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Conserved domains on  [gi|492518294|ref|WP_005873017|]
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AAA family ATPase [Schaalia georgiae]

Protein Classification

HelD family protein( domain architecture ID 11467728)

HelD family protein is an ATP-dependent motor protein distantly related to DEAD/DEAH box containing ATP-dependent DNA helicases that catalyze the unwinding of DNA; HelD is a transcription factor associated with genome maintenance and antibiotic resistance that specifically functions in the removal of stalled transcription complexes and the recycling of RNA polymerase

CATH:  3.40.50.300
EC:  3.6.4.-
Gene Ontology:  GO:0016887|GO:0003677|GO:0005524|GO:0003678
PubMed:  34964291|20206133|20225155|34964291

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HelD COG3973
DNA helicase IV [Replication, recombination and repair];
17-761 0e+00

DNA helicase IV [Replication, recombination and repair];


:

Pssm-ID: 443173 [Multi-domain]  Cd Length: 699  Bit Score: 643.07  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  17 EQDFVDEAYRRLDDLRAAYRERQARTHSAHGAGNAQAWTEREALSQHLGGMAARLEGVEERLVFGRLDM-----NDRTVR 91
Cdd:COG3973   11 EQAHLDEVYARLDELRAEAEERLAEARKEGWGGTPQALSERDAFAAHAERRLARLDRLEDSPYFGRIDFqeegeDDGETI 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  92 HVGRISMS-ADDGSPLLIDWRAPAAQPFYQATPVE----------PGGVVRRRHITTRQRTVTALEDELLDASDphgrnL 160
Cdd:COG3973   91 YIGRIGLTdEDDGEPLVVDWRAPIASPFYDATPGPasyeapggtiPGGVVRRRQYRIRGGKLTGVFDEVLDPDA-----A 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 161 ELAGEGALMSSLNAAREGRMSDIVATIQAEQDEIIRSPHRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSGVLLV 240
Cdd:COG3973  166 ALIGDEALQAALSRNRDGRMKDIVATIQAEQDRIIRADLRGVLVVQGGAGSGKTAVALHRAAYLLYTHRERLERGGVLIV 245

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 241 GPSRIFLRYIEAVLPSLGETGVVSRTMGSLVP---GVSATAVEDPALARLKGLPAWAGILREAVRRLAR-LPERDqaLRV 316
Cdd:COG3973  246 GPNRLFLDYISQVLPSLGEEGVVQTTFGDLVPellGVEATAEEDPEVARLKGSLRMAEVLDRAVRDLEReVPFED--IRV 323

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 317 WNRQVVLRRSDVERARRHAkRSGRPHNVAREGFARELMDVLAVRLAQEAGGADsegrvgKDDKSEWLAEIRDSVDARRAI 396
Cdd:COG3973  324 EGGEVILSAEEIAEAFYRA-RRSLPHNKRRERLRERLLDALKDQLAAELGKLW------DEERDELRRELRRSKPVRAAL 396

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 397 NLTWMPTSATTLLRRLYARPEALADANRRagspLRPDELRALARP----RSRPWTASDVALIDELEELLGPMpdpgaara 472
Cdd:COG3973  397 NRLWPFLDPAELYRDLFSDPELLARAAGW----LSPEERALLLRPtrelKKGRWTVADVALLDELAELLGGP-------- 464

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 473 rqdgaadvaraqaaiesqglgggivtaqmlaesaspqegwaplaeraanDRTWAYGHVVVDEAQELTAMEWRALLRRCPS 552
Cdd:COG3973  465 -------------------------------------------------DRTWTYGHVVVDEAQDLSPMQWRVLKRRFPS 495

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 553 RSFTVVGDLDQGR-GARRPGSWEEALGPAARALEKEYVLTVSYRTPRALTELAQAVVARAGSPVmYPMRAVRDVPDcySV 631
Cdd:COG3973  496 ASFTIVGDLAQAIhPYRGAESWEEVLEPLGGDRARLVELTKSYRSTAEIMEFANRVLRAAGPDL-PPPESVRRHGE--PP 572

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 632 EHIDAAGAYDGPSAPRERdplwgasqraaqraasrLNASDGAGAGRIAVIV-------GARRARTWGADA----DGDSAL 700
Cdd:COG3973  573 RVVRVPSEAELAAAVVEA-----------------VRELLAEGEGTIAVICktareaeALYAALKAGLPVtlidDESEEL 635

                        730       740       750       760       770       780
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492518294 701 EERVSVLSAGAAKGLEFDSVVLVEPCEILAD---GVGDLFVALTRATHDVRVVHSRSLPAGMEE 761
Cdd:COG3973  636 EAGVVVLPAYLAKGLEFDAVVVVDPDEIVYEsprGRRLLYVALTRATHRLTVLHTGELPPLLAG 699
 
Name Accession Description Interval E-value
HelD COG3973
DNA helicase IV [Replication, recombination and repair];
17-761 0e+00

DNA helicase IV [Replication, recombination and repair];


Pssm-ID: 443173 [Multi-domain]  Cd Length: 699  Bit Score: 643.07  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  17 EQDFVDEAYRRLDDLRAAYRERQARTHSAHGAGNAQAWTEREALSQHLGGMAARLEGVEERLVFGRLDM-----NDRTVR 91
Cdd:COG3973   11 EQAHLDEVYARLDELRAEAEERLAEARKEGWGGTPQALSERDAFAAHAERRLARLDRLEDSPYFGRIDFqeegeDDGETI 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  92 HVGRISMS-ADDGSPLLIDWRAPAAQPFYQATPVE----------PGGVVRRRHITTRQRTVTALEDELLDASDphgrnL 160
Cdd:COG3973   91 YIGRIGLTdEDDGEPLVVDWRAPIASPFYDATPGPasyeapggtiPGGVVRRRQYRIRGGKLTGVFDEVLDPDA-----A 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 161 ELAGEGALMSSLNAAREGRMSDIVATIQAEQDEIIRSPHRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSGVLLV 240
Cdd:COG3973  166 ALIGDEALQAALSRNRDGRMKDIVATIQAEQDRIIRADLRGVLVVQGGAGSGKTAVALHRAAYLLYTHRERLERGGVLIV 245

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 241 GPSRIFLRYIEAVLPSLGETGVVSRTMGSLVP---GVSATAVEDPALARLKGLPAWAGILREAVRRLAR-LPERDqaLRV 316
Cdd:COG3973  246 GPNRLFLDYISQVLPSLGEEGVVQTTFGDLVPellGVEATAEEDPEVARLKGSLRMAEVLDRAVRDLEReVPFED--IRV 323

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 317 WNRQVVLRRSDVERARRHAkRSGRPHNVAREGFARELMDVLAVRLAQEAGGADsegrvgKDDKSEWLAEIRDSVDARRAI 396
Cdd:COG3973  324 EGGEVILSAEEIAEAFYRA-RRSLPHNKRRERLRERLLDALKDQLAAELGKLW------DEERDELRRELRRSKPVRAAL 396

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 397 NLTWMPTSATTLLRRLYARPEALADANRRagspLRPDELRALARP----RSRPWTASDVALIDELEELLGPMpdpgaara 472
Cdd:COG3973  397 NRLWPFLDPAELYRDLFSDPELLARAAGW----LSPEERALLLRPtrelKKGRWTVADVALLDELAELLGGP-------- 464

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 473 rqdgaadvaraqaaiesqglgggivtaqmlaesaspqegwaplaeraanDRTWAYGHVVVDEAQELTAMEWRALLRRCPS 552
Cdd:COG3973  465 -------------------------------------------------DRTWTYGHVVVDEAQDLSPMQWRVLKRRFPS 495

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 553 RSFTVVGDLDQGR-GARRPGSWEEALGPAARALEKEYVLTVSYRTPRALTELAQAVVARAGSPVmYPMRAVRDVPDcySV 631
Cdd:COG3973  496 ASFTIVGDLAQAIhPYRGAESWEEVLEPLGGDRARLVELTKSYRSTAEIMEFANRVLRAAGPDL-PPPESVRRHGE--PP 572

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 632 EHIDAAGAYDGPSAPRERdplwgasqraaqraasrLNASDGAGAGRIAVIV-------GARRARTWGADA----DGDSAL 700
Cdd:COG3973  573 RVVRVPSEAELAAAVVEA-----------------VRELLAEGEGTIAVICktareaeALYAALKAGLPVtlidDESEEL 635

                        730       740       750       760       770       780
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492518294 701 EERVSVLSAGAAKGLEFDSVVLVEPCEILAD---GVGDLFVALTRATHDVRVVHSRSLPAGMEE 761
Cdd:COG3973  636 EAGVVVLPAYLAKGLEFDAVVVVDPDEIVYEsprGRRLLYVALTRATHRLTVLHTGELPPLLAG 699
HelD_BACSU NF041464
RNA polymerase recycling motor HelD (Bacillota-type);
179-259 6.96e-21

RNA polymerase recycling motor HelD (Bacillota-type);


Pssm-ID: 469352 [Multi-domain]  Cd Length: 772  Bit Score: 97.96  E-value: 6.96e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 179 RMSDIVATIQAEQDEIIRSPHRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSGVLLVGPSRIFLRYIEAVLPSLG 258
Cdd:NF041464 205 QMKSIVATIQKEQNQIIRNERSKLLIVQGAAGSGKTSAALQRVAYLLYRYRETLSAENIVLFSPNPLFNSYVATVLPELG 284


                 .
gi 492518294 259 E 259
Cdd:NF041464 285 E 285
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
 202-243 3.96e-05

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: 43.63  E-value: 3.96e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 492518294 202 LVVVQGGPGTGKTAVALHRVAYLLyaQRERLERSGVLLVGPS 243
Cdd:cd17914    1 LSLIQGPPGTGKTRVLVKIVAALM--QNKNGEPGRILLVTPT 40
UvrD_C_2 pfam13538
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...
 712-750 3.40e-04

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: 39.09  E-value: 3.40e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 492518294  712 AKGLEFDSVVLVEPCEILADGVGD----LFVALTRATHDVRVV 750
Cdd:pfam13538  10 AQGSEFPAVFLVDPDLTAHYHSMLrrrlLYTAVTRARKKLVLV 52
 
Name Accession Description Interval E-value
HelD COG3973
DNA helicase IV [Replication, recombination and repair];
17-761 0e+00

DNA helicase IV [Replication, recombination and repair];


Pssm-ID: 443173 [Multi-domain]  Cd Length: 699  Bit Score: 643.07  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  17 EQDFVDEAYRRLDDLRAAYRERQARTHSAHGAGNAQAWTEREALSQHLGGMAARLEGVEERLVFGRLDM-----NDRTVR 91
Cdd:COG3973   11 EQAHLDEVYARLDELRAEAEERLAEARKEGWGGTPQALSERDAFAAHAERRLARLDRLEDSPYFGRIDFqeegeDDGETI 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  92 HVGRISMS-ADDGSPLLIDWRAPAAQPFYQATPVE----------PGGVVRRRHITTRQRTVTALEDELLDASDphgrnL 160
Cdd:COG3973   91 YIGRIGLTdEDDGEPLVVDWRAPIASPFYDATPGPasyeapggtiPGGVVRRRQYRIRGGKLTGVFDEVLDPDA-----A 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 161 ELAGEGALMSSLNAAREGRMSDIVATIQAEQDEIIRSPHRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSGVLLV 240
Cdd:COG3973  166 ALIGDEALQAALSRNRDGRMKDIVATIQAEQDRIIRADLRGVLVVQGGAGSGKTAVALHRAAYLLYTHRERLERGGVLIV 245

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 241 GPSRIFLRYIEAVLPSLGETGVVSRTMGSLVP---GVSATAVEDPALARLKGLPAWAGILREAVRRLAR-LPERDqaLRV 316
Cdd:COG3973  246 GPNRLFLDYISQVLPSLGEEGVVQTTFGDLVPellGVEATAEEDPEVARLKGSLRMAEVLDRAVRDLEReVPFED--IRV 323

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 317 WNRQVVLRRSDVERARRHAkRSGRPHNVAREGFARELMDVLAVRLAQEAGGADsegrvgKDDKSEWLAEIRDSVDARRAI 396
Cdd:COG3973  324 EGGEVILSAEEIAEAFYRA-RRSLPHNKRRERLRERLLDALKDQLAAELGKLW------DEERDELRRELRRSKPVRAAL 396

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 397 NLTWMPTSATTLLRRLYARPEALADANRRagspLRPDELRALARP----RSRPWTASDVALIDELEELLGPMpdpgaara 472
Cdd:COG3973  397 NRLWPFLDPAELYRDLFSDPELLARAAGW----LSPEERALLLRPtrelKKGRWTVADVALLDELAELLGGP-------- 464

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 473 rqdgaadvaraqaaiesqglgggivtaqmlaesaspqegwaplaeraanDRTWAYGHVVVDEAQELTAMEWRALLRRCPS 552
Cdd:COG3973  465 -------------------------------------------------DRTWTYGHVVVDEAQDLSPMQWRVLKRRFPS 495

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 553 RSFTVVGDLDQGR-GARRPGSWEEALGPAARALEKEYVLTVSYRTPRALTELAQAVVARAGSPVmYPMRAVRDVPDcySV 631
Cdd:COG3973  496 ASFTIVGDLAQAIhPYRGAESWEEVLEPLGGDRARLVELTKSYRSTAEIMEFANRVLRAAGPDL-PPPESVRRHGE--PP 572

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 632 EHIDAAGAYDGPSAPRERdplwgasqraaqraasrLNASDGAGAGRIAVIV-------GARRARTWGADA----DGDSAL 700
Cdd:COG3973  573 RVVRVPSEAELAAAVVEA-----------------VRELLAEGEGTIAVICktareaeALYAALKAGLPVtlidDESEEL 635

                        730       740       750       760       770       780
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 492518294 701 EERVSVLSAGAAKGLEFDSVVLVEPCEILAD---GVGDLFVALTRATHDVRVVHSRSLPAGMEE 761
Cdd:COG3973  636 EAGVVVLPAYLAKGLEFDAVVVVDPDEIVYEsprGRRLLYVALTRATHRLTVLHTGELPPLLAG 699
HelD_BACSU NF041464
RNA polymerase recycling motor HelD (Bacillota-type);
179-259 6.96e-21

RNA polymerase recycling motor HelD (Bacillota-type);


Pssm-ID: 469352 [Multi-domain]  Cd Length: 772  Bit Score: 97.96  E-value: 6.96e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 179 RMSDIVATIQAEQDEIIRSPHRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSGVLLVGPSRIFLRYIEAVLPSLG 258
Cdd:NF041464 205 QMKSIVATIQKEQNQIIRNERSKLLIVQGAAGSGKTSAALQRVAYLLYRYRETLSAENIVLFSPNPLFNSYVATVLPELG 284


                 .
gi 492518294 259 E 259
Cdd:NF041464 285 E 285
COG3972 COG3972
Superfamily I DNA and RNA helicases [Replication, recombination and repair];
506-761 9.16e-10

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


Pssm-ID: 443172 [Multi-domain]  Cd Length: 565  Bit Score: 61.77  E-value: 9.16e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 506 ASPQEGWAPLAERAAN-----DRTWAYGHVVVDEAQELTAmEWRALLRRC---PSRSFTVVGDLDQGrgARRPGSWEEAL 577
Cdd:COG3972  263 SQPNEAFDEACKALLEaiqgeIIPPIYDAILIDEAQDFEP-EFLRLLYQLlkpPKKRLIWAYDEAQN--IYGRKIPSAGG 339

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 578 GPAARalEKEYVLTVSYRTPRALTELAQAVvaraGSPVMYPMRAVRDVPDCYSVEhidaagaYDGPSAPRERDPLWGASQ 657
Cdd:COG3972  340 IPAGI--GRDTILKKNYRNTRPILTFAHAF----GMGLLRPPGLLQGDAEDYEVE-------RPGDKVTLIRPPEPAGRK 406

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294 658 RAAQRAASRLNASDGAGA----------------GRIAVIV-GARRAR----------------TWGADADGDSALEER- 703
Cdd:COG3972  407 GPLPEFKKYDDRAEELEAiaeeikknlrdeglrpSDIAVIYlGNNEAKelgdrlaaalerqgidSYIAGARSDPNFFWKd 486

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 492518294 704 --VSVLSAGAAKGLEFDSVVLVEpCEILADGVGD------LFVALTRATHDVRVVHSRSLPAGMEE 761
Cdd:COG3972  487 ggVTISTIHRAKGLEAPVVIIVG-LDQLAKGESLerlrnlLYVAMTRARGWLVVSGSGESMAELYD 551
PksD COG3321
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites ...
 240-763 1.53e-09

Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites biosynthesis, transport and catabolism];


Pssm-ID: 442550 [Multi-domain]  Cd Length: 1386  Bit Score: 61.81  E-value: 1.53e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  240 VGPSRIFLRYIEAVLPSLGETGVVSrtmgSLVPGVSATAVEDPALARL--KGLP-AWAGILREAVRRLARLP----ERDQ 312
Cdd:COG3321   797 VGPGPVLTGLVRQCLAAAGDAVVLP----SLRRGEDELAQLLTALAQLwvAGVPvDWSALYPGRGRRRVPLPtypfQRED 872

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  313 ALRVWNRQVVLRRSDVERARRHAKRSGRPHNVAREGFARelmdVLAVRLAQEAGGADSEGRVGKDDKSEWLAEIRDSVDA 392
Cdd:COG3321   873 AAAALLAAALAAALAAAAALGALLLAALAAALAAALLAL----AAAAAAALALAAAALAALLALVALAAAAAALLALAAA 948

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  393 RRAINLTWMPTSATTLLRRLYARPEALADANRRAGSPLRPDELRALARPRSRPWTASDVALIDELEELLGPMPDPGAARA 472
Cdd:COG3321   949 AAAAAAALAAAEAGALLLLAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAALALLAAAALLLAAAAAAAALLALAALL 1028

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  473 RQDGAADVARAQAAIESQGLGGGIVTAQMLAESASPQEGWAPLAERAANDRTWAYGHVVVDEAQELTAMEWRALLRRCPS 552
Cdd:COG3321  1029 AAAAAALAAAAAAAAAAAALAALAAAAAAAAALALALAALLLLAALAELALAAAALALAAALAAAALALALAALAAALLL 1108

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  553 RSFTVVGDLDQGRGARRPGSWEEALGPAARALEKEYVLTVSYRTPRALTELAQAVVARAGSPVMYPMRAVRDVPDCYSVE 632
Cdd:COG3321  1109 LALLAALALAAAAAALLALAALLAAAAAAAALAAAAAAAAALALAAAAAALAAALAAALLAAAALLLALALALAAALAAA 1188

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  633 HIDAAGAYDGPSAPRERDPLWGASQRAAQRAASRLNASDGAGAGRIAVIVGARRARTWGADADGDSALEERVSVLSAGAA 712
Cdd:COG3321  1189 LAGLAALLLAALLAALLAALLALALAALAAAAAALLAAAAAAAALALLALAAAAAAVAALAAAAAALLAALAALALLAAA 1268

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|.
gi 492518294  713 KGLEFDSVVLVEPCEILADGVGDLFVALTRATHDVRVVHSRSLPAGMEEWA 763
Cdd:COG3321  1269 AGLAALAAAAAAAAAALALAAAAAAAAAALAALLAAAAAAAAAAAAAAAAA 1319
PksD COG3321
Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites ...
 228-750 3.26e-05

Acyl transferase domain in polyketide synthase (PKS) enzymes [Secondary metabolites biosynthesis, transport and catabolism];


Pssm-ID: 442550 [Multi-domain]  Cd Length: 1386  Bit Score: 47.56  E-value: 3.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  228 QRERLERSGVLLVGPSRIFLRyiEAVLPSLGETGVVSRTMGSLVPGVSATAVEDPALARLKGLPAWAGILREAVRRLARL 307
Cdd:COG3321   869 QREDAAAALLAAALAAALAAA--AALGALLLAALAAALAAALLALAAAAAAALALAAAALAALLALVALAAAAAALLALA 946

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  308 PERDQALRVWNRQVVLRRSDVERARRHAKRSGRPHNVAREGFARELMDVLAVRLAQEAGGADSEGRVGKDDKSEWLAEIR 387
Cdd:COG3321   947 AAAAAAAAALAAAEAGALLLLAAAAAAAAAAAAAAAAAAAAAAAAAAAALAAAAALALLAAAALLLAAAAAAAALLALAA 1026

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  388 DSVDARRAINLTWMPTSATTLLRRLYARPEALADANRRAGSPLRPDELRALARPRSRPWTASDVALIDELEELLGPMPDP 467
Cdd:COG3321  1027 LLAAAAAALAAAAAAAAAAAALAALAAAAAAAAALALALAALLLLAALAELALAAAALALAAALAAAALALALAALAAAL 1106

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  468 GAARARQDGAADVA-RAQAAIESQGLGGGIVTAQMLAESASPQEGWAPLAERAANDRTWAYGHVVVDEAQELTAMEWRAL 546
Cdd:COG3321  1107 LLLALLAALALAAAaAALLALAALLAAAAAAAALAAAAAAAAALALAAAAAALAAALAAALLAAAALLLALALALAAALA 1186

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  547 LRRCPSRSFTVVGDLDQGRGARRPGSWEEALGPAARALEKEYVLTVSYRTPRALTELAQAVVARAGSPVMYPMRAVRDVP 626
Cdd:COG3321  1187 AALAGLAALLLAALLAALLAALLALALAALAAAAAALLAAAAAAAALALLALAAAAAAVAALAAAAAALLAALAALALLA 1266

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  627 DCYSVEHIDAAGAydgpSAPRERDPLWGASQRAAQRAASRLNASDGAGAGRIAVIVGARRARTWGADADGDSALEERVSV 706
Cdd:COG3321  1267 AAAGLAALAAAAA----AAAAALALAAAAAAAAAALAALLAAAAAAAAAAAAAAAAAALAAALLAAALAALAAAVAAALA 1342

                         490       500       510       520
                  ....*....|....*....|....*....|....*....|....
gi 492518294  707 LSAGAAKGLEFDSVVLVEPCEILADGVGDLFVALTRATHDVRVV 750
Cdd:COG3321  1343 LAAAAAAAAAAAAAAAAAAALAAAAGAAAAAAALALAALAAAVA 1386
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
 202-243 3.96e-05

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: 43.63  E-value: 3.96e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 492518294 202 LVVVQGGPGTGKTAVALHRVAYLLyaQRERLERSGVLLVGPS 243
Cdd:cd17914    1 LSLIQGPPGTGKTRVLVKIVAALM--QNKNGEPGRILLVTPT 40
DEXQc_UvrD cd17932
DEXQD-box helicase domain of UvrD; UvrD is a highly conserved helicase involved in mismatch ...
 189-225 9.29e-05

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: 44.04  E-value: 9.29e-05
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 492518294 189 AEQDEIIRSPhRGLVVVQGGPGTGKTAVALHRVAYLL 225
Cdd:cd17932    2 PEQREAVTHP-DGPLLVLAGAGSGKTRVLTHRIAYLI 37
UvrD_C_2 pfam13538
UvrD-like helicase C-terminal domain; This domain is found at the C-terminus of a wide variety ...
 712-750 3.40e-04

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: 39.09  E-value: 3.40e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 492518294  712 AKGLEFDSVVLVEPCEILADGVGD----LFVALTRATHDVRVV 750
Cdd:pfam13538  10 AQGSEFPAVFLVDPDLTAHYHSMLrrrlLYTAVTRARKKLVLV 52
UvrD-helicase pfam00580
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ...
 190-225 3.94e-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: 43.00  E-value: 3.94e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 492518294  190 EQDEIIRSPHRGLVVVqGGPGTGKTAVALHRVAYLL 225
Cdd:pfam00580   4 EQRKAVTHLGGPLLVL-AGAGSGKTRVLTERIAYLI 38
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 202-243 8.45e-04

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to 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: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 39.91  E-value: 8.45e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 492518294 202 LVVVQGGPGTGKTAVALHRVAYLLYAQRERlersGVLLVGPS 243
Cdd:cd17934    1 ISLIQGPPGTGKTTTIAAIVLQLLKGLRGK----RVLVTAQS 38
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 191-337 9.80e-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.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 41.56  E-value: 9.80e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  191 QDEIIRSP--HRGLVVVQGGPGTGKTAVALHRVAYLLYAQRERLERSG-VLLVGPSR-----IFLRYIeavlpSLGETGV 262
Cdd:pfam13086   2 QREAIRSAlsSSHFTLIQGPPGTGKTTTIVELIRQLLSYPATSAAAGPrILVCAPSNaavdnILERLL-----RKGQKYG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492518294  263 VS--RTM--GSLVPGVSATAVEDPALARLKGLPAWAGI-----LREAVRRLARLPERDQALRVWNRQVVLRRSDVERARR 333
Cdd:pfam13086  77 PKivRIGhpAAISEAVLPVSLDYLVESKLNNEEDAQIVkdiskELEKLAKALRAFEKEIIVEKLLKSRNKDKSKLEQERR 156


                  ....
gi 492518294  334 HAKR 337
Cdd:pfam13086 157 KLRS 160
DUF2075 pfam09848
Schlafen group 3, DNA/RNA helicase domain; This domain is found in at the C terminus of group ...
 200-241 1.46e-03

Schlafen group 3, DNA/RNA helicase domain; This domain is found in at the C terminus of group 3 Schlafen proteins from mammals, and represents the DNA/RNA helicase domain. Schlafen proteins are involved in the control of cell proliferation, induction of immune responses, and in the regulation of viral replication. These proteins inhibit DNA replication and promote cell death in response to DNA damage. They play a role in genome surveillance to kill cells with defective replication. This domain is also found in various uncharacterized prokaryotic proteins fused to a DNA helicase, GIY-YIG or PD-(D/E)XK catalytic domain or HsdR-N(terminal) domain, which are similar to AAA DNA helicase, Type III restriction enzyme ATPase, RecD and RuvB helicase.


Pssm-ID: 430875 [Multi-domain]  Cd Length: 355  Bit Score: 41.50  E-value: 1.46e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 492518294  200 RGLVVVQGGPGTGKTAVALHRVAYLlyaQRERLERSGVLLVG 241
Cdd:pfam09848   1 KAVFLVTGGPGTGKTVIGLNLFAEL---EDSDLGRTAVYLSG 39
UvrD COG0210
Superfamily I DNA or RNA helicase [Replication, recombination and repair];
190-244 2.96e-03

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


Pssm-ID: 439980 [Multi-domain]  Cd Length: 721  Bit Score: 41.07  E-value: 2.96e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 492518294 190 EQDEIIRSPHRGLVVVqGGPGTGKTAVALHRVAYLLyaQRERLERSGVLLVGPSR 244
Cdd:COG0210   10 EQRAAVEHPEGPLLVL-AGAGSGKTRVLTHRIAYLI--AEGGVDPEQILAVTFTN 61
AAA_19 pfam13245
AAA domain;
191-244 3.51e-03

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 38.35  E-value: 3.51e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 492518294  191 QDEIIRSP-HRGLVVVQGGPGTGKTAVALHRVAYLLyaqRERLERSGVLLVGPSR 244
Cdd:pfam13245   1 QREAVRTAlPSKVVLLTGGPGTGKTTTIRHIVALLV---ALGGVSFPILLAAPTG 52
 
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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