|
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: 956.49 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKL 87
Cdd:PRK00558 5 KEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENNLIKK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 88 YQPRYNVLLRDDKSYPFIFL-SADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPC 166
Cdd:PRK00558 85 YKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNRKRPC 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 167 LQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:PRK00558 165 LLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEKQKVS 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 247 NA-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElGEVVETFVGQFYLQGSqmrtLPGEILLDFNLhD 325
Cdd:PRK00558 244 LKdGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPHEL-D 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 326 KTLLADSLseLAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQSTITQRLTALATVLKLPAV-KRMECFDISHTM 404
Cdd:PRK00558 318 DEELAEAL--LAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEPpYRIECFDISHIQ 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 405 GEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQAKAVFAELD 483
Cdd:PRK00558 396 GTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEfGPLPDLILIDGGKGQLNAAKEVLEELG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 484 VpwdknHPLLLGVAKGADRKAGLETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIEG 563
Cdd:PRK00558 476 L-----DIPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALDDIPG 550
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 757781722 564 VGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLKH 610
Cdd:PRK00558 551 IGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
3-605 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 909.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 3 DQFDAKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 83 NYIKLYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 163 SRPCLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEK 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 243 QFVSNAGD-DLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSQmrtLPGEILLDF 321
Cdd:COG0322 241 QKVVLPDGgDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 322 NLHDKTLLADSLSELAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQ----STITQRLTALATVLKLPAV-KRME 396
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERerdeARQERALEELAEALGLPELpRRIE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 397 CFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQA 475
Cdd:COG0322 398 CFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEdEPLPDLILIDGGKGQLNAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 476 KAVFAELDVpwdkNHPLLLGVAKgadRKaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNT 555
Cdd:COG0322 478 REVLEELGL----DDIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKARLK 547
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|
gi 757781722 556 STLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIF 605
Cdd:COG0322 548 SVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIY 597
|
|
| 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: 858.21 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 7 AKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLaSRKTEALVALIQQIDVTVTHTETEALLLEHNYIK 86
Cdd:TIGR00194 1 LKEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRENN-SAKTQALVKQIADIEYILTKNENEALILEANLIK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 87 LYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvyRNRSRPC 166
Cdd:TIGR00194 80 QYQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPC 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 167 LQYQIGRCLGPCVEGLvSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:TIGR00194 157 LYYQIGRCLGPCVKEI-TEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 247 NA-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGgTELGEVVETFVGQFYLQGSQMRTLPGEILLDFNLHD 325
Cdd:TIGR00194 236 LTdLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLED 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 326 KTLLADSLSELAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQSTITQRLTALATVLKLPAVKRMECFDISHTMG 405
Cdd:TIGR00194 315 LKLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 406 EQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESKIP--DVILIDGGKGQLGQAKAVFAELD 483
Cdd:TIGR00194 395 SQTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 484 VpwdKNHPLLLGVAKgADRKAGLETLFFEPEGEGFSLppDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIEG 563
Cdd:TIGR00194 475 V---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPG 548
|
570 580
....*....|....*....|....*.
gi 757781722 564 VGPKRRQMLLKYMGGLQGLRNASVEE 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 |
1.24e-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: 208.84 E-value: 1.24e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 384 ATVLKLPAV-KRMECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPD 461
Cdd:pfam08459 1 QEALGLPKLpRRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 462 VILIDGGKGQLGQAKAVFAELDVpwdknHPLLLGVAKGADRKagletLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHA 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 |
4.65e-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: 4.65e-38
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 757781722 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
1.81e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 77.46 E-value: 1.81e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFR-SNLASRKTEALVALIQQIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 757781722 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: 956.49 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 8 KAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKL 87
Cdd:PRK00558 5 KEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRKSHDSPKTRAMVSEIADIEYIVTRSETEALLLENNLIKK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 88 YQPRYNVLLRDDKSYPFIFL-SADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPC 166
Cdd:PRK00558 85 YKPRYNVLLRDDKSYPYIKItTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKNRKRPC 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 167 LQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:PRK00558 165 LLYQIGRCLAPCV-GLISKEEYAELVDEAKLFLSGKTDEVLKELEEKMEEASENLEFERAARYRDQIQALRRVQEKQKVS 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 247 NA-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElGEVVETFVGQFYLQGSqmrtLPGEILLDFNLhD 325
Cdd:PRK00558 244 LKdGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSETEL-EEILEAFLGQFYLQKS----IPKEILVPHEL-D 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 326 KTLLADSLseLAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQSTITQRLTALATVLKLPAV-KRMECFDISHTM 404
Cdd:PRK00558 318 DEELAEAL--LAGRKVKIRVPQRGDKKELLELAEKNAREALERKLSDQSTQQQALEELAELLGLPEPpYRIECFDISHIQ 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 405 GEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQAKAVFAELD 483
Cdd:PRK00558 396 GTATVASMVVFEDGGPDKSEYRRYNIKGVTGGDDYAAMREVLTRRYSRLLKEfGPLPDLILIDGGKGQLNAAKEVLEELG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 484 VpwdknHPLLLGVAKGADRKAGLETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIEG 563
Cdd:PRK00558 476 L-----DIPVVGLAKGDKRKAGTEELFFPGEPEPIILPPDSPALYLLQRIRDEAHRFAITFHRKKRSKARLTSALDDIPG 550
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 757781722 564 VGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLKH 610
Cdd:PRK00558 551 IGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
3-605 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 909.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 3 DQFDAKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEH 82
Cdd:COG0322 2 DPFDLKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQKSDLSPKTRRMVSEIADIEYIVTDTETEALLLEN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 83 NYIKLYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNR 162
Cdd:COG0322 82 NLIKKHKPRYNILLKDDKSYPYIKITNEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKNR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 163 SRPCLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEK 242
Cdd:COG0322 162 SRPCLLYQIGRCSAPCV-GLISEEEYREDVEQARRFLEGKTKELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQEK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 243 QFVSNAGD-DLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSQmrtLPGEILLDF 321
Cdd:COG0322 241 QKVVLPDGgDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLDRPS---IPKEILVPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 322 NLHDKTLLADSLSELAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQ----STITQRLTALATVLKLPAV-KRME 396
Cdd:COG0322 318 ELEDAELLEEWLSERRGRKVKIRVPQRGEKKKLLELAEKNAREALERKLAERerdeARQERALEELAEALGLPELpRRIE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 397 CFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPDVILIDGGKGQLGQA 475
Cdd:COG0322 398 CFDISHIQGTNTVASMVVFEDGKPDKSDYRRFKIKTVEGGDDYASMREVLTRRYKRLLEEdEPLPDLILIDGGKGQLNAA 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 476 KAVFAELDVpwdkNHPLLLGVAKgadRKaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNT 555
Cdd:COG0322 478 REVLEELGL----DDIPVIGLAK---RD---EELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITFHRKLRSKARLK 547
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|
gi 757781722 556 STLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIF 605
Cdd:COG0322 548 SVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIY 597
|
|
| 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: 858.21 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 7 AKAFLKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLaSRKTEALVALIQQIDVTVTHTETEALLLEHNYIK 86
Cdd:TIGR00194 1 LKEKLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRENN-SAKTQALVKQIADIEYILTKNENEALILEANLIK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 87 LYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvyRNRSRPC 166
Cdd:TIGR00194 80 QYQPRYNVLLKDDKGYPYIYITHEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAK---HNRNRPC 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 167 LQYQIGRCLGPCVEGLvSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVS 246
Cdd:TIGR00194 157 LYYQIGRCLGPCVKEI-TEEEYQQIVEKIELFFNGRPQEVIKELEQKMEKASENLEFEEAARIRDQIAAVRELNEKQHVS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 247 NA-GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGgTELGEVVETFVGQFYLQGSQMRTLPGEILLDFNLHD 325
Cdd:TIGR00194 236 LTdLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQFDFSLPG-TDLDELVETFLIQFYQQGYQNRLIPSEILVSLSLED 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 326 KTLLADSLSELAGRRINVQTKPRGDRARYLKLARTNAATALTTKLSQQSTITQRLTALATVLKLPAVKRMECFDISHTMG 405
Cdd:TIGR00194 315 LKLLEDLLSEQRGRKINVHQPKKGDKKKLLELAIKNAKYALKQKWTQFERKTQALEDLASLLNLPKIKRIEIFDISHIDG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 406 EQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESKIP--DVILIDGGKGQLGQAKAVFAELD 483
Cdd:TIGR00194 395 SQTVGSMVVFEDGKPLKASYRRYNINSITGGDDYAAMREVLRRRYSSIQKKNNLPlpDLILIDGGKGQLNAALEVLKSLG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 484 VpwdKNHPLLLGVAKgADRKAGLETLFFEPEGEGFSLppDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIEG 563
Cdd:TIGR00194 475 V---VNKPIVIGLAK-AKRHETDIFLIGDKQGINIDL--NSPALQLLQHIRDEAHRFAISFHRKKRLKASLQSPLLKIPG 548
|
570 580
....*....|....*....|....*.
gi 757781722 564 VGPKRRQMLLKYMGGLQGLRNASVEE 589
Cdd:TIGR00194 549 VGEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| uvrC |
PRK14669 |
excinuclease ABC subunit C; Provisional |
11-604 |
1.13e-139 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237784 [Multi-domain] Cd Length: 624 Bit Score: 420.08 E-value: 1.13e-139
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 11 LKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYF-RSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQ 89
Cdd:PRK14669 7 IRTLPTSPGVYLYKNAGGEVIYVGKAKNLRSRVRSYFsEDKLGNIKTGSLIREAVDIDYILVDNEKEALALENNLIKQYK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 90 PRYNVLLRDDKSYPFIFLS-ADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCLQ 168
Cdd:PRK14669 87 PRFNILLRDDKTYPYVKLTlGEKYPRVYVTRRLRKDGAQYYGPFFPANLAYRLVDLIHRHFLVPSCKVDLTRYHPRPCLQ 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 169 YQIGRCLGPCVEGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVSNA 248
Cdd:PRK14669 167 FYIHRCLGPCVQGLTTDEAYAEAVRDVRLFLEGRHSDLARSLRARMEAAALEMQFELAAKYRDLITTVEELEEKQRMAAA 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 249 -GDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYF------PKVPGGTELGEVVETFVGQFYLqgsQMRTLPGEILLDF 321
Cdd:PRK14669 247 kGDDADVFGYHYENPMVAVNLFHMRGGKIVDRREFFwedlgeVQVEFEYDEGLFFSSLLKQIYL---DQQYVPREIYVPV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 322 NLHDKTLLADSLSELAGRRINVQTKPRGDRARYLKLARTNAATALTTK---LSQQSTITQrlTALATVLKLP-AVKRMEC 397
Cdd:PRK14669 324 EFEDREALEELLTEQRHRRIEIRVPQRGDKRSLLDLVEQNAKQSYDQRfrvMKPSSRAIQ--EALQDALNLPeLPSRIEC 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 398 FDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEESK-IPDVILIDGGKGQLGQAK 476
Cdd:PRK14669 402 FDISHIQGAETVASMVVWEDGKMKKSDYRKFIIKTVVGVDDFASMREVVTRRYSRLQEEKQpMPGLVLIDGGLGQLHAAA 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 477 AVFAELDVpwdKNHPLllgvAKGADRKaglETLF-FEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNT 555
Cdd:PRK14669 482 EALEAIGI---TDQPL----ASIAKRE---EIIYvFGQEDEPIVLDRFSPVLHLVQSIRDEAHRFAITFHRKRRETRDRT 551
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 757781722 556 STLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQglAEKI 604
Cdd:PRK14669 552 SELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAVVGRAA--AEAI 598
|
|
| uvrC |
PRK14666 |
excinuclease ABC subunit C; Provisional |
11-609 |
1.23e-123 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237782 [Multi-domain] Cd Length: 694 Bit Score: 380.77 E-value: 1.23e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 11 LKTVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSnlASRKTEALVALIQQ---IDVTVTHTETEALLLEHNYIKL 87
Cdd:PRK14666 6 LSTIPLTPGVYLYKDEAGRIIYVGKARHLRRRVASYFRD--VSALTPKTVAMLRHavtIDTLSTTTEKEALLLEASLIKK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 88 YQPRYNVLLRDDKSYPFIFLSADTH-PRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPC 166
Cdd:PRK14666 84 HRPRYNIVLRDDKQYVLFRLGAKHPyPRLEIVRKARRDGARYFGPFTSASAARETWKTIHRAFPLRRCSDRAFGNRVRAC 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 167 LQYQIGRCLGPCVEgLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQ-FV 245
Cdd:PRK14666 164 LYHFMGQCLGPCVN-DVPRETYAALVRKVEMLLSGRSGELVDALRTEMEAASEALEFERAAVLRDQIRAVERTVERQaAV 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 246 SNAGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLQGSqmrTLPGEILL------ 319
Cdd:PRK14666 243 LPGGGDLDVVGLVEAEGGLALGVLFVRQGVLLDGRAFFWPGLGFEEAPELLWSFLGQFYGPQS---TIPPRIVVpwlpdt 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 320 ---------------DFNLHDKTLLADSLSELAGRRI--------------NVQTKPRGDR------------------- 351
Cdd:PRK14666 320 egregddlaptavctDAGLLPDTPLLPDAPEGSSDPVvpvaaatpvdaslpDVRTGTAPTSlanvshadpavaqptqaat 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 352 --------ARYLKLARTNAA------------TALTTKLSQQSTITQRLTA-----------LATVLKLPA-VKRMECFD 399
Cdd:PRK14666 400 lagaapkgATHLMLEETLADlrggpvrivpprNPAENRLVDMAMSNAREEArrkaetplqdlLARALHLSGpPHRIEAVD 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 400 ISHTMGEQTVASCVVFDANGPLRAEYRRYNITGiTPGDDYAAMNQVLRRRYGKAieeSKIPDVILIDGGKGQLGQAKAVF 479
Cdd:PRK14666 480 VSHTGGRNTRVGMVVFEDGKPARDAYRTYAFED-GEGDDYGTLAAWAGRRVESG---PPWPDLLLVDGGRGQLAAVVRAL 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 480 AELDVPwdkNHPLLLGVAKG------ADRKAG--LETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAK 551
Cdd:PRK14666 556 EEAGMG---GLFAVASIAKArteegrADRRAGnvADRIFLPGRANPLPLRAGAPELLFLQHVRDTVHDYAIGRHRRARAG 632
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....*...
gi 757781722 552 VKNTSTLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFWSLK 609
Cdd:PRK14666 633 AALTGELQRVEGIGPATARLLWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHLK 690
|
|
| uvrC |
PRK14668 |
excinuclease ABC subunit C; Provisional |
16-604 |
2.69e-115 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 184785 [Multi-domain] Cd Length: 577 Bit Score: 355.61 E-value: 2.69e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 16 SQPGVYRmYDAGGTVIYVGKAKDLKKRLSSYfrSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQPRYNVL 95
Cdd:PRK14668 15 REPGVYQ-FVAGGTVLYVGKAVDLRDRVRSY--ADPRSERIRRMVERADDIDFAVTDTETQALLLEANLIKRHQPRYNVR 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 96 LRDDKSYPFIFLSADTHPRLAMHRGAKHTrGEYFGPFPNGYAVRETLALLQKIFPIRQCENSVYRNRSRPCLQYQIGRCL 175
Cdd:PRK14668 92 LKDDKSYPLVQLTDHPVPRIEVTRDPDEG-ATVFGPYTDKGRVETVVKALRETYGLRGCSDHKYSNRDRPCLDYEMGLCT 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 176 GPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEK--QFVSNAGDD-- 251
Cdd:PRK14668 171 APCT-GEIDEEAYAEDVESAERFFEGETGVLADPLRREMEAAAQAQEFERAANLRDRLEAVEAFHGGggEAVSSTGDEra 249
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 252 LDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELG-EVVETFVGQFYLQgsqmRTLPGEILLDFNLHDktllA 330
Cdd:PRK14668 250 VDVLGVAIEGDRATVARLHAEGGQLVDRDRHRLEAPDGEDRGaAVLAAFIVQYYAE----RELPDALLLSERPGD----D 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 331 DSLSELAGRRINVQTKPRGDRARYLKLARTNAatalttklSQQSTITQRLTALATVLKLPAVKRMECFDISHTMGEQTVA 410
Cdd:PRK14668 322 DVRAWLEAEGVDVRVPGAGREATLVDLALKNA--------RRRGGRDDEVGALADALGIDRPERIEGFDVSHAQGRAVVG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 411 SCVVFDANGPLRAEYRRYNITgiTPGDDYAAMNQVLRRRYGKAIE---ESKIPDVILIDGGKGQLGQAKAVFAEL--DVP 485
Cdd:PRK14668 394 SNVCFVDGSAETADYRRKKLT--ERNDDYANMRELVRWRAERAVEgrdDRPDPDLLLIDGGDGQLGAARDALAETgwDVP 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 486 wdknhplLLGVAKGadrkaglETLFFEPEGEgFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKntSTLETIEGVG 565
Cdd:PRK14668 472 -------AIALAKA-------EELVVTPDRT-YDWPDDAPQLHLLQRVRDEAHRFAVQYHQTLRDDVS--TVLDDVPGVG 534
|
570 580 590
....*....|....*....|....*....|....*....
gi 757781722 566 PKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKI 604
Cdd:PRK14668 535 PETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETI 573
|
|
| uvrC |
PRK14667 |
excinuclease ABC subunit C; Provisional |
6-604 |
2.20e-100 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237783 [Multi-domain] Cd Length: 567 Bit Score: 316.68 E-value: 2.20e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 6 DAKAFLKTVTSQPGVYrMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYI 85
Cdd:PRK14667 5 DALELIEKAPEEPGVY-LFKKKKRYIYIGKAKNIKNRLLQHYKQSETDPKERAIFSESSSLEWIITRNEYEALVLEIDLI 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 86 KLYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHtRGEYFGPFPNGYAVRETLALLQKIFPIRQCENsvYRNRSRP 165
Cdd:PRK14667 84 QQYKPKYNVLLKSGSGYPMLLITDDEYPTVKIVRGTGE-KGEYFGPFLPARKARKVKKLIHKLFKLRTCDP--MPKRKEP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 166 CLQYQIGRCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFV 245
Cdd:PRK14667 161 CMDYHLGLCSGPCC-GKISKEDYELSVKSAKAFLSGNVKEVLPELYDKIEEYSQKLMFEKAAVIRDQILALENLIKGQEV 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 246 SNagddLDVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTELGEVVETFVGQFYLqgsqmrtlPGEILLDFNLHD 325
Cdd:PRK14667 240 SG----LPIEEADIFYFMGSRLGLFLVRSSKLVGKEEFRLESEEQEEEEVILGYYYSNYI--------PQKIITNFELSD 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 326 KtlLADSLSELAGRRINVQT-KPRgdraRYLKLARTNAATALTTKLSQQStitqrltaLATVLKLPAVKRMECFDISHTM 404
Cdd:PRK14667 308 N--LKQWLSKRKGGDVEFLTlIPK----ELEKFIEENIGIKVDLEVLKEE--------FKKTFGFPLPERIEGFDISHFY 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 405 GEQTVASCVVFDaNGPL-RAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIE-ESKIPDVILIDGGKGQLGQAKAVFAEL 482
Cdd:PRK14667 374 GEFTVGSCVVWE-DGSMnKKEYRRYKIKTVDGIDDYASLREVLTRRARRYKEgENPMPDLWLIDGGKGQLSVGIEVRDRL 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 483 DVPWdknhpLLLGVAKGadrkaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIE 562
Cdd:PRK14667 453 GLNI-----KVFSLAKK-------EEILYTEDGKEIPLKENPILYKVFGLIRDEAHRFALSYNRKLREKEGLKDILDKIK 520
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 757781722 563 GVGPKRRQMLLKYMGGLQGLRNASVEEIAKVpGISQGLAEKI 604
Cdd:PRK14667 521 GIGEVKKEIIYRNFKTLYDFLKADDEELKKL-GIPPSVKQEV 561
|
|
| uvrC |
PRK14670 |
excinuclease ABC subunit C; Provisional |
23-604 |
2.36e-94 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173133 [Multi-domain] Cd Length: 574 Bit Score: 301.06 E-value: 2.36e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 23 MYDAGGTVIYVGKAKDLKKRLSSYFrSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQPRYNVLLRDDKSY 102
Cdd:PRK14670 1 MYSENNKILYIGKAKNLRSRVKNYF-LEKISHKTKILMKNVKNIEVITTNSEYEALLLECNLIKTHKPDYNIKLKDDKGY 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 103 PFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCEnsvyRNRSRPCLQYQIGRCLGPCV-EG 181
Cdd:PRK14670 80 PMIRITCEKYPRIFKTRKIINDGSEYFGPYVNVKKLDLVLDLINKTFKTRKCK----KKSKNPCLYFHMGQCLGVCYrED 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 182 LvsEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVSNAGD-DLDVIGVAFD 260
Cdd:PRK14670 156 L--EKEYQKEVDKIKHILNGNISKLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEISQTQIITKINKlSIDYVYIHPT 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 261 AGMACVHVLFIRQGKVLGSRSYFPKvpGGTELGEVVETFVGQFYLqgSQMRTLPGEILLdFNLHDKTLLADSLSELAGRR 340
Cdd:PRK14670 234 ENLNTIVILKYKDGKLVEKDINFDE--SIYEEDELILQFITQYYT--SINMIVPDKIHI-FKKIDTKNITKLINELKNTK 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 341 INVQTKPRGDRARYLKLARTNAATALTTKLSQQSTITQRLTALATVLKLPavKRMECFDISHTMGEQTVASCVVFDANGP 420
Cdd:PRK14670 309 TEIIYKETKEIIKIMEMAISNAKLALREYENEKNKALESLKIILEMDKLP--KTIEGFDIAHLNGQKTVASLVTFKMGKP 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 421 LRAEYRRYNITGITPG--DDYAAMNQVLRRRYGKAIEES-KIPDVILIDGGKGQLGQAKAVFAELDVpwdKNHPLLLGVA 497
Cdd:PRK14670 387 FKDGYRVYKINSLLKGeiDDFKAIKEVISRRYSKLINEQlELPNLILIDGGKGQLNAAYSILKGLKI---ENKVKVCALA 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 498 KGAdrkaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTleTIEGVGPKRRQMLLKYMG 577
Cdd:PRK14670 464 KKE------ETIFLPNKKQGIKLPKGNPALRILQNVRDEAHRKANGFNKKLRENIKLNYT--KIKGIGEKKAKKILKSLG 535
|
570 580
....*....|....*....|....*..
gi 757781722 578 GLQGLRNASVEEIAKVPGISQGLAEKI 604
Cdd:PRK14670 536 TYKDILLLNEDEIAEKMKINIKMAKKI 562
|
|
| uvrC |
PRK14672 |
excinuclease ABC subunit C; Provisional |
13-591 |
1.66e-76 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173135 [Multi-domain] Cd Length: 691 Bit Score: 256.97 E-value: 1.66e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 13 TVTSQPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNlASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQPRY 92
Cdd:PRK14672 17 SAPSTSGVYLWKDVHGVVIYVGKAKSLRTRLTSYFRCR-HDPKTRVLMSRAAALEYLQTQHEYEALLLENTLIKKHTPRY 95
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 93 NVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPIRQCenSVYRNRSRPCLQYQIG 172
Cdd:PRK14672 96 NICLKDGKTYPLLKLTCEPFPRIFRTRQFCQDGARYFGPFPDVQILDSFLKLILRTYKIRTC--TTLRKRKNPCLYYHLK 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 173 RCLGPCVeGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRRVTEKQFVSNAGDDL 252
Cdd:PRK14672 174 RCDAPCC-GWVSPRTYQKDIHEITLLLEGNIDATVARLEKRMKRAVRQEAFEAAARIRDDIQAIRCITHKSLVQDMDERA 252
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 253 -DVIGVAFDAGMACVHVLFIRQGKVLGSRSYFPKVPGGTElgEVVETFVGQFYLQgsqmRTLPGEILldfnLHDKTLLAD 331
Cdd:PRK14672 253 rDYIAWSSTGAIVTFAVLRMRGGKLNGRELFRTRSLKNEE--EILSEFLITYYSD----HTIPPHLF----VHSSAGLAE 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 332 S-LSELAGRRINVQTKP---------------------------------------------------------RGDRAR 353
Cdd:PRK14672 323 HwLSHKAGTQCTVTLIPlhtfptpqtpsstvttnaptlaasqnsnavqdsglrscsetstmhtlqkahdactasEGTREN 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 354 -------------YLKLARTNAATALTTKLSQQSTiTQRLTALATVLKLPAVKRM-ECFDISHTMGEQTVASCVVFDANG 419
Cdd:PRK14672 403 tphesahtphhraILAMAQLNAHEDITRYLKNRGA-DDALKELQKQLHLARIPTLiEGFDISHLGGKYTVASLICFKNGA 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 420 PLRAEYRRYNITG-ITPGDDYAAMNQVLRRRYGKAIEESKIPDVILIDGGKGQLGQAKAVFAE--LDVPwdknhplLLGV 496
Cdd:PRK14672 482 PDTKNYRLFNLRAhDTRIDDFASMREAIARRYTHTPEGYTLPDLILVDGGIGHVSAAQHVLDAlgLSIP-------LVGL 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 497 AKGAdrkaglETLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHAIGGHRKKRAKVKNTSTLETIEGVGPKRRQMLLKYM 576
Cdd:PRK14672 555 AKRA------EELFIPNSPTPLVLDRRNPALHMLQRIRDEAHRFAITRNRHLRTKKELVLSFERLPHVGKVRAHRLLAHF 628
|
650
....*....|....*
gi 757781722 577 GGLQGLRNASVEEIA 591
Cdd:PRK14672 629 GSFRSLQSATPQDIA 643
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
384-541 |
1.24e-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: 208.84 E-value: 1.24e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 384 ATVLKLPAV-KRMECFDISHTMGEQTVASCVVFDANGPLRAEYRRYNITGITPGDDYAAMNQVLRRRYGKAIEE-SKIPD 461
Cdd:pfam08459 1 QEALGLPKLpRRIECFDISHIQGTDTVASMVVFEDGKPDKSDYRRFNIKTTVGPDDYASMREVLTRRFSRLLEEfGPLPD 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 462 VILIDGGKGQLGQAKAVFAELDVpwdknHPLLLGVAKGADRKagletLFFEPEGEGFSLPPDSPALHVIQHIRDESHDHA 541
Cdd:pfam08459 81 LILIDGGKGQLNAALEVLEELGL-----DIPVIGLAKDDKHK-----IDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| PRK07883 |
PRK07883 |
DEDD exonuclease domain-containing protein; |
6-300 |
5.06e-63 |
|
DEDD exonuclease domain-containing protein;
Pssm-ID: 236123 [Multi-domain] Cd Length: 557 Bit Score: 217.48 E-value: 5.06e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 6 DAKAFLKTVTSQ--------------PGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVT 71
Cdd:PRK07883 192 ELLTYLPRVTPAqrrkrhladglphaPGVYLFRGPSGEVLYVGTAVNLRRRVRSYFTAAETRGRMREMVALAERVDHVEC 271
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 72 HTETEALLLEHNYIKLYQPRYNVLLRDDKSYPFIFLSADTHPRLAMHRGAKHTRGEYFGPFPNGYAVRETLALLQKIFPI 151
Cdd:PRK07883 272 AHALEAEVRELRLIAAHKPPYNRRSKFPERRWWVRLTDEAFPRLSVVRAVEDDGAAYLGPFRSRRAAEEAAEALARAFPL 351
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 152 RQCEN--SVYRNRSRPCLQYQIGRCLGPCvEGLVSEEEYAQQVDYVRLFLSGKDDQVLTQLIARMEKASQNLAFEEAARI 229
Cdd:PRK07883 352 RQCTDrlSRRARHGPACALAELGRCPAPC-DGRESAAEYAEAVARARAALTGDDDAVLAALRARIDRLAAAERFEEAARL 430
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 757781722 230 RDQIQAVRRVTEKQFVSNAGDDLDVIGVAFDAGMACVHVLFIRQGKVLGSRsyfpKVPGGTELGEVVETFV 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 |
4.65e-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: 4.65e-38
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 757781722 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQPRYNV 94
Cdd:cd10434 4 SPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTGERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRYNI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
17-98 |
1.81e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 77.46 E-value: 1.81e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFR-SNLASRKTEALVALIQQIDVTVTHTETE-ALLLEHNYIKLYQPRYNV 94
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSgSRKGRLLIDALLKYGGNFEFIILESFDEsALELEKYLIKEYKPKYNL 80
|
....
gi 757781722 95 LLRD 98
Cdd:smart00465 81 LLKG 84
|
|
| PRK10545 |
PRK10545 |
excinuclease Cho; |
8-190 |
7.03e-10 |
|
excinuclease Cho;
Pssm-ID: 182535 Cd Length: 286 Bit Score: 60.46 E-value: 7.03e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 8 KAFLKTVTSQPGVYRMYDAGGTV-IYVGKAKDLKKRLSSYFRsnlasrkTEALVALIQQ---IDVTVTHTETEALLLEHN 83
Cdd:PRK10545 25 RPFLEDLPKLPGVYLFHGESDTMpLYIGKSVNIRSRVLSHLR-------TPDEAAMLRQsrrISWICTAGEIGALLLEAR 97
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 84 YIKLYQPRYNVLLRDDKSYPFIFLSADThPRL--AMHRGAKHTRGEYfGPFPNGYAVRETLALL---QKI-FPIRQCENS 157
Cdd:PRK10545 98 LIKEQQPLFNKRLRRNRQLCSLQLNEGR-VDVvyAKEVDFSRAPNLF-GLFANRRAALQALQSIadeQKLcYGLLGLEPL 175
|
170 180 190
....*....|....*....|....*....|...
gi 757781722 158 vyrNRSRPCLQYQIGRCLGPCVeGLVSEEEYAQ 190
Cdd:PRK10545 176 ---SRGRACFRSALKRCAGACC-GKESHEAHAL 204
|
|
| GIY-YIG |
pfam01541 |
GIY-YIG catalytic domain; This domain called GIY-YIG is found in the amino terminal region of ... |
17-93 |
1.57e-09 |
|
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: 54.65 E-value: 1.57e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 757781722 17 QPGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIDVTVTHTETEALLLEHNYIKLYQP-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 |
9.15e-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: 51.98 E-value: 9.15e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 19 GVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVALIQQIdVTVTHTETEALLLEHNYIKLY 88
Cdd:cd00719 1 GVYVLYDEDNGLIYVGQTKNLRNRIKEHLRKQRSDWTKGLKPFEILYL-EVAPEAESELLDLEAALIKKL 69
|
|
| UVR |
pfam02151 |
UvrB/uvrC motif; |
204-238 |
8.14e-08 |
|
UvrB/uvrC motif;
Pssm-ID: 308001 [Multi-domain] Cd Length: 36 Bit Score: 48.55 E-value: 8.14e-08
10 20 30
....*....|....*....|....*....|....*
gi 757781722 204 DQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRR 238
Cdd:pfam02151 1 KKLIKELEEEMEEAAENEDFEKAAKLRDQINALKK 35
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
557-609 |
1.42e-06 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 45.56 E-value: 1.42e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 757781722 557 TLETIEGVGPKRRQMLLKYMGG-LQGLRNASVEEIAKVPGISQGLAEKIFWSLK 609
Cdd:pfam14520 3 ELLSISGIGPKTALALLSAGIGtVEDLAEADVDELAEIPGIGEKTAQRIILELR 56
|
|
| MUS81 |
COG1948 |
ERCC4-type crossover junction endonuclease [Replication, recombination and repair]; |
545-606 |
1.43e-06 |
|
ERCC4-type crossover junction endonuclease [Replication, recombination and repair];
Pssm-ID: 441551 [Multi-domain] Cd Length: 214 Bit Score: 49.40 E-value: 1.43e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 757781722 545 HRKKRAKVKNT---STLETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKIFW 606
Cdd:COG1948 141 HGKKKPKTLREqqlYVVESLPGIGPKLARRLLEHFGSVEAVFNASEEELMKVEGIGEKTAERIRE 205
|
|
| UvrB |
COG0556 |
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair]; |
199-238 |
4.80e-06 |
|
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair];
Pssm-ID: 440322 [Multi-domain] Cd Length: 657 Bit Score: 49.62 E-value: 4.80e-06
10 20 30 40
....*....|....*....|....*....|....*....|.
gi 757781722 199 LSGKD-DQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRR 238
Cdd:COG0556 616 LSKEElEKLIKELEKEMKEAAKNLEFEEAARLRDEIKELKK 656
|
|
| PRK05298 |
PRK05298 |
excinuclease ABC subunit UvrB; |
194-238 |
1.99e-05 |
|
excinuclease ABC subunit UvrB;
Pssm-ID: 235395 [Multi-domain] Cd Length: 652 Bit Score: 47.73 E-value: 1.99e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 757781722 194 YVRLFLSGKD-DQVLTQLIARMEKASQNLAFEEAARIRDQIQAVRR 238
Cdd:PRK05298 601 YKKDKLSKKElEKLIKELEKQMKEAAKNLEFEEAARLRDEIKELKE 646
|
|
| GIY-YIG_bI1_like |
cd10445 |
Catalytic GIY-YIG domain of putative intron-encoded endonuclease bI1 and similar proteins; The ... |
18-96 |
2.51e-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: 42.98 E-value: 2.51e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 18 PGVYRMYDAGGTVIYVGKAKDLKKRLSSYFRSNLASRKTEALVAL----IQQIDVTV-----THTETEALLLEHNYIKLY 88
Cdd:cd10445 1 SGIYIWINKINGKIYVGSSINLYKRLRSYLNPSYLKKNSPILRALlkygLSNFTLTIleyynGENKEELLELEQYYIDLL 80
|
....*...
gi 757781722 89 QPRYNVLL 96
Cdd:cd10445 81 KPEYNILK 88
|
|
| GIY-YIG_EndoII_Hpy188I_like |
cd10436 |
Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction ... |
18-94 |
5.64e-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: 5.64e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 18 PGVYrMYDAGGTVIYVGKAKDLKKRLSSY---------FRSNlaSRKTEALVALIQQ---IDVTVTHTETE--------- 76
Cdd:cd10436 1 NGVY-AFVVDGEIVYIGETQDLRKRFNSYrggisprngQTTN--CRINKLILKALKKgkvVELYVKQPEELvitlgdpvn 77
|
90
....*....|....*....
gi 757781722 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 ... |
579-606 |
7.09e-05 |
|
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: 40.09 E-value: 7.09e-05
10 20
....*....|....*....|....*...
gi 757781722 579 LQGLRNASVEEIAKVPGISQGLAEKIFW 606
Cdd:pfam00633 2 LEGLIPASVEELLALPGVGPKTAEAILS 29
|
|
| ComEA |
COG1555 |
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ... |
554-604 |
2.43e-04 |
|
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];
Pssm-ID: 441164 [Multi-domain] Cd Length: 72 Bit Score: 39.85 E-value: 2.43e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 757781722 554 NTST---LETIEGVGPKRRQMLLKY---MGGLQglrnaSVEEIAKVPGISQGLAEKI 604
Cdd:COG1555 16 NTATaeeLQTLPGIGPKLAQRIVEYrekNGPFK-----SVEDLLEVKGIGPKTLEKL 67
|
|
| PRK13766 |
PRK13766 |
Hef nuclease; Provisional |
558-604 |
3.81e-03 |
|
Hef nuclease; Provisional
Pssm-ID: 237496 [Multi-domain] Cd Length: 773 Bit Score: 40.24 E-value: 3.81e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 757781722 558 LETIEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKI 604
Cdd:PRK13766 717 VESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRI 763
|
|
| denA |
PHA02598 |
endonuclease II; Provisional |
27-98 |
6.68e-03 |
|
endonuclease II; Provisional
Pssm-ID: 222902 [Multi-domain] Cd Length: 138 Bit Score: 37.43 E-value: 6.68e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 757781722 27 GGTVIYVGKAKDLKKRLSSY---------FRSNlaSRKTEALVALIQQ-------------IDVTVTH---TETEALLLE 81
Cdd:PHA02598 42 DDELVYIGKTKNLRKRIDYYrnsknwrntNTSD--ITKSALLEEALKKgkkvefyarqcfnLSITNPLgsmTIATMDLEE 119
|
90
....*....|....*..
gi 757781722 82 HNYIKLYQPRYNVLLRD 98
Cdd:PHA02598 120 PKFIKKFNPEWNKQHKK 136
|
|
| HHH_2 |
pfam12826 |
Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is ... |
561-604 |
7.39e-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: 35.19 E-value: 7.39e-03
10 20 30 40
....*....|....*....|....*....|....*....|....
gi 757781722 561 IEGVGPKRRQMLLKYMGGLQGLRNASVEEIAKVPGISQGLAEKI 604
Cdd:pfam12826 8 IRHVGETTAKLLARRFGSLDALAEASLEELLEVDDIGPEIAQSI 51
|
|
| |
