NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|497331200|ref|WP_009645413|]
View 

DNA replication/repair protein RecF [Selenomonas sp. CM52]

Protein Classification

DNA replication/repair protein RecF( domain architecture ID 11439814)

DNA replication/repair protein RecF is required for DNA replication and normal SOS inducibility; it binds preferentially to single-stranded, linear DNA

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
4-353 1.36e-149

Recombinational DNA repair ATPase RecF [Replication, recombination and repair];


:

Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 426.11  E-value: 1.36e-149
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENTL 83
Cdd:COG1195    3 KRLSLTNFRNYESLELEFSPGINVLVGPNGQGKTNLLEAIYLLATGRSFRTARDAELIRFGADGFRVRAEVERDGREVRL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  84 EFQFQRGRRRSIRKNGEPIKT-KELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQRNS 162
Cdd:COG1195   83 GLGLSRGGKKRVRINGKPVRRlSDLAGLLPVVLFSPEDLRLVKGGPSERRRFLDRLLFQLDPRYLDALSRYERALKQRNA 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 163 LLKKIRERRagKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYELCGAEEeppcvTEELVP 242
Cdd:COG1195  163 LLKQGREAD--LALLDVWDEQLAELGAAIIAARLAFLERLAPLFAEIYAALSGGKEELELRYRSGWLYE-----SAELEE 235

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 243 WYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVMSEL 322
Cdd:COG1195  236 ALLEALAENRERDLARGRTLVGPHRDDLEFTLNGKPAKKFASQGQQKSLVLALKLAQAELLKEETGEAPILLLDDVFAEL 315

                        330       340       350
                 ....*....|....*....|....*....|.
gi 497331200 323 DGTRREKLLGFIGREHIQTLLTATDAAYLPE 353
Cdd:COG1195  316 DEERREALLELLADLGGQVFITTTDPEDFPA 346
 
Name Accession Description Interval E-value
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
4-353 1.36e-149

Recombinational DNA repair ATPase RecF [Replication, recombination and repair];


Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 426.11  E-value: 1.36e-149
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENTL 83
Cdd:COG1195    3 KRLSLTNFRNYESLELEFSPGINVLVGPNGQGKTNLLEAIYLLATGRSFRTARDAELIRFGADGFRVRAEVERDGREVRL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  84 EFQFQRGRRRSIRKNGEPIKT-KELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQRNS 162
Cdd:COG1195   83 GLGLSRGGKKRVRINGKPVRRlSDLAGLLPVVLFSPEDLRLVKGGPSERRRFLDRLLFQLDPRYLDALSRYERALKQRNA 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 163 LLKKIRERRagKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYELCGAEEeppcvTEELVP 242
Cdd:COG1195  163 LLKQGREAD--LALLDVWDEQLAELGAAIIAARLAFLERLAPLFAEIYAALSGGKEELELRYRSGWLYE-----SAELEE 235

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 243 WYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVMSEL 322
Cdd:COG1195  236 ALLEALAENRERDLARGRTLVGPHRDDLEFTLNGKPAKKFASQGQQKSLVLALKLAQAELLKEETGEAPILLLDDVFAEL 315

                        330       340       350
                 ....*....|....*....|....*....|.
gi 497331200 323 DGTRREKLLGFIGREHIQTLLTATDAAYLPE 353
Cdd:COG1195  316 DEERREALLELLADLGGQVFITTTDPEDFPA 346
recF PRK00064
recombination protein F; Reviewed
 1-367 1.65e-136

recombination protein F; Reviewed


Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 392.98  E-value: 1.65e-136
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVE 80
Cdd:PRK00064   1 MYLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVIHGRVEKGGRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  81 NTLEFQFQRGRRRSIRKNGEPI-KTKELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQ 159
Cdd:PRK00064  81 LPLGLEIDKKGGRKVRINGEPQrKLAELAGLLNVVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 160 RNSLLKKIRERragkeMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYElCGAEEEPpcvtEE 239
Cdd:PRK00064 161 RNALLKQADYA-----WLDVWDEQLAELGAAIAAARLEYLERLAPLAAKTHQEISPEFELASLSYQ-SSVEDDA----EK 230

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 240 LVPWYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVM 319
Cdd:PRK00064 231 IEEDLLEALAKNRERDRARGRTLVGPHRDDLRFRINGLPAADFGSTGQQKLLLLALKLAEAELLKEETGEAPILLLDDVA 310

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 497331200 320 SELDGTRREKLLGFIGREHIQTLLTATDAAYLPEKFMG-NIFHVRAGKI 367
Cdd:PRK00064 311 SELDDGRRAALLERLKGLGAQVFITTTDLEDLADLLENaKIFHVEQGKI 359
recf TIGR00611
recF protein; All proteins in this family for which functions are known are DNA binding ...
 1-367 3.59e-116

recF protein; All proteins in this family for which functions are known are DNA binding proteins that assist the filamentation of RecA onto DNA for the initiation of recombination or 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: 273173 [Multi-domain]  Cd Length: 365  Bit Score: 341.64  E-value: 3.59e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200    1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVE 80
Cdd:TIGR00611   1 MYLSRLELTDFRNYDAVDLELSPGVNVIVGPNGQGKTNLLEAIYYLALGRSHRTSRDKPLIRFGAEAFVIEGRVSKGDRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   81 NTLEFQFQRGRR-RSIRKNGEPI-KTKELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILT 158
Cdd:TIGR00611  81 VTIPLEGLLKKKgKKAKVNIDGQdKLSDLAGLLPMQLFAPEDLTLVKGSPKYRRRFLDWGLFQVEPVYLSAWSDYQRVLK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  159 QRNSLLKKIRERRAGKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYELCGAEEEppcvTE 238
Cdd:TIGR00611 161 QRNAALKQAQRQYGDRTTLEVWDSQLAELGAKVSAWRAEFIEKLEPEAQKAHQLLLPELESLSLFYRGELWDKE----TD 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  239 elvpwYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDV 318
Cdd:TIGR00611 237 -----YAEALARNFERDLERGYTLVGPHRDDLRFRLNGLPVEDFASQGQLRSLALALRLAEGELLREEGGEYPILLLDDV 311

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....
gi 497331200  319 MSELDGTRREKLLGFIGREHIQTLLTATDAAYLPEKFMGN-----IFHVRAGKI 367
Cdd:TIGR00611 312 ASELDDQRRRLLAELLQSLGVQVFVTAISLDHLKEMWDPNrvtiaLVSVDRGTI 365
ABC_RecF cd03242
ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that ...
 4-367 1.39e-93

ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases with a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213209 [Multi-domain]  Cd Length: 270  Bit Score: 280.72  E-value: 1.39e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENTL 83
Cdd:cd03242    2 KSLELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIRWGAEEAKISAVLERQGGELAL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  84 EFQFQRGRRRSIRKNGEPIKTK-ELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQRNS 162
Cdd:cd03242   82 ELTIRSGGGRKARLNGIKVRRLsDLLGVLNAVWFAPEDLELVKGSPADRRRFLDRLLGQLEPAYAHVLSEYQKALRQRNA 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 163 LLKkirerragkemlslwdeqlaksaahivekrflavkklnmlanlmqrrisagkenlslsyelcgaeeeppcvteelvp 242
Cdd:cd03242  162 LLK----------------------------------------------------------------------------- 164

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 243 wynkkleesldldvlrgstsvGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVMSEL 322
Cdd:cd03242  165 ---------------------GPHRDDLLFFLNDKPAADFGSQGQQRTLALALKLAEIQLIKEVSGEYPVLLLDDVLAEL 223

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*...
gi 497331200 323 DGTRREKLLGFI-GREhiQTLLTATDAAYLPEKFMG--NIFHVRAGKI 367
Cdd:cd03242  224 DLGRQAALLDAIeGRV--QTFVTTTDLADFDALWLRraQIFRVDAGTL 269
AAA_23 pfam13476
AAA domain;
6-110 2.02e-07

AAA domain;


Pssm-ID: 463890 [Multi-domain]  Cd Length: 190  Bit Score: 50.57  E-value: 2.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200    6 LRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTN---------ADADLIAWDAPAAKIELLFER 76
Cdd:pfam13476   1 LTIENFRSFRDQTIDFSKGLTLITGPNGSGKTTILDAIKLALYGKTSRLKrksgggfvkGDIRIGLEGKGKAYVEITFEN 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 497331200   77 LDVENTLEFQFqrgRRRSIRKNGEPIKTKELFGV 110
Cdd:pfam13476  81 NDGRYTYAIER---SRELSKKKGKTKKKEILEIL 111
 
Name Accession Description Interval E-value
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
4-353 1.36e-149

Recombinational DNA repair ATPase RecF [Replication, recombination and repair];


Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 426.11  E-value: 1.36e-149
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENTL 83
Cdd:COG1195    3 KRLSLTNFRNYESLELEFSPGINVLVGPNGQGKTNLLEAIYLLATGRSFRTARDAELIRFGADGFRVRAEVERDGREVRL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  84 EFQFQRGRRRSIRKNGEPIKT-KELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQRNS 162
Cdd:COG1195   83 GLGLSRGGKKRVRINGKPVRRlSDLAGLLPVVLFSPEDLRLVKGGPSERRRFLDRLLFQLDPRYLDALSRYERALKQRNA 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 163 LLKKIRERRagKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYELCGAEEeppcvTEELVP 242
Cdd:COG1195  163 LLKQGREAD--LALLDVWDEQLAELGAAIIAARLAFLERLAPLFAEIYAALSGGKEELELRYRSGWLYE-----SAELEE 235

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 243 WYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVMSEL 322
Cdd:COG1195  236 ALLEALAENRERDLARGRTLVGPHRDDLEFTLNGKPAKKFASQGQQKSLVLALKLAQAELLKEETGEAPILLLDDVFAEL 315

                        330       340       350
                 ....*....|....*....|....*....|.
gi 497331200 323 DGTRREKLLGFIGREHIQTLLTATDAAYLPE 353
Cdd:COG1195  316 DEERREALLELLADLGGQVFITTTDPEDFPA 346
recF PRK00064
recombination protein F; Reviewed
 1-367 1.65e-136

recombination protein F; Reviewed


Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 392.98  E-value: 1.65e-136
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVE 80
Cdd:PRK00064   1 MYLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVIHGRVEKGGRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  81 NTLEFQFQRGRRRSIRKNGEPI-KTKELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQ 159
Cdd:PRK00064  81 LPLGLEIDKKGGRKVRINGEPQrKLAELAGLLNVVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 160 RNSLLKKIRERragkeMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYElCGAEEEPpcvtEE 239
Cdd:PRK00064 161 RNALLKQADYA-----WLDVWDEQLAELGAAIAAARLEYLERLAPLAAKTHQEISPEFELASLSYQ-SSVEDDA----EK 230

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 240 LVPWYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVM 319
Cdd:PRK00064 231 IEEDLLEALAKNRERDRARGRTLVGPHRDDLRFRINGLPAADFGSTGQQKLLLLALKLAEAELLKEETGEAPILLLDDVA 310

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 497331200 320 SELDGTRREKLLGFIGREHIQTLLTATDAAYLPEKFMG-NIFHVRAGKI 367
Cdd:PRK00064 311 SELDDGRRAALLERLKGLGAQVFITTTDLEDLADLLENaKIFHVEQGKI 359
recf TIGR00611
recF protein; All proteins in this family for which functions are known are DNA binding ...
 1-367 3.59e-116

recF protein; All proteins in this family for which functions are known are DNA binding proteins that assist the filamentation of RecA onto DNA for the initiation of recombination or 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: 273173 [Multi-domain]  Cd Length: 365  Bit Score: 341.64  E-value: 3.59e-116
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200    1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVE 80
Cdd:TIGR00611   1 MYLSRLELTDFRNYDAVDLELSPGVNVIVGPNGQGKTNLLEAIYYLALGRSHRTSRDKPLIRFGAEAFVIEGRVSKGDRE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   81 NTLEFQFQRGRR-RSIRKNGEPI-KTKELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILT 158
Cdd:TIGR00611  81 VTIPLEGLLKKKgKKAKVNIDGQdKLSDLAGLLPMQLFAPEDLTLVKGSPKYRRRFLDWGLFQVEPVYLSAWSDYQRVLK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  159 QRNSLLKKIRERRAGKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKENLSLSYELCGAEEEppcvTE 238
Cdd:TIGR00611 161 QRNAALKQAQRQYGDRTTLEVWDSQLAELGAKVSAWRAEFIEKLEPEAQKAHQLLLPELESLSLFYRGELWDKE----TD 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  239 elvpwYNKKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDV 318
Cdd:TIGR00611 237 -----YAEALARNFERDLERGYTLVGPHRDDLRFRLNGLPVEDFASQGQLRSLALALRLAEGELLREEGGEYPILLLDDV 311

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....
gi 497331200  319 MSELDGTRREKLLGFIGREHIQTLLTATDAAYLPEKFMGN-----IFHVRAGKI 367
Cdd:TIGR00611 312 ASELDDQRRRLLAELLQSLGVQVFVTAISLDHLKEMWDPNrvtiaLVSVDRGTI 365
ABC_RecF cd03242
ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that ...
 4-367 1.39e-93

ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication fork, allowing it to resume and complete its task. This CD represents the nucleotide binding domain of RecF. RecF belongs to a large superfamily of ABC transporters involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases with a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213209 [Multi-domain]  Cd Length: 270  Bit Score: 280.72  E-value: 1.39e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENTL 83
Cdd:cd03242    2 KSLELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIRWGAEEAKISAVLERQGGELAL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  84 EFQFQRGRRRSIRKNGEPIKTK-ELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTRILTQRNS 162
Cdd:cd03242   82 ELTIRSGGGRKARLNGIKVRRLsDLLGVLNAVWFAPEDLELVKGSPADRRRFLDRLLGQLEPAYAHVLSEYQKALRQRNA 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 163 LLKkirerragkemlslwdeqlaksaahivekrflavkklnmlanlmqrrisagkenlslsyelcgaeeeppcvteelvp 242
Cdd:cd03242  162 LLK----------------------------------------------------------------------------- 164

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 243 wynkkleesldldvlrgstsvGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLLLDDVMSEL 322
Cdd:cd03242  165 ---------------------GPHRDDLLFFLNDKPAADFGSQGQQRTLALALKLAEIQLIKEVSGEYPVLLLDDVLAEL 223

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*...
gi 497331200 323 DGTRREKLLGFI-GREhiQTLLTATDAAYLPEKFMG--NIFHVRAGKI 367
Cdd:cd03242  224 DLGRQAALLDAIeGRV--QTFVTTTDLADFDALWLRraQIFRVDAGTL 269
recF PRK14079
recombination protein F; Provisional
 1-349 5.47e-57

recombination protein F; Provisional


Pssm-ID: 184491 [Multi-domain]  Cd Length: 349  Bit Score: 189.23  E-value: 5.47e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNAdADLIAWDAPAAkiellFERLDVE 80
Cdd:PRK14079   1 MRLLSLRQLNYRNLAPPTLAFPPGVTAVVGENAAGKTNLLEAIYLALTGELPNGRL-ADLVRFGEGEA-----WVHAEVE 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  81 -----NTLEFQFQRGRRrSIRKNGEPIKTKELFGVFNAVLFSPEDLFLIKGAPAERRRFLDGEISQASPAYGHELMQYTR 155
Cdd:PRK14079  75 tggglSRLEVGLGPGRR-ELKLDGVRVSLRELARLPGAVLIRPEDLELVLGPPEGRRAYLDRLLSRLSARYAALLSAYER 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 156 ILTQRNSLLKKirerrAGKEMLSLWDEQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKE-NLSLSyelcgaEEEPP 234
Cdd:PRK14079 154 AVQQRNAALKS-----GGGWGLHVWDDELVKLGDEIMALRRRALTRLSELAREAYAELGSRKPlRLELS------ESTAP 222

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200 235 cvtEELVPwynkKLEESLDLDVLRGSTSVGPQRDDIRLEVNGVNLRSFGSQGQQRTGVLALKLSELEFLRSETGEYPVLL 314
Cdd:PRK14079 223 ---EGYLA----ALEARRAEELARGATVVGPHRDDLVLTLEGRPAHRYASRGEARTVALALRLAEHRLLWEHFGEAPVLL 295

                        330       340       350
                 ....*....|....*....|....*....|....*
gi 497331200 315 LDDVMSELDGTRREKLLGFIGREHiQTLLTATDAA 349
Cdd:PRK14079 296 VDDFTAELDPRRRGALLALAASLP-QAIVAGTEAP 329
YbjD COG3593
Predicted ATP-dependent endonuclease of the OLD family, contains P-loop ATPase and TOPRIM ...
 1-114 2.06e-09

Predicted ATP-dependent endonuclease of the OLD family, contains P-loop ATPase and TOPRIM domains [Replication, recombination and repair];


Pssm-ID: 442812 [Multi-domain]  Cd Length: 359  Bit Score: 58.48  E-value: 2.06e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWD---APAAKIELLFERL 77
Cdd:COG3593    1 MKLEKIKIKNFRSIKDLSIELSDDLTVLVGENNSGKSSILEALRLLLGPSSSRKFDEEDFYLGDdpdLPEIEIELTFGSL 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 497331200  78 dVENTLEFQFQRGRRRSIRKNGEPIKtKELFGVFNAV 114
Cdd:COG3593   81 -LSRLLRLLLKEEDKEELEEALEELN-EELKEALKAL 115
SbcC COG0419
DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair];
2-110 1.41e-07

DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair];


Pssm-ID: 440188 [Multi-domain]  Cd Length: 204  Bit Score: 51.55  E-value: 1.41e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   2 KAKSLRLKCFRNY-EELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRT-NADADLIAWDAPAAKIELLFERLDV 79
Cdd:COG0419    1 KLLRLRLENFRSYrDTETIDFDDGLNLIVGPNGAGKSTILEAIRYALYGKARSRsKLRSDLINVGSEEASVELEFEHGGK 80

                         90       100       110
                 ....*....|....*....|....*....|...
gi 497331200  80 ENTLEFqFQRGRRRSIRKNGEPIKT--KELFGV 110
Cdd:COG0419   81 RYRIER-RQGEFAEFLEAKPSERKEalKRLLGL 112
AAA_23 pfam13476
AAA domain;
6-110 2.02e-07

AAA domain;


Pssm-ID: 463890 [Multi-domain]  Cd Length: 190  Bit Score: 50.57  E-value: 2.02e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200    6 LRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTN---------ADADLIAWDAPAAKIELLFER 76
Cdd:pfam13476   1 LTIENFRSFRDQTIDFSKGLTLITGPNGSGKTTILDAIKLALYGKTSRLKrksgggfvkGDIRIGLEGKGKAYVEITFEN 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 497331200   77 LDVENTLEFQFqrgRRRSIRKNGEPIKTKELFGV 110
Cdd:pfam13476  81 NDGRYTYAIER---SRELSKKKGKTKKKEILEIL 111
PRK02224 PRK02224
DNA double-strand break repair Rad50 ATPase;
1-133 2.36e-07

DNA double-strand break repair Rad50 ATPase;


Pssm-ID: 179385 [Multi-domain]  Cd Length: 880  Bit Score: 52.73  E-value: 2.36e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVE 80
Cdd:PRK02224   1 MRFDRVRLENFKCYADADLRLEDGVTVIHGVNGSGKSSLLEACFFALYGSKALDDTLDDVITIGAEEAEIELWFEHAGGE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 497331200  81 NTLEfqfqrgrrRSIRKNGEPIKTKElfgvfnAVLFSPEDlfLIKGAPAERRR 133
Cdd:PRK02224  81 YHIE--------RRVRLSGDRATTAK------CVLETPEG--TIDGARDVREE 117
COG3950 COG3950
Predicted ATP-binding protein involved in virulence [General function prediction only];
1-46 2.42e-07

Predicted ATP-binding protein involved in virulence [General function prediction only];


Pssm-ID: 443150 [Multi-domain]  Cd Length: 276  Bit Score: 51.54  E-value: 2.42e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLS--PNINVFLGENAQGKTNIAEALYYA 46
Cdd:COG3950    1 MRIKSLTIENFRGFEDLEIDFDnpPRLTVLVGENGSGKTTLLEAIALA 48
AAA_15 pfam13175
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 1-45 4.86e-07

AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 433011 [Multi-domain]  Cd Length: 392  Bit Score: 51.06  E-value: 4.86e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 497331200    1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYY 45
Cdd:pfam13175   1 MKIKSIIIKNFRCLKDTEIDLDEDLTVLIGKNNSGKSSILEALDI 45
PRK01156 PRK01156
chromosome segregation protein; Provisional
 1-136 1.75e-05

chromosome segregation protein; Provisional


Pssm-ID: 100796 [Multi-domain]  Cd Length: 895  Bit Score: 46.82  E-value: 1.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   1 MKAKSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRShRTNADADLIAWDAPAAKIELLF----ER 76
Cdd:PRK01156   1 MIIKRIRLKNFLSHDDSEIEFDTGINIITGKNGAGKSSIVDAIRFALFTDK-RTEKIEDMIKKGKNNLEVELEFriggHV 79

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497331200  77 LDVENTLEfQFQRGRRRS--IRKNGEPIK----------TKELFG----VFNAVLFSPEDLF--LIKGAPAERRRFLD 136
Cdd:PRK01156  80 YQIRRSIE-RRGKGSRREayIKKDGSIIAegfddttkyiEKNILGiskdVFLNSIFVGQGEMdsLISGDPAQRKKILD 156
COG4637 COG4637
Predicted ATPase [General function prediction only];
4-43 2.56e-05

Predicted ATPase [General function prediction only];


Pssm-ID: 443675 [Multi-domain]  Cd Length: 371  Bit Score: 45.69  E-value: 2.56e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPnINVFLGENAQGKTNIAEAL 43
Cdd:COG4637    3 TRIRIKNFKSLRDLELPLGP-LTVLIGANGSGKSNLLDAL 41
COG4938 COG4938
Predicted ATPase [General function prediction only];
4-44 5.08e-04

Predicted ATPase [General function prediction only];


Pssm-ID: 443965 [Multi-domain]  Cd Length: 277  Bit Score: 41.49  E-value: 5.08e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 497331200   4 KSLRLKCFRNYEELDLSLSPnINVFLGENAQGKTNIAEALY 44
Cdd:COG4938    2 KSISIKNFGPFKEAELELKP-LTLLIGPNGSGKSTLIQALL 41
ABC_Class2 cd03227
ATP-binding cassette domain of non-transporter proteins; ABC-type Class 2 contains systems ...
 5-77 1.28e-03

ATP-binding cassette domain of non-transporter proteins; ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterized by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.


Pssm-ID: 213194 [Multi-domain]  Cd Length: 162  Bit Score: 39.27  E-value: 1.28e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497331200   5 SLRLKCFRNY-EELDLSL-SPNINVFLGENAQGKTNIAEALYYAAIGRSHRTNA-DADLIAWDAPAAKIELLFERL 77
Cdd:cd03227    1 KIVLGRFPSYfVPNDVTFgEGSLTIITGPNGSGKSTILDAIGLALGGAQSATRRrSGVKAGCIVAAVSAELIFTRL 76
COG1106 COG1106
ATPase/GTPase, AAA15 family [General function prediction only];
9-47 2.17e-03

ATPase/GTPase, AAA15 family [General function prediction only];


Pssm-ID: 440723 [Multi-domain]  Cd Length: 330  Bit Score: 39.64  E-value: 2.17e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 497331200   9 KCFRNYEELDLSLS----PNINVFLGENAQGKTNIAEALYYAA 47
Cdd:COG1106   11 RSFKDELTLSMVASglrlLRVNLIYGANASGKSNLLEALYFLR 53
ABC_RecN cd03241
ATP-binding cassette domain of RecN; RecN ATPase involved in DNA repair; similar to ABC ...
 4-99 4.12e-03

ATP-binding cassette domain of RecN; RecN ATPase involved in DNA repair; similar to ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213208 [Multi-domain]  Cd Length: 276  Bit Score: 38.72  E-value: 4.12e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   4 KSLRLKCFRNYEELDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRshrtnADADLIAWDAPAAKIELLF--------E 75
Cdd:cd03241    2 LELSIKNFALIEELELDFEEGLTVLTGETGAGKSILLDALSLLLGGR-----ASADLIRSGAEKAVVEGVFdisdeeeaK 76

                         90       100
                 ....*....|....*....|....
gi 497331200  76 RLDVENTLEFQFQRGRRRSIRKNG 99
Cdd:cd03241   77 ALLLELGIEDDDDLIIRREISRKG 100
AAA_21 pfam13304
AAA domain, putative AbiEii toxin, Type IV TA system; Several members are annotated as being ...
 25-344 4.75e-03

AAA domain, putative AbiEii toxin, Type IV TA system; Several members are annotated as being of the abortive phage resistance system, in which case the family would be acting as the toxin for a type IV toxin-antitoxin resistance system.


Pssm-ID: 433102 [Multi-domain]  Cd Length: 303  Bit Score: 38.52  E-value: 4.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200   25 INVFLGENAQGKTNIAEALYYAAIGRSHRTNADADLIAWDAPAAKIELLFERLDVENT---LEFQFQRGRRRSIRKNGEP 101
Cdd:pfam13304   1 INVLIGPNGSGKSNLLEALRFLADFDALVIGLTDERSRNGGIGGIPSLLNGIDPKEPIefeISEFLEDGVRYRYGLDLER 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  102 IKTKELFGVFNAVLfspedlflikgapaERRRFLDGEISQASPAYGHELmqytriltqRNSLLKKIRERRAGKEMLSLWD 181
Cdd:pfam13304  81 EDVEEKLSSKPTLL--------------EKRLLLREDSEEREPKFPPEA---------EELRLGLDVEERIELSLSELSD 137

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  182 EQLAKSAAHIVEKRFLAVKKLNMLANLMQRRISAGKeNLSLSYELCGAEEEPpcvtEELVPWYNKKLEESLDLDVLRGST 261
Cdd:pfam13304 138 LISGLLLLSIISPLSFLLLLDEGLLLEDWAVLDLAA-DLALFPDLKELLQRL----VRGLKLADLNLSDLGEGIEKSLLV 212

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497331200  262 SVGPQRDDIRLEVNG----VNLRSFgSQGQQRtgVLALKLSELEFLRSetgeYPVLLLDDVMSELDGTRREKLLGFIG-- 335
Cdd:pfam13304 213 DDRLRERGLILLENGgggeLPAFEL-SDGTKR--LLALLAALLSALPK----GGLLLIDEPESGLHPKLLRRLLELLKel 285

                         330
                  ....*....|
gi 497331200  336 -REHIQTLLT 344
Cdd:pfam13304 286 sRNGAQLILT 295
ABC_Class2 cd03227
ATP-binding cassette domain of non-transporter proteins; ABC-type Class 2 contains systems ...
 284-346 5.46e-03

ATP-binding cassette domain of non-transporter proteins; ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterized by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.


Pssm-ID: 213194 [Multi-domain]  Cd Length: 162  Bit Score: 37.34  E-value: 5.46e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497331200 284 SQGQQRTGVLALKLSELEFLRSetgeyPVLLLDDVMSELDGTRREKLLGFIgREHIQ---TLLTAT 346
Cdd:cd03227   79 SGGEKELSALALILALASLKPR-----PLYILDEIDRGLDPRDGQALAEAI-LEHLVkgaQVIVIT 138
ABC_Rad50 cd03240
ATP-binding cassette domain of Rad50; The catalytic domains of Rad50 are similar to the ...
 4-75 6.95e-03

ATP-binding cassette domain of Rad50; The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.


Pssm-ID: 213207 [Multi-domain]  Cd Length: 204  Bit Score: 37.20  E-value: 6.95e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 497331200   4 KSLRLKCFRNYEE-LDLSLSPNINVFLGENAQGKTNIAEALYYAAIGRSHRTN----ADADLIAWDAPAAKIELLFE 75
Cdd:cd03240    2 DKLSIRNIRSFHErSEIEFFSPLTLIVGQNGAGKTTIIEALKYALTGELPPNSkggaHDPKLIREGEVRAQVKLAFE 78
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH