|
Name |
Accession |
Description |
Interval |
E-value |
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
4-610 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 952.25 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 4 RFDAKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHN 83
Cdd:PRK00558 1 KEFLKEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 84 YIKLYQPRYNVLLRDDKSYPLIFL-SADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNR 162
Cdd:PRK00558 81 LIKKYKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 163 SRPCLQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTER 242
Cdd:PRK00558 161 KRPCLLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEK 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 243 QFVS-GDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDmGEVVQTFVGQFYLQGSqartLPGEILLDF 321
Cdd:PRK00558 240 QKVSlKDGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPH 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 322 SLPEkDLLAESLseLAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQSTIHQRLAELAKVLNLTE-INRMECFDI 400
Cdd:PRK00558 315 ELDD-EELAEAL--LAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEpPYRIECFDI 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 401 SHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEK-KIPDVIFIDGGKGQLGMAIDVF 479
Cdd:PRK00558 392 SHIQGTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEFgPLPDLILIDGGKGQLNAAKEVL 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 480 KSLNVTwdknkPLLIGIAKGADRKAGLETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALE 559
Cdd:PRK00558 472 EELGLD-----IPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALD 546
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|.
gi 727169612 560 LIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALKH 610
Cdd:PRK00558 547 DIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 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: 912.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 3 DRFDAKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 83 NYIKLYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 163 SRPCLQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTER 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 243 QFV-SGDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDMGEVVQTFVGQFYLQGSQartLPGEILLDF 321
Cdd:COG0322 241 QKVvLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 322 SLPEKDLLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQ----STIHQRLAELAKVLNLTEI-NRME 396
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERerdeARQERALEELAEALGLPELpRRIE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 397 CFDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEK-KIPDVIFIDGGKGQLGMA 475
Cdd:COG0322 398 CFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEDePLPDLILIDGGKGQLNAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 476 IDVFKSLNVTwdknKPLLIGIAKgadRKaglETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNT 555
Cdd:COG0322 478 REVLEELGLD----DIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKARLK 547
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....
gi 727169612 556 SALELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALK 609
Cdd:COG0322 548 SVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLH 601
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
7-589 |
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: 810.83 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 7 AKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQvSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIK 86
Cdd:TIGR00194 1 LKEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFREN-NSAKTQALVKQIADIEYILTKNENEALILEANLIK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 87 LYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENsvyRNRSRPC 166
Cdd:TIGR00194 80 QYQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPC 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 167 LQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFVS 246
Cdd:TIGR00194 157 LYYQIGRCLGPCV-KEITEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 247 -GDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGgTDMGEVVQTFVGQFYLQGSQARTLPGEILLDFSLPE 325
Cdd:TIGR00194 236 lTDLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLED 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 326 KDLLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQSTIHQRLAELAKVLNLTEINRMECFDISHTMG 405
Cdd:TIGR00194 315 LKLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 406 EQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEKKIP--DVIFIDGGKGQLGMAIDVFKSLN 483
Cdd:TIGR00194 395 SQTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 484 VtwdKNKPLLIGIAKgADRKAGLETLFFVPEGEGISLppDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALELIEG 563
Cdd:TIGR00194 475 V---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPG 548
|
570 580
....*....|....*....|....*.
gi 727169612 564 VGPKRRQVLLKYMGGLQPLLNASVEE 589
Cdd:TIGR00194 549 VGEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
384-541 |
2.18e-64 |
|
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: 208.07 E-value: 2.18e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 384 AKVLNLTE-INRMECFDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEE-KKIPD 461
Cdd:pfam08459 1 QEALGLPKlPRRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 462 VIFIDGGKGQLGMAIDVFKSLNVtwdknKPLLIGIAKGADRKagletLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHA 541
Cdd:pfam08459 81 LILIDGGKGQLNAALEVLEELGL-----DIPVIGLAKDDKHK-----IDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
17-94 |
2.97e-37 |
|
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: 132.99 E-value: 2.97e-37
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 727169612 17 QPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
9.95e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 75.15 E-value: 9.95e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 17 QPGVYRMYDATGTVIYVGKAKDLKKRLASYFR-QQVSSRKTETLVKNIAQIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 727169612 95 LLRD 98
Cdd:smart00465 81 LLKG 84
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
4-610 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 952.25 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 4 RFDAKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHN 83
Cdd:PRK00558 1 KEFLKEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 84 YIKLYQPRYNVLLRDDKSYPLIFL-SADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNR 162
Cdd:PRK00558 81 LIKKYKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 163 SRPCLQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTER 242
Cdd:PRK00558 161 KRPCLLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEK 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 243 QFVS-GDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDmGEVVQTFVGQFYLQGSqartLPGEILLDF 321
Cdd:PRK00558 240 QKVSlKDGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPH 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 322 SLPEkDLLAESLseLAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQSTIHQRLAELAKVLNLTE-INRMECFDI 400
Cdd:PRK00558 315 ELDD-EELAEAL--LAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEpPYRIECFDI 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 401 SHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEK-KIPDVIFIDGGKGQLGMAIDVF 479
Cdd:PRK00558 392 SHIQGTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEFgPLPDLILIDGGKGQLNAAKEVL 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 480 KSLNVTwdknkPLLIGIAKGADRKAGLETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALE 559
Cdd:PRK00558 472 EELGLD-----IPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALD 546
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|.
gi 727169612 560 LIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALKH 610
Cdd:PRK00558 547 DIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 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: 912.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 3 DRFDAKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 83 NYIKLYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 163 SRPCLQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTER 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 243 QFV-SGDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDMGEVVQTFVGQFYLQGSQartLPGEILLDF 321
Cdd:COG0322 241 QKVvLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 322 SLPEKDLLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQ----STIHQRLAELAKVLNLTEI-NRME 396
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERerdeARQERALEELAEALGLPELpRRIE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 397 CFDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEK-KIPDVIFIDGGKGQLGMA 475
Cdd:COG0322 398 CFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEDePLPDLILIDGGKGQLNAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 476 IDVFKSLNVTwdknKPLLIGIAKgadRKaglETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNT 555
Cdd:COG0322 478 REVLEELGLD----DIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKARLK 547
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|....
gi 727169612 556 SALELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALK 609
Cdd:COG0322 548 SVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLH 601
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
7-589 |
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: 810.83 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 7 AKAFLSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQvSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIK 86
Cdd:TIGR00194 1 LKEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFREN-NSAKTQALVKQIADIEYILTKNENEALILEANLIK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 87 LYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENsvyRNRSRPC 166
Cdd:TIGR00194 80 QYQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPC 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 167 LQYQIGRCLGPCVaGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFVS 246
Cdd:TIGR00194 157 LYYQIGRCLGPCV-KEITEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 247 -GDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGgTDMGEVVQTFVGQFYLQGSQARTLPGEILLDFSLPE 325
Cdd:TIGR00194 236 lTDLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLED 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 326 KDLLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLSQQSTIHQRLAELAKVLNLTEINRMECFDISHTMG 405
Cdd:TIGR00194 315 LKLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 406 EQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEKKIP--DVIFIDGGKGQLGMAIDVFKSLN 483
Cdd:TIGR00194 395 SQTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 484 VtwdKNKPLLIGIAKgADRKAGLETLFFVPEGEGISLppDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALELIEG 563
Cdd:TIGR00194 475 V---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPG 548
|
570 580
....*....|....*....|....*.
gi 727169612 564 VGPKRRQVLLKYMGGLQPLLNASVEE 589
Cdd:TIGR00194 549 VGEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| uvrC |
PRK14669 |
excinuclease ABC subunit C; Provisional |
13-601 |
4.06e-136 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237784 [Multi-domain] Cd Length: 624 Bit Score: 410.84 E-value: 4.06e-136
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 13 TVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYF-RQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPR 91
Cdd:PRK14669 9 TLPTSPGVYLYKNAGGEVIYVGKAKNLRSRVRSYFsEDKLGNIKTGSLIREAVDIDYILVDNEKEALALENNLIKQYKPR 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 92 YNVLLRDDKSYPLIFLS-ADTHPRLAVHRGAKHAKGEYFGPF-PNSYAVReTLALLQKLFPIRQCENSVYRNRSRPCLQY 169
Cdd:PRK14669 89 FNILLRDDKTYPYVKLTlGEKYPRVYVTRRLRKDGAQYYGPFfPANLAYR-LVDLIHRHFLVPSCKVDLTRYHPRPCLQF 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 170 QIGRCLGPCVAGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFV-SGD 248
Cdd:PRK14669 168 YIHRCLGPCVQGLTTDEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVEELEEKQRMaAAK 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 249 SDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYF------PKVPGGTDMGEVVQTFVGQFYLqgsQARTLPGEILLDFS 322
Cdd:PRK14669 248 GDDADVFGYHYENPMVAVNLFHMRGGKIVDRREFFwedlgeVQVEFEYDEGLFFSSLLKQIYL---DQQYVPREIYVPVE 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 323 LPEKDLLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKLS----QQSTIHQRLAElakVLNLTEI-NRMEC 397
Cdd:PRK14669 325 FEDREALEELLTEQRHRRIEIRVPQRGDKRSLLDLVEQNAKQSYDQRFRvmkpSSRAIQEALQD---ALNLPELpSRIEC 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 398 FDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEEKK-IPDVIFIDGGKGQLGMAI 476
Cdd:PRK14669 402 FDISHIQGAETVASMVVWEDGKMKKSDYRKFIIKTVVGVDDFASMREVVTRRYSRLQEEKQpMPGLVLIDGGLGQLHAAA 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 477 DVFKSLNVTwdkNKPlLIGIAKgadrkagLETLFFV--PEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRN 554
Cdd:PRK14669 482 EALEAIGIT---DQP-LASIAK-------REEIIYVfgQEDEPIVLDRFSPVLHLVQSIRDEAHRFAITFHRKRRETRDR 550
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 727169612 555 TSALELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALA 601
Cdd:PRK14669 551 TSELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAVVGRAAAEA 597
|
|
| uvrC |
PRK14666 |
excinuclease ABC subunit C; Provisional |
11-609 |
5.57e-124 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237782 [Multi-domain] Cd Length: 694 Bit Score: 381.93 E-value: 5.57e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 11 LSTVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQ-QVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQ 89
Cdd:PRK14666 6 LSTIPLTPGVYLYKDEAGRIIYVGKARHLRRRVASYFRDvSALTPKTVAMLRHAVTIDTLSTTTEKEALLLEASLIKKHR 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 90 PRYNVLLRDDKSYPLIFLSADTH-PRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNRSRPCLQ 168
Cdd:PRK14666 86 PRYNIVLRDDKQYVLFRLGAKHPyPRLEIVRKARRDGARYFGPFTSASAARETWKTIHRAFPLRRCSDRAFGNRVRACLY 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 169 YQIGRCLGPCVAgLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQ-FVSG 247
Cdd:PRK14666 166 HFMGQCLGPCVN-DVPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQIRAVERTVERQaAVLP 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 248 DSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDMGEVVQTFVGQFYlqGSQArTLPGEILL-------- 319
Cdd:PRK14666 245 GGGDLDVVGLVEAEGGLALGVLFVRQGVLLDGRAFFWPGLGFEEAPELLWSFLGQFY--GPQS-TIPPRIVVpwlpdteg 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 320 --------------------------------------------DFSLPEKD---------------------------- 327
Cdd:PRK14666 322 regddlaptavctdagllpdtpllpdapegssdpvvpvaaatpvDASLPDVRtgtaptslanvshadpavaqptqaatla 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 328 ----------LLAESLSELAGRKIQIQSKPRGDRARYLKLARTNAATALTTKlsQQSTIHQRlaeLAKVLNLT-EINRME 396
Cdd:PRK14666 402 gaapkgathlMLEETLADLRGGPVRIVPPRNPAENRLVDMAMSNAREEARRK--AETPLQDL---LARALHLSgPPHRIE 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 397 CFDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGiTPGDDYAAMTQVLKRRYGKAleeKKIPDVIFIDGGKGQLGMai 476
Cdd:PRK14666 477 AVDVSHTGGRNTRVGMVVFEDGKPARDAYRTYAFED-GEGDDYGTLAAWAGRRVESG---PPWPDLLLVDGGRGQLAA-- 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 477 dVFKSLNVTWDKNKPLLIGIAKG------ADRKAG-LETLFFVPeGEGISLP--PDSPALHVIQHIRDDSHNHAITGHRQ 547
Cdd:PRK14666 551 -VVRALEEAGMGGLFAVASIAKArteegrADRRAGnVADRIFLP-GRANPLPlrAGAPELLFLQHVRDTVHDYAIGRHRR 628
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 727169612 548 RRAKVRNTSALELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALK 609
Cdd:PRK14666 629 ARAGAALTGELQRVEGIGPATARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHLK 690
|
|
| uvrC |
PRK14668 |
excinuclease ABC subunit C; Provisional |
12-608 |
2.41e-108 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 184785 [Multi-domain] Cd Length: 577 Bit Score: 337.51 E-value: 2.41e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 12 STVTSQPGVYRmYDATGTVIYVGKAKDLKKRLASYFRQQvsSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPR 91
Cdd:PRK14668 11 AELPREPGVYQ-FVAGGTVLYVGKAVDLRDRVRSYADPR--SERIRRMVERADDIDFAVTDTETQALLLEANLIKRHQPR 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 92 YNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAkGEYFGPFPNSYAVRETLALLQKLFPIRQCENSVYRNRSRPCLQYQI 171
Cdd:PRK14668 88 YNVRLKDDKSYPLVQLTDHPVPRIEVTRDPDEG-ATVFGPYTDKGRVETVVKALRETYGLRGCSDHKYSNRDRPCLDYEM 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 172 GRCLGPCvAGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTER--QFVSGDS 249
Cdd:PRK14668 167 GLCTAPC-TGEIDEEAYAEDVESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDRLEAVEAFHGGggEAVSSTG 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 250 DD--LDVIGVAFDAGMACLHVLFIRQGKVLGSRSYFPKVPGGTDMG-EVVQTFVGQFYLQgsqaRTLPGEILLDFSLPEK 326
Cdd:PRK14668 246 DEraVDVLGVAIEGDRATVARLHAEGGQLVDRDRHRLEAPDGEDRGaAVLAAFIVQYYAE----RELPDALLLSERPGDD 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 327 DLLAeslsELAGRKIQIQSKPRGDRARYLKLARTNAatalttklSQQSTIHQRLAELAKVLNLTEINRMECFDISHTMGE 406
Cdd:PRK14668 322 DVRA----WLEAEGVDVRVPGAGREATLVDLALKNA--------RRRGGRDDEVGALADALGIDRPERIEGFDVSHAQGR 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 407 QTVASCVVFDGNGPVRAEYRRYNISgiTPGDDYAAMTQVLKRRYGKALE---EKKIPDVIFIDGGKGQLGMAIDVFKSln 483
Cdd:PRK14668 390 AVVGSNVCFVDGSAETADYRRKKLT--ERNDDYANMRELVRWRAERAVEgrdDRPDPDLLLIDGGDGQLGAARDALAE-- 465
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 484 VTWDKNkplLIGIAKGadrkaglETLFFVPEGEgISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVrnTSALELIEG 563
Cdd:PRK14668 466 TGWDVP---AIALAKA-------EELVVTPDRT-YDWPDDAPQLHLLQRVRDEAHRFAVQYHQTLRDDV--STVLDDVPG 532
|
570 580 590 600
....*....|....*....|....*....|....*....|....*
gi 727169612 564 VGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNAL 608
Cdd:PRK14668 533 VGPETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETIRERL 577
|
|
| uvrC |
PRK14667 |
excinuclease ABC subunit C; Provisional |
6-609 |
1.46e-106 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237783 [Multi-domain] Cd Length: 567 Bit Score: 332.47 E-value: 1.46e-106
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 6 DAKAFLSTVTSQPGVYrMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYI 85
Cdd:PRK14667 5 DALELIEKAPEEPGVY-LFKKKKRYIYIGKAKNIKNRLLQHYKQSETDPKERAIFSESSSLEWIITRNEYEALVLEIDLI 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 86 KLYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHaKGEYFGPFPNSYAVRETLALLQKLFPIRQCENsvYRNRSRP 165
Cdd:PRK14667 84 QQYKPKYNVLLKSGSGYPMLLITDDEYPTVKIVRGTGE-KGEYFGPFLPARKARKVKKLIHKLFKLRTCDP--MPKRKEP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 166 CLQYQIGRCLGPCvAGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFV 245
Cdd:PRK14667 161 CMDYHLGLCSGPC-CGKISKEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALENLIKGQEV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 246 SG-DSDDLDVigvaFDAGMACLHVLFIRQGKVLGSRSYFPKvpggtDMGEVVQTFVGQFYlqgsQARTLPGEILLDFSLP 324
Cdd:PRK14667 240 SGlPIEEADI----FYFMGSRLGLFLVRSSKLVGKEEFRLE-----SEEQEEEEVILGYY----YSNYIPQKIITNFELS 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 325 EKdlLAESLSELAGRKIQIQS-KPRgdraRYLKLARTNAATALTTKLSQQstihqrlaELAKVLNLTEINRMECFDISHT 403
Cdd:PRK14667 307 DN--LKQWLSKRKGGDVEFLTlIPK----ELEKFIEENIGIKVDLEVLKE--------EFKKTFGFPLPERIEGFDISHF 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 404 MGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALE-EKKIPDVIFIDGGKGQLGMAIDVFKSL 482
Cdd:PRK14667 373 YGEFTVGSCVVWEDGSMNKKEYRRYKIKTVDGIDDYASLREVLTRRARRYKEgENPMPDLWLIDGGKGQLSVGIEVRDRL 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 483 NVtwdknkPLLI-GIAKGadrkaglETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALELI 561
Cdd:PRK14667 453 GL------NIKVfSLAKK-------EEILYTEDGKEIPLKENPILYKVFGLIRDEAHRFALSYNRKLREKEGLKDILDKI 519
|
570 580 590 600
....*....|....*....|....*....|....*....|....*...
gi 727169612 562 EGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVpGISQALAEKIYNALK 609
Cdd:PRK14667 520 KGIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEVKKYLS 566
|
|
| uvrC |
PRK14670 |
excinuclease ABC subunit C; Provisional |
23-604 |
4.71e-98 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173133 [Multi-domain] Cd Length: 574 Bit Score: 310.69 E-value: 4.71e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 23 MYDATGTVIYVGKAKDLKKRLASYFRQQVSsRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPRYNVLLRDDKSY 102
Cdd:PRK14670 1 MYSENNKILYIGKAKNLRSRVKNYFLEKIS-HKTKILMKNVKNIEVITTNSEYEALLLECNLIKTHKPDYNIKLKDDKGY 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 103 PLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCEnsvyRNRSRPCLQYQIGRCLGPCVAGL 182
Cdd:PRK14670 80 PMIRITCEKYPRIFKTRKIINDGSEYFGPYVNVKKLDLVLDLINKTFKTRKCK----KKSKNPCLYFHMGQCLGVCYRED 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 183 VsEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFVSG-DSDDLDVIGVAFDA 261
Cdd:PRK14670 156 L-EKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEISQTQIITKiNKLSIDYVYIHPTE 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 262 GMACLHVLFIRQGKVLGSRSYFPKVPGGTDmgEVVQTFVGQFYLqgSQARTLPGEILLdFSLPEKDLLAESLSELAGRKI 341
Cdd:PRK14670 235 NLNTIVILKYKDGKLVEKDINFDESIYEED--ELILQFITQYYT--SINMIVPDKIHI-FKKIDTKNITKLINELKNTKT 309
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 342 QIQSKPRGDRARYLKLARTNAATALTTKLSQQstiHQRLAELAKVLNLTEINR-MECFDISHTMGEQTVASCVVFDGNGP 420
Cdd:PRK14670 310 EIIYKETKEIIKIMEMAISNAKLALREYENEK---NKALESLKIILEMDKLPKtIEGFDIAHLNGQKTVASLVTFKMGKP 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 421 VRAEYRRYNISGITPG--DDYAAMTQVLKRRYGKALEEK-KIPDVIFIDGGKGQLGMAIDVFKSLNVtwdKNKPLLIGIA 497
Cdd:PRK14670 387 FKDGYRVYKINSLLKGeiDDFKAIKEVISRRYSKLINEQlELPNLILIDGGKGQLNAAYSILKGLKI---ENKVKVCALA 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 498 KGAdrkaglETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVR-NTSAlelIEGVGPKRRQVLLKYM 576
Cdd:PRK14670 464 KKE------ETIFLPNKKQGIKLPKGNPALRILQNVRDEAHRKANGFNKKLRENIKlNYTK---IKGIGEKKAKKILKSL 534
|
570 580
....*....|....*....|....*...
gi 727169612 577 GGLQPLLNASVEEIAKVPGISQALAEKI 604
Cdd:PRK14670 535 GTYKDILLLNEDEIAEKMKINIKMAKKI 562
|
|
| uvrC |
PRK14672 |
excinuclease ABC subunit C; Provisional |
13-607 |
2.37e-77 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173135 [Multi-domain] Cd Length: 691 Bit Score: 259.28 E-value: 2.37e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 13 TVTSQPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQvSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPRY 92
Cdd:PRK14672 17 SAPSTSGVYLWKDVHGVVIYVGKAKSLRTRLTSYFRCR-HDPKTRVLMSRAAALEYLQTQHEYEALLLENTLIKKHTPRY 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 93 NVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPIRQCenSVYRNRSRPCLQYQIG 172
Cdd:PRK14672 96 NICLKDGKTYPLLKLTCEPFPRIFRTRQFCQDGARYFGPFPDVQILDSFLKLILRTYKIRTC--TTLRKRKNPCLYYHLK 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 173 RCLGPCvAGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRRVTERQFVSG-DSDD 251
Cdd:PRK14672 174 RCDAPC-CGWVSPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDDIQAIRCITHKSLVQDmDERA 252
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 252 LDVIGVAFDAGMACLHVLFIRQGKvLGSRSYFpKVPGGTDMGEVVQTFVGQFYlqgsQARTLPGEILLDFSlpeKDLLAE 331
Cdd:PRK14672 253 RDYIAWSSTGAIVTFAVLRMRGGK-LNGRELF-RTRSLKNEEEILSEFLITYY----SDHTIPPHLFVHSS---AGLAEH 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 332 SLSELAGRKIQIQ-------SKPRGDRARYLKLARTNAATALTTKL--------SQQSTIH------------------- 377
Cdd:PRK14672 324 WLSHKAGTQCTVTliplhtfPTPQTPSSTVTTNAPTLAASQNSNAVqdsglrscSETSTMHtlqkahdactasegtrent 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 378 -----------------------------------QRLAELAKVLNLTEI-NRMECFDISHTMGEQTVASCVVFDGNGPV 421
Cdd:PRK14672 404 phesahtphhrailamaqlnaheditrylknrgadDALKELQKQLHLARIpTLIEGFDISHLGGKYTVASLICFKNGAPD 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 422 RAEYRRYNISG-ITPGDDYAAMTQVLKRRYGKALEEKKIPDVIFIDGGKGQLGMAIDVFKSLNVTWDknkplLIGIAKGA 500
Cdd:PRK14672 484 TKNYRLFNLRAhDTRIDDFASMREAIARRYTHTPEGYTLPDLILVDGGIGHVSAAQHVLDALGLSIP-----LVGLAKRA 558
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 501 drkaglETLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHAITGHRQRRAKVRNTSALELIEGVGPKRRQVLLKYMGGLQ 580
Cdd:PRK14672 559 ------EELFIPNSPTPLVLDRRNPALHMLQRIRDEAHRFAITRNRHLRTKKELVLSFERLPHVGKVRAHRLLAHFGSFR 632
|
650 660
....*....|....*....|....*..
gi 727169612 581 PLLNASVEEIAKVPGISQALAEKIYNA 607
Cdd:PRK14672 633 SLQSATPQDIATAIHIPLTQAHTILHA 659
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
384-541 |
2.18e-64 |
|
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: 208.07 E-value: 2.18e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 384 AKVLNLTE-INRMECFDISHTMGEQTVASCVVFDGNGPVRAEYRRYNISGITPGDDYAAMTQVLKRRYGKALEE-KKIPD 461
Cdd:pfam08459 1 QEALGLPKlPRRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 462 VIFIDGGKGQLGMAIDVFKSLNVtwdknKPLLIGIAKGADRKagletLFFVPEGEGISLPPDSPALHVIQHIRDDSHNHA 541
Cdd:pfam08459 81 LILIDGGKGQLNAALEVLEELGL-----DIPVIGLAKDDKHK-----IDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| PRK07883 |
PRK07883 |
DEDD exonuclease domain-containing protein; |
6-300 |
2.02e-59 |
|
DEDD exonuclease domain-containing protein;
Pssm-ID: 236123 [Multi-domain] Cd Length: 557 Bit Score: 207.85 E-value: 2.02e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 6 DAKAFLSTVTSQ--------------PGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVT 71
Cdd:PRK07883 192 ELLTYLPRVTPAqrrkrhladglphaPGVYLFRGPSGEVLYVGTAVNLRRRVRSYFTAAETRGRMREMVALAERVDHVEC 271
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 72 HTETEALLLEHNYIKLYQPRYNVLLRDDKSYPLIFLSADTHPRLAVHRGAKHAKGEYFGPFPNSYAVRETLALLQKLFPI 151
Cdd:PRK07883 272 AHALEAEVRELRLIAAHKPPYNRRSKFPERRWWVRLTDEAFPRLSVVRAVEDDGAAYLGPFRSRRAAEEAAEALARAFPL 351
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 152 RQCEN--SVYRNRSRPCLQYQIGRCLGPCvAGLVSEEEYRQQVDYVRLFLSGKDQQVLHQLIARMEEASKLLNFEEAARI 229
Cdd:PRK07883 352 RQCTDrlSRRARHGPACALAELGRCPAPC-DGRESAAEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARL 430
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 727169612 230 RDQIQAVRRVTERQFVSGDSDDLDVIGVAFDAGMACLHVLFIRQGKVLGSRsyfpKVPGGTDMGEVVQTFV 300
Cdd:PRK07883 431 RDRLAALLRALARAQRLAALAAVPELVAARPDGEGGWELAVVRHGRLAAAG----VAPRGVPPMPVVDALV 497
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
17-94 |
2.97e-37 |
|
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: 132.99 E-value: 2.97e-37
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 727169612 17 QPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
9.95e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 75.15 E-value: 9.95e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 17 QPGVYRMYDATGTVIYVGKAKDLKKRLASYFR-QQVSSRKTETLVKNIAQIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 727169612 95 LLRD 98
Cdd:smart00465 81 LLKG 84
|
|
| PRK10545 |
PRK10545 |
excinuclease Cho; |
8-190 |
2.16e-11 |
|
excinuclease Cho;
Pssm-ID: 182535 Cd Length: 286 Bit Score: 65.08 E-value: 2.16e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 8 KAFLSTVTSQPGVYRMYDATGTV-IYVGKAKDLKKRLASYFRQQVSSRktetLVKNIAQIDVTVTHTETEALLLEHNYIK 86
Cdd:PRK10545 25 RPFLEDLPKLPGVYLFHGESDTMpLYIGKSVNIRSRVLSHLRTPDEAA----MLRQSRRISWICTAGEIGALLLEARLIK 100
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 87 LYQPRYNVLLRDDKSYPLIFLSADThPRL--AVHRGAKHAKGEYfGPFPNSYAVRETLALL---QKL-FPIRQCENSvyr 160
Cdd:PRK10545 101 EQQPLFNKRLRRNRQLCSLQLNEGR-VDVvyAKEVDFSRAPNLF-GLFANRRAALQALQSIadeQKLcYGLLGLEPL--- 175
|
170 180 190
....*....|....*....|....*....|
gi 727169612 161 NRSRPCLQYQIGRCLGPCvAGLVSEEEYRQ 190
Cdd:PRK10545 176 SRGRACFRSALKRCAGAC-CGKESHEAHAL 204
|
|
| GIY-YIG |
pfam01541 |
GIY-YIG catalytic domain; This domain called GIY-YIG is found in the amino terminal region of ... |
17-93 |
2.27e-11 |
|
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: 59.66 E-value: 2.27e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 727169612 17 QPGVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIDVTVTHTETEALLLEHNYIKLYQP-RYN 93
Cdd:pfam01541 1 KGGIYIIRNKDNKLLYVGSTKNLERRLNQHNAGKGAKYTRGKGVEPFKLIYLEEFPTKSEALELEKYLIKLYRPnKYN 78
|
|
| GIY-YIG_SF |
cd00719 |
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large ... |
19-88 |
2.74e-08 |
|
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: 50.83 E-value: 2.74e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 19 GVYRMYDATGTVIYVGKAKDLKKRLASYFRQQVSSRKTETLVKNIAQIdVTVTHTETEALLLEHNYIKLY 88
Cdd:cd00719 1 GVYVLYDEDNGLIYVGQTKNLRNRIKEHLRKQRSDWTKGLKPFEILYL-EVAPEAESELLDLEAALIKKL 69
|
|
| UVR |
pfam02151 |
UvrB/uvrC motif; |
204-238 |
1.40e-07 |
|
UvrB/uvrC motif;
Pssm-ID: 308001 [Multi-domain] Cd Length: 36 Bit Score: 47.78 E-value: 1.40e-07
10 20 30
....*....|....*....|....*....|....*
gi 727169612 204 QQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRR 238
Cdd:pfam02151 1 KKLIKELEEEMEEAAENEDFEKAAKLRDQINALKK 35
|
|
| MUS81 |
COG1948 |
ERCC4-type crossover junction endonuclease [Replication, recombination and repair]; |
558-608 |
1.45e-07 |
|
ERCC4-type crossover junction endonuclease [Replication, recombination and repair];
Pssm-ID: 441551 [Multi-domain] Cd Length: 214 Bit Score: 52.49 E-value: 1.45e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 727169612 558 LELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNAL 608
Cdd:COG1948 157 VESLPGIGPKLARRLLEHFGSVEAVFNASEEELMKVEGIGEKTAERIREVL 207
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
561-609 |
3.98e-07 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 47.10 E-value: 3.98e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 727169612 561 IEGVGPKRRQVLLKYMGG-LQPLLNASVEEIAKVPGISQALAEKIYNALK 609
Cdd:pfam14520 7 ISGIGPKTALALLSAGIGtVEDLAEADVDELAEIPGIGEKTAQRIILELR 56
|
|
| UvrB |
COG0556 |
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair]; |
199-238 |
6.21e-06 |
|
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair];
Pssm-ID: 440322 [Multi-domain] Cd Length: 657 Bit Score: 49.24 E-value: 6.21e-06
10 20 30 40
....*....|....*....|....*....|....*....|.
gi 727169612 199 LSGKD-QQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRR 238
Cdd:COG0556 616 LSKEElEKLIKELEKEMKEAAKNLEFEEAARLRDEIKELKK 656
|
|
| GIY-YIG_bI1_like |
cd10445 |
Catalytic GIY-YIG domain of putative intron-encoded endonuclease bI1 and similar proteins; The ... |
18-96 |
9.44e-06 |
|
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: 9.44e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 18 PGVYRMYDATGTVIYVGKAKDLKKRLASYFrqQVSSRKTETLVKN-----------IAQIDVTVTHTETEALLLEHNYIK 86
Cdd:cd10445 1 SGIYIWINKINGKIYVGSSINLYKRLRSYL--NPSYLKKNSPILRallkyglsnftLTILEYYNGENKEELLELEQYYID 78
|
90
....*....|
gi 727169612 87 LYQPRYNVLL 96
Cdd:cd10445 79 LLKPEYNILK 88
|
|
| PRK05298 |
PRK05298 |
excinuclease ABC subunit UvrB; |
194-238 |
2.37e-05 |
|
excinuclease ABC subunit UvrB;
Pssm-ID: 235395 [Multi-domain] Cd Length: 652 Bit Score: 47.35 E-value: 2.37e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 727169612 194 YVRLFLSGKD-QQVLHQLIARMEEASKLLNFEEAARIRDQIQAVRR 238
Cdd:PRK05298 601 YKKDKLSKKElEKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKE 646
|
|
| GIY-YIG_EndoII_Hpy188I_like |
cd10436 |
Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction ... |
28-94 |
3.14e-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: 43.11 E-value: 3.14e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 28 GTVIYVGKAKDLKKRLASYFR-------QQVSSRKTETLVKNIAQ---IDVTVTHTETE----------ALLLEHNYIKL 87
Cdd:cd10436 10 GEIVYIGETQDLRKRFNSYRGgisprngQTTNCRINKLILKALKKgkvVELYVKQPEELvitlgdpvntAKGLEDELIEK 89
|
....*..
gi 727169612 88 YQPRYNV 94
Cdd:cd10436 90 IKPEWNS 96
|
|
| HHH_2 |
pfam12826 |
Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is ... |
561-606 |
1.17e-03 |
|
Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.
Pssm-ID: 432812 [Multi-domain] Cd Length: 64 Bit Score: 37.50 E-value: 1.17e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 727169612 561 IEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYN 606
Cdd:pfam12826 8 IRHVGETTAKLLARRFGSLDALAEASLEELLEVDDIGPEIAQSIVE 53
|
|
| ComEA |
COG1555 |
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ... |
558-604 |
1.36e-03 |
|
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];
Pssm-ID: 441164 [Multi-domain] Cd Length: 72 Bit Score: 37.53 E-value: 1.36e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 727169612 558 LELIEGVGPKRRQVLLKY---MGGLQpllnaSVEEIAKVPGISQALAEKI 604
Cdd:COG1555 23 LQTLPGIGPKLAQRIVEYrekNGPFK-----SVEDLLEVKGIGPKTLEKL 67
|
|
| denA |
PHA02598 |
endonuclease II; Provisional |
28-98 |
2.11e-03 |
|
endonuclease II; Provisional
Pssm-ID: 222902 [Multi-domain] Cd Length: 138 Bit Score: 38.97 E-value: 2.11e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 727169612 28 GTVIYVGKAKDLKKRLASY-----FRQ-QVS-SRKTETLVKNIAQ-------------IDVTVTH---TETEALLLEHNY 84
Cdd:PHA02598 43 DELVYIGKTKNLRKRIDYYrnsknWRNtNTSdITKSALLEEALKKgkkvefyarqcfnLSITNPLgsmTIATMDLEEPKF 122
|
90
....*....|....
gi 727169612 85 IKLYQPRYNVLLRD 98
Cdd:PHA02598 123 IKKFNPEWNKQHKK 136
|
|
| PRK13482 |
PRK13482 |
DNA integrity scanning protein DisA; Provisional |
572-609 |
2.41e-03 |
|
DNA integrity scanning protein DisA; Provisional
Pssm-ID: 237395 [Multi-domain] Cd Length: 352 Bit Score: 40.53 E-value: 2.41e-03
10 20 30
....*....|....*....|....*....|....*...
gi 727169612 572 LLKYMGGLQPLLNASVEEIAKVPGISQALAEKIYNALK 609
Cdd:PRK13482 303 LVEHFGSLQGLLAASIEDLDEVEGIGEVRARAIREGLS 340
|
|
| HHH |
pfam00633 |
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ... |
582-607 |
2.53e-03 |
|
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: 35.47 E-value: 2.53e-03
10 20
....*....|....*....|....*.
gi 727169612 582 LLNASVEEIAKVPGISQALAEKIYNA 607
Cdd:pfam00633 5 LIPASVEELLALPGVGPKTAEAILSY 30
|
|
| PRK00024 |
PRK00024 |
DNA repair protein RadC; |
558-599 |
2.64e-03 |
|
DNA repair protein RadC;
Pssm-ID: 178801 [Multi-domain] Cd Length: 224 Bit Score: 39.67 E-value: 2.64e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 727169612 558 LELIEGVGPKRRQV------LLKYMGGLQPLLNASVEEIAKVPGISQA 599
Cdd:PRK00024 30 LAILLRTGTKGKSVldlareLLQRFGSLRGLLDASLEELQSIKGIGPA 77
|
|
| PRK13766 |
PRK13766 |
Hef nuclease; Provisional |
558-605 |
3.41e-03 |
|
Hef nuclease; Provisional
Pssm-ID: 237496 [Multi-domain] Cd Length: 773 Bit Score: 40.63 E-value: 3.41e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 727169612 558 LELIEGVGPKRRQVLLKYMGGLQPLLNASVEEIAKVPGISQALAEKIY 605
Cdd:PRK13766 717 VESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRIR 764
|
|
| TIGR00426 |
TIGR00426 |
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ... |
549-608 |
5.74e-03 |
|
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model. [Cellular processes, DNA transformation]
Pssm-ID: 129520 [Multi-domain] Cd Length: 69 Bit Score: 35.68 E-value: 5.74e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 727169612 549 RAKVRNTSALEL---IEGVGPKRRQVLLKYMGGLQPLLNasVEEIAKVPGISQALAEKIYNAL 608
Cdd:TIGR00426 7 RVNINTATAEELqraMNGVGLKKAEAIVSYREEYGPFKT--VEDLKQVPGIGNSLVEKNLAVI 67
|
|
| |
