|
Name |
Accession |
Description |
Interval |
E-value |
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
200-575 |
3.25e-89 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 286.34 E-value: 3.25e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 200 VKQNSQIKIMDIQQEILARNIGDGHRVIHGVAGSGKTMILLFRCLYLAETTSG-KILVLCYNITLASYLRECIEARGLTS 278
Cdd:COG3972 151 DFFLPLIAVLDLQQERIARSIPDGPQRIRGVAGSGKTVLLAAKAAYLALKHPGwRILVTCFNRSLADHLRDLIPRFLRRF 230
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 279 S------RVTVSHFHSWCTSMIKRHGIQV--TADRKNYPEKCFSALEEAVNRGKITSTgYDAVLVDEGHDFDSRWLALIA 350
Cdd:COG3972 231 SngepedNVKLIVFHAWGGKLLKQYGIPPltFSQPNEAFDEACKALLEAIQGEIIPPI-YDAILIDEAQDFEPEFLRLLY 309
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 351 RLFDNSSRSLLLMYDDAQSIYRREramnfSLASVGIQA-QGRTSVLPVNYRNPKCILHFAYAF--------------SRE 415
Cdd:COG3972 310 QLLKPPKKRLIWAYDEAQNIYGRK-----IPSAGGIPAgIGRDTILKKNYRNTRPILTFAHAFgmgllrppgllqgdAED 384
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 416 YFQKHQNREIPLLQP-QAGGEEGTEPKILRCVSERDEARKVAEWLEK-----RYAlcghWSDMAVLCPAEFSVK----QL 485
Cdd:COG3972 385 YEVERPGDKVTLIRPpEPAGRKGPLPEFKKYDDRAEELEAIAEEIKKnlrdeGLR----PSDIAVIYLGNNEAKelgdRL 460
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 486 KDVMTQRGIPFtTCFDSESKKTYSRRKDVVHLLTYQSSKGLEFPYVAVINASFVHSGAADEHEvIPVLYVAFTRATHELL 565
Cdd:COG3972 461 AAALERQGIDS-YIAGARSDPNFFWKDGGVTISTIHRAKGLEAPVVIIVGLDQLAKGESLERL-RNLLYVAMTRARGWLV 538
|
410
....*....|
gi 693074662 566 VTCYRENSIS 575
Cdd:COG3972 539 VSGSGESMAE 548
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
212-386 |
5.87e-15 |
|
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: 73.32 E-value: 5.87e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 212 QQEILarNIGDGHRVIHGVAGSGKTMILLFRCLYLAETTS---GKILVLCYNITLASYLRECIEAR--GLTSSRVTVSHF 286
Cdd:cd17932 4 QREAV--THPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGvppERILAVTFTNKAAKEMRERLRKLlgEQLASGVWIGTF 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 287 HSWCTSMIKRHG----IQVTAdrKNYPEKCFSALEEAVNRgkitstgYDAVLVDEGHDFDSRWLALIARLFdNSSRSLLL 362
Cdd:cd17932 82 HSFALRILRRYGdfddLLLYA--LELLEENPDVREKLQSR-------FRYILVDEYQDTNPLQYELLKLLA-GDGKNLFV 151
|
170 180
....*....|....*....|....
gi 693074662 363 MYDDAQSIYRreramnFSLASVGI 386
Cdd:cd17932 152 VGDDDQSIYG------FRGADPEN 169
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
394-518 |
3.16e-08 |
|
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: 55.88 E-value: 3.16e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 394 VLPVNYRNPKCILHFAYAFSREYFQKHQNREIPLLQPQAggEEGTEPKILRCVSERDEARKVAEWLEKRYALCGHWSDMA 473
Cdd:pfam13361 2 HLEINYRSTKNLLKAANEFINNNFGRATIYPKKILAETV--EDGEKIKIIEAETEEEEAEWIALEIKKLVARDEKYNDIA 79
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 693074662 474 VLCPAEFSVKQLKDVMTQRGIPFTTcfdSESKKTYSRR--KDVVHLL 518
Cdd:pfam13361 80 VLTRSNSDADLIEEALKKLGIPYFV---VGQTKFFRREeiKDILAYL 123
|
|
| NERD |
pfam08378 |
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial ... |
4-89 |
1.50e-07 |
|
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.
Pssm-ID: 462454 Cd Length: 108 Bit Score: 49.76 E-value: 1.50e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 4 GEKRVASRLEsfLNDDCLVWFDIPVGRKNRH--PDFVIIDPeNGLVFLEVKDWTVSTLRKVNQEQVTLETDGIQkseiNP 81
Cdd:pfam08378 5 GERRVAEYLK--LPGGYIVLHNLRLPPGTGTaeIDHLVISP-NGIFVIEVKNYSGWIFGDENGQWTQKIGNGFP----NP 77
|
....*...
gi 693074662 82 LVQVRRYA 89
Cdd:pfam08378 78 LEQNRRHA 85
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
513-571 |
3.07e-05 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 46.76 E-value: 3.07e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 693074662 513 DVVHLLTYQSSKGLEFPYVAVINAS---FVHSGAADEHEVIP---VLYVAFTRATHELLVTCYRE 571
Cdd:PRK10919 550 DQVQLMTLHASKGLEFPYVYLVGMEeglLPHQSSIDEDNIDEerrLAYVGITRAQKELTFTLCKE 614
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
200-361 |
6.59e-05 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 44.41 E-value: 6.59e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 200 VKQNSQIKIMDIQQEILAR-NIGDGHRVIHGVAGSGKTMILLFRCL-YLAETTSGKILVLCYNITLAsylreciearglt 277
Cdd:smart00487 1 IEKFGFEPLRPYQKEAIEAlLSGLRDVILAAPTGSGKTLAALLPALeALKRGKGGRVLVLVPTRELA------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 278 ssRVTVSHFHSWCTSM-IKRHGIQVTADRKNYPEKCFS-----------ALEEAVNRGKITSTGYDAVLVDEGH-----D 340
Cdd:smart00487 68 --EQWAEELKKLGPSLgLKVVGLYGGDSKREQLRKLESgktdilvttpgRLLDLLENDKLSLSNVDLVILDEAHrlldgG 145
|
170 180
....*....|....*....|.
gi 693074662 341 FDSRWLALIARLFDNSSRSLL 361
Cdd:smart00487 146 FGDQLEKLLKLLPKNVQLLLL 166
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| COG3972 |
COG3972 |
Superfamily I DNA and RNA helicases [Replication, recombination and repair]; |
200-575 |
3.25e-89 |
|
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
Pssm-ID: 443172 [Multi-domain] Cd Length: 565 Bit Score: 286.34 E-value: 3.25e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 200 VKQNSQIKIMDIQQEILARNIGDGHRVIHGVAGSGKTMILLFRCLYLAETTSG-KILVLCYNITLASYLRECIEARGLTS 278
Cdd:COG3972 151 DFFLPLIAVLDLQQERIARSIPDGPQRIRGVAGSGKTVLLAAKAAYLALKHPGwRILVTCFNRSLADHLRDLIPRFLRRF 230
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 279 S------RVTVSHFHSWCTSMIKRHGIQV--TADRKNYPEKCFSALEEAVNRGKITSTgYDAVLVDEGHDFDSRWLALIA 350
Cdd:COG3972 231 SngepedNVKLIVFHAWGGKLLKQYGIPPltFSQPNEAFDEACKALLEAIQGEIIPPI-YDAILIDEAQDFEPEFLRLLY 309
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 351 RLFDNSSRSLLLMYDDAQSIYRREramnfSLASVGIQA-QGRTSVLPVNYRNPKCILHFAYAF--------------SRE 415
Cdd:COG3972 310 QLLKPPKKRLIWAYDEAQNIYGRK-----IPSAGGIPAgIGRDTILKKNYRNTRPILTFAHAFgmgllrppgllqgdAED 384
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 416 YFQKHQNREIPLLQP-QAGGEEGTEPKILRCVSERDEARKVAEWLEK-----RYAlcghWSDMAVLCPAEFSVK----QL 485
Cdd:COG3972 385 YEVERPGDKVTLIRPpEPAGRKGPLPEFKKYDDRAEELEAIAEEIKKnlrdeGLR----PSDIAVIYLGNNEAKelgdRL 460
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 486 KDVMTQRGIPFtTCFDSESKKTYSRRKDVVHLLTYQSSKGLEFPYVAVINASFVHSGAADEHEvIPVLYVAFTRATHELL 565
Cdd:COG3972 461 AAALERQGIDS-YIAGARSDPNFFWKDGGVTISTIHRAKGLEAPVVIIVGLDQLAKGESLERL-RNLLYVAMTRARGWLV 538
|
410
....*....|
gi 693074662 566 VTCYRENSIS 575
Cdd:COG3972 539 VSGSGESMAE 548
|
|
| HelD |
COG3973 |
DNA helicase IV [Replication, recombination and repair]; |
333-573 |
1.83e-19 |
|
DNA helicase IV [Replication, recombination and repair];
Pssm-ID: 443173 [Multi-domain] Cd Length: 699 Bit Score: 92.24 E-value: 1.83e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 333 VLVDEGHDFDSRWLALIARLFdnSSRSLLLMYDDAQSI--YRRERAMNFSLASVGIQaQGRTSVLPVNYRNPKCILHFAY 410
Cdd:COG3973 473 VVVDEAQDLSPMQWRVLKRRF--PSASFTIVGDLAQAIhpYRGAESWEEVLEPLGGD-RARLVELTKSYRSTAEIMEFAN 549
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 411 AFSREYFQKHQnreipllQPQAGGEEGTEPKILRCVSERDEARKVAEWLeKRYALCGHWSdMAVLCPAEFSVKQLKDVMT 490
Cdd:COG3973 550 RVLRAAGPDLP-------PPESVRRHGEPPRVVRVPSEAELAAAVVEAV-RELLAEGEGT-IAVICKTAREAEALYAALK 620
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 491 QRgiPFTTCFDSESKKtYSRRkdvVHLLTYQSSKGLEFPYVAVINASFVHSGAADEHEVipvLYVAFTRATHELLVTCYR 570
Cdd:COG3973 621 AG--LPVTLIDDESEE-LEAG---VVVLPAYLAKGLEFDAVVVVDPDEIVYESPRGRRL---LYVALTRATHRLTVLHTG 691
|
...
gi 693074662 571 ENS 573
Cdd:COG3973 692 ELP 694
|
|
| UvrD |
COG0210 |
Superfamily I DNA or RNA helicase [Replication, recombination and repair]; |
212-497 |
8.46e-17 |
|
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
Pssm-ID: 439980 [Multi-domain] Cd Length: 721 Bit Score: 83.83 E-value: 8.46e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 212 QQEILARniGDGHRVIHGVAGSGKTMILLFRCLYLAETTS---GKILVLCYNITLASYLRECIEAR-GLTSSRVTVSHFH 287
Cdd:COG0210 11 QRAAVEH--PEGPLLVLAGAGSGKTRVLTHRIAYLIAEGGvdpEQILAVTFTNKAAREMRERIEALlGRLARGLWVGTFH 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 288 SWCTSMIKRHGIQV----------TAD----------------RKNYPEKCFSALEEAVNRG-------KITSTG----- 329
Cdd:COG0210 89 SLALRILRRHAELLglppnftildGDDqlrlikellkelgldeKRFPPRELLSLISRAKNEGltpeelaELLAADpewra 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 330 --------------------------------------------YDAVLVDEGHDFDS---RWLALIARlfdnSSRSLLL 362
Cdd:COG0210 169 aaelyeayqerlrannaldfddllllavrlleenpevlekyqnrFRYILVDEYQDTNPaqyELLRLLAG----DGRNLCV 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 363 MYDDAQSIYRreramnFSLASVG-IQ------AQGRTSVLPVNYRNPKCILHFAYAFSReyfqKHQNREIPLLQPQAGge 435
Cdd:COG0210 245 VGDDDQSIYG------FRGADPEnILrfekdfPDAKVIKLEQNYRSTQNILDAANAVIA----NNPGRLGKNLWTDNG-- 312
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 693074662 436 EGTEPKILRCVSERDEARKVAEWLEKRYALCGHWSDMAVLCPAEFSVKQLKDVMTQRGIPFT 497
Cdd:COG0210 313 EGEKVRLYVAPDEEEEARFVADEIRELHEEGVPLSDIAVLYRTNAQSRALEEALRRAGIPYR 374
|
|
| DEXQc_UvrD |
cd17932 |
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ... |
212-386 |
5.87e-15 |
|
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: 73.32 E-value: 5.87e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 212 QQEILarNIGDGHRVIHGVAGSGKTMILLFRCLYLAETTS---GKILVLCYNITLASYLRECIEAR--GLTSSRVTVSHF 286
Cdd:cd17932 4 QREAV--THPDGPLLVLAGAGSGKTRVLTHRIAYLILEGGvppERILAVTFTNKAAKEMRERLRKLlgEQLASGVWIGTF 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 287 HSWCTSMIKRHG----IQVTAdrKNYPEKCFSALEEAVNRgkitstgYDAVLVDEGHDFDSRWLALIARLFdNSSRSLLL 362
Cdd:cd17932 82 HSFALRILRRYGdfddLLLYA--LELLEENPDVREKLQSR-------FRYILVDEYQDTNPLQYELLKLLA-GDGKNLFV 151
|
170 180
....*....|....*....|....
gi 693074662 363 MYDDAQSIYRreramnFSLASVGI 386
Cdd:cd17932 152 VGDDDQSIYG------FRGADPEN 169
|
|
| SF1_C_UvrD |
cd18807 |
C-terminal helicase domain of UvrD family helicases; UvrD is a highly conserved helicase ... |
421-568 |
1.46e-13 |
|
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: 68.41 E-value: 1.46e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 421 QNREIPLLQPQAGGEEGTEPKILRCVSERDEARKVAEWLeKRYALCG--HWSDMAVLCPAEFSVKQLKDVMTqrgipftt 498
Cdd:cd18807 15 QNKNRPKKPLKAGNKSGGPVELLLAKDEADEAKAIADEI-KRLIESGpvQYSDIAILVRTNRQARVIEEALR-------- 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 499 cfdseskktysrrkdvVHLLTYQSSKGLEFPYVAVINAS--------FVHSGAADEHEVIP---VLYVAFTRATHELLVT 567
Cdd:cd18807 86 ----------------VTLMTIHASKGLEFPVVFIVGLGegfipsdaSYHAAKEDEERLEEerrLLYVALTRAKKELYLV 149
|
.
gi 693074662 568 C 568
Cdd:cd18807 150 G 150
|
|
| UvrD_C |
pfam13361 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
394-518 |
3.16e-08 |
|
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: 55.88 E-value: 3.16e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 394 VLPVNYRNPKCILHFAYAFSREYFQKHQNREIPLLQPQAggEEGTEPKILRCVSERDEARKVAEWLEKRYALCGHWSDMA 473
Cdd:pfam13361 2 HLEINYRSTKNLLKAANEFINNNFGRATIYPKKILAETV--EDGEKIKIIEAETEEEEAEWIALEIKKLVARDEKYNDIA 79
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 693074662 474 VLCPAEFSVKQLKDVMTQRGIPFTTcfdSESKKTYSRR--KDVVHLL 518
Cdd:pfam13361 80 VLTRSNSDADLIEEALKKLGIPYFV---VGQTKFFRREeiKDILAYL 123
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
329-520 |
1.15e-07 |
|
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: 54.97 E-value: 1.15e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 329 GYDAVLVDEGHDFDSR-W--LALIARLFDNSSRSLLLMYDDAQSIYRreramnFSLASVGI------QAQGRTSV----L 395
Cdd:COG1074 284 RYRHILVDEFQDTSPLqWeiLRRLAGEALADGRTLFLVGDPKQSIYR------FRGADPELflearrALEGRVDGerltL 357
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 396 PVNYRNPKCILHFA-YAFSR---------EYFQKHQNR-------EIPLLQPQAGGEEGTEPKILRCVserdeARKVAEW 458
Cdd:COG1074 358 TTNFRSTPEVVDAVnALFAQlmgagfgeiPYEPVEALRpgaypavELWPLEPDDVSEEDAREREARAV-----AARIRRL 432
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 693074662 459 LEKRYALCG-----HWSDMAVLCPAEFSVKQLKDVMTQRGIPFTTcfdSESKKTYSRR--KDVVHLLTY 520
Cdd:COG1074 433 LAEGTTVEGggrpvRPGDIAVLVRTRSEAAAIARALKAAGIPVAA---SDRLSLFESPevRDLLALLRA 498
|
|
| NERD |
pfam08378 |
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial ... |
4-89 |
1.50e-07 |
|
Nuclease-related domain; The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.
Pssm-ID: 462454 Cd Length: 108 Bit Score: 49.76 E-value: 1.50e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 4 GEKRVASRLEsfLNDDCLVWFDIPVGRKNRH--PDFVIIDPeNGLVFLEVKDWTVSTLRKVNQEQVTLETDGIQkseiNP 81
Cdd:pfam08378 5 GERRVAEYLK--LPGGYIVLHNLRLPPGTGTaeIDHLVISP-NGIFVIEVKNYSGWIFGDENGQWTQKIGNGFP----NP 77
|
....*...
gi 693074662 82 LVQVRRYA 89
Cdd:pfam08378 78 LEQNRRHA 85
|
|
| RecB |
COG1074 |
3#-5# helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V) [Replication, ... |
513-573 |
6.47e-07 |
|
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: 52.27 E-value: 6.47e-07
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 693074662 513 DVVHLLTYQSSKGLEFPYVAVINASFVHSgAADEHEVIPVLYVAFTRATHELLVTCYRENS 573
Cdd:COG1074 643 DAVRIMTIHKSKGLEFPVVFLPALRERAR-AEELAEELRLLYVALTRARDRLVLSGAVKKK 702
|
|
| PRK10919 |
PRK10919 |
ATP-dependent DNA helicase Rep; Provisional |
513-571 |
3.07e-05 |
|
ATP-dependent DNA helicase Rep; Provisional
Pssm-ID: 182838 [Multi-domain] Cd Length: 672 Bit Score: 46.76 E-value: 3.07e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 693074662 513 DVVHLLTYQSSKGLEFPYVAVINAS---FVHSGAADEHEVIP---VLYVAFTRATHELLVTCYRE 571
Cdd:PRK10919 550 DQVQLMTLHASKGLEFPYVYLVGMEeglLPHQSSIDEDNIDEerrLAYVGITRAQKELTFTLCKE 614
|
|
| UvrD_C_2 |
pfam13538 |
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ... |
515-567 |
3.38e-05 |
|
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: 41.41 E-value: 3.38e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 693074662 515 VHLLTYQSSKGLEFPYVAVINASFV-HSGAADEHEvipVLYVAFTRATHELLVT 567
Cdd:pfam13538 2 AYALTVHKAQGSEFPAVFLVDPDLTaHYHSMLRRR---LLYTAVTRARKKLVLV 52
|
|
| SF1_C |
cd18786 |
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ... |
471-567 |
5.61e-05 |
|
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: 42.04 E-value: 5.61e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 471 DMAVLCPAEFSVKQLKDVMTQRGIpftTCFDseskktysrrKDVVHLLTYQSSKGLEFPYVAVinaSFVHSGAADehevI 550
Cdd:cd18786 12 KGVVLTPYHRDRAYLNQYLQGLSL---DEFD----------LQLVGAITIDSSQGLTFDVVTL---YLPTANSLT----P 71
|
90
....*....|....*..
gi 693074662 551 PVLYVAFTRATHELLVT 567
Cdd:cd18786 72 RRLYVALTRARKRLVIY 88
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
200-361 |
6.59e-05 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 44.41 E-value: 6.59e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 200 VKQNSQIKIMDIQQEILAR-NIGDGHRVIHGVAGSGKTMILLFRCL-YLAETTSGKILVLCYNITLAsylreciearglt 277
Cdd:smart00487 1 IEKFGFEPLRPYQKEAIEAlLSGLRDVILAAPTGSGKTLAALLPALeALKRGKGGRVLVLVPTRELA------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 278 ssRVTVSHFHSWCTSM-IKRHGIQVTADRKNYPEKCFS-----------ALEEAVNRGKITSTGYDAVLVDEGH-----D 340
Cdd:smart00487 68 --EQWAEELKKLGPSLgLKVVGLYGGDSKREQLRKLESgktdilvttpgRLLDLLENDKLSLSNVDLVILDEAHrlldgG 145
|
170 180
....*....|....*....|.
gi 693074662 341 FDSRWLALIARLFDNSSRSLL 361
Cdd:smart00487 146 FGDQLEKLLKLLPKNVQLLLL 166
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
223-318 |
2.07e-04 |
|
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: 43.39 E-value: 2.07e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 693074662 223 GHRVIHGVAGSGKTMILLFRCLYL---AETTSGKILVLCYNITLASYLRECIEAR--GLTSSRVTVSHFHSWCTSMIKRH 297
Cdd:pfam00580 14 GPLLVLAGAGSGKTRVLTERIAYLileGGIDPEEILAVTFTNKAAREMKERILKLlgKAELSELNISTFHSFCLRILRKY 93
|
90 100
....*....|....*....|.
gi 693074662 298 giqvtADRKNYpEKCFSALEE 318
Cdd:pfam00580 94 -----ANRIGL-LPNFSILDE 108
|
|
| uvrD |
PRK11773 |
DNA-dependent helicase II; Provisional |
513-578 |
5.22e-03 |
|
DNA-dependent helicase II; Provisional
Pssm-ID: 236976 [Multi-domain] Cd Length: 721 Bit Score: 39.85 E-value: 5.22e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 693074662 513 DVVHLLTYQSSKGLEFPYV---AVINASFVHSGAADEH----EVIPVLYVAFTRATHElLVTCYREnsiSRHL 578
Cdd:PRK11773 552 DAVQLMTLHSAKGLEFPLVfivGMEEGLFPSQMSLEEGgrleEERRLAYVGITRAMQK-LTLTYAE---SRRL 620
|
|
| |
