|
Name |
Accession |
Description |
Interval |
E-value |
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
39-744 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 814.74 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 39 FRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWI 118
Cdd:COG0322 6 LKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQK-SDLSPKTRRMVSEIADIEYIVTDTETEALLLENNLI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 119 KEFDPRFNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHKaqv 198
Cdd:COG0322 85 KKHKPRYNILLKDDKSYPYIKIT-NEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKN--- 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 199 TGRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSSVLE 278
Cdd:COG0322 161 RSRPCLLYQIGRCSAPCVGLISEEEYREDVEQARRFLEGKTK-ELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 279 QNSVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSWSVERVEDIDDSQLMADLISQVYSDlmeenkreegvsia 358
Cdd:COG0322 240 KQKVVLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLD-------------- 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 359 vstsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspISAVPREVILPVKPDRPEELEEWLTSLRGSAVSITT 438
Cdd:COG0322 306 --------------------------------------------RPSIPKEILVPEELEDAELLEEWLSERRGRKVKIRV 341
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 439 ASRGEKKTLMDRALTNAQQSLARLKASRMTDIGMRTQALNDIAQALDLAEAPLRIECYDISNASgGGYQVASMVVFEDGM 518
Cdd:COG0322 342 PQRGEKKKLLELAEKNAREALERKLAERERDEARQERALEELAEALGLPELPRRIECFDISHIQ-GTNTVASMVVFEDGK 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 519 AKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagdsgqsMEDEKrsqtllssqsldhrqeaqasgsasaatrr 598
Cdd:COG0322 421 PDKSDYRRFKIKTVEGG---DDYASMREVLTRRYKRL---------LEEDE----------------------------- 459
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 599 hfaYKPNLIVVDGGLPQVNAAAQALEDLGITDVHVCGLAKKLEEIWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAITY 678
Cdd:COG0322 460 ---PLPDLILIDGGKGQLNAAREVLEELGLDDIPVIGLAKRDEELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITF 536
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 493336094 679 HRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHP 744
Cdd:COG0322 537 HRKLRSKARLKSVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLHK 602
|
|
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
36-744 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 775.45 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 36 RDLFRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEY 115
Cdd:PRK00558 1 KEFLKEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRK-SHDSPKTRAMVSEIADIEYIVTRSETEALLLEN 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 116 TWIKEFDPRFNVVFRDDKTYPYLAISIGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHK 195
Cdd:PRK00558 80 NLIKKYKPRYNVLLRDDKSYPYIKITTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKN 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 196 aqvTGRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSS 275
Cdd:PRK00558 160 ---RKRPCLLYQIGRCLAPCVGLISKEEYAELVDEAKLFLSGKTD-EVLKELEEKMEEASENLEFERAARYRDQIQALRR 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 276 VLEQNSVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSWSVERVEDiDDSQLMADLISQVYSDlmeenkreegv 355
Cdd:PRK00558 236 VQEKQKVSLKDGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSET-ELEEILEAFLGQFYLQ----------- 303
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 356 siavstsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspiSAVPREVILPVKPDrPEELEEWLtsLRGSAVS 435
Cdd:PRK00558 304 ------------------------------------------------KSIPKEILVPHELD-DEELAEAL--LAGRKVK 332
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 436 ITTASRGEKKTLMDRALTNAQQSLARlkasRMTDIGMRTQALNDIAQALDLAEAPLRIECYDISNASgGGYQVASMVVFE 515
Cdd:PRK00558 333 IRVPQRGDKKELLELAEKNAREALER----KLSDQSTQQQALEELAELLGLPEPPYRIECFDISHIQ-GTATVASMVVFE 407
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 516 DGMAKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagdsgqsmedekrsqtllssqsldhrqeaqasgsasaa 595
Cdd:PRK00558 408 DGGPDKSEYRRYNIKGVTGG---DDYAAMREVLTRRYSRL---------------------------------------- 444
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 596 tRRHFAYKPNLIVVDGGLPQVNAAAQALEDLGItDVHVCGLAK------KLEEIWLPHEEYPLIMKRQSEGMYLMQRVRD 669
Cdd:PRK00558 445 -LKEFGPLPDLILIDGGKGQLNAAKEVLEELGL-DIPVVGLAKgdkrkaGTEELFFPGEPEPIILPPDSPALYLLQRIRD 522
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 493336094 670 ESHRFAITYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHP 744
Cdd:PRK00558 523 EAHRFAITFHRKKRSKARLTSALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
42-723 |
5.69e-151 |
|
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: 452.98 E-value: 5.69e-151
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 42 KTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlnRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEF 121
Cdd:TIGR00194 4 KLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRE--NNSAKTQALVKQIADIEYILTKNENEALILEANLIKQY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 122 DPRFNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHkaqvtgR 201
Cdd:TIGR00194 82 QPRYNVLLKDDKGYPYIYIT-HEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAKHNRN------R 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 202 PCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRlgPSYAKK-LTADMKQASADLDFERAARLRDQISALSSVLEQN 280
Cdd:TIGR00194 155 PCLYYQIGRCLGPCVKEITEEEYQQIVEKIELFFNGR--PQEVIKeLEQKMEKASENLEFEEAARIRDQIAAVRELNEKQ 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 281 SVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSwSVERVEDIDDSQLMADLISQVYSDLMEENKreegvsiavs 360
Cdd:TIGR00194 233 HVSLTDLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQ-FDFSLPGTDLDELVETFLIQFYQQGYQNRL---------- 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 361 tsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspisaVPREVILPVKPDRPEELEEWLTSLRGSAVSITTAS 440
Cdd:TIGR00194 302 ---------------------------------------------IPSEILVSLSLEDLKLLEDLLSEQRGRKINVHQPK 336
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 441 RGEKKTLMDRALTNAQQSLARLKASRMTdigmRTQALNDIAQALDLaEAPLRIECYDISNASgGGYQVASMVVFEDGMAK 520
Cdd:TIGR00194 337 KGDKKKLLELAIKNAKYALKQKWTQFER----KTQALEDLASLLNL-PKIKRIEIFDISHID-GSQTVGSMVVFEDGKPL 410
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 521 KSQYRHFAIRGADGQgalDDTSALYETLTRRFkhgnvagdsgqsmedekrsqtllsSQSLDHRQEAQasgsasaatrrhf 600
Cdd:TIGR00194 411 KASYRRYNINSITGG---DDYAAMREVLRRRY------------------------SSIQKKNNLPL------------- 450
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 601 aykPNLIVVDGGLPQVNAAAQALEDLGI-TDVHVCGLAKKLEE---IWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAI 676
Cdd:TIGR00194 451 ---PDLILIDGGKGQLNAALEVLKSLGVvNKPIVIGLAKAKRHetdIFLIGDKQGINIDLNSPALQLLQHIRDEAHRFAI 527
|
650 660 670 680
....*....|....*....|....*....|....*....|....*..
gi 493336094 677 TYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQE 723
Cdd:TIGR00194 528 SFHRKKRLKASLQSPLLKIPGVGEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
481-675 |
2.53e-56 |
|
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: 189.58 E-value: 2.53e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 481 AQALDLAEAPLRIECYDISNASGGgYQVASMVVFEDGMAKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagd 560
Cdd:pfam08459 1 QEALGLPKLPRRIECFDISHIQGT-DTVASMVVFEDGKPDKSDYRRFNIKTTVGP---DDYASMREVLTRRFSRL----- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 561 sgqsmedekrsqtllssqsldhrqeaqasgsasaatRRHFAYKPNLIVVDGGLPQVNAAAQALEDLGItDVHVCGLAK-K 639
Cdd:pfam08459 72 ------------------------------------LEEFGPLPDLILIDGGKGQLNAALEVLEELGL-DIPVIGLAKdD 114
|
170 180 190
....*....|....*....|....*....|....*.
gi 493336094 640 LEEIWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFA 675
Cdd:pfam08459 115 KHKIDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
46-127 |
7.41e-36 |
|
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: 129.91 E-value: 7.41e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 46 IPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEFDPRF 125
Cdd:cd10434 1 LPDSPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTG-ERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRY 79
|
..
gi 493336094 126 NV 127
Cdd:cd10434 80 NI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
49-127 |
4.83e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 76.31 E-value: 4.83e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 49 QPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIARSLEWTLVGTELESLT-LEYTWIKEFDPRFNV 127
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSGSRKGRLLIDALLKYGGNFEFIILESFDESALeLEKYLIKEYKPKYNL 80
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| UvrC |
COG0322 |
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair]; |
39-744 |
0e+00 |
|
Excinuclease UvrABC, nuclease subunit [Replication, recombination and repair];
Pssm-ID: 440091 [Multi-domain] Cd Length: 603 Bit Score: 814.74 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 39 FRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWI 118
Cdd:COG0322 6 LKEKLKTLPTSPGVYLMKDANGEVIYVGKAKNLKNRVSSYFQK-SDLSPKTRRMVSEIADIEYIVTDTETEALLLENNLI 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 119 KEFDPRFNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHKaqv 198
Cdd:COG0322 85 KKHKPRYNILLKDDKSYPYIKIT-NEEFPRIFVTRGVKKDGGRYFGPYPSAGAVRETLDLLQKLFPLRTCSDSLFKN--- 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 199 TGRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSSVLE 278
Cdd:COG0322 161 RSRPCLLYQIGRCSAPCVGLISEEEYREDVEQARRFLEGKTK-ELIKELEEKMEEAAEELEFERAARLRDQIRALEKVQE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 279 QNSVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSWSVERVEDIDDSQLMADLISQVYSDlmeenkreegvsia 358
Cdd:COG0322 240 KQKVVLPDGGDADVIAIARDGGEACVQVFFVRGGRLIGRRSFFLEKVLDEDDEELLEAFLAQYYLD-------------- 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 359 vstsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspISAVPREVILPVKPDRPEELEEWLTSLRGSAVSITT 438
Cdd:COG0322 306 --------------------------------------------RPSIPKEILVPEELEDAELLEEWLSERRGRKVKIRV 341
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 439 ASRGEKKTLMDRALTNAQQSLARLKASRMTDIGMRTQALNDIAQALDLAEAPLRIECYDISNASgGGYQVASMVVFEDGM 518
Cdd:COG0322 342 PQRGEKKKLLELAEKNAREALERKLAERERDEARQERALEELAEALGLPELPRRIECFDISHIQ-GTNTVASMVVFEDGK 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 519 AKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagdsgqsMEDEKrsqtllssqsldhrqeaqasgsasaatrr 598
Cdd:COG0322 421 PDKSDYRRFKIKTVEGG---DDYASMREVLTRRYKRL---------LEEDE----------------------------- 459
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 599 hfaYKPNLIVVDGGLPQVNAAAQALEDLGITDVHVCGLAKKLEEIWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAITY 678
Cdd:COG0322 460 ---PLPDLILIDGGKGQLNAAREVLEELGLDDIPVIGLAKRDEELFLPGDSEPIILPRNSPALYLLQRIRDEAHRFAITF 536
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 493336094 679 HRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHP 744
Cdd:COG0322 537 HRKLRSKARLKSVLDEIPGIGPKRRKALLKHFGSLKAIKEASVEELAAVPGISKKLAEAIYEYLHK 602
|
|
| uvrC |
PRK00558 |
excinuclease ABC subunit UvrC; |
36-744 |
0e+00 |
|
excinuclease ABC subunit UvrC;
Pssm-ID: 234792 [Multi-domain] Cd Length: 598 Bit Score: 775.45 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 36 RDLFRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEY 115
Cdd:PRK00558 1 KEFLKEKLKTLPDSPGVYRMKDANGTVIYVGKAKNLKNRVRSYFRK-SHDSPKTRAMVSEIADIEYIVTRSETEALLLEN 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 116 TWIKEFDPRFNVVFRDDKTYPYLAISIGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHK 195
Cdd:PRK00558 80 NLIKKYKPRYNVLLRDDKSYPYIKITTNEEFPRLAITRGVAKDKGRYFGPYPSAGAVRETLDLLQKLFPLRTCEDSVFKN 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 196 aqvTGRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSS 275
Cdd:PRK00558 160 ---RKRPCLLYQIGRCLAPCVGLISKEEYAELVDEAKLFLSGKTD-EVLKELEEKMEEASENLEFERAARYRDQIQALRR 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 276 VLEQNSVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSWSVERVEDiDDSQLMADLISQVYSDlmeenkreegv 355
Cdd:PRK00558 236 VQEKQKVSLKDGEDADVIAIAVDGGWACVQVFFVRGGKLLGRRSYFPKVSET-ELEEILEAFLGQFYLQ----------- 303
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 356 siavstsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspiSAVPREVILPVKPDrPEELEEWLtsLRGSAVS 435
Cdd:PRK00558 304 ------------------------------------------------KSIPKEILVPHELD-DEELAEAL--LAGRKVK 332
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 436 ITTASRGEKKTLMDRALTNAQQSLARlkasRMTDIGMRTQALNDIAQALDLAEAPLRIECYDISNASgGGYQVASMVVFE 515
Cdd:PRK00558 333 IRVPQRGDKKELLELAEKNAREALER----KLSDQSTQQQALEELAELLGLPEPPYRIECFDISHIQ-GTATVASMVVFE 407
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 516 DGMAKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagdsgqsmedekrsqtllssqsldhrqeaqasgsasaa 595
Cdd:PRK00558 408 DGGPDKSEYRRYNIKGVTGG---DDYAAMREVLTRRYSRL---------------------------------------- 444
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 596 tRRHFAYKPNLIVVDGGLPQVNAAAQALEDLGItDVHVCGLAK------KLEEIWLPHEEYPLIMKRQSEGMYLMQRVRD 669
Cdd:PRK00558 445 -LKEFGPLPDLILIDGGKGQLNAAKEVLEELGL-DIPVVGLAKgdkrkaGTEELFFPGEPEPIILPPDSPALYLLQRIRD 522
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 493336094 670 ESHRFAITYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHP 744
Cdd:PRK00558 523 EAHRFAITFHRKKRSKARLTSALDDIPGIGPKRRKALLKHFGSLKAIKEASVEELAKVPGISKKLAEAIYEALHK 597
|
|
| uvrC |
TIGR00194 |
excinuclease ABC, C subunit; This family consists of the DNA repair enzyme UvrC, an ABC ... |
42-723 |
5.69e-151 |
|
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: 452.98 E-value: 5.69e-151
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 42 KTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlnRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEF 121
Cdd:TIGR00194 4 KLKNLPDKPGCYLMKDRNGQVLYVGKAKNLKKRVSSYFRE--NNSAKTQALVKQIADIEYILTKNENEALILEANLIKQY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 122 DPRFNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHkaqvtgR 201
Cdd:TIGR00194 82 QPRYNVLLKDDKGYPYIYIT-HEKYPRLLITRKLKQDKGKYFGPFTNAFALRETLDLLLKLFPLRKCAKHNRN------R 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 202 PCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRlgPSYAKK-LTADMKQASADLDFERAARLRDQISALSSVLEQN 280
Cdd:TIGR00194 155 PCLYYQIGRCLGPCVKEITEEEYQQIVEKIELFFNGR--PQEVIKeLEQKMEKASENLEFEEAARIRDQIAAVRELNEKQ 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 281 SVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERSwSVERVEDIDDSQLMADLISQVYSDLMEENKreegvsiavs 360
Cdd:TIGR00194 233 HVSLTDLIDLDIIAVAFDGNVAAIQVFFIRQGKLIGRDQ-FDFSLPGTDLDELVETFLIQFYQQGYQNRL---------- 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 361 tsrdalapsqqvtaddarsraqatrrrrsrqeetgrddllspisaVPREVILPVKPDRPEELEEWLTSLRGSAVSITTAS 440
Cdd:TIGR00194 302 ---------------------------------------------IPSEILVSLSLEDLKLLEDLLSEQRGRKINVHQPK 336
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 441 RGEKKTLMDRALTNAQQSLARLKASRMTdigmRTQALNDIAQALDLaEAPLRIECYDISNASgGGYQVASMVVFEDGMAK 520
Cdd:TIGR00194 337 KGDKKKLLELAIKNAKYALKQKWTQFER----KTQALEDLASLLNL-PKIKRIEIFDISHID-GSQTVGSMVVFEDGKPL 410
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 521 KSQYRHFAIRGADGQgalDDTSALYETLTRRFkhgnvagdsgqsmedekrsqtllsSQSLDHRQEAQasgsasaatrrhf 600
Cdd:TIGR00194 411 KASYRRYNINSITGG---DDYAAMREVLRRRY------------------------SSIQKKNNLPL------------- 450
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 601 aykPNLIVVDGGLPQVNAAAQALEDLGI-TDVHVCGLAKKLEE---IWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAI 676
Cdd:TIGR00194 451 ---PDLILIDGGKGQLNAALEVLKSLGVvNKPIVIGLAKAKRHetdIFLIGDKQGINIDLNSPALQLLQHIRDEAHRFAI 527
|
650 660 670 680
....*....|....*....|....*....|....*....|....*..
gi 493336094 677 TYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQE 723
Cdd:TIGR00194 528 SFHRKKRLKASLQSPLLKIPGVGEKRVQKLLKYFGSLKGIKKASVEE 574
|
|
| uvrC |
PRK14669 |
excinuclease ABC subunit C; Provisional |
39-738 |
4.06e-127 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237784 [Multi-domain] Cd Length: 624 Bit Score: 393.12 E-value: 4.06e-127
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 39 FRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWI 118
Cdd:PRK14669 3 LRDKIRTLPTSPGVYLYKNAGGEVIYVGKAKNLRSRVRSYFSEDKLGNIKTGSLIREAVDIDYILVDNEKEALALENNLI 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 119 KEFDPRFNVVFRDDKTYPYLAISIGDEVPRIWVTRNRNKRGTRYFGPYAKVwNMRHALDSLLN-AYPVRTCT--QSVFHK 195
Cdd:PRK14669 83 KQYKPRFNILLRDDKTYPYVKLTLGEKYPRVYVTRRLRKDGAQYYGPFFPA-NLAYRLVDLIHrHFLVPSCKvdLTRYHP 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 196 aqvtgRPCLLAYIGKCSAPCV-GRISLEDHRAMCEQVVGILTGRlGPSYAKKLTADMKQASADLDFERAARLRDQISALS 274
Cdd:PRK14669 162 -----RPCLQFYIHRCLGPCVqGLTTDEAYAEAVRDVRLFLEGR-HSDLARSLRARMEAAALEMQFELAAKYRDLITTVE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 275 SVLEQNSVVFDTDVDADIFGLASDELEASVHCFFVRAGTI--RGERSW----SVERVEDIDDSQLMADLISQVYSDlmee 348
Cdd:PRK14669 236 ELEEKQRMAAAKGDDADVFGYHYENPMVAVNLFHMRGGKIvdRREFFWedlgEVQVEFEYDEGLFFSSLLKQIYLD---- 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 349 nkreegvsiavstsrdalapsQQVtaddarsraqatrrrrsrqeetgrddllspisaVPREVILPVKPDRPEELEEWLTS 428
Cdd:PRK14669 312 ---------------------QQY---------------------------------VPREIYVPVEFEDREALEELLTE 337
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 429 LRGSAVSITTASRGEKKTLMDRALTNAQQSL-ARLKASRMTdigmrTQALNDIAQ-ALDLAEAPLRIECYDISNASGGGy 506
Cdd:PRK14669 338 QRHRRIEIRVPQRGDKRSLLDLVEQNAKQSYdQRFRVMKPS-----SRAIQEALQdALNLPELPSRIECFDISHIQGAE- 411
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 507 QVASMVVFEDGMAKKSQYRHFAIRGADGqgaLDDTSALYETLTRRFKHgnvagdsgqsMEDEKRSQtllssqsldhrqea 586
Cdd:PRK14669 412 TVASMVVWEDGKMKKSDYRKFIIKTVVG---VDDFASMREVVTRRYSR----------LQEEKQPM-------------- 464
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 587 qasgsasaatrrhfaykPNLIVVDGGLPQVNAAAQALEDLGITDVHVCGLAKKLEEIWL-PHEEYPLIMKRQSEGMYLMQ 665
Cdd:PRK14669 465 -----------------PGLVLIDGGLGQLHAAAEALEAIGITDQPLASIAKREEIIYVfGQEDEPIVLDRFSPVLHLVQ 527
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 493336094 666 RVRDESHRFAITYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVrgVGAKKAEAI 738
Cdd:PRK14669 528 SIRDEAHRFAITFHRKRRETRDRTSELLEIPGVGAKTVQRLLKHFGSLERVRAATETQLAAV--VGRAAAEAI 598
|
|
| uvrC |
PRK14666 |
excinuclease ABC subunit C; Provisional |
40-742 |
3.46e-113 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237782 [Multi-domain] Cd Length: 694 Bit Score: 358.82 E-value: 3.46e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 40 RPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIK 119
Cdd:PRK14666 3 KPDLSTIPLTPGVYLYKDEAGRIIYVGKARHLRRRVASYFRDVSALTPKTVAMLRHAVTIDTLSTTTEKEALLLEASLIK 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 120 EFDPRFNVVFRDDKTYPYLAISIGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFhKAQVt 199
Cdd:PRK14666 83 KHRPRYNIVLRDDKQYVLFRLGAKHPYPRLEIVRKARRDGARYFGPFTSASAARETWKTIHRAFPLRRCSDRAF-GNRV- 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 200 gRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGPsYAKKLTADMKQASADLDFERAARLRDQISALSSVLEQ 279
Cdd:PRK14666 161 -RACLYHFMGQCLGPCVNDVPRETYAALVRKVEMLLSGRSGE-LVDALRTEMEAASEALEFERAAVLRDQIRAVERTVER 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 280 NSVVFDTDVDADIFGLASDELEASVHCFFVRAGTIRGERS--WSVERVEdiDDSQLMADLISQVYSD------------L 345
Cdd:PRK14666 239 QAAVLPGGGDLDVVGLVEAEGGLALGVLFVRQGVLLDGRAffWPGLGFE--EAPELLWSFLGQFYGPqstipprivvpwL 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 346 MEENKRE--EGVSIAVST-----------------SRDALAPSQQVTADDARSRAQATRRRRSRQEETGRDDllspiSAV 406
Cdd:PRK14666 317 PDTEGREgdDLAPTAVCTdagllpdtpllpdapegSSDPVVPVAAATPVDASLPDVRTGTAPTSLANVSHAD-----PAV 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 407 PREVILPVKPDRPEE------LEEWLTSLRGSAVSITTASRGEKKTLMDRALTNAQQSlARLKAsrmtdigmRTQALNDI 480
Cdd:PRK14666 392 AQPTQAATLAGAAPKgathlmLEETLADLRGGPVRIVPPRNPAENRLVDMAMSNAREE-ARRKA--------ETPLQDLL 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 481 AQALDLAEAPLRIECYDISNaSGGGYQVASMVVFEDGMAKKSQYRHFAIrgADGQGalDDTSALYETLTRRFKHGnvagd 560
Cdd:PRK14666 463 ARALHLSGPPHRIEAVDVSH-TGGRNTRVGMVVFEDGKPARDAYRTYAF--EDGEG--DDYGTLAAWAGRRVESG----- 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 561 sgqsmedekrsqtllssqsldhrqeaqasgsasaatrrhfAYKPNLIVVDGGLPQVNAAAQALEDLGITDVH-VCGLAKK 639
Cdd:PRK14666 533 ----------------------------------------PPWPDLLLVDGGRGQLAAVVRALEEAGMGGLFaVASIAKA 572
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 640 LEE--------------IWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAITYHRKKRSKGSLRSALDSIEGIGLSYQKR 705
Cdd:PRK14666 573 RTEegradrragnvadrIFLPGRANPLPLRAGAPELLFLQHVRDTVHDYAIGRHRRARAGAALTGELQRVEGIGPATARL 652
|
730 740 750
....*....|....*....|....*....|....*..
gi 493336094 706 LLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSL 742
Cdd:PRK14666 653 LWERFGSLQAMAAAGEEGLAAVPGIGPARAAALHEHL 689
|
|
| uvrC |
PRK14672 |
excinuclease ABC subunit C; Provisional |
37-741 |
3.34e-84 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173135 [Multi-domain] Cd Length: 691 Bit Score: 282.01 E-value: 3.34e-84
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 37 DLFRPKTSDIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQplNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYT 116
Cdd:PRK14672 9 ETLRIQALSAPSTSGVYLWKDVHGVVIYVGKAKSLRTRLTSYFR--CRHDPKTRVLMSRAAALEYLQTQHEYEALLLENT 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 117 WIKEFDPRFNVVFRDDKTYPYLAISIgDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHKa 196
Cdd:PRK14672 87 LIKKHTPRYNICLKDGKTYPLLKLTC-EPFPRIFRTRQFCQDGARYFGPFPDVQILDSFLKLILRTYKIRTCTTLRKRK- 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 197 qvtgRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGPSYAkKLTADMKQASADLDFERAARLRDQISALSSV 276
Cdd:PRK14672 165 ----NPCLYYHLKRCDAPCCGWVSPRTYQKDIHEITLLLEGNIDATVA-RLEKRMKRAVRQEAFEAAARIRDDIQAIRCI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 277 LEQnSVVFDTDVDA-DIFGLASDELEASVHCFFVRAGTIRGERSWSVERVEdiDDSQLMADLISQVYSD----------- 344
Cdd:PRK14672 240 THK-SLVQDMDERArDYIAWSSTGAIVTFAVLRMRGGKLNGRELFRTRSLK--NEEEILSEFLITYYSDhtipphlfvhs 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 345 ---LMEE-NKREEGVSIAVSTSRDALAPSQQVTADDARSRAQATrrRRSRQEETGRDDLLSPISAVPREVILpvkpdrpE 420
Cdd:PRK14672 317 sagLAEHwLSHKAGTQCTVTLIPLHTFPTPQTPSSTVTTNAPTL--AASQNSNAVQDSGLRSCSETSTMHTL-------Q 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 421 ELEEWLTSLRGSAVSI--TTASRGEKKTLMDRALTNAQQSLARLKASRMTDigmrtQALNDIAQALDLAEAPLRIECYDI 498
Cdd:PRK14672 388 KAHDACTASEGTRENTphESAHTPHHRAILAMAQLNAHEDITRYLKNRGAD-----DALKELQKQLHLARIPTLIEGFDI 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 499 SNAsGGGYQVASMVVFEDGMAKKSQYRHFAIRGADGQgaLDDTSALYETLTRRFKHgnvagdsgqsmedEKRSQTLlssq 578
Cdd:PRK14672 463 SHL-GGKYTVASLICFKNGAPDTKNYRLFNLRAHDTR--IDDFASMREAIARRYTH-------------TPEGYTL---- 522
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 579 sldhrqeaqasgsasaatrrhfaykPNLIVVDGGLPQVNAAAQALEDLGITdVHVCGLAKKLEEIWLPHEEYPLIMKRQS 658
Cdd:PRK14672 523 -------------------------PDLILVDGGIGHVSAAQHVLDALGLS-IPLVGLAKRAEELFIPNSPTPLVLDRRN 576
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 659 EGMYLMQRVRDESHRFAITYHRKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAI 738
Cdd:PRK14672 577 PALHMLQRIRDEAHRFAITRNRHLRTKKELVLSFERLPHVGKVRAHRLLAHFGSFRSLQSATPQDIATAIHIPLTQAHTI 656
|
...
gi 493336094 739 YQS 741
Cdd:PRK14672 657 LHA 659
|
|
| uvrC |
PRK14668 |
excinuclease ABC subunit C; Provisional |
40-742 |
1.11e-79 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 184785 [Multi-domain] Cd Length: 577 Bit Score: 266.63 E-value: 1.11e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 40 RPKTSDIPAQPGVYKWRdANGRVIYVGKAKNLRNRLSNYFQPLNRlhpRTQSMVLIARSLEWTLVGTELESLTLEYTWIK 119
Cdd:PRK14668 7 RERAAELPREPGVYQFV-AGGTVLYVGKAVDLRDRVRSYADPRSE---RIRRMVERADDIDFAVTDTETQALLLEANLIK 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 120 EFDPRFNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTrYFGPYAKVWNMRHALDSLLNAYPVRTCTQsvfHKAQVT 199
Cdd:PRK14668 83 RHQPRYNVRLKDDKSYPLVQLT-DHPVPRIEVTRDPDEGAT-VFGPYTDKGRVETVVKALRETYGLRGCSD---HKYSNR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 200 GRPCLLAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSSVLEQ 279
Cdd:PRK14668 158 DRPCLDYEMGLCTAPCTGEIDEEAYAEDVESAERFFEGETG-VLADPLRREMEAAAQAQEFERAANLRDRLEAVEAFHGG 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 280 NS-VVFDTDVDA--DIFGLAsdeleasvhcffvragtIRGERSwSVERVEDiDDSQLmadlisqvysdlmeenkreegvs 356
Cdd:PRK14668 237 GGeAVSSTGDERavDVLGVA-----------------IEGDRA-TVARLHA-EGGQL----------------------- 274
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 357 iaVSTSRDALapsqqvTADDARSRAQATRRRRSRQEETGRDdllspisaVPREVILPVKPDRPeELEEWLTSlrgSAVSI 436
Cdd:PRK14668 275 --VDRDRHRL------EAPDGEDRGAAVLAAFIVQYYAERE--------LPDALLLSERPGDD-DVRAWLEA---EGVDV 334
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 437 TTASRGEKKTLMDRALTNaqqslARLKASRMTDIGMrtqalndIAQALDLaEAPLRIECYDISNAsGGGYQVASMVVFED 516
Cdd:PRK14668 335 RVPGAGREATLVDLALKN-----ARRRGGRDDEVGA-------LADALGI-DRPERIEGFDVSHA-QGRAVVGSNVCFVD 400
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 517 GMAKKSQYRHfaiRGADGQGalDDTSALYETLTRRFKhgnvagdsgQSMEDEkrsqtllssqslDHRQEaqasgsasaat 596
Cdd:PRK14668 401 GSAETADYRR---KKLTERN--DDYANMRELVRWRAE---------RAVEGR------------DDRPD----------- 443
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 597 rrhfaykPNLIVVDGGLPQVNAAAQALEDLGiTDVHVCGLAKKLEEIWLPheEYPLIMKRQSEGMYLMQRVRDESHRFAI 676
Cdd:PRK14668 444 -------PDLLLIDGGDGQLGAARDALAETG-WDVPAIALAKAEELVVTP--DRTYDWPDDAPQLHLLQRVRDEAHRFAV 513
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 493336094 677 TYHRKKRSKgsLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSL 742
Cdd:PRK14668 514 QYHQTLRDD--VSTVLDDVPGVGPETRKRLLRRFGSVEGVREASVEDLRDVPGVGEKTAETIRERL 577
|
|
| uvrC |
PRK14667 |
excinuclease ABC subunit C; Provisional |
47-725 |
4.96e-75 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 237783 [Multi-domain] Cd Length: 567 Bit Score: 253.89 E-value: 4.96e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 47 PAQPGVYKWRDaNGRVIYVGKAKNLRNRLSNYFQPLnRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEFDPRFN 126
Cdd:PRK14667 14 PEEPGVYLFKK-KKRYIYIGKAKNIKNRLLQHYKQS-ETDPKERAIFSESSSLEWIITRNEYEALVLEIDLIQQYKPKYN 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 127 VVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGtRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHKAqvtgrPCLLA 206
Cdd:PRK14667 92 VLLKSGSGYPMLLIT-DDEYPTVKIVRGTGEKG-EYFGPFLPARKARKVKKLIHKLFKLRTCDPMPKRKE-----PCMDY 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 207 YIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSSVLEQNSVVFDT 286
Cdd:PRK14667 165 HLGLCSGPCCGKISKEDYELSVKSAKAFLSGNVK-EVLPELYDKIEEYSQKLMFEKAAVIRDQILALENLIKGQEVSGLP 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 287 DVDADIFGLasdeLEASVHCFFVRAGTIRGERSWSVErvediDDSQLMADLISQVYSDlmeenkreegvsiavstsrdal 366
Cdd:PRK14667 244 IEEADIFYF----MGSRLGLFLVRSSKLVGKEEFRLE-----SEEQEEEEVILGYYYS---------------------- 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 367 apsqqvtaddarsraqatrrrrsrqeetgrddllspiSAVPREVIlpVKPDRPEELEEWLTSLRGSAVSITTASRGEKKT 446
Cdd:PRK14667 293 -------------------------------------NYIPQKII--TNFELSDNLKQWLSKRKGGDVEFLTLIPKELEK 333
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 447 LMDRALtNAQQSLARLKASRMTDIGMrtqalndiaqaldlaEAPLRIECYDISNASgGGYQVASMVVFEDGMAKKSQYRH 526
Cdd:PRK14667 334 FIEENI-GIKVDLEVLKEEFKKTFGF---------------PLPERIEGFDISHFY-GEFTVGSCVVWEDGSMNKKEYRR 396
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 527 FAIRGADGqgaLDDTSALYETLTRRFKHgnvagdsGQSMEDEkrsqtllssqsldhrqeaqasgsasaatrrhfayKPNL 606
Cdd:PRK14667 397 YKIKTVDG---IDDYASLREVLTRRARR-------YKEGENP----------------------------------MPDL 432
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 607 IVVDGGLPQVNAAAQALEDLGItDVHVCGLAKKlEEIWL-------PHEEYPLIMKrqsegmyLMQRVRDESHRFAITYH 679
Cdd:PRK14667 433 WLIDGGKGQLSVGIEVRDRLGL-NIKVFSLAKK-EEILYtedgkeiPLKENPILYK-------VFGLIRDEAHRFALSYN 503
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 493336094 680 RKKRSKGSLRSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQ 725
Cdd:PRK14667 504 RKLREKEGLKDILDKIKGIGEVKKEIIYRNFKTLYDFLKADDEELK 549
|
|
| UvrC_RNaseH_dom |
pfam08459 |
UvrC RNAse H endonuclease domain; This domain is found in the C subunits of the bacterial and ... |
481-675 |
2.53e-56 |
|
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: 189.58 E-value: 2.53e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 481 AQALDLAEAPLRIECYDISNASGGgYQVASMVVFEDGMAKKSQYRHFAIRGADGQgalDDTSALYETLTRRFKHGnvagd 560
Cdd:pfam08459 1 QEALGLPKLPRRIECFDISHIQGT-DTVASMVVFEDGKPDKSDYRRFNIKTTVGP---DDYASMREVLTRRFSRL----- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 561 sgqsmedekrsqtllssqsldhrqeaqasgsasaatRRHFAYKPNLIVVDGGLPQVNAAAQALEDLGItDVHVCGLAK-K 639
Cdd:pfam08459 72 ------------------------------------LEEFGPLPDLILIDGGKGQLNAALEVLEELGL-DIPVIGLAKdD 114
|
170 180 190
....*....|....*....|....*....|....*.
gi 493336094 640 LEEIWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFA 675
Cdd:pfam08459 115 KHKIDTDGREEEIILPRDSPALHLLQRIRDEAHRFA 150
|
|
| uvrC |
PRK14670 |
excinuclease ABC subunit C; Provisional |
59-738 |
4.23e-55 |
|
excinuclease ABC subunit C; Provisional
Pssm-ID: 173133 [Multi-domain] Cd Length: 574 Bit Score: 199.37 E-value: 4.23e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 59 NGRVIYVGKAKNLRNRLSNYFqpLNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEFDPRFNVVFRDDKTYPYL 138
Cdd:PRK14670 5 NNKILYIGKAKNLRSRVKNYF--LEKISHKTKILMKNVKNIEVITTNSEYEALLLECNLIKTHKPDYNIKLKDDKGYPMI 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 139 AISIgDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSvfhkaqvTGRPCLLAYIGKCSAPCVgR 218
Cdd:PRK14670 83 RITC-EKYPRIFKTRKIINDGSEYFGPYVNVKKLDLVLDLINKTFKTRKCKKK-------SKNPCLYFHMGQCLGVCY-R 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 219 ISLED-HRAMCEQVVGILTGRLGpSYAKKLTADMKQASADLDFERAARLRDQISALSSVLEQNSVVFDTDVDAD-IFGLA 296
Cdd:PRK14670 154 EDLEKeYQKEVDKIKHILNGNIS-KLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEISQTQIITKINKLSIDyVYIHP 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 297 SDELEASVhCFFVRAGTIrgerswsVERVEDIDDS-----QLMADLISQVYSdlmeenkreegvsiavstsrdalapsqq 371
Cdd:PRK14670 233 TENLNTIV-ILKYKDGKL-------VEKDINFDESiyeedELILQFITQYYT---------------------------- 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 372 vtaddarsraqatrrrrsrqeetgrddllSPISAVPREVILPVKPDrPEELEEWLTSLRGSAVSITTASRGEKKTLMDRA 451
Cdd:PRK14670 277 -----------------------------SINMIVPDKIHIFKKID-TKNITKLINELKNTKTEIIYKETKEIIKIMEMA 326
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 452 LTNAQQSLARLKASrmtdigmRTQALNDIAQALDLAEAPLRIECYDISNASggGYQ-VASMVVFEDGMAKKSQYRHFAIR 530
Cdd:PRK14670 327 ISNAKLALREYENE-------KNKALESLKIILEMDKLPKTIEGFDIAHLN--GQKtVASLVTFKMGKPFKDGYRVYKIN 397
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 531 GADgQGALDDTSALYETLTRRFkhgnvagdsgqsmedekrsqtllsSQSLDHRQEAqasgsasaatrrhfaykPNLIVVD 610
Cdd:PRK14670 398 SLL-KGEIDDFKAIKEVISRRY------------------------SKLINEQLEL-----------------PNLILID 435
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 611 GGLPQVNAAAQALEDLGITD-VHVCGLAKKLEEIWLPHEEYPLIMKRQSEGMYLMQRVRDESHRFAITYHRKKRSKGSLR 689
Cdd:PRK14670 436 GGKGQLNAAYSILKGLKIENkVKVCALAKKEETIFLPNKKQGIKLPKGNPALRILQNVRDEAHRKANGFNKKLRENIKLN 515
|
650 660 670 680
....*....|....*....|....*....|....*....|....*....
gi 493336094 690 SAldSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAI 738
Cdd:PRK14670 516 YT--KIKGIGEKKAKKILKSLGTYKDILLLNEDEIAEKMKINIKMAKKI 562
|
|
| PRK07883 |
PRK07883 |
DEDD exonuclease domain-containing protein; |
45-278 |
1.97e-46 |
|
DEDD exonuclease domain-containing protein;
Pssm-ID: 236123 [Multi-domain] Cd Length: 557 Bit Score: 174.34 E-value: 1.97e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 45 DIPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEFDPR 124
Cdd:PRK07883 213 GLPHAPGVYLFRGPSGEVLYVGTAVNLRRRVRSYFTA-AETRGRMREMVALAERVDHVECAHALEAEVRELRLIAAHKPP 291
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 125 FNVVFRDDKTYPYLAISiGDEVPRIWVTRNRNKRGTRYFGPYAKVWNMRHALDSLLNAYPVRTCTQSVFHKAqVTGRPCL 204
Cdd:PRK07883 292 YNRRSKFPERRWWVRLT-DEAFPRLSVVRAVEDDGAAYLGPFRSRRAAEEAAEALARAFPLRQCTDRLSRRA-RHGPACA 369
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 493336094 205 LAYIGKCSAPCVGRISLEDHRAMCEQVVGILTGRLGPSYAkKLTADMKQASADLDFERAARLRDQISALSSVLE 278
Cdd:PRK07883 370 LAELGRCPAPCDGRESAAEYAEAVARARAALTGDDDAVLA-ALRARIDRLAAAERFEEAARLRDRLAALLRALA 442
|
|
| GIY-YIG_UvrC_Cho |
cd10434 |
Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar ... |
46-127 |
7.41e-36 |
|
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: 129.91 E-value: 7.41e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 46 IPAQPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPlNRLHPRTQSMVLIARSLEWTLVGTELESLTLEYTWIKEFDPRF 125
Cdd:cd10434 1 LPDSPGVYLFKDADGEVLYVGKAKNLRKRVSSYFTG-ERHSPKTRRLVEEIRDIEYIVTDSELEALLLEANLIKKYKPRY 79
|
..
gi 493336094 126 NV 127
Cdd:cd10434 80 NI 81
|
|
| GIYc |
smart00465 |
GIY-YIG type nucleases (URI domain); |
49-127 |
4.83e-17 |
|
GIY-YIG type nucleases (URI domain);
Pssm-ID: 214677 [Multi-domain] Cd Length: 84 Bit Score: 76.31 E-value: 4.83e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 49 QPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIARSLEWTLVGTELESLT-LEYTWIKEFDPRFNV 127
Cdd:smart00465 1 KPGVYYITNKKNGKLYVGKAKNLRNRLKRHFSGSRKGRLLIDALLKYGGNFEFIILESFDESALeLEKYLIKEYKPKYNL 80
|
|
| PRK10545 |
PRK10545 |
excinuclease Cho; |
40-226 |
2.75e-14 |
|
excinuclease Cho;
Pssm-ID: 182535 Cd Length: 286 Bit Score: 73.94 E-value: 2.75e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 40 RPKTSDIPAQPGVYKWR-DANGRVIYVGKAKNLRNRLSNYFQPlnrlhPRTQSMVLIARSLEWTLVGTELESLTLEYTWI 118
Cdd:PRK10545 25 RPFLEDLPKLPGVYLFHgESDTMPLYIGKSVNIRSRVLSHLRT-----PDEAAMLRQSRRISWICTAGEIGALLLEARLI 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 119 KEFDPRFNVVFRddKTYPYLAISIGDEVPRIWVTRNRN-KRGTRYFGPYAkvwNMRHALDSLLN-AYPVRTCTQSVFHKA 196
Cdd:PRK10545 100 KEQQPLFNKRLR--RNRQLCSLQLNEGRVDVVYAKEVDfSRAPNLFGLFA---NRRAALQALQSiADEQKLCYGLLGLEP 174
|
170 180 190
....*....|....*....|....*....|
gi 493336094 197 QVTGRPCLLAYIGKCSAPCVGRISLEDHRA 226
Cdd:PRK10545 175 LSRGRACFRSALKRCAGACCGKESHEAHAL 204
|
|
| MUS81 |
COG1948 |
ERCC4-type crossover junction endonuclease [Replication, recombination and repair]; |
679-743 |
1.81e-12 |
|
ERCC4-type crossover junction endonuclease [Replication, recombination and repair];
Pssm-ID: 441551 [Multi-domain] Cd Length: 214 Bit Score: 67.12 E-value: 1.81e-12
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493336094 679 HRKKRSKgSLR----SALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLH 743
Cdd:COG1948 141 HGKKKPK-TLReqqlYVVESLPGIGPKLARRLLEHFGSVEAVFNASEEELMKVEGIGEKTAERIREVLD 208
|
|
| PRK13766 |
PRK13766 |
Hef nuclease; Provisional |
679-740 |
7.32e-10 |
|
Hef nuclease; Provisional
Pssm-ID: 237496 [Multi-domain] Cd Length: 773 Bit Score: 62.58 E-value: 7.32e-10
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 493336094 679 HRKKRSKgSL----RSALDSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQ 740
Cdd:PRK13766 701 HGEKKAM-TLkeqqEYIVESLPDVGPVLARNLLEHFGSVEAVMTASEEELMEVEGIGEKTAKRIRE 765
|
|
| UVR |
pfam02151 |
UvrB/uvrC motif; |
245-274 |
1.39e-08 |
|
UvrB/uvrC motif;
Pssm-ID: 308001 [Multi-domain] Cd Length: 36 Bit Score: 50.86 E-value: 1.39e-08
10 20 30
....*....|....*....|....*....|
gi 493336094 245 KKLTADMKQASADLDFERAARLRDQISALS 274
Cdd:pfam02151 5 KELEEEMEEAAENEDFEKAAKLRDQINALK 34
|
|
| GIY-YIG |
pfam01541 |
GIY-YIG catalytic domain; This domain called GIY-YIG is found in the amino terminal region of ... |
49-124 |
1.77e-08 |
|
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: 51.96 E-value: 1.77e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 493336094 49 QPGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPL---NRLHPRTQSMVLIarslEWTLVGTELESLTLEYTWIKEFDPR 124
Cdd:pfam01541 1 KGGIYIIRNKDNKLLYVGSTKNLERRLNQHNAGKgakYTRGKGVEPFKLI----YLEEFPTKSEALELEKYLIKLYRPN 75
|
|
| GIY-YIG_SF |
cd00719 |
GIY-YIG nuclease domain superfamily; The GIY-YIG nuclease domain superfamily includes a large ... |
51-121 |
1.02e-07 |
|
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: 49.67 E-value: 1.02e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 493336094 51 GVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIarSLEWTLVGTELESLTLEYTWIKEF 121
Cdd:cd00719 1 GVYVLYDEDNGLIYVGQTKNLRNRIKEHLRKQRSDWTKGLKPFEI--LYLEVAPEAESELLDLEAALIKKL 69
|
|
| UvrB |
COG0556 |
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair]; |
245-273 |
1.05e-07 |
|
Excinuclease UvrABC helicase subunit UvrB [Replication, recombination and repair];
Pssm-ID: 440322 [Multi-domain] Cd Length: 657 Bit Score: 55.40 E-value: 1.05e-07
10 20
....*....|....*....|....*....
gi 493336094 245 KKLTADMKQASADLDFERAARLRDQISAL 273
Cdd:COG0556 626 KELEKEMKEAAKNLEFEEAARLRDEIKEL 654
|
|
| PRK05298 |
PRK05298 |
excinuclease ABC subunit UvrB; |
245-281 |
1.54e-07 |
|
excinuclease ABC subunit UvrB;
Pssm-ID: 235395 [Multi-domain] Cd Length: 652 Bit Score: 55.05 E-value: 1.54e-07
10 20 30
....*....|....*....|....*....|....*..
gi 493336094 245 KKLTADMKQASADLDFERAARLRDQISALSSVLEQNS 281
Cdd:PRK05298 616 KELEKQMKEAAKNLEFEEAARLRDEIKELKEELLGLS 652
|
|
| HHH_5 |
pfam14520 |
Helix-hairpin-helix domain; |
692-742 |
3.05e-07 |
|
Helix-hairpin-helix domain;
Pssm-ID: 434010 [Multi-domain] Cd Length: 57 Bit Score: 47.87 E-value: 3.05e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 493336094 692 LDSIEGIGLSYQKRLLNH-FGSVKAMRQATVQELQEVRGVGAKKAEAIYQSL 742
Cdd:pfam14520 4 LLSISGIGPKTALALLSAgIGTVEDLAEADVDELAEIPGIGEKTAQRIILEL 55
|
|
| HHH_2 |
pfam12826 |
Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is ... |
694-743 |
4.92e-07 |
|
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: 47.52 E-value: 4.92e-07
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 493336094 694 SIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLH 743
Cdd:pfam12826 7 GIRHVGETTAKLLARRFGSLDALAEASLEELLEVDDIGPEIAQSIVEFFA 56
|
|
| GIY-YIG_bI1_like |
cd10445 |
Catalytic GIY-YIG domain of putative intron-encoded endonuclease bI1 and similar proteins; The ... |
50-127 |
1.86e-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: 46.45 E-value: 1.86e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 50 PGVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRlhprtQSMVLIARSL------EWTLVGTELES-------LTLEYT 116
Cdd:cd10445 1 SGIYIWINKINGKIYVGSSINLYKRLRSYLNPSYL-----KKNSPILRALlkyglsNFTLTILEYYNgenkeelLELEQY 75
|
90
....*....|.
gi 493336094 117 WIKEFDPRFNV 127
Cdd:cd10445 76 YIDLLKPEYNI 86
|
|
| DisA |
COG1623 |
c-di-AMP synthetase DisA, contains DisA_N, linker and DNA-binding domains [Signal transduction ... |
705-749 |
6.84e-06 |
|
c-di-AMP synthetase DisA, contains DisA_N, linker and DNA-binding domains [Signal transduction mechanisms];
Pssm-ID: 441230 [Multi-domain] Cd Length: 353 Bit Score: 48.98 E-value: 6.84e-06
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 493336094 705 RLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHPIQDQS 749
Cdd:COG1623 303 NLVEHFGSLQKLLAASIEELDDVEGIGEVRARAIREGLSRLAEQS 347
|
|
| PRK13482 |
PRK13482 |
DNA integrity scanning protein DisA; Provisional |
704-749 |
8.85e-06 |
|
DNA integrity scanning protein DisA; Provisional
Pssm-ID: 237395 [Multi-domain] Cd Length: 352 Bit Score: 48.62 E-value: 8.85e-06
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 493336094 704 KRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQSLHPIQDQS 749
Cdd:PRK13482 301 ENLVEHFGSLQGLLAASIEDLDEVEGIGEVRARAIREGLSRLAEQS 346
|
|
| Lig |
COG0272 |
NAD-dependent DNA ligase [Replication, recombination and repair]; |
691-740 |
1.43e-05 |
|
NAD-dependent DNA ligase [Replication, recombination and repair];
Pssm-ID: 440042 [Multi-domain] Cd Length: 668 Bit Score: 48.48 E-value: 1.43e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 493336094 691 ALdSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQ 740
Cdd:COG0272 514 AL-GIRHVGETTAKLLARHFGSLDALMAASEEELAAVDGIGPVVAESIVE 562
|
|
| RadC |
COG2003 |
DNA repair protein RadC, contains a helix-hairpin-helix DNA-binding motif [Replication, ... |
704-738 |
1.49e-05 |
|
DNA repair protein RadC, contains a helix-hairpin-helix DNA-binding motif [Replication, recombination and repair];
Pssm-ID: 441606 [Multi-domain] Cd Length: 224 Bit Score: 46.97 E-value: 1.49e-05
10 20 30
....*....|....*....|....*....|....*
gi 493336094 704 KRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAI 738
Cdd:COG2003 48 KELLARFGSLRGLLRASVEELRKIKGIGEAKAAQL 82
|
|
| PRK00024 |
PRK00024 |
DNA repair protein RadC; |
698-735 |
2.03e-05 |
|
DNA repair protein RadC;
Pssm-ID: 178801 [Multi-domain] Cd Length: 224 Bit Score: 46.61 E-value: 2.03e-05
10 20 30
....*....|....*....|....*....|....*...
gi 493336094 698 IGLSyqKRLLNHFGSVKAMRQATVQELQEVRGVGAKKA 735
Cdd:PRK00024 44 LDLA--RELLQRFGSLRGLLDASLEELQSIKGIGPAKA 79
|
|
| ligA |
PRK07956 |
NAD-dependent DNA ligase LigA; Validated |
691-740 |
8.25e-05 |
|
NAD-dependent DNA ligase LigA; Validated
Pssm-ID: 236137 [Multi-domain] Cd Length: 665 Bit Score: 46.27 E-value: 8.25e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 493336094 691 ALdSIEGIGLSYQKRLLNHFGSVKAMRQATVQELQEVRGVGAKKAEAIYQ 740
Cdd:PRK07956 513 AL-GIRHVGEKAAKALARHFGSLEALRAASEEELAAVEGVGEVVAQSIVE 561
|
|
| grpIintron_endo |
TIGR01453 |
group I intron endonuclease; This model represents one subfamily of endonucleases containing ... |
51-125 |
2.80e-03 |
|
group I intron endonuclease; This model represents one subfamily of endonucleases containing the endo/excinuclease amino terminal domain, pfam01541 at its amino end. A distinct subfamily includes excinuclease abc subunit c (uvrC). Members of pfam01541 are often termed GIY-YIG endonucleases after conserved motifs near the amino end. This subfamily in this model is found in open reading frames of group I introns in both phage and mitochondria. The closely related endonucleases of phage T4: segA, segB, segC, segD and segE, score below the trusted cutoff for the family.
Pssm-ID: 273636 [Multi-domain] Cd Length: 214 Bit Score: 40.06 E-value: 2.80e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 493336094 51 GVYKWRDANGRVIYVGKAKNLRNRLSNYFQPLNRLHPRTQSMVLIAR-----SLEWTLVGTELESLT-LEYTWIKEFDPR 124
Cdd:TIGR01453 3 GIYKITNNINGKIYVGSSVNLEKRLKEHLKLLKKGNRIKLQKALNKYgwsnfSFEILEYYCNKDDLIeRETYYIKLLNPD 82
|
.
gi 493336094 125 F 125
Cdd:TIGR01453 83 A 83
|
|
| DUF4124 |
pfam13511 |
Domain of unknown function (DUF4124); This presumed domain is found in a variety of bacterial ... |
47-64 |
3.33e-03 |
|
Domain of unknown function (DUF4124); This presumed domain is found in a variety of bacterial proteins. It is found associated at the N-terminus associated with other domains such as the SLT domain and glutaredoxin domains in some proteins. The function of this domain is unknown, but it may have an Ig-like fold.
Pssm-ID: 433269 Cd Length: 53 Bit Score: 36.06 E-value: 3.33e-03
|
| HHH |
pfam00633 |
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ... |
712-740 |
8.58e-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: 34.31 E-value: 8.58e-03
10 20
....*....|....*....|....*....
gi 493336094 712 SVKAMRQATVQELQEVRGVGAKKAEAIYQ 740
Cdd:pfam00633 1 SLEGLIPASVEELLALPGVGPKTAEAILS 29
|
|
| |
