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Conserved domains on  [gi|543171828|ref|YP_008532101|]
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DNA helicase [Klebsiella phage 0507-KN2-1]

Protein Classification

ATP-dependent DNA helicase( domain architecture ID 1000492)

DNA helicase utilizes the energy from ATP hydrolysis to unwind double-stranded DNA; belongs to the DEAD/DEAH box helicase superfamily

CATH:  1.10.30.20|3.40.50.300
EC:  3.6.4.12
Gene Ontology:  GO:0005524|GO:0004386|GO:0003677|GO:0046872
PubMed:  20206133

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DinG super family cl34176
Rad3-related DNA helicase DinG [Replication, recombination and repair];
38-549 8.88e-28

Rad3-related DNA helicase DinG [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG1199:

Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 118.10  E-value: 8.88e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  38 PGQMECIVEAIDALANKKfkHVIIEAPTGVGKSLiGTtihqvlrhLV--LEANPYGQFRTSISTPTKGLQDQY------A 109
Cdd:COG1199   17 PGQREMAEAVARALAEGR--HLLIEAGTGTGKTL-AY--------LVpaLLAARETGKKVVISTATKALQEQLvekdlpL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 110 AEKAVAIDI----LKGKKNYRCHMH----------------------------------------PDIYYNAVQC-RIAC 144
Cdd:COG1199   86 LRKALGLPLrvalLKGRSNYLCLRRleqalqegddlddeelllarilawasetwtgdrdelplpeDDELWRQVTSdADNC 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 145 RDGHCSK-RRCPYVQARNLWTNiSSLRCTNAAMmieMCTTICMK----PEnrADMLILDECHKMPSTLLDH--------T 211
Cdd:COG1199  166 LGRRCPYyGVCPYELARRLARE-ADVVVVNHHL---LFADLALGeellPE--DDVLIIDEAHNLPDRARDMfsaelssrS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 212 IMEYnTKVLEGLRSLPQGKDIVQAVVEIVSHCKDY--ELGKLYSLDGYL------FDRFVDLLGKVEAILTELHELVEDD 283
Cdd:COG1199  240 LLRL-LRELRKLGLRPGLKKLLDLLERLREALDDLflALEEEEELRLALgelpdePEELLEALDALRDALEALAEALEEE 318

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 284 RLTEAQVMKLADIIDTLH-NLSDYCGIMSQTQASTFIVQEKGEEFIRFKPVIASDVSEFGLFRKADYHVHMSAT--ICG- 359
Cdd:COG1199  319 LERLAELDALLERLEELLfALARFLRIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSATlsVGGp 398

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 360 IDAYARSLGIrPGQYHKIQIGNPIPIENRKVNYMP-VMKMTNNMGDYEmRELAGFVDEIIQFHQGQSGIIHTvSYDRALA 438
Cdd:COG1199  399 FDYFARRLGL-DEDARTLSLPSPFDYENQALLYVPrDLPRPSDRDGYL-EAIAEAIAELLEASGGNTLVLFT-SYRALEQ 475

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 439 IqkFSKYRNIIHVP------RTRKALMElmdnAFRTKTPCII---ASPAmeEGYDFKGDYSRFQILIKVPYDYLGDPLV- 508
Cdd:COG1199  476 V--AELLRERLDIPvlvqgdGSREALLE----RFREGGNSVLvgtGSFW--EGVDLPGDALSLVIIVKLPFPPPDDPVLe 547

                        570       580       590       600       610
                 ....*....|....*....|....*....|....*....|....*....|
gi 543171828 509 AHINSVDpsAYFRN---------AILRIIQMCGRSVRGVNDWAATYILDS 549
Cdd:COG1199  548 ARREALE--ARGGNgfmyaylppAVIKLKQGAGRLIRSEEDRGVVVLLDR 595
 
Name Accession Description Interval E-value
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
38-549 8.88e-28

Rad3-related DNA helicase DinG [Replication, recombination and repair];


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 118.10  E-value: 8.88e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  38 PGQMECIVEAIDALANKKfkHVIIEAPTGVGKSLiGTtihqvlrhLV--LEANPYGQFRTSISTPTKGLQDQY------A 109
Cdd:COG1199   17 PGQREMAEAVARALAEGR--HLLIEAGTGTGKTL-AY--------LVpaLLAARETGKKVVISTATKALQEQLvekdlpL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 110 AEKAVAIDI----LKGKKNYRCHMH----------------------------------------PDIYYNAVQC-RIAC 144
Cdd:COG1199   86 LRKALGLPLrvalLKGRSNYLCLRRleqalqegddlddeelllarilawasetwtgdrdelplpeDDELWRQVTSdADNC 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 145 RDGHCSK-RRCPYVQARNLWTNiSSLRCTNAAMmieMCTTICMK----PEnrADMLILDECHKMPSTLLDH--------T 211
Cdd:COG1199  166 LGRRCPYyGVCPYELARRLARE-ADVVVVNHHL---LFADLALGeellPE--DDVLIIDEAHNLPDRARDMfsaelssrS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 212 IMEYnTKVLEGLRSLPQGKDIVQAVVEIVSHCKDY--ELGKLYSLDGYL------FDRFVDLLGKVEAILTELHELVEDD 283
Cdd:COG1199  240 LLRL-LRELRKLGLRPGLKKLLDLLERLREALDDLflALEEEEELRLALgelpdePEELLEALDALRDALEALAEALEEE 318

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 284 RLTEAQVMKLADIIDTLH-NLSDYCGIMSQTQASTFIVQEKGEEFIRFKPVIASDVSEFGLFRKADYHVHMSAT--ICG- 359
Cdd:COG1199  319 LERLAELDALLERLEELLfALARFLRIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSATlsVGGp 398

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 360 IDAYARSLGIrPGQYHKIQIGNPIPIENRKVNYMP-VMKMTNNMGDYEmRELAGFVDEIIQFHQGQSGIIHTvSYDRALA 438
Cdd:COG1199  399 FDYFARRLGL-DEDARTLSLPSPFDYENQALLYVPrDLPRPSDRDGYL-EAIAEAIAELLEASGGNTLVLFT-SYRALEQ 475

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 439 IqkFSKYRNIIHVP------RTRKALMElmdnAFRTKTPCII---ASPAmeEGYDFKGDYSRFQILIKVPYDYLGDPLV- 508
Cdd:COG1199  476 V--AELLRERLDIPvlvqgdGSREALLE----RFREGGNSVLvgtGSFW--EGVDLPGDALSLVIIVKLPFPPPDDPVLe 547

                        570       580       590       600       610
                 ....*....|....*....|....*....|....*....|....*....|
gi 543171828 509 AHINSVDpsAYFRN---------AILRIIQMCGRSVRGVNDWAATYILDS 549
Cdd:COG1199  548 ARREALE--ARGGNgfmyaylppAVIKLKQGAGRLIRSEEDRGVVVLLDR 595
HELICc2 smart00491
helicase superfamily c-terminal domain;
473-552 6.15e-11

helicase superfamily c-terminal domain;


Pssm-ID: 214694 [Multi-domain]  Cd Length: 142  Bit Score: 60.37  E-value: 6.15e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828   473 IIASPAMEEGYDFKGDYSRFQILIKVPYDYLGDPLV-AHINSVDPSA--------YFRNAILRIIQMCGRSVRGVNDWAA 543
Cdd:smart00491  53 AVARGKVSEGIDFPDDLGRAVIIVGIPFPNPDSPILrARLEYLDEKGgirpfdevYLFDAMRALAQAIGRAIRHKNDYGV 132


                   ....*....
gi 543171828   544 TYILDSSFE 552
Cdd:smart00491 133 VVLLDKRYA 141
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 479-568 3.52e-10

Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.


Pssm-ID: 463840 [Multi-domain]  Cd Length: 168  Bit Score: 59.11  E-value: 3.52e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  479 MEEGYDFKGDYSRFQILIKVPYDYLGDPLVA----HINSV--DPSAYFRN--AILRIIQMCGRSVRGVNDWAATYILDSS 550
Cdd:pfam13307  72 FSEGIDFPGDLLRAVIIVGLPFPNPDDPVVEakreYLDSKggNPFNEWYLpqAVRAVNQAIGRLIRHENDYGAIVLLDSR 151

                          90
                  ....*....|....*...
gi 543171828  551 FESlmMRNPEFFPTWFTE 568
Cdd:pfam13307 152 FLT--KRYGKLLPKWLPP 167
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 21-127 2.59e-05

bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated


Pssm-ID: 236148 [Multi-domain]  Cd Length: 928  Bit Score: 47.25  E-value: 2.59e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  21 EEIQKLAERYFPYDHANPGQMECIVEAIDALANKKfkHVIIEAPTGVGKSL--IGTTIHQVLRHlvleanpygQFRTSIS 98
Cdd:PRK08074 243 EKTEEKLSLAMPKYEKREGQQEMMKEVYTALRDSE--HALIEAGTGTGKSLayLLPAAYFAKKK---------EEPVVIS 311

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 543171828  99 TPTKGLQDQYAAEK----------AVAIDILKGKKNYRC 127
Cdd:PRK08074 312 TYTIQLQQQLLEKDipllqkifpfPVEAALLKGRSHYLC 350
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 24-76 1.29e-04

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 43.29  E-value: 1.29e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 543171828  24 QKLAERYFPYDHANPGQMEciveAIDALANKKfkHVIIEAPTGVGKSLI---------GTTI 76
Cdd:cd17920    1 EQILKEVFGYDEFRPGQLE----AINAVLAGR--DVLVVMPTGGGKSLCyqlpallldGVTL 56
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 197-565 1.56e-03

DNA repair helicase (rad3); All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. 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: 273169 [Multi-domain]  Cd Length: 705  Bit Score: 41.24  E-value: 1.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  197 LDECHKMPSTLL--DHTIMEYNT--------KVLEGLRSL-------------PQGKDIVQAVVEIVSHCKDYELGKL-- 251
Cdd:TIGR00604 249 LKRCSKEIAEYFekIEERKEVDArklldelqKLVEGLKQEdlltdediflanpVLPKEVLPEAVPGNIRIAEIFLHKLsr 328

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  252 ---YSLDGYLFDRFVDLLGKveAILTELHELVEDDRLTEAQVMKLADIIDTLHNL--SDYCGIMSQTQASTFI-VQEKGE 325
Cdd:TIGR00604 329 yleYLKDALKVLGVVSELPD--AFLEHLKEKTFIDRPLRFCSERLSNLLRELEIThpEDFSALVLLFTFATLVlTYTNGF 406

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  326 EFIRF--------KPVI------ASDVSEFgLFRKADYHVHMSATICGIDAYARSLGIRPGQ----YHKIQIGNPIP-IE 386
Cdd:TIGR00604 407 LEGIEpyenktvpNPILkfmcldPSIALKP-LFERVRSVILASGTLSPLDAFPRNLGFNPVSqdspTHILKRENLLTlIV 485

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  387 NRKVNYMPV-MKMTNNMGDYEMRELAGFVDEIIQfHQGQSGIIHTVSYDRALAIQKFSKYRNII-HVPRTRKALMELMD- 463
Cdd:TIGR00604 486 TRGSDQVPLsSTFEIRNDPSLVRNLGELLVEFSK-IIPDGIVVFFPSYSYLENIVSTWKEMGILeNIEKKKLIFVETKDa 564

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  464 ----NAFRT-KTPC---------IIASPAMEEGYDFKGDYSRFQILIKVPYDYLGDP-LVAH------INSVDPSAYF-R 521
Cdd:TIGR00604 565 qetsDALERyKQAVsegrgavllSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRiLLARleflrdQYPIRENQDFyE 644

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 543171828  522 NAILRIIQMC-GRSVRGVNDWAATYILDSSFESLMMRNPefFPTW 565
Cdd:TIGR00604 645 FDAMRAVNQAiGRVIRHKDDYGSIVLLDKRYARSNKRKK--LPKW 687
 
Name Accession Description Interval E-value
DinG COG1199
Rad3-related DNA helicase DinG [Replication, recombination and repair];
38-549 8.88e-28

Rad3-related DNA helicase DinG [Replication, recombination and repair];


Pssm-ID: 440812 [Multi-domain]  Cd Length: 629  Bit Score: 118.10  E-value: 8.88e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  38 PGQMECIVEAIDALANKKfkHVIIEAPTGVGKSLiGTtihqvlrhLV--LEANPYGQFRTSISTPTKGLQDQY------A 109
Cdd:COG1199   17 PGQREMAEAVARALAEGR--HLLIEAGTGTGKTL-AY--------LVpaLLAARETGKKVVISTATKALQEQLvekdlpL 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 110 AEKAVAIDI----LKGKKNYRCHMH----------------------------------------PDIYYNAVQC-RIAC 144
Cdd:COG1199   86 LRKALGLPLrvalLKGRSNYLCLRRleqalqegddlddeelllarilawasetwtgdrdelplpeDDELWRQVTSdADNC 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 145 RDGHCSK-RRCPYVQARNLWTNiSSLRCTNAAMmieMCTTICMK----PEnrADMLILDECHKMPSTLLDH--------T 211
Cdd:COG1199  166 LGRRCPYyGVCPYELARRLARE-ADVVVVNHHL---LFADLALGeellPE--DDVLIIDEAHNLPDRARDMfsaelssrS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 212 IMEYnTKVLEGLRSLPQGKDIVQAVVEIVSHCKDY--ELGKLYSLDGYL------FDRFVDLLGKVEAILTELHELVEDD 283
Cdd:COG1199  240 LLRL-LRELRKLGLRPGLKKLLDLLERLREALDDLflALEEEEELRLALgelpdePEELLEALDALRDALEALAEALEEE 318

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 284 RLTEAQVMKLADIIDTLH-NLSDYCGIMSQTQASTFIVQEKGEEFIRFKPVIASDVSEFGLFRKADYHVHMSAT--ICG- 359
Cdd:COG1199  319 LERLAELDALLERLEELLfALARFLRIAEDEGYVRWLEREGGDVRLHAAPLDPADLLRELLFSRARSVVLTSATlsVGGp 398

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 360 IDAYARSLGIrPGQYHKIQIGNPIPIENRKVNYMP-VMKMTNNMGDYEmRELAGFVDEIIQFHQGQSGIIHTvSYDRALA 438
Cdd:COG1199  399 FDYFARRLGL-DEDARTLSLPSPFDYENQALLYVPrDLPRPSDRDGYL-EAIAEAIAELLEASGGNTLVLFT-SYRALEQ 475

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 439 IqkFSKYRNIIHVP------RTRKALMElmdnAFRTKTPCII---ASPAmeEGYDFKGDYSRFQILIKVPYDYLGDPLV- 508
Cdd:COG1199  476 V--AELLRERLDIPvlvqgdGSREALLE----RFREGGNSVLvgtGSFW--EGVDLPGDALSLVIIVKLPFPPPDDPVLe 547

                        570       580       590       600       610
                 ....*....|....*....|....*....|....*....|....*....|
gi 543171828 509 AHINSVDpsAYFRN---------AILRIIQMCGRSVRGVNDWAATYILDS 549
Cdd:COG1199  548 ARREALE--ARGGNgfmyaylppAVIKLKQGAGRLIRSEEDRGVVVLLDR 595
HELICc2 smart00491
helicase superfamily c-terminal domain;
473-552 6.15e-11

helicase superfamily c-terminal domain;


Pssm-ID: 214694 [Multi-domain]  Cd Length: 142  Bit Score: 60.37  E-value: 6.15e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828   473 IIASPAMEEGYDFKGDYSRFQILIKVPYDYLGDPLV-AHINSVDPSA--------YFRNAILRIIQMCGRSVRGVNDWAA 543
Cdd:smart00491  53 AVARGKVSEGIDFPDDLGRAVIIVGIPFPNPDSPILrARLEYLDEKGgirpfdevYLFDAMRALAQAIGRAIRHKNDYGV 132


                   ....*....
gi 543171828   544 TYILDSSFE 552
Cdd:smart00491 133 VVLLDKRYA 141
Helicase_C_2 pfam13307
Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.
 479-568 3.52e-10

Helicase C-terminal domain; This domain is found at the C-terminus of DEAD-box helicases.


Pssm-ID: 463840 [Multi-domain]  Cd Length: 168  Bit Score: 59.11  E-value: 3.52e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  479 MEEGYDFKGDYSRFQILIKVPYDYLGDPLVA----HINSV--DPSAYFRN--AILRIIQMCGRSVRGVNDWAATYILDSS 550
Cdd:pfam13307  72 FSEGIDFPGDLLRAVIIVGLPFPNPDDPVVEakreYLDSKggNPFNEWYLpqAVRAVNQAIGRLIRHENDYGAIVLLDSR 151

                          90
                  ....*....|....*...
gi 543171828  551 FESlmMRNPEFFPTWFTE 568
Cdd:pfam13307 152 FLT--KRYGKLLPKWLPP 167
PRK08074 PRK08074
bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
 21-127 2.59e-05

bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated


Pssm-ID: 236148 [Multi-domain]  Cd Length: 928  Bit Score: 47.25  E-value: 2.59e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  21 EEIQKLAERYFPYDHANPGQMECIVEAIDALANKKfkHVIIEAPTGVGKSL--IGTTIHQVLRHlvleanpygQFRTSIS 98
Cdd:PRK08074 243 EKTEEKLSLAMPKYEKREGQQEMMKEVYTALRDSE--HALIEAGTGTGKSLayLLPAAYFAKKK---------EEPVVIS 311

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 543171828  99 TPTKGLQDQYAAEK----------AVAIDILKGKKNYRC 127
Cdd:PRK08074 312 TYTIQLQQQLLEKDipllqkifpfPVEAALLKGRSHYLC 350
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 24-76 1.29e-04

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 43.29  E-value: 1.29e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 543171828  24 QKLAERYFPYDHANPGQMEciveAIDALANKKfkHVIIEAPTGVGKSLI---------GTTI 76
Cdd:cd17920    1 EQILKEVFGYDEFRPGQLE----AINAVLAGR--DVLVVMPTGGGKSLCyqlpallldGVTL 56
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 57-215 1.42e-04

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


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 42.39  E-value: 1.42e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  57 KHVIIEAPTGVGKSLIGTTIhqvlrhLVLEANPYGqFRTSISTPTKGLQDQYAAE-KAVAidilkgKKNYRCHMhpdiyy 135
Cdd:cd00046    2 ENVLITAPTGSGKTLAALLA------ALLLLLKKG-KKVLVLVPTKALALQTAERlRELF------GPGIRVAV------ 62

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 136 navqcriacrdghCSKRRCPYVQARNLWTNISSLRCTNAamMIEMcttiCMKPENRA-----DMLILDECHKMPSTLLDH 210
Cdd:cd00046   63 -------------LVGGSSAEEREKNKLGDADIIIATPD--MLLN----LLLREDRLflkdlKLIIVDEAHALLIDSRGA 123


                 ....*
gi 543171828 211 TIMEY 215
Cdd:cd00046  124 LILDL 128
SF2_C_XPD cd18788
C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; ...
 479-551 7.74e-04

C-terminal helicase domain of xeroderma pigmentosum group D (XPD) family DEAD-like helicases; The xeroderma pigmentosum group D (XPD)-like family members are DEAD-box helicases belonging to superfamily (SF)2. This family includes DDX11 (also called ChlR1), a protein involved in maintaining chromosome transmission fidelity and genome stability, the TFIIH basal transcription factor complex XPD subunit, and FANCJ (also known as BRIP1), a DNA helicase required for the maintenance of chromosomal stability. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350175 [Multi-domain]  Cd Length: 159  Bit Score: 40.28  E-value: 7.74e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828 479 MEEGYDFKGDYSRFQILIKVPYDYLGDPLV-AHINSVDPS---------AYFRNAILRIIQMC-GRSVRGVNDWAATYIL 547
Cdd:cd18788   76 VSEGIDFSDDLGRAVIMVGIPYPNTKDPILkLKMDDLEYLrdkglltgeDWYTFQAMRAVNQAiGRAIRHKNDYGAIVLL 155


                 ....
gi 543171828 548 DSSF 551
Cdd:cd18788  156 DKRF 159
rad3 TIGR00604
DNA repair helicase (rad3); All proteins in this family for which funcitons are known are ...
 197-565 1.56e-03

DNA repair helicase (rad3); All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. 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: 273169 [Multi-domain]  Cd Length: 705  Bit Score: 41.24  E-value: 1.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  197 LDECHKMPSTLL--DHTIMEYNT--------KVLEGLRSL-------------PQGKDIVQAVVEIVSHCKDYELGKL-- 251
Cdd:TIGR00604 249 LKRCSKEIAEYFekIEERKEVDArklldelqKLVEGLKQEdlltdediflanpVLPKEVLPEAVPGNIRIAEIFLHKLsr 328

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  252 ---YSLDGYLFDRFVDLLGKveAILTELHELVEDDRLTEAQVMKLADIIDTLHNL--SDYCGIMSQTQASTFI-VQEKGE 325
Cdd:TIGR00604 329 yleYLKDALKVLGVVSELPD--AFLEHLKEKTFIDRPLRFCSERLSNLLRELEIThpEDFSALVLLFTFATLVlTYTNGF 406

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  326 EFIRF--------KPVI------ASDVSEFgLFRKADYHVHMSATICGIDAYARSLGIRPGQ----YHKIQIGNPIP-IE 386
Cdd:TIGR00604 407 LEGIEpyenktvpNPILkfmcldPSIALKP-LFERVRSVILASGTLSPLDAFPRNLGFNPVSqdspTHILKRENLLTlIV 485

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  387 NRKVNYMPV-MKMTNNMGDYEMRELAGFVDEIIQfHQGQSGIIHTVSYDRALAIQKFSKYRNII-HVPRTRKALMELMD- 463
Cdd:TIGR00604 486 TRGSDQVPLsSTFEIRNDPSLVRNLGELLVEFSK-IIPDGIVVFFPSYSYLENIVSTWKEMGILeNIEKKKLIFVETKDa 564

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828  464 ----NAFRT-KTPC---------IIASPAMEEGYDFKGDYSRFQILIKVPYDYLGDP-LVAH------INSVDPSAYF-R 521
Cdd:TIGR00604 565 qetsDALERyKQAVsegrgavllSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRiLLARleflrdQYPIRENQDFyE 644

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*
gi 543171828  522 NAILRIIQMC-GRSVRGVNDWAATYILDSSFESLMMRNPefFPTW 565
Cdd:TIGR00604 645 FDAMRAVNQAiGRVIRHKDDYGSIVLLDKRYARSNKRKK--LPKW 687
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
1-82 2.92e-03

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


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 40.69  E-value: 2.92e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828   1 MTAFNQHARALDTLRREIPieeiqklAERYFPYDhanPGQmeciVEAIDALANKKfkHVIIEAPTGVGKSLIGTT-IHQV 79
Cdd:COG4581    1 MTLSPARADARLEALADFA-------EERGFELD---PFQ----EEAILALEAGR--SVLVAAPTGSGKTLVAEFaIFLA 64


                 ...
gi 543171828  80 LRH 82
Cdd:COG4581   65 LAR 67
DEXDc2 smart00488
DEAD-like helicases superfamily;
30-71 5.33e-03

DEAD-like helicases superfamily;


Pssm-ID: 214693 [Multi-domain]  Cd Length: 289  Bit Score: 38.90  E-value: 5.33e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 543171828    30 YFPYDHAnPGQMECIVEAIDALANKKfkHVIIEAPTGVGKSL 71
Cdd:smart00488   4 YFPYEPY-PIQYEFMEELKRVLDRGK--IGILESPTGTGKTL 42
DEXDc smart00487
DEAD-like helicases superfamily;
29-111 9.31e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 37.86  E-value: 9.31e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543171828    29 RYFPYDHANPGQMECIVEAIdalanKKFKHVIIEAPTGVGKSLigttihQVLRHLVLEANPYGQFRTSISTPTKGLQDQY 108
Cdd:smart00487   2 EKFGFEPLRPYQKEAIEALL-----SGLRDVILAAPTGSGKTL------AALLPALEALKRGKGGRVLVLVPTRELAEQW 70


                   ...
gi 543171828   109 AAE 111
Cdd:smart00487  71 AEE 73
 
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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