|
Name |
Accession |
Description |
Interval |
E-value |
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
8-610 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 942.24 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKL 87
Cdd:PRK00558 5 KEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENNLIKK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 88 YQPRYNVLLRDDKSYPFIFL-SGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPC 166
Cdd:PRK00558 85 YKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNRKRPC 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 167 LQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:PRK00558 165 LLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEKQKVS 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 247 NT-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElGEVVETFVGQFYLQGSqmrtLPSEILLDFNLDD 325
Cdd:PRK00558 244 LKdGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPHELDD 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 326 KTLLADslsELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPEV-KRMECFDISHTM 404
Cdd:PRK00558 319 EELAEA---LLAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEPpYRIECFDISHIQ 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 405 GEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQAKAVFESLD 483
Cdd:PRK00558 396 GTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEfGPLPDLILIDGGKGQLNAAKEVLEELG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 484 VswdknHPLLLGVAKGADRKAGLETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIEG 563
Cdd:PRK00558 476 L-----DIPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALDDIPG 550
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 695732139 564 VGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIYYSLKH 610
Cdd:PRK00558 551 IGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
3-609 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 899.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 3 DVFDSKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 83 NYIKLYQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 163 SRPCLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEK 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 243 QFV-SNTGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSQmrtLPSEILLDF 321
Cdd:COG0322 241 QKVvLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 322 NLDDKTLLADSLSELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATL-------LKLPEvkR 394
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERERDEARQERALEElaealglPELPR--R 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 395 MECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLG 473
Cdd:COG0322 396 IECFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEdEPLPDLILIDGGKGQLN 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 474 QAKAVFESLDVSwdknHPLLLGVAKgadRKaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVK 553
Cdd:COG0322 476 AAREVLEELGLD----DIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKAR 545
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....*.
gi 695732139 554 NTSSLETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIYYSLK 609
Cdd:COG0322 546 LKSVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLH 601
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
8-589 |
0e+00 |
|
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 272953 [Multi-domain] Cd Length: 574 Bit Score: 838.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLaSRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKL 87
Cdd:TIGR00194 2 KEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRENN-SAKTQALVKQIADIEYILTKNENEALILEANLIKQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 88 YQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvyRNRSRPCL 167
Cdd:TIGR00194 81 YQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPCL 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 168 QYQIGRCLGPCVEGLvSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVSN 247
Cdd:TIGR00194 158 YYQIGRCLGPCVKEI-TEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVSL 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 248 T-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGgTELGEVVETFVGQFYLQGSQMRTLPSEILLDFNLDDK 326
Cdd:TIGR00194 237 TdLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLEDL 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 327 TLLADSLSELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPEVKRMECFDISHTMGE 406
Cdd:TIGR00194 316 KLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDGS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 407 QTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESKIP--DVILIDGGKGQLGQAKAVFESLDV 484
Cdd:TIGR00194 396 QTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLGV 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 485 swdKNHPLLLGVAKgADRKAGLETLFFEPEGEGFSLppDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIEGV 564
Cdd:TIGR00194 476 ---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPGV 549
|
570 580
....*....|....*....|....*
gi 695732139 565 GPKRRQMLLKYMGGLQGLLNASMEE 589
Cdd:TIGR00194 550 GEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
393-541 |
6.69e-63 |
|
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and archaeal UvrABC system which catalyzes nucleotide excision repair in a multi-step process. UvrC catalyzes the first incision on the fourth or fifth phosphodiester bond 3' and on the eighth phosphodiester bond 5' from the damage that is to be excised. The domain described here represents the RNAse H endonuclease domain, located at the C-terminal, between the UvrBC and the (HhH)2 domains, nearby the N-terminal of the HhH. Despite the lack of sequence homology, the endonuclease domain has an RNase H-like fold, which is characteriztic of enzymes with nuclease or polynucleotide transferase activities. RNase H-related enzymes typically contain a highly conserved carboxylate triad, usually DDE, in their catalytic centre. However, instead of a third carboxylate, UvrC of Thermotoga maritima was found to contain a highly conserved histidine (H488) on helix-4 in close proximity to two aspartates.
Pssm-ID: 462484 [Multi-domain] Cd Length: 150 Bit Score: 204.22 E-value: 6.69e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 393 KRMECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQ 471
Cdd:pfam08459 11 RRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPDLILIDGGKGQ 90
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 472 LGQAKAVFESLDVswdknHPLLLGVAKGADRKagletLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHA 541
Cdd:pfam08459 91 LNAALEVLEELGL-----DIPVIGLAKDDKHK-----IDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
17-94 |
4.89e-38 |
|
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; UvrC is essential for nucleotide excision repair (NER). The N-terminal catalytic GIY-YIG domain of UvrC (also known as Uri domain) is responsible for the 3' incision reaction and the C-terminal half of UvrC, consisting of an UvrB-binding domain (UvrBb), EndoV-like nuclease domain and a helix-hairpin-helix (HhH) DNA-binding domain, contains the residues involved in 5' incision. The N- and C-terminal regions are joined by a common Cys-rich domain containing four conserved Cys residues. Besides UvrC, protein Cho (UvrC homolog) serves as a second endonuclease in E. coli NER. Cho contains GIY-YIG motif followed by a Cys-rich region and shares sequence homology with the N-terminal half of UvrC. It is capable of incising the DNA at the 3' side of a lesion in the presence of the UvrA and UvrB proteins during NER. The C-terminal half of Cho is a unique uncharacterized domain, which is distinct from that of UvrC. Moreover, unlike UvrC, Cho does not require the UvrC-binding domain of UvrB for the 3' incision reaction, which might cause the shift in incision position and the difference in incision efficiencies between Cho and UvrC on different damaged substrates. Due to this, the range of NER in E. coli can be broadened by combining action of Cho and UvrC. This family also includes many uncharacterized epsilon proofreading subunits of DNA polymerase III, which have an additional N-terminal ExoIII domain and a 3'-5' exonuclease domain homolog, fused to an UvrC-like region or a Cho-like region. The UvrC-like region includes a GIY-YIG motif, followed by a Cys-rich region, and an UvrB-binding domain (UvrBb), but lacks the EndoV-like nuclease domain and the helix-hairpin-helix (HhH) DNA-binding domain. The Cho-like region consists of a GIY-YIG motif, followed by the Cys-rich region, and the unique uncharacterized domain presenting in the C-terminal half of Cho. Some family members may not carry the Cys-rich region. This family also includes a specific Cho-like protein from G. violaceus, which possesses only UvrBb domain at the C-terminus, but lacks the additional N-terminal ExoIII domain. The oother two remote homologs of UvrC, Bacillus-I and -II, are included in this family as well. Both of them contain a GIY-YIG domain, but no Cys-rich region. Moreover, the whole C-terminal region of Bacillus-I is replaces by an unknown domain, and Bacillus-II possesses another unknown N-terminal extension.
Pssm-ID: 198381 [Multi-domain] Cd Length: 81 Bit Score: 135.30 E-value: 4.89e-38
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 695732139 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
1.63e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 77.46 E-value: 1.63e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFR-SNLASRKTEALVSLIQNIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 695732139 95 LLRD 98
Cdd:smart00465 81 LLKG 84
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
8-610 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 942.24 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKL 87
Cdd:PRK00558 5 KEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENNLIKK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 88 YQPRYNVLLRDDKSYPFIFL-SGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPC 166
Cdd:PRK00558 85 YKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNRKRPC 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 167 LQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:PRK00558 165 LLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEKQKVS 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 247 NT-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElGEVVETFVGQFYLQGSqmrtLPSEILLDFNLDD 325
Cdd:PRK00558 244 LKdGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPHELDD 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 326 KTLLADslsELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPEV-KRMECFDISHTM 404
Cdd:PRK00558 319 EELAEA---LLAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEPpYRIECFDISHIQ 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 405 GEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQAKAVFESLD 483
Cdd:PRK00558 396 GTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEfGPLPDLILIDGGKGQLNAAKEVLEELG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 484 VswdknHPLLLGVAKGADRKAGLETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIEG 563
Cdd:PRK00558 476 L-----DIPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALDDIPG 550
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 695732139 564 VGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIYYSLKH 610
Cdd:PRK00558 551 IGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
3-609 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 899.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 3 DVFDSKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 83 NYIKLYQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 163 SRPCLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEK 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 243 QFV-SNTGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSQmrtLPSEILLDF 321
Cdd:COG0322 241 QKVvLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 322 NLDDKTLLADSLSELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATL-------LKLPEvkR 394
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERERDEARQERALEElaealglPELPR--R 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 395 MECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLG 473
Cdd:COG0322 396 IECFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEdEPLPDLILIDGGKGQLN 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 474 QAKAVFESLDVSwdknHPLLLGVAKgadRKaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVK 553
Cdd:COG0322 476 AAREVLEELGLD----DIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKAR 545
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....*.
gi 695732139 554 NTSSLETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIYYSLK 609
Cdd:COG0322 546 LKSVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLH 601
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
8-589 |
0e+00 |
|
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 272953 [Multi-domain] Cd Length: 574 Bit Score: 838.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLaSRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKL 87
Cdd:TIGR00194 2 KEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRENN-SAKTQALVKQIADIEYILTKNENEALILEANLIKQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 88 YQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvyRNRSRPCL 167
Cdd:TIGR00194 81 YQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPCL 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 168 QYQIGRCLGPCVEGLvSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVSN 247
Cdd:TIGR00194 158 YYQIGRCLGPCVKEI-TEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVSL 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 248 T-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGgTELGEVVETFVGQFYLQGSQMRTLPSEILLDFNLDDK 326
Cdd:TIGR00194 237 TdLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLEDL 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 327 TLLADSLSELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPEVKRMECFDISHTMGE 406
Cdd:TIGR00194 316 KLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDGS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 407 QTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESKIP--DVILIDGGKGQLGQAKAVFESLDV 484
Cdd:TIGR00194 396 QTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLGV 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 485 swdKNHPLLLGVAKgADRKAGLETLFFEPEGEGFSLppDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIEGV 564
Cdd:TIGR00194 476 ---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPGV 549
|
570 580
....*....|....*....|....*
gi 695732139 565 GPKRRQMLLKYMGGLQGLLNASMEE 589
Cdd:TIGR00194 550 GEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| uvrC |
PRK14669 |
excinuclease ABC subunit C; Provisional |
11-604 |
1.49e-138 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237784 [Multi-domain] Cd Length: 624 Bit Score: 417.00 E-value: 1.49e-138
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 11 LKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYF-RSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQ 89
Cdd:PRK14669 7 IRTLPTSPGVYLYKNAGGEVIYVGKAKNLRSRVRSYFsEDKLGNIKTGSLIREAVDIDYILVDNEKEALALENNLIKQYK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 90 PRYNVLLRDDKSYPFIFLS-GDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCLQ 168
Cdd:PRK14669 87 PRFNILLRDDKTYPYVKLTlGEKYPRVYVTRRLRKDGAQYYGPFFPANLAYRLVDLIHRHFLVPSCKVDLTRYHPRPCLQ 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 169 YQIGRCLGPCVEGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFV-SN 247
Cdd:PRK14669 167 FYIHRCLGPCVQGLTTDEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVEELEEKQRMaAA 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 248 TGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYF------PKVPGGTELGEVVETFVGQFYLqgsQMRTLPSEILLDF 321
Cdd:PRK14669 247 KGDDADVFGYHYENPMVAVNLFHMRGGKIVDRREFFwedlgeVQVEFEYDEGLFFSSLLKQIYL---DQQYVPREIYVPV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 322 NLDDKTLLADSLSELAGRRVNVQTKPRGDRARYLKLARTNAATALTTKLS----QQSTVNQRLTALATLLKLPevKRMEC 397
Cdd:PRK14669 324 EFEDREALEELLTEQRHRRIEIRVPQRGDKRSLLDLVEQNAKQSYDQRFRvmkpSSRAIQEALQDALNLPELP--SRIEC 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 398 FDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESK-IPDVILIDGGKGQLGQAK 476
Cdd:PRK14669 402 FDISHIQGAETVASMVVWEDGKMKKSDYRKFIIKTVVGVDDFASMREVVTRRYSRLQEEKQpMPGLVLIDGGLGQLHAAA 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 477 AVFESLDVSwdkNHPLllgvAKGADRKaglETLF-FEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNT 555
Cdd:PRK14669 482 EALEAIGIT---DQPL----ASIAKRE---EIIYvFGQEDEPIVLDRFSPVLHLVQSIRDEAHRFAITFHRKRRETRDRT 551
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 695732139 556 SSLETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQglAEKI 604
Cdd:PRK14669 552 SELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAVVGRAA--AEAI 598
|
|
| uvrC |
PRK14666 |
excinuclease ABC subunit C; Provisional |
11-609 |
1.51e-123 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237782 [Multi-domain] Cd Length: 694 Bit Score: 380.77 E-value: 1.51e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 11 LKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLA-SRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQ 89
Cdd:PRK14666 6 LSTIPLTPGVYLYKDEAGRIIYVGKARHLRRRVASYFRDVSAlTPKTVAMLRHAVTIDTLSTTTEKEALLLEASLIKKHR 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 90 PRYNVLLRDDKSYpFIFLSGDTH--PRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCL 167
Cdd:PRK14666 86 PRYNIVLRDDKQY-VLFRLGAKHpyPRLEIVRKARRDGARYFGPFTSASAARETWKTIHRAFPLRRCSDRAFGNRVRACL 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 168 QYQIGRCLGPCVEgLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQ-FVS 246
Cdd:PRK14666 165 YHFMGQCLGPCVN-DVPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQIRAVERTVERQaAVL 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 247 NTGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSqmrTLPSEILLDFNLDDK 326
Cdd:PRK14666 244 PGGGDLDVVGLVEAEGGLALGVLFVRQGVLLDGRAFFWPGLGFEEAPELLWSFLGQFYGPQS---TIPPRIVVPWLPDTE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 327 ---------------------TLLADSLSELAGRRV--------------NVQTKPRGDR-------------------- 351
Cdd:PRK14666 321 gregddlaptavctdagllpdTPLLPDAPEGSSDPVvpvaaatpvdaslpDVRTGTAPTSlanvshadpavaqptqaatl 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 352 -------ARYLKLARTNAA------------TALTTKLSQQSTVNQRLTALATLLK------------LPEVKRMECFDI 400
Cdd:PRK14666 401 agaapkgATHLMLEETLADlrggpvrivpprNPAENRLVDMAMSNAREEARRKAETplqdllaralhlSGPPHRIEAVDV 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 401 SHTMGEQTVASCVVFDANGPLRAEYRRYNITGiTPGDDYAAMNQVLRRRYGKAieeSKIPDVILIDGGKGQLgqaKAVFE 480
Cdd:PRK14666 481 SHTGGRNTRVGMVVFEDGKPARDAYRTYAFED-GEGDDYGTLAAWAGRRVESG---PPWPDLLLVDGGRGQL---AAVVR 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 481 SLDVSWDKNHPLLLGVAKG------ADRKAG--LETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKV 552
Cdd:PRK14666 554 ALEEAGMGGLFAVASIAKArteegrADRRAGnvADRIFLPGRANPLPLRAGAPELLFLQHVRDTVHDYAIGRHRRARAGA 633
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....*..
gi 695732139 553 KNTSSLETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIYYSLK 609
Cdd:PRK14666 634 ALTGELQRVEGIGPATARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHLK 690
|
|
| uvrC |
PRK14668 |
excinuclease ABC subunit C; Provisional |
16-604 |
1.31e-108 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 184785 [Multi-domain] Cd Length: 577 Bit Score: 338.28 E-value: 1.31e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 16 SQPGVYRmYDAGGTVIYVGKAKDLKKRLSSYfrSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRYNVL 95
Cdd:PRK14668 15 REPGVYQ-FVAGGTVLYVGKAVDLRDRVRSY--ADPRSERIRRMVERADDIDFAVTDTETQALLLEANLIKRHQPRYNVR 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 96 LRDDKSYPFIFLSGDTHPRLAMHRGAKHAkGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCLQYQIGRCL 175
Cdd:PRK14668 92 LKDDKSYPLVQLTDHPVPRIEVTRDPDEG-ATVFGPYTDKGRVETVVKALRETYGLRGCSDHKYSNRDRPCLDYEMGLCT 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 176 GPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEK--QFVSNTGDD-- 251
Cdd:PRK14668 171 APCT-GEIDEEAYAEDVESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDRLEAVEAFHGGggEAVSSTGDEra 249
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 252 LDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELG-EVVETFVGQFYLQgsqmRTLPSEILLDFNLDDktllA 330
Cdd:PRK14668 250 VDVLGVAIEGDRATVARLHAEGGQLVDRDRHRLEAPDGEDRGaAVLAAFIVQYYAE----RELPDALLLSERPGD----D 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 331 DSLSELAGRRVNVQTKPRGDRARYLKLARTNA---------ATALTTKLSqqstvnqrltalatllkLPEVKRMECFDIS 401
Cdd:PRK14668 322 DVRAWLEAEGVDVRVPGAGREATLVDLALKNArrrggrddeVGALADALG-----------------IDRPERIEGFDVS 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 402 HTMGEQTVASCVVFDANGPLRAEYRRYNITgiTPGDDYAAMNQVLRRRYGKAIE---ESKIPDVILIDGGKGQLGQAKAV 478
Cdd:PRK14668 385 HAQGRAVVGSNVCFVDGSAETADYRRKKLT--ERNDDYANMRELVRWRAERAVEgrdDRPDPDLLLIDGGDGQLGAARDA 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 479 FEslDVSWDKNhplLLGVAKGadrkaglETLFFEPEGEgFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTssL 558
Cdd:PRK14668 463 LA--ETGWDVP---AIALAKA-------EELVVTPDRT-YDWPDDAPQLHLLQRVRDEAHRFAVQYHQTLRDDVSTV--L 527
|
570 580 590 600
....*....|....*....|....*....|....*....|....*.
gi 695732139 559 ETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKI 604
Cdd:PRK14668 528 DDVPGVGPETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETI 573
|
|
| uvrC |
PRK14667 |
excinuclease ABC subunit C; Provisional |
6-604 |
1.71e-96 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237783 [Multi-domain] Cd Length: 567 Bit Score: 306.28 E-value: 1.71e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 6 DSKAFLKTVTSQPGVYrMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYI 85
Cdd:PRK14667 5 DALELIEKAPEEPGVY-LFKKKKRYIYIGKAKNIKNRLLQHYKQSETDPKERAIFSESSSLEWIITRNEYEALVLEIDLI 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 86 KLYQPRYNVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHaKGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvYRNRSRP 165
Cdd:PRK14667 84 QQYKPKYNVLLKSGSGYPMLLITDDEYPTVKIVRGTGE-KGEYFGPFLPARKARKVKKLIHKLFKLRTCDP--MPKRKEP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 166 CLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFV 245
Cdd:PRK14667 161 CMDYHLGLCSGPCC-GKISKEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALENLIKGQEV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 246 SNtgddLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYlqgsqmrtLPSEILLDFNLDD 325
Cdd:PRK14667 240 SG----LPIEEADIFYFMGSRLGLFLVRSSKLVGKEEFRLESEEQEEEEVILGYYYSNY--------IPQKIITNFELSD 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 326 KtlLADSLSELAGRRVNVQT-KPRgdraRYLKLARTNAATALTTKLSQQstvnqrltALATLLKLPEVKRMECFDISHTM 404
Cdd:PRK14667 308 N--LKQWLSKRKGGDVEFLTlIPK----ELEKFIEENIGIKVDLEVLKE--------EFKKTFGFPLPERIEGFDISHFY 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 405 GEQTVASCVVFDaNGPL-RAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIE-ESKIPDVILIDGGKGQLGQAKAVFESL 482
Cdd:PRK14667 374 GEFTVGSCVVWE-DGSMnKKEYRRYKIKTVDGIDDYASLREVLTRRARRYKEgENPMPDLWLIDGGKGQLSVGIEVRDRL 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 483 DVSWdknhpLLLGVAKGadrkaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIE 562
Cdd:PRK14667 453 GLNI-----KVFSLAKK-------EEILYTEDGKEIPLKENPILYKVFGLIRDEAHRFALSYNRKLREKEGLKDILDKIK 520
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 695732139 563 GVGPKRRQMLLKYMGGLQGLLNASMEEIAKVpGISQGLAEKI 604
Cdd:PRK14667 521 GIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEV 561
|
|
| uvrC |
PRK14670 |
excinuclease ABC subunit C; Provisional |
23-604 |
1.33e-93 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173133 [Multi-domain] Cd Length: 574 Bit Score: 299.13 E-value: 1.33e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 23 MYDAGGTVIYVGKAKDLKKRLSSYFrSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRYNVLLRDDKSY 102
Cdd:PRK14670 1 MYSENNKILYIGKAKNLRSRVKNYF-LEKISHKTKILMKNVKNIEVITTNSEYEALLLECNLIKTHKPDYNIKLKDDKGY 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 103 PFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCEnsvyRNRSRPCLQYQIGRCLGPCV-EG 181
Cdd:PRK14670 80 PMIRITCEKYPRIFKTRKIINDGSEYFGPYVNVKKLDLVLDLINKTFKTRKCK----KKSKNPCLYFHMGQCLGVCYrED 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 182 LvsEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVSNTGD-DLDVIGVAFD 260
Cdd:PRK14670 156 L--EKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEISQTQIITKINKlSIDYVYIHPT 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 261 AGMACVHVLFIRQGKVLGSRSYFPKvpGGTELGEVVETFVGQFYLqgSQMRTLPSEILLDFNLDDKTlLADSLSELAGRR 340
Cdd:PRK14670 234 ENLNTIVILKYKDGKLVEKDINFDE--SIYEEDELILQFITQYYT--SINMIVPDKIHIFKKIDTKN-ITKLINELKNTK 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 341 VNVQTKPRGDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPevKRMECFDISHTMGEQTVASCVVFDANGP 420
Cdd:PRK14670 309 TEIIYKETKEIIKIMEMAISNAKLALREYENEKNKALESLKIILEMDKLP--KTIEGFDIAHLNGQKTVASLVTFKMGKP 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 421 LRAEYRRYNITGITPG--DDYAAMNQVLRRRYGKAIEES-KIPDVILIDGGKGQLGQAKAVFESLDVswdKNHPLLLGVA 497
Cdd:PRK14670 387 FKDGYRVYKINSLLKGeiDDFKAIKEVISRRYSKLINEQlELPNLILIDGGKGQLNAAYSILKGLKI---ENKVKVCALA 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 498 KGAdrkaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSleTIEGVGPKRRQMLLKYMG 577
Cdd:PRK14670 464 KKE------ETIFLPNKKQGIKLPKGNPALRILQNVRDEAHRKANGFNKKLRENIKLNYT--KIKGIGEKKAKKILKSLG 535
|
570 580
....*....|....*....|....*..
gi 695732139 578 GLQGLLNASMEEIAKVPGISQGLAEKI 604
Cdd:PRK14670 536 TYKDILLLNEDEIAEKMKINIKMAKKI 562
|
|
| uvrC |
PRK14672 |
excinuclease ABC subunit C; Provisional |
13-607 |
1.49e-75 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173135 [Multi-domain] Cd Length: 691 Bit Score: 254.66 E-value: 1.49e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 13 TVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNlASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRY 92
Cdd:PRK14672 17 SAPSTSGVYLWKDVHGVVIYVGKAKSLRTRLTSYFRCR-HDPKTRVLMSRAAALEYLQTQHEYEALLLENTLIKKHTPRY 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 93 NVLLRDDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCenSVYRNRSRPCLQYQIG 172
Cdd:PRK14672 96 NICLKDGKTYPLLKLTCEPFPRIFRTRQFCQDGARYFGPFPDVQILDSFLKLILRTYKIRTC--TTLRKRKNPCLYYHLK 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 173 RCLGPCVeGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEKQFVSNTGDDL 252
Cdd:PRK14672 174 RCDAPCC-GWVSPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDDIQAIRCITHKSLVQDMDERA 252
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 253 -DVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElgEVVETFVGQFYLQ------------------------G 307
Cdd:PRK14672 253 rDYIAWSSTGAIVTFAVLRMRGGKLNGRELFRTRSLKNEE--EILSEFLITYYSDhtipphlfvhssaglaehwlshkaG 330
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 308 SQ-------MRTLP---------------------SEILLDFNL----DDKTLLA-----DSLSELAGRRVNV--QTKPR 348
Cdd:PRK14672 331 TQctvtlipLHTFPtpqtpsstvttnaptlaasqnSNAVQDSGLrscsETSTMHTlqkahDACTASEGTRENTphESAHT 410
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 349 GDRARYLKLARTNAATALTTKLSQQSTVNQRLTALATLLKLPEVKRMECFDISHTMGEQTVASCVVFDANGPLRAEYRRY 428
Cdd:PRK14672 411 PHHRAILAMAQLNAHEDITRYLKNRGADDALKELQKQLHLARIPTLIEGFDISHLGGKYTVASLICFKNGAPDTKNYRLF 490
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 429 NITG-ITPGDDYAAMNQVLRRRYGKAIEESKIPDVILIDGGKGQLGQAKAVFESLDVSWDknhplLLGVAKGAdrkaglE 507
Cdd:PRK14672 491 NLRAhDTRIDDFASMREAIARRYTHTPEGYTLPDLILVDGGIGHVSAAQHVLDALGLSIP-----LVGLAKRA------E 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 508 TLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAISGHRKKRAKVKNTSSLETIEGVGPKRRQMLLKYMGGLQGLLNASM 587
Cdd:PRK14672 560 ELFIPNSPTPLVLDRRNPALHMLQRIRDEAHRFAITRNRHLRTKKELVLSFERLPHVGKVRAHRLLAHFGSFRSLQSATP 639
|
650 660
....*....|....*....|
gi 695732139 588 EEIAKVPGISQGLAEKIYYS 607
Cdd:PRK14672 640 QDIATAIHIPLTQAHTILHA 659
|
|
| PRK07883 |
PRK07883 |
DEDD exonuclease domain-containing protein; |
18-300 |
2.35e-64 |
|
DEDD exonuclease domain-containing protein;
Pssm-ID: 236123 [Multi-domain] Cd Length: 557 Bit Score: 221.33 E-value: 2.35e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 18 PGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRYNVLLR 97
Cdd:PRK07883 218 PGVYLFRGPSGEVLYVGTAVNLRRRVRSYFTAAETRGRMREMVALAERVDHVECAHALEAEVRELRLIAAHKPPYNRRSK 297
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 98 DDKSYPFIFLSGDTHPRLAMHRGAKHAKGEYFGPFPNGYAVRETLALLQKIFPIRQCEN--SVYRNRSRPCLQYQIGRCL 175
Cdd:PRK07883 298 FPERRWWVRLTDEAFPRLSVVRAVEDDGAAYLGPFRSRRAAEEAAEALARAFPLRQCTDrlSRRARHGPACALAELGRCP 377
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 176 GPCvEGLVSEEEYAQQVDYVRLFLAGKDDQVLTQLIARMEKASAALEFEEAARIRDQIQAVRRVTEK-QFVSNTGdDLDV 254
Cdd:PRK07883 378 APC-DGRESAAEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARLRDRLAALLRALARaQRLAALA-AVPE 455
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 695732139 255 IGVAFDAGMACVHVLFIRQGKVLGSRsyfpKVPGGTELGEVVETFV 300
Cdd:PRK07883 456 LVAARPDGEGGWELAVVRHGRLAAAG----VAPRGVPPMPVVDALV 497
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
393-541 |
6.69e-63 |
|
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and archaeal UvrABC system which catalyzes nucleotide excision repair in a multi-step process. UvrC catalyzes the first incision on the fourth or fifth phosphodiester bond 3' and on the eighth phosphodiester bond 5' from the damage that is to be excised. The domain described here represents the RNAse H endonuclease domain, located at the C-terminal, between the UvrBC and the (HhH)2 domains, nearby the N-terminal of the HhH. Despite the lack of sequence homology, the endonuclease domain has an RNase H-like fold, which is characteriztic of enzymes with nuclease or polynucleotide transferase activities. RNase H-related enzymes typically contain a highly conserved carboxylate triad, usually DDE, in their catalytic centre. However, instead of a third carboxylate, UvrC of Thermotoga maritima was found to contain a highly conserved histidine (H488) on helix-4 in close proximity to two aspartates.
Pssm-ID: 462484 [Multi-domain] Cd Length: 150 Bit Score: 204.22 E-value: 6.69e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 393 KRMECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQ 471
Cdd:pfam08459 11 RRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPDLILIDGGKGQ 90
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 472 LGQAKAVFESLDVswdknHPLLLGVAKGADRKagletLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHA 541
Cdd:pfam08459 91 LNAALEVLEELGL-----DIPVIGLAKDDKHK-----IDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
17-94 |
4.89e-38 |
|
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; UvrC is essential for nucleotide excision repair (NER). The N-terminal catalytic GIY-YIG domain of UvrC (also known as Uri domain) is responsible for the 3' incision reaction and the C-terminal half of UvrC, consisting of an UvrB-binding domain (UvrBb), EndoV-like nuclease domain and a helix-hairpin-helix (HhH) DNA-binding domain, contains the residues involved in 5' incision. The N- and C-terminal regions are joined by a common Cys-rich domain containing four conserved Cys residues. Besides UvrC, protein Cho (UvrC homolog) serves as a second endonuclease in E. coli NER. Cho contains GIY-YIG motif followed by a Cys-rich region and shares sequence homology with the N-terminal half of UvrC. It is capable of incising the DNA at the 3' side of a lesion in the presence of the UvrA and UvrB proteins during NER. The C-terminal half of Cho is a unique uncharacterized domain, which is distinct from that of UvrC. Moreover, unlike UvrC, Cho does not require the UvrC-binding domain of UvrB for the 3' incision reaction, which might cause the shift in incision position and the difference in incision efficiencies between Cho and UvrC on different damaged substrates. Due to this, the range of NER in E. coli can be broadened by combining action of Cho and UvrC. This family also includes many uncharacterized epsilon proofreading subunits of DNA polymerase III, which have an additional N-terminal ExoIII domain and a 3'-5' exonuclease domain homolog, fused to an UvrC-like region or a Cho-like region. The UvrC-like region includes a GIY-YIG motif, followed by a Cys-rich region, and an UvrB-binding domain (UvrBb), but lacks the EndoV-like nuclease domain and the helix-hairpin-helix (HhH) DNA-binding domain. The Cho-like region consists of a GIY-YIG motif, followed by the Cys-rich region, and the unique uncharacterized domain presenting in the C-terminal half of Cho. Some family members may not carry the Cys-rich region. This family also includes a specific Cho-like protein from G. violaceus, which possesses only UvrBb domain at the C-terminus, but lacks the additional N-terminal ExoIII domain. The oother two remote homologs of UvrC, Bacillus-I and -II, are included in this family as well. Both of them contain a GIY-YIG domain, but no Cys-rich region. Moreover, the whole C-terminal region of Bacillus-I is replaces by an unknown domain, and Bacillus-II possesses another unknown N-terminal extension.
Pssm-ID: 198381 [Multi-domain] Cd Length: 81 Bit Score: 135.30 E-value: 4.89e-38
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 695732139 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
1.63e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 77.46 E-value: 1.63e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFR-SNLASRKTEALVSLIQNIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 695732139 95 LLRD 98
Cdd:smart00465 81 LLKG 84
|
|
| GIY-YIG |
pfam01541 |
GIY-YIG catalytic domain; This domain called GIY-YIG is found in the amino terminal region of ... |
17-93 |
8.17e-10 |
|
GIY-YIG catalytic domain; This domain called GIY-YIG is found in the amino terminal region of excinuclease abc subunit c (uvrC), bacteriophage T4 endonucleases segA, segB, segC, segD and segE; it is also found in putative endonucleases encoded by group I introns of fungi and phage. The structure of I-TevI a GIY-YIG endonuclease, reveals a novel alpha/beta-fold with a central three-stranded antiparallel beta-sheet flanked by three helices. The most conserved and putative catalytic residues are located on a shallow, concave surface and include a metal coordination site.
Pssm-ID: 426314 [Multi-domain] Cd Length: 78 Bit Score: 55.42 E-value: 8.17e-10
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 695732139 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIDVTVTHTETEALLLEHNYIKLYQP-RYN 93
Cdd:pfam01541 1 KGGIYIIRNKDNKLLYVGSTKNLERRLNQHNAGKGAKYTRGKGVEPFKLIYLEEFPTKSEALELEKYLIKLYRPnKYN 78
|
|
| PRK10545 |
PRK10545 |
excinuclease Cho; |
8-190 |
2.22e-09 |
|
excinuclease Cho;
Pssm-ID: 182535 Cd Length: 286 Bit Score: 58.92 E-value: 2.22e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 8 KAFLKTVTSQPGVYRMYDAGGTV-IYVGKAKDLKKRLSSYFRSnlasrKTEA-LVSLIQNIDVTVTHTETEALLLEHNYI 85
Cdd:PRK10545 25 RPFLEDLPKLPGVYLFHGESDTMpLYIGKSVNIRSRVLSHLRT-----PDEAaMLRQSRRISWICTAGEIGALLLEARLI 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 86 KLYQPRYNVLLRDDKSYPFIFLSGDThPRL--AMHRGAKHAKGEYfGPFPNGYAVRETLALL---QKI-FPIRQCENSvy 159
Cdd:PRK10545 100 KEQQPLFNKRLRRNRQLCSLQLNEGR-VDVvyAKEVDFSRAPNLF-GLFANRRAALQALQSIadeQKLcYGLLGLEPL-- 175
|
170 180 190
....*....|....*....|....*....|.
gi 695732139 160 rNRSRPCLQYQIGRCLGPCVeGLVSEEEYAQ 190
Cdd:PRK10545 176 -SRGRACFRSALKRCAGACC-GKESHEAHAL 204
|
|
| GIY-YIG_SF |
cd00719 |
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large ... |
19-88 |
7.90e-09 |
|
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large and diverse group of proteins involved in many cellular processes, such as class I homing GIY-YIG family endonucleases, prokaryotic nucleotide excision repair proteins UvrC and Cho, type II restriction enzymes, the endonuclease/reverse transcriptase of eukaryotic retrotransposable elements, and a family of eukaryotic enzymes that repair stalled replication forks. All of these members contain a conserved GIY-YIG nuclease domain that may serve as a scaffold for the coordination of a divalent metal ion required for catalysis of the phosphodiester bond cleavage. By combining with different specificity, targeting, or other domains, the GIY-YIG nucleases may perform different functions.
Pssm-ID: 198380 [Multi-domain] Cd Length: 69 Bit Score: 52.37 E-value: 7.90e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 19 GVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSLIQNIdVTVTHTETEALLLEHNYIKLY 88
Cdd:cd00719 1 GVYVLYDEDNGLIYVGQTKNLRNRIKEHLRKQRSDWTKGLKPFEILYL-EVAPEAESELLDLEAALIKKL 69
|
|
| UVR |
pfam02151 |
UvrB/uvrC motif; |
204-238 |
2.59e-08 |
|
UvrB/uvrC motif;
Pssm-ID: 308001 [Multi-domain] Cd Length: 36 Bit Score: 49.70 E-value: 2.59e-08
10 20 30
....*....|....*....|....*....|....*
gi 695732139 204 DQVLTQLIARMEKASAALEFEEAARIRDQIQAVRR 238
Cdd:pfam02151 1 KKLIKELEEEMEEAAENEDFEKAAKLRDQINALKK 35
|
|
| MUS81 |
COG1948 |
ERCC4-type crossover junction endonuclease [Replication, recombination and repair]; |
539-605 |
4.22e-08 |
|
ERCC4-type crossover junction endonuclease [Replication, recombination and repair];
Pssm-ID: 441551 [Multi-domain] Cd Length: 214 Bit Score: 54.03 E-value: 4.22e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 539 DHAISGHRKKRAKVKNT---SSLETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIY 605
Cdd:COG1948 135 KREVSLHGKKKPKTLREqqlYVVESLPGIGPKLARRLLEHFGSVEAVFNASEEELMKVEGIGEKTAERIR 204
|
|
| UvrB |
COG0556 |
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair]; |
204-238 |
2.72e-06 |
|
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair];
Pssm-ID: 440322 [Multi-domain] Cd Length: 657 Bit Score: 50.39 E-value: 2.72e-06
10 20 30
....*....|....*....|....*....|....*
gi 695732139 204 DQVLTQLIARMEKASAALEFEEAARIRDQIQAVRR 238
Cdd:COG0556 622 EKLIKELEKEMKEAAKNLEFEEAARLRDEIKELKK 656
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
558-609 |
7.33e-06 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 43.63 E-value: 7.33e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 695732139 558 LETIEGVGPKRRQMLLKYMGG-LQGLLNASMEEIAKVPGISQGLAEKIYYSLK 609
Cdd:pfam14520 4 LLSISGIGPKTALALLSAGIGtVEDLAEADVDELAEIPGIGEKTAQRIILELR 56
|
|
| GIY-YIG_bI1_like |
cd10445 |
Catalytic GIY-YIG domain of putative intron-encoded endonuclease bI1 and similar proteins; The ... |
18-96 |
1.09e-05 |
|
Catalytic GIY-YIG domain of putative intron-encoded endonuclease bI1 and similar proteins; The prototype of this family is a putative intron-encoded mitochondrial DNA endonuclease bI1 found in mitochondrion Ustilago maydis. This protein may arise from proteolytic cleavage of an in-frame translation of COB exon 1 plus intron 1, containing the bI1 open reading frame. It contains an N-terminal truncated non-functional cytochrome b region and a C-terminal intron-encoded endonuclease bI1 region. The bI1 region shows high sequence similarity to endonucleases of group I introns of fungi and phage and might be involved in intron homing. Many uncharacterized bI1 homologs existing in fungi and chlorophyta in this family do not contain the cytochrome b region, but have a standalone bI1-like region, which contains a GIY-YIG domain and a minor-groove binding alpha-helix nuclease-associated modular domain (NUMOD). This family also includes a Yarrowia lipolytica mobile group-II intron COX1-i1, also called intron alpha, encoding protein with reverse transcriptase activity. The group-II intron COX1-i1 may be involv ed both in the generation of the circular multimeric DNA molecules (senDNA alpha) which amplify during the senescence syndrome and in the generation of the site-specific deletion which accumulates in the premature-death syndrome.
Pssm-ID: 198392 [Multi-domain] Cd Length: 88 Bit Score: 44.14 E-value: 1.09e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 18 PGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVSL----IQNIDVTV-----THTETEALLLEHNYIKLY 88
Cdd:cd10445 1 SGIYIWINKINGKIYVGSSINLYKRLRSYLNPSYLKKNSPILRALlkygLSNFTLTIleyynGENKEELLELEQYYIDLL 80
|
....*...
gi 695732139 89 QPRYNVLL 96
Cdd:cd10445 81 KPEYNILK 88
|
|
| PRK05298 |
PRK05298 |
excinuclease ABC subunit UvrB; |
204-238 |
1.14e-05 |
|
excinuclease ABC subunit UvrB;
Pssm-ID: 235395 [Multi-domain] Cd Length: 652 Bit Score: 48.51 E-value: 1.14e-05
10 20 30
....*....|....*....|....*....|....*
gi 695732139 204 DQVLTQLIARMEKASAALEFEEAARIRDQIQAVRR 238
Cdd:PRK05298 612 EKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKE 646
|
|
| GIY-YIG_EndoII_Hpy188I_like |
cd10436 |
Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction ... |
18-94 |
5.22e-05 |
|
Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction endonuclease R.Hpy188I, and similar proteins; This family includes two different GIY-YIG enzymes, coliphage T4 non-specific endonuclease II (EndoII), and type II restriction endonuclease R.Hpy188I. They display high sequence similarity to each other, and both of them contain an extra N-terminal hairpin that lacks counterparts in other GIY-YIG enzymes. EndoII encoded by gene denA catalyzes the initial step in degradation of host DNA, which permits scavenging of host-derived nucleotides for phage DNA synthesis. R.Hpy188I recognizes the unique sequence, 5'-TCNGA-3', and cleaves the DNA between nucleotides N and G in its recognition sequence to generate a single nucleotide 3'-overhang. EndoII binds to two DNA substrates as an X-shaped tetrameric structure composed as a dimer of dimers. In contrast, two subunits of R.Hpy188I form a dimer to embrace one bound DNA. Divalent metal-ion cofactors are required for their catalytic events, but not for the substrates binding.
Pssm-ID: 198383 [Multi-domain] Cd Length: 97 Bit Score: 42.34 E-value: 5.22e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 18 PGVYrMYDAGGTVIYVGKAKDLKKRLSSY---------FRSNlaSRKTEALVSLIQN---IDVTVTHTETE--------- 76
Cdd:cd10436 1 NGVY-AFVVDGEIVYIGETQDLRKRFNSYrggisprngQTTN--CRINKLILKALKKgkvVELYVKQPEELvitlgdpvn 77
|
90
....*....|....*....
gi 695732139 77 -ALLLEHNYIKLYQPRYNV 94
Cdd:cd10436 78 tAKGLEDELIEKIKPEWNS 96
|
|
| HHH |
pfam00633 |
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ... |
579-605 |
4.11e-04 |
|
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated in the central domain of RuvA. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.
Pssm-ID: 425789 [Multi-domain] Cd Length: 30 Bit Score: 37.78 E-value: 4.11e-04
10 20
....*....|....*....|....*..
gi 695732139 579 LQGLLNASMEEIAKVPGISQGLAEKIY 605
Cdd:pfam00633 2 LEGLIPASVEELLALPGVGPKTAEAIL 28
|
|
| ComEA |
COG1555 |
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ... |
554-604 |
8.98e-04 |
|
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];
Pssm-ID: 441164 [Multi-domain] Cd Length: 72 Bit Score: 38.31 E-value: 8.98e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 695732139 554 NTSS---LETIEGVGPKRRQMLLKY---MGGLQgllnaSMEEIAKVPGISQGLAEKI 604
Cdd:COG1555 16 NTATaeeLQTLPGIGPKLAQRIVEYrekNGPFK-----SVEDLLEVKGIGPKTLEKL 67
|
|
| PRK13766 |
PRK13766 |
Hef nuclease; Provisional |
536-605 |
2.11e-03 |
|
Hef nuclease; Provisional
Pssm-ID: 237496 [Multi-domain] Cd Length: 773 Bit Score: 41.01 E-value: 2.11e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 695732139 536 ESHDHAISGHRKKRAKvkntsSL--------ETIEGVGPKRRQMLLKYMGGLQGLLNASMEEIAKVPGISQGLAEKIY 605
Cdd:PRK13766 692 EEEKREVSVHGEKKAM-----TLkeqqeyivESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRIR 764
|
|
| denA |
PHA02598 |
endonuclease II; Provisional |
27-98 |
2.29e-03 |
|
endonuclease II; Provisional
Pssm-ID: 222902 [Multi-domain] Cd Length: 138 Bit Score: 38.59 E-value: 2.29e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 695732139 27 GGTVIYVGKAKDLKKRLSSY---------FRSNlaSRKTEALVSLIQ-------------NIDVTVTH---TETEALLLE 81
Cdd:PHA02598 42 DDELVYIGKTKNLRKRIDYYrnsknwrntNTSD--ITKSALLEEALKkgkkvefyarqcfNLSITNPLgsmTIATMDLEE 119
|
90
....*....|....*..
gi 695732139 82 HNYIKLYQPRYNVLLRD 98
Cdd:PHA02598 120 PKFIKKFNPEWNKQHKK 136
|
|
| McsA |
COG3880 |
Protein-arginine kinase activator protein McsA [Posttranslational modification, protein ... |
200-236 |
7.07e-03 |
|
Protein-arginine kinase activator protein McsA [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 443088 [Multi-domain] Cd Length: 173 Bit Score: 37.95 E-value: 7.07e-03
10 20 30 40
....*....|....*....|....*....|....*....|
gi 695732139 200 AGKDDQVLTQLI---ARMEKASAALEFEEAARIRDQIQAV 236
Cdd:COG3880 125 AGGRLRIKREIEelkEELQEAVEKEEYEEAAELRDEIREL 164
|
|
| |
