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Conserved domains on  [gi|498442838|ref|WP_010748471|]
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MULTISPECIES: DNA replication/repair protein RecF [Enterococcus]

Protein Classification

DNA replication/repair protein RecF( domain architecture ID 11477886)

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

Gene Ontology:  GO:0005524|GO:0003697|GO:0006281|GO:0006260

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
recF PRK00064
recombination protein F; Reviewed
 1-367 1.31e-170

recombination protein F; Reviewed


:

Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 479.65  E-value: 1.31e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRST 80
Cdd:PRK00064   1 MYLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVIHGRVEKGGRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  81 IPLELFLSKKGRKT-KVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQ 159
Cdd:PRK00064  81 LPLGLEIDKKGGRKvRINGEPQRKLAELAGLLNVVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 160 RNQYLKQlnekkqTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNVPGEAstlEEI 239
Cdd:PRK00064 161 RNALLKQ------ADYAWLDVWDEQLAELGAAIAAARLEYLERLAPLAAKTHQEISPEFELASLSYQSSVEDDA---EKI 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 240 QQQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMS 319
Cdd:PRK00064 232 EEDLLEALAKNRERDRARGRTLVGPHRDDLRFRINGLPAADFGSTGQQKLLLLALKLAEAELLKEETGEAPILLLDDVAS 311

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 498442838 320 ELDDSRQLHLLETIEG-KVQTFLTTTTLEHVKDkMSVEAEIFYVEQGHI 367
Cdd:PRK00064 312 ELDDGRRAALLERLKGlGAQVFITTTDLEDLAD-LLENAKIFHVEQGKI 359
 
Name Accession Description Interval E-value
recF PRK00064
recombination protein F; Reviewed
 1-367 1.31e-170

recombination protein F; Reviewed


Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 479.65  E-value: 1.31e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRST 80
Cdd:PRK00064   1 MYLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVIHGRVEKGGRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  81 IPLELFLSKKGRKT-KVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQ 159
Cdd:PRK00064  81 LPLGLEIDKKGGRKvRINGEPQRKLAELAGLLNVVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 160 RNQYLKQlnekkqTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNVPGEAstlEEI 239
Cdd:PRK00064 161 RNALLKQ------ADYAWLDVWDEQLAELGAAIAAARLEYLERLAPLAAKTHQEISPEFELASLSYQSSVEDDA---EKI 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 240 QQQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMS 319
Cdd:PRK00064 232 EEDLLEALAKNRERDRARGRTLVGPHRDDLRFRINGLPAADFGSTGQQKLLLLALKLAEAELLKEETGEAPILLLDDVAS 311

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 498442838 320 ELDDSRQLHLLETIEG-KVQTFLTTTTLEHVKDkMSVEAEIFYVEQGHI 367
Cdd:PRK00064 312 ELDDGRRAALLERLKGlGAQVFITTTDLEDLAD-LLENAKIFHVEQGKI 359
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
2-351 3.96e-159

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


Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 450.38  E-value: 3.96e-159
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   2 RLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRSTI 81
Cdd:COG1195    1 RLKRLSLTNFRNYESLELEFSPGINVLVGPNGQGKTNLLEAIYLLATGRSFRTARDAELIRFGADGFRVRAEVERDGREV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  82 PLELFLSKKGRKT-KVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQR 160
Cdd:COG1195   81 RLGLGLSRGGKKRvRINGKPVRRLSDLAGLLPVVLFSPEDLRLVKGGPSERRRFLDRLLFQLDPRYLDALSRYERALKQR 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 161 NQYLKQLNEkkqTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNVPGEAstlEEIQ 240
Cdd:COG1195  161 NALLKQGRE---ADLALLDVWDEQLAELGAAIIAARLAFLERLAPLFAEIYAALSGGKEELELRYRSGWLYES---AELE 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 241 QQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMSE 320
Cdd:COG1195  235 EALLEALAENRERDLARGRTLVGPHRDDLEFTLNGKPAKKFASQGQQKSLVLALKLAQAELLKEETGEAPILLLDDVFAE 314

                        330       340       350
                 ....*....|....*....|....*....|..
gi 498442838 321 LDDSRQLHLLETIEGK-VQTFLTTTTLEHVKD 351
Cdd:COG1195  315 LDEERREALLELLADLgGQVFITTTDPEDFPA 346
recf TIGR00611
recF protein; All proteins in this family for which functions are known are DNA binding ...
 1-367 1.98e-146

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: 418.68  E-value: 1.98e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838    1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRG--R 78
Cdd:TIGR00611   1 MYLSRLELTDFRNYDAVDLELSPGVNVIVGPNGQGKTNLLEAIYYLALGRSHRTSRDKPLIRFGAEAFVIEGRVSKGdrE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   79 STIPLELFLSKKGRKTKVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLK 158
Cdd:TIGR00611  81 VTIPLEGLLKKKGKKAKVNIDGQDKLSDLAGLLPMQLFAPEDLTLVKGSPKYRRRFLDWGLFQVEPVYLSAWSDYQRVLK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  159 QRNQYLKQLNeKKQTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNvpgeastLEE 238
Cdd:TIGR00611 161 QRNAALKQAQ-RQYGDRTTLEVWDSQLAELGAKVSAWRAEFIEKLEPEAQKAHQLLLPELESLSLFYRGE-------LWD 232

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  239 IQQQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVM 318
Cdd:TIGR00611 233 KETDYAEALARNFERDLERGYTLVGPHRDDLRFRLNGLPVEDFASQGQLRSLALALRLAEGELLREEGGEYPILLLDDVA 312

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 498442838  319 SELDDSRQLHLLETIEGK-VQTFLTTTTLEHVKDKM---SVEAEIFYVEQGHI 367
Cdd:TIGR00611 313 SELDDQRRRLLAELLQSLgVQVFVTAISLDHLKEMWdpnRVTIALVSVDRGTI 365
ABC_RecF cd03242
ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that ...
 3-368 8.91e-123

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: 355.07  E-value: 8.91e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   3 LNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRSTIP 82
Cdd:cd03242    1 LKSLELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIRWGAEEAKISAVLERQGGELA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  83 LELFL-SKKGRKTKVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQRN 161
Cdd:cd03242   81 LELTIrSGGGRKARLNGIKVRRLSDLLGVLNAVWFAPEDLELVKGSPADRRRFLDRLLGQLEPAYAHVLSEYQKALRQRN 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 162 QYLKqlnekkqtdeiyldvlteqlvafgskiilarqrfvqrlaywanqlhqkisqgketlqidylsnvpgeastleeiqq 241
Cdd:cd03242  161 ALLK---------------------------------------------------------------------------- 164

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 242 qfvkalalvkdrerfrqvtlaGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMSEL 321
Cdd:cd03242  165 ---------------------GPHRDDLLFFLNDKPAADFGSQGQQRTLALALKLAEIQLIKEVSGEYPVLLLDDVLAEL 223

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*..
gi 498442838 322 DDSRQLHLLETIEGKVQTFLTTTTLEHVKDKMSVEAEIFYVEQGHIK 368
Cdd:cd03242  224 DLGRQAALLDAIEGRVQTFVTTTDLADFDALWLRRAQIFRVDAGTLS 270
AAA_23 pfam13476
AAA domain;
6-176 1.46e-06

AAA domain;


Pssm-ID: 463890 [Multi-domain]  Cd Length: 190  Bit Score: 48.26  E-value: 1.46e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838    6 LHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIyVLAMTKSHRTSSEQELIRWDTEGARISGSVS---------- 75
Cdd:pfam13476   1 LTIENFRSFRDQTIDFSKGLTLITGPNGSGKTTILDAI-KLALYGKTSRLKRKSGGGFVKGDIRIGLEGKgkayveitfe 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   76 ----RGRSTIPLELFLSKKGRKTKVNHIEQKKLSSYIGQLNVILFAP--EDLSLVKGSPQVRRK-FLDMEIGQIDPIYLY 148
Cdd:pfam13476  80 nndgRYTYAIERSRELSKKKGKTKKKEILEILEIDELQQFISELLKSdkIILPLLVFLGQEREEeFERKEKKERLEELEK 159

                         170       180
                  ....*....|....*....|....*...
gi 498442838  149 DLVQYQSVLKQRNQYLKQLNEKKQTDEI 176
Cdd:pfam13476 160 ALEEKEDEKKLLEKLLQLKEKKKELEEL 187
 
Name Accession Description Interval E-value
recF PRK00064
recombination protein F; Reviewed
 1-367 1.31e-170

recombination protein F; Reviewed


Pssm-ID: 234608 [Multi-domain]  Cd Length: 361  Bit Score: 479.65  E-value: 1.31e-170
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRST 80
Cdd:PRK00064   1 MYLTRLSLTDFRNYEELDLELSPGVNVLVGENGQGKTNLLEAIYLLAPGRSHRTARDKELIRFGAEAAVIHGRVEKGGRE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  81 IPLELFLSKKGRKT-KVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQ 159
Cdd:PRK00064  81 LPLGLEIDKKGGRKvRINGEPQRKLAELAGLLNVVLFTPEDLRLVKGGPSERRRFLDRLLFQIEPVYASALSQYERALKQ 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 160 RNQYLKQlnekkqTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNVPGEAstlEEI 239
Cdd:PRK00064 161 RNALLKQ------ADYAWLDVWDEQLAELGAAIAAARLEYLERLAPLAAKTHQEISPEFELASLSYQSSVEDDA---EKI 231

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 240 QQQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMS 319
Cdd:PRK00064 232 EEDLLEALAKNRERDRARGRTLVGPHRDDLRFRINGLPAADFGSTGQQKLLLLALKLAEAELLKEETGEAPILLLDDVAS 311

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
gi 498442838 320 ELDDSRQLHLLETIEG-KVQTFLTTTTLEHVKDkMSVEAEIFYVEQGHI 367
Cdd:PRK00064 312 ELDDGRRAALLERLKGlGAQVFITTTDLEDLAD-LLENAKIFHVEQGKI 359
RecF COG1195
Recombinational DNA repair ATPase RecF [Replication, recombination and repair];
2-351 3.96e-159

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


Pssm-ID: 440808 [Multi-domain]  Cd Length: 352  Bit Score: 450.38  E-value: 3.96e-159
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   2 RLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRSTI 81
Cdd:COG1195    1 RLKRLSLTNFRNYESLELEFSPGINVLVGPNGQGKTNLLEAIYLLATGRSFRTARDAELIRFGADGFRVRAEVERDGREV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  82 PLELFLSKKGRKT-KVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQR 160
Cdd:COG1195   81 RLGLGLSRGGKKRvRINGKPVRRLSDLAGLLPVVLFSPEDLRLVKGGPSERRRFLDRLLFQLDPRYLDALSRYERALKQR 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 161 NQYLKQLNEkkqTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNVPGEAstlEEIQ 240
Cdd:COG1195  161 NALLKQGRE---ADLALLDVWDEQLAELGAAIIAARLAFLERLAPLFAEIYAALSGGKEELELRYRSGWLYES---AELE 234

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 241 QQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMSE 320
Cdd:COG1195  235 EALLEALAENRERDLARGRTLVGPHRDDLEFTLNGKPAKKFASQGQQKSLVLALKLAQAELLKEETGEAPILLLDDVFAE 314

                        330       340       350
                 ....*....|....*....|....*....|..
gi 498442838 321 LDDSRQLHLLETIEGK-VQTFLTTTTLEHVKD 351
Cdd:COG1195  315 LDEERREALLELLADLgGQVFITTTDPEDFPA 346
recf TIGR00611
recF protein; All proteins in this family for which functions are known are DNA binding ...
 1-367 1.98e-146

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: 418.68  E-value: 1.98e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838    1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRG--R 78
Cdd:TIGR00611   1 MYLSRLELTDFRNYDAVDLELSPGVNVIVGPNGQGKTNLLEAIYYLALGRSHRTSRDKPLIRFGAEAFVIEGRVSKGdrE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   79 STIPLELFLSKKGRKTKVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLK 158
Cdd:TIGR00611  81 VTIPLEGLLKKKGKKAKVNIDGQDKLSDLAGLLPMQLFAPEDLTLVKGSPKYRRRFLDWGLFQVEPVYLSAWSDYQRVLK 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  159 QRNQYLKQLNeKKQTDEIYLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKETLQIDYLSNvpgeastLEE 238
Cdd:TIGR00611 161 QRNAALKQAQ-RQYGDRTTLEVWDSQLAELGAKVSAWRAEFIEKLEPEAQKAHQLLLPELESLSLFYRGE-------LWD 232

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  239 IQQQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVM 318
Cdd:TIGR00611 233 KETDYAEALARNFERDLERGYTLVGPHRDDLRFRLNGLPVEDFASQGQLRSLALALRLAEGELLREEGGEYPILLLDDVA 312

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|...
gi 498442838  319 SELDDSRQLHLLETIEGK-VQTFLTTTTLEHVKDKM---SVEAEIFYVEQGHI 367
Cdd:TIGR00611 313 SELDDQRRRLLAELLQSLgVQVFVTAISLDHLKEMWdpnRVTIALVSVDRGTI 365
ABC_RecF cd03242
ATP-binding cassette domain of RecF; RecF is a recombinational DNA repair ATPase that ...
 3-368 8.91e-123

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: 355.07  E-value: 8.91e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   3 LNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRSTIP 82
Cdd:cd03242    1 LKSLELRNFRNYAELELEFEPGVTVLVGENAQGKTNLLEAISLLATGKSHRTSRDKELIRWGAEEAKISAVLERQGGELA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  83 LELFL-SKKGRKTKVNHIEQKKLSSYIGQLNVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQRN 161
Cdd:cd03242   81 LELTIrSGGGRKARLNGIKVRRLSDLLGVLNAVWFAPEDLELVKGSPADRRRFLDRLLGQLEPAYAHVLSEYQKALRQRN 160

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 162 QYLKqlnekkqtdeiyldvlteqlvafgskiilarqrfvqrlaywanqlhqkisqgketlqidylsnvpgeastleeiqq 241
Cdd:cd03242  161 ALLK---------------------------------------------------------------------------- 164

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 242 qfvkalalvkdrerfrqvtlaGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMSEL 321
Cdd:cd03242  165 ---------------------GPHRDDLLFFLNDKPAADFGSQGQQRTLALALKLAEIQLIKEVSGEYPVLLLDDVLAEL 223

                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*..
gi 498442838 322 DDSRQLHLLETIEGKVQTFLTTTTLEHVKDKMSVEAEIFYVEQGHIK 368
Cdd:cd03242  224 DLGRQAALLDAIEGRVQTFVTTTDLADFDALWLRRAQIFRVDAGTLS 270
recF PRK14079
recombination protein F; Provisional
 1-344 1.24e-60

recombination protein F; Provisional


Pssm-ID: 184491 [Multi-domain]  Cd Length: 349  Bit Score: 198.86  E-value: 1.24e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYvLAMTKSHRTSSEQELIRWDTEGARISGSVSRGRST 80
Cdd:PRK14079   1 MRLLSLRQLNYRNLAPPTLAFPPGVTAVVGENAAGKTNLLEAIY-LALTGELPNGRLADLVRFGEGEAWVHAEVETGGGL 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  81 IPLELFLSKKGRKTKVNhiEQKKLSSYIGQL-NVILFAPEDLSLVKGSPQVRRKFLDMEIGQIDPIYLYDLVQYQSVLKQ 159
Cdd:PRK14079  80 SRLEVGLGPGRRELKLD--GVRVSLRELARLpGAVLIRPEDLELVLGPPEGRRAYLDRLLSRLSARYAALLSAYERAVQQ 157

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 160 RNQYLKQLNEKKqtdeiyLDVLTEQLVAFGSKIILARQRFVQRLAYWANQLHQKISQGKEtLQIDYLSNVPGEastleei 239
Cdd:PRK14079 158 RNAALKSGGGWG------LHVWDDELVKLGDEIMALRRRALTRLSELAREAYAELGSRKP-LRLELSESTAPE------- 223

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838 240 qqQFVKALALVKDRERFRQVTLAGPHRDDLDFLINEKNVQTFGSQGQQRTTALSVKLAEIDLMKEETGEYPVLLLDDVMS 319
Cdd:PRK14079 224 --GYLAALEARRAEELARGATVVGPHRDDLVLTLEGRPAHRYASRGEARTVALALRLAEHRLLWEHFGEAPVLLVDDFTA 301

                        330       340
                 ....*....|....*....|....*
gi 498442838 320 ELDDSRQLHLLETIEGKVQTFLTTT 344
Cdd:PRK14079 302 ELDPRRRGALLALAASLPQAIVAGT 326
YbjD COG3593
Predicted ATP-dependent endonuclease of the OLD family, contains P-loop ATPase and TOPRIM ...
 1-46 2.05e-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: 2.05e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVL 46
Cdd:COG3593    1 MKLEKIKIKNFRSIKDLSIELSDDLTVLVGENNSGKSSILEALRLL 46
COG3950 COG3950
Predicted ATP-binding protein involved in virulence [General function prediction only];
1-46 2.04e-08

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


Pssm-ID: 443150 [Multi-domain]  Cd Length: 276  Bit Score: 54.62  E-value: 2.04e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFE--KGLVIFLGENAQGKTNILESIYVL 46
Cdd:COG3950    1 MRIKSLTIENFRGFEDLEIDFDnpPRLTVLVGENGSGKTTLLEAIALA 48
SbcC COG0419
DNA repair exonuclease SbcCD ATPase subunit [Replication, recombination and repair];
2-71 3.64e-07

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


Pssm-ID: 440188 [Multi-domain]  Cd Length: 204  Bit Score: 50.01  E-value: 3.64e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 498442838   2 RLNELHLSNYRNY-DSLTLTFEKGLVIFLGENAQGKTNILESI-YVLAMTKSHRTSSEQELIRWDTEGARIS 71
Cdd:COG0419    1 KLLRLRLENFRSYrDTETIDFDDGLNLIVGPNGAGKSTILEAIrYALYGKARSRSKLRSDLINVGSEEASVE 72
AAA_23 pfam13476
AAA domain;
6-176 1.46e-06

AAA domain;


Pssm-ID: 463890 [Multi-domain]  Cd Length: 190  Bit Score: 48.26  E-value: 1.46e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838    6 LHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIyVLAMTKSHRTSSEQELIRWDTEGARISGSVS---------- 75
Cdd:pfam13476   1 LTIENFRSFRDQTIDFSKGLTLITGPNGSGKTTILDAI-KLALYGKTSRLKRKSGGGFVKGDIRIGLEGKgkayveitfe 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   76 ----RGRSTIPLELFLSKKGRKTKVNHIEQKKLSSYIGQLNVILFAP--EDLSLVKGSPQVRRK-FLDMEIGQIDPIYLY 148
Cdd:pfam13476  80 nndgRYTYAIERSRELSKKKGKTKKKEILEILEIDELQQFISELLKSdkIILPLLVFLGQEREEeFERKEKKERLEELEK 159

                         170       180
                  ....*....|....*....|....*...
gi 498442838  149 DLVQYQSVLKQRNQYLKQLNEKKQTDEI 176
Cdd:pfam13476 160 ALEEKEDEKKLLEKLLQLKEKKKELEEL 187
AAA_15 pfam13175
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 1-51 2.61e-05

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: 45.67  E-value: 2.61e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 498442838    1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESIYVLAMTKS 51
Cdd:pfam13175   1 MKIKSIIIKNFRCLKDTEIDLDEDLTVLIGKNNSGKSSILEALDIFLNNKE 51
COG4637 COG4637
Predicted ATPase [General function prediction only];
2-47 1.14e-04

Predicted ATPase [General function prediction only];


Pssm-ID: 443675 [Multi-domain]  Cd Length: 371  Bit Score: 43.77  E-value: 1.14e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 498442838   2 RLNELHLSNYRNYDSLTLTFEkGLVIFLGENAQGKTNILESIYVLA 47
Cdd:COG4637    1 MITRIRIKNFKSLRDLELPLG-PLTVLIGANGSGKSNLLDALRFLS 45
COG1106 COG1106
ATPase/GTPase, AAA15 family [General function prediction only];
3-144 3.76e-04

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


Pssm-ID: 440723 [Multi-domain]  Cd Length: 330  Bit Score: 41.95  E-value: 3.76e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838   3 LNELHLSNYRNY-DSLTLTFEKG------LVIFLGENAQGKTNILESIYVLA----------------MTKSHRTSSEQE 59
Cdd:COG1106    2 LISFSIENFRSFkDELTLSMVASglrllrVNLIYGANASGKSNLLEALYFLRnlvlnssqpgdklvepFLLDSESKNEPS 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 498442838  60 LIRWD--TEGARISGSVSRGRSTIPLE--LFLSKKGrktKVNHIEQKKLSSYIG-QLNVILFAPEDLSLVKGSPQVRRKF 134
Cdd:COG1106   82 EFEILflLDGVRYEYGFELDKERIISEwlYFLSTAA---QLNVPLLSPLYDWFDnNISLDTSSDGLTLLLKEDESLKEEL 158

                        170
                 ....*....|
gi 498442838 135 LDMeIGQIDP 144
Cdd:COG1106  159 LEL-LKIADP 167
PRK02224 PRK02224
DNA double-strand break repair Rad50 ATPase;
1-41 1.40e-03

DNA double-strand break repair Rad50 ATPase;


Pssm-ID: 179385 [Multi-domain]  Cd Length: 880  Bit Score: 40.79  E-value: 1.40e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILE 41
Cdd:PRK02224   1 MRFDRVRLENFKCYADADLRLEDGVTVIHGVNGSGKSSLLE 41
ABC_Rad50 cd03240
ATP-binding cassette domain of Rad50; The catalytic domains of Rad50 are similar to the ...
 3-56 1.66e-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: 39.13  E-value: 1.66e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 498442838   3 LNELHLSNYR-NYDSLTLTFEKGLVIFLGENAQGKTNILESIyVLAMTKSHRTSS 56
Cdd:cd03240    1 IDKLSIRNIRsFHERSEIEFFSPLTLIVGQNGAGKTTIIEAL-KYALTGELPPNS 54
YhaN COG4717
Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];
1-43 2.36e-03

Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];


Pssm-ID: 443752 [Multi-domain]  Cd Length: 641  Bit Score: 39.75  E-value: 2.36e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 498442838   1 MRLNELHLSNYRNYDSLTLTFEKGLVIFLGENAQGKTNILESI 43
Cdd:COG4717    1 MKIKELEIYGFGKFRDRTIEFSPGLNVIYGPNEAGKSTLLAFI 43
 
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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