeqvrdRWQNKLRYLLIDEYQDTNACQYELLKLL--AGPRAAFTAVGDDDQAIYGWRGATLENLAQLGK 274
Cdd:PRK11054  414 LIHQAVNYLEKG-----RFISPWKHILVDEFQDISPQRAALLAALrkQNSQTTLFAVGDDWQAIYRFSGADLSLTTAFHE 488
                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1525863071 275 DFPKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSeHGMGDSITVTPCNDEEHEAE 336
Cdd:PRK11054  489 RFGEGDRCHLDTTYRFNSRIGEVANRFIQQNPHQLKKPLNS-LTKGDKKAVTLLPEDQLEAL 549
PRK13909 PRK13909
RecB-like helicase;
24-648 4.76e-19

RecB-like helicase;


Pssm-ID: 237554 [Multi-domain]  Cd Length: 910  Bit Score: 91.96  E-value: 4.76e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  24 AGAGSGKTRVITQK-IAHLIeaKGFEPRHIAAVTFTNKAAAEMRERVSKllegkTLTTPGKEGRKVPVNQL--------- 93
Cdd:PRK13909    5 ASAGSGKTFALSVRfLALLF--KGANPSEILALTFTKKAANEMKERIID-----TLLNLEKEKEESELNELeeklglske 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  94 ------------------TVCTFHSLGVQILRQEAEHVGLKPQFSIMDSDDC--------------------FGMIQEQI 135
Cdd:PRK13909   78 ellnkrdkvyqeflnselKISTIDAFFQKILRKFCLNLGLSPDFSIKEDTKEelnekflsalskeellellaFIKQCESK 157
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 136 GTTD---------------------------------------KGLIRKIQSTISLWKN---------GLIMPEEAMT-- 165
Cdd:PRK13909  158 KNNSffelleklyeknnelklfekaknpiefdeekfleelrslKQQIQSIETASKNAKKafkkedfeeLLNSSKTWLEke 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 166 --------IAANE-----DEHQAALvyRNYVATLHAY-----------------------QAVDFDDLIRLPAELFAKNE 209
Cdd:PRK13909  238 seyryfkkLYNEEldaefEELKNAL--KRYYDAKENYklsklfkllqlykeaknelnkkkNALDFDDISKKVYELLGEEE 315
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 210 QVRD----RWQNKLRYLLIDEYQDTNACQYELLKLL----------AGPRAAFTaVGDDDQAIYGWRGATLENLAQLGKD 275
Cdd:PRK13909  316 IDKDflyfRLDSKISHILIDEFQDTSVLQYKILLPLideiksgegqKKFRSFFY-VGDVKQSIYRFRGGKKELFDKVSKD 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 276 FpKLHVIKLEQNYRSTVRILTAANNVIANNPKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRD 355
Cdd:PRK13909  395 F-KQKVDNLDTNYRSAPLIVDFVNEVFKKKYKNYKTQYAEQHKSGGYVEVVEVADESEELLEQLLQEIQFLLEKGIDPDD 473
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 356 YAILYRGNFQARIFEQVLRRER-IPYVLSGGQSFFDKAEIKDLCAYLrlianadddpafiravttprrgignttlealgs 434
Cdd:PRK13909  474 IAILCWTNDDALEIKEFLQEQFgIKAVTESSAKLINQPEVKALIEAL--------------------------------- 520
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 435 fagqaKVSLF-EAVYMGGIEARLSarqvEPLRMFCDFIqrltdRADKEPATVVLDDMMEaihyeaylYDAFDErqaqskw 513
Cdd:PRK13909  521 -----KYCLFgEEIYKHNVLKLLG----KEPDKIPSFL-----PKEESVAEFVKKLIEE--------LKLYDE------- 571
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 514 qNVLEFLEwlkrkgtkpeteavdgeadgfhnadgLADTGKNLLGLIQTVALMSmLEGKDEDPDAVRLSTVHASKGLEYPH 593
Cdd:PRK13909  572 -NLLKFLE--------------------------LASGYEDIEEFLFKLEPCD-KEIASEESKGVQIMTVHKSKGLEFEH 623
                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 594 VFLV------------------GVEEGIMPHR-GGSED-DGP----IDNER---IEEERRLMYVAITRAQRSLHLnwCKK 646
Cdd:PRK13909  624 VIVCdrlgkpnsdssnllfeydGIELWQIYYRiKGRENfDKDyaraLEKEKalkYEEEINVLYVAFTRAKNSLIV--VKK 701

                  ..
gi 1525863071 647 RK 648
Cdd:PRK13909  702 DE 703
SF1_C_UvrD cd18807
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ...
290-374 1.82e-16

C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase involved in mismatch repair, nucleotide excision repair, and recombinational repair. It plays a critical role in maintaining genomic stability and facilitating DNA lesion repair in many prokaryotic species including Helicobacter pylori and Escherichia coli. This family also includes ATP-dependent helicase/nuclease AddA and helicase/nuclease RecBCD subunit RecB, among others. UvrD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350194 [Multi-domain]  Cd Length: 150  Bit Score: 76.89  E-value: 1.82e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 290 STVRILTAANNVIANNPKLFEKKLWSEHGMGDSITVTPCNDEEHEAESVVFRLSAHKFERRAQFRDYAILYRGNFQARIF 369
Cdd:cd18807     1 STKNILDAANSLIKQNKNRPKKPLKAGNKSGGPVELLLAKDEADEAKAIADEIKRLIESGPVQYSDIAILVRTNRQARVI 80

                  ....*
gi 1525863071 370 EQVLR 374
Cdd:cd18807    81 EEALR 85
AAA_19 pfam13245
AAA domain;
9-262 6.27e-15

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 71.87  E-value: 6.27e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   9 QNEAVRYL--DGPCLVLAGAGSGKTRVITQKIAHLIEAKGfEPRHIAAVTFTNKAAAEMRERVskllegktlttpGKEGr 86
Cdd:pfam13245   1 QREAVRTAlpSKVVLLTGGPGTGKTTTIRHIVALLVALGG-VSFPILLAAPTGRAAKRLSERT------------GLPA- 66
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  87 kvpvnqltvCTFHSLgvqilrqeaehvglkpqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeamti 166
Cdd:pfam13245  67 ---------STIHRL----------------------------------------------------------------- 72
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 167 aanedehqaalvyrnyvatlhayqaVDFDDLIRLPAELFAKNEQVRDrwqnklrYLLIDEYQDTNA-CQYELLKLLAgPR 245
Cdd:pfam13245  73 -------------------------LGFDDLEAGGFLRDEEEPLDGD-------LLIVDEFSMVDLpLAYRLLKALP-DG 119
                         250
                  ....*....|....*..
gi 1525863071 246 AAFTAVGDDDQAIYGWR 262
Cdd:pfam13245 120 AQLLLVGDPDQLPSVGP 136
HelD COG3973
DNA helicase IV [Replication, recombination and repair];
213-339 3.39e-14

DNA helicase IV [Replication, recombination and repair];


Pssm-ID: 443173 [Multi-domain]  Cd Length: 699  Bit Score: 76.06  E-value: 3.39e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 213 DRWQNKLRYLLIDEYQDTNACQYELLKLLaGPRAAFTAVGDDDQAIYGWRGATL--ENLAQLGKDfpKLHVIKLEQNYRS 290
Cdd:COG3973   464 PDRTWTYGHVVVDEAQDLSPMQWRVLKRR-FPSASFTIVGDLAQAIHPYRGAESweEVLEPLGGD--RARLVELTKSYRS 540
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1525863071 291 TVRILTAANNVI------ANNPKLFEkklwsEHgmGDSITVTPCNDEEHEAESVV 339
Cdd:COG3973   541 TAEIMEFANRVLraagpdLPPPESVR-----RH--GEPPRVVRVPSEAELAAAVV 588
COG3972 COG3972
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
9-391 3.54e-12

Superfamily I DNA and RNA helicases [Replication, recombination and repair];


Pssm-ID: 443172 [Multi-domain]  Cd Length: 565  Bit Score: 69.48  E-value: 3.54e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071   9 QNEAVRYL-DGPCLVLAGAGSGKTRVITQKIAHLieAKGFEPRHIAAVTFTNKAAAEMRERVSK-LLEGKTLTTPgkegr 86
Cdd:COG3972   164 QERIARSIpDGPQRIRGVAGSGKTVLLAAKAAYL--ALKHPGWRILVTCFNRSLADHLRDLIPRfLRRFSNGEPE----- 236
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  87 kvpvNQLTVCTFHSLGVQILRQeaehVGLKPqfsimdsddcfgmiqeqigttdkglirkiqstislwknglimpeeaMTI 166
Cdd:COG3972   237 ----DNVKLIVFHAWGGKLLKQ----YGIPP----------------------------------------------LTF 262
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 167 AANEDEHQAAlvyrnyvatlhayqavdFDDLIRLpaelfAKNEQVRDRWqnklRYLLIDEYQDTNACQYELL-KLLAGPR 245
Cdd:COG3972   263 SQPNEAFDEA-----------------CKALLEA-----IQGEIIPPIY----DAILIDEAQDFEPEFLRLLyQLLKPPK 316
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 246 AAFTAVGDDDQAIYGWRGATLENL-AQLGKDFPklhvikLEQNYRSTVRILTAANNV----------IANNPKLFEKKLW 314
Cdd:COG3972   317 KRLIWAYDEAQNIYGRKIPSAGGIpAGIGRDTI------LKKNYRNTRPILTFAHAFgmgllrppglLQGDAEDYEVERP 390
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 315 SEHGM-----------GDSITVTPCNDEEHEAESVVFRLSahKFERRAQFR--DYAILYRGNFQARIFE----QVLRRER 377
Cdd:COG3972   391 GDKVTlirppepagrkGPLPEFKKYDDRAEELEAIAEEIK--KNLRDEGLRpsDIAVIYLGNNEAKELGdrlaAALERQG 468
                         410
                  ....*....|....
gi 1525863071 378 IPYVLSGGQSFFDK 391
Cdd:COG3972   469 IDSYIAGARSDPNF 482
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
19-67 1.66e-11

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438706 [Multi-domain]  Cd Length: 121  Bit Score: 61.73  E-value: 1.66e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1525863071  19 PCLVLAGAGSGKTRVITQKIAHLIEAKGFEPRHIAAVTFTNKAAAEMRE 67
Cdd:cd17914     1 LSLIQGPPGTGKTRVLVKIVAALMQNKNGEPGRILLVTPTNKAAAQLDN 49
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
217-288 3.05e-10

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438706 [Multi-domain]  Cd Length: 121  Bit Score: 58.27  E-value: 3.05e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1525863071 217 NKLRYLLIDEYQDTNACQYELLKLLAGPRAAFTAVGDDDQAIYGWRGATLENLAQLGK-----DFPKLHVIKLEQNY 288
Cdd:cd17914    45 AQLDNILVDEAAQILEPETSRLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQSlftrlVRLGVSLIRLQVQY 121
UvrD_C_2 pfam13538
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...
578-641 3.53e-09

UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety of helicase enzymes. This domain has a AAA-like structural fold.


Pssm-ID: 463913 [Multi-domain]  Cd Length: 52  Bit Score: 52.96  E-value: 3.53e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpiDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:pfam13538   2 AYALTVHKAQGSEFPAVFLVDPDLT--------------AHYHSMLRRRLLYTAVTRARKKLVL 51
SF1_C cd18786
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ...
560-641 2.12e-08

C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350173 [Multi-domain]  Cd Length: 89  Bit Score: 52.05  E-value: 2.12e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071 560 QTVALMSMLEGKDEDPDAVRLSTVHASKGLEYPHVFLVGVEEGimphrggseddgpidneriEEERRLMYVAITRAQRSL 639
Cdd:cd18786    25 YLNQYLQGLSLDEFDLQLVGAITIDSSQGLTFDVVTLYLPTAN-------------------SLTPRRLYVALTRARKRL 85

                  ..
gi 1525863071 640 HL 641
Cdd:cd18786    86 VI 87
SF1_C_RecD cd18809
C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11. ...
581-641 3.46e-07

C-terminal helicase domain of RecD family helicases; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD family helicases are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350196 [Multi-domain]  Cd Length: 80  Bit Score: 48.33  E-value: 3.46e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1525863071 581 STVHASKGLEYPHVFLVgveegimphrggseddgpIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:cd18809    36 MTIHKSQGSEFDRVIVV------------------LPTSHPMLSRGLLYTALTRARKLLTL 78
recB PRK10876
exonuclease V subunit beta; Provisional
194-635 2.81e-06

exonuclease V subunit beta; Provisional


Pssm-ID: 236784 [Multi-domain]  Cd Length: 1181  Bit Score: 50.74  E-value: 2.81e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  194 FDDLI-RLPAELFAKN-----EQVRDRWQnklrYLLIDEYQDTNACQYELLKLLAG--PRAAFTAVGDDDQAIYGWRGAT 265
Cdd:PRK10876   351 FDDLLsRLDSALQSEGgealaAAIRTRYP----VAMIDEFQDTDPQQYRIFRRIYRhqPETALLLIGDPKQAIYAFRGAD 426
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  266 LenlaqlgkdFPKLHV-------IKLEQNYRSTVRILTAANNVIA--NNPKLFE-------KKLWSEHGM---------- 319
Cdd:PRK10876   427 I---------FTYMKArsevsahYTLDTNWRSAPGMVNSVNKLFSqtDDPFLFReipfipvKAAGKNQALrfvvkgetqp 497
                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  320 --------GDSITVTpcndeehEAESVVFRLSAhkferrAQFRDY-------------------------AILYRGNFQA 366
Cdd:PRK10876   498 amkfwlmeGEGVGVG-------DYQQTMAQQCA------AQIRDWlqagqrgeallmngddsrpvrasdiTVLVRSRQEA 564
                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  367 RIFEQVLRRERIPYV-LSGGQSFFDKAEIKDLCAYLrlianadddpafiRAVTTPRRgiGNTTLEALGSfagqakvSLfe 445
Cdd:PRK10876   565 ALIRDALTLLAIPSVyLSNRDSVFETLEAQEMLWLL-------------QAVLAPER--ERTLRSALAT-------SM-- 620
                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  446 avyMGgiearLSARQVEPLrmfcdfiqrltdrADKEPAtvvlddmmeaihYEAyLYDAFDERQAQskwqnvlefleWLKR 525
Cdd:PRK10876   621 ---MG-----LDALDIDAL-------------NNDERA------------WDA-LVEEFDGYRQI-----------WRKR 655
                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1525863071  526 kGTKPETEAV--------------DGE---ADGFHNADGLADTGknlLGLIQTVALMSMLEGKDEDPDA----------- 577
Cdd:PRK10876   656 -GVLPMLRALmsarniaenllataGGErrlTDILHIGELLQEAS---SQLDSEHALVRWLAQQILEPDSqassqqlrles 731
                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1525863071  578 ----VRLSTVHASKGLEYPHVFLVGV------EEGIMPHRGG-------SEDDGPI---DNERIEEERRLMYVAITRA 635
Cdd:PRK10876   732 dkhlVQIVTIHKSKGLEYPLVWLPFItnfrvqDQAFYHDRHSfeavldlNAAEESValaEEERLAEDLRLLYVALTRS 809
DEAD-like_helicase_N cd17912
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
20-65 1.90e-05

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


Pssm-ID: 350670 [Multi-domain]  Cd Length: 81  Bit Score: 43.28  E-value: 1.90e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1525863071  20 CLVLAGAGSGKTRVITQKIAHLIEAkgfePRHIAAVTFTNKAAAEM 65
Cdd:cd17912     2 ILHLGPTGSGKTLVAIQKIASAMSS----GKSVLVVTPTKLLAHEI 43
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
5-78 5.10e-05

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 46.51  E-value: 5.10e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1525863071   5 LNSAQNEAVRYL---DGPCLVLAGAGSGKTRVItQKIAHLIEAKGFeprHIAAVTFTNKAAAEMRERVSKllEGKTL 78
Cdd:COG0507   125 LSDEQREAVALAlttRRVSVLTGGAGTGKTTTL-RALLAALEALGL---RVALAAPTGKAAKRLSESTGI--EARTI 195
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
573-641 7.99e-05

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 45.74  E-value: 7.99e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1525863071 573 EDPDAVRLS---TVHASKGLEYPHVFLVgveegiMPHRGGSEDDgpidnerieeeRRLMYVAITRAQRSLHL 641
Cdd:COG0507   434 SELDQLELAyaiTVHKSQGSTFDRVILV------LPSEHSPLLS-----------RELLYTALTRARELLTL 488
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
4-67 1.08e-04

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 43.71  E-value: 1.08e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1525863071   4 GLNSAQNEAVRYL----DGPCLVLAGAGSGKTRVITQkIAHLIEAKGFEprhIAAVTFTNKAAAEMRE 67
Cdd:pfam13604   1 TLNAEQAAAVRALltsgDRVAVLVGPAGTGKTTALKA-LREAWEAAGYR---VIGLAPTGRAAKVLGE 64
Viral_helicase1 pfam01443
Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated ...
578-641 1.86e-04

Viral (Superfamily 1) RNA helicase; Helicase activity for this family has been demonstrated and NTPase activity. This helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis.


Pssm-ID: 366646 [Multi-domain]  Cd Length: 227  Bit Score: 43.52  E-value: 1.86e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1525863071 578 VRLSTVHASKGLEYPHVFLVgveegimphrggseDDGPIDNERIEEERRLMYVAITRAQRSLHL 641
Cdd:pfam01443 176 VRVTTVHEVQGLTFDSVTLV--------------LDTDTDLLIISDSPEHLYVALTRHRKSLHI 225
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
8-78 1.35e-03

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 39.85  E-value: 1.35e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1525863071   8 AQNEAVR-YLDGP-CLVLAGAGSGKTRVItQKIAHLIEAKGFEprhIAAVTFTNKAAAEMRErvSKLLEGKTL 78
Cdd:cd17933     1 EQKAAVRlVLRNRvSVLTGGAGTGKTTTL-KALLAALEAEGKR---VVLAAPTGKAAKRLSE--STGIEASTI 67
 
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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