|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-808 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1561.62 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TDTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREEsKNDHFKYDGGIQAFVEYLNRNKTPVHKSV 240
Cdd:PRK14939 163 DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDG-KEEEFHYEGGIKAFVEYLNRNKTPLHPNI 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 241 FHFTHEReeDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKTtsNATGDDAR 320
Cdd:PRK14939 242 FYFSGEK--DGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKV--SLTGDDAR 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 321 EGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKG 400
Cdd:PRK14939 318 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 401 AMDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGC 480
Cdd:PRK14939 398 ALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGC 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 481 GIGRDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDPALVDYL 560
Cdd:PRK14939 478 GIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYL 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 561 TSLALNNAALYTSEGAsALEGEELERIVHDYQNTVKVIERLKRKYPNSVMERLIYQSEITEADLADEAKVKEwtntlvdd 640
Cdd:PRK14939 558 IELALEGATLHLADGP-AISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA-------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 641 liardedatifhagtehdternmyypvvnirqhgvdkahvLNHDFITSRDYKRIAATGVNIANLLEEGAYVQRGEKTLAV 720
Cdd:PRK14939 629 ----------------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPV 668
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 721 DNFVDALEWLINESKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNA 800
Cdd:PRK14939 669 SSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENA 748
|
....*...
gi 937117441 801 LRVVNLDV 808
Cdd:PRK14939 749 LNVANLDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-808 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1080.44 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TDTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDER-EESKNDHFKYDGGIQAFVEYLNRNKTPVHKS 239
Cdd:COG0187 161 DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEReEEPKEETFHYEGGIKDFVEYLNEDKEPLHPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 240 VFHFthEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttSNATGDDA 319
Cdd:COG0187 241 VIYF--EGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKD--KNLTGDDV 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 320 REGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRK 399
Cdd:COG0187 317 REGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 400 GAMDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALG 479
Cdd:COG0187 397 SALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALG 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 480 CGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDpalvdy 559
Cdd:COG0187 477 TGIG-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSD------ 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 560 ltslalnnaalytsegasalegEELERIVHDYQNtvkvierlKRKYPnsvmerliyqseiteadladeakvkewtntlvd 639
Cdd:COG0187 550 ----------------------AELDELLKELKG--------KKKVE--------------------------------- 566
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 640 dliardedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektla 719
Cdd:COG0187 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 720 vdnfvdalewlineskrglyIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETN 799
Cdd:COG0187 567 --------------------IQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEEN 626
|
....*....
gi 937117441 800 ALRVVNLDV 808
Cdd:COG0187 627 AKFVRNLDI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
5-808 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 1061.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 5 YDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHE 84
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 85 EEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDATDTG 164
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 165 TELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREES-KNDHFKYDGGIQAFVEYLNRNKTPVHKSVFHF 243
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKgKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 244 THEREedGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttSNATGDDAREGL 323
Cdd:TIGR01059 240 KGEKE--GIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESK--PNLTGEDIREGL 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 324 TAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKGAMD 403
Cdd:TIGR01059 316 TAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 404 LAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIG 483
Cdd:TIGR01059 396 SGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 484 RDeYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDPAlvdyltsL 563
Cdd:TIGR01059 476 KD-FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKE-------K 547
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 564 ALNNAALYTSEGASALEGEELerivhdyqntvkvierlkrkypnsvmERLIYQSEiteadladeakvkewtntlvddlia 643
Cdd:TIGR01059 548 DLVGEALEDLKALYIYSDKEK--------------------------EEAKTQIP------------------------- 576
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 644 rdedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektlavdnf 723
Cdd:TIGR01059 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 724 vdalewlINESKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNALRV 803
Cdd:TIGR01059 577 -------VHLGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDV 649
|
....*
gi 937117441 804 VNLDV 808
Cdd:TIGR01059 650 KNLDV 654
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
35-800 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 776.35 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 35 GLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGG 114
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 115 LHGVGVSVVNALSEKLQLTIRREGKIHQQTYT-MGVPDAPLAIIGDATDTGTELRFWPSGETFS-DLNFHYDILAKRLRE 192
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 193 LSFLNSGVSIILTDEReESKNDHFKYDGGIQAFVEYLNRNKTPVHKSVFHFTHerEEDGISVEVSMQWNDGFQESIYCFT 272
Cdd:smart00433 161 LAFLNKGVKITLNDER-SDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEG--EKDNIRVEVAFQYTDGYSENIVSFV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 273 NNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAkttsNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSA 352
Cdd:smart00433 238 NNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK----NIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFG 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 353 VEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKgAMDLAGLPGKLADCQEKDPALSELYIVEGDSA 432
Cdd:smart00433 314 VEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSA 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 433 GGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRT 512
Cdd:smart00433 393 GGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIG-KDFDIEKLRYGKIIIMTDADVDGSHIKG 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 513 LLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYikddpalvdyltslalnnaalytsegasalegeelerivhdyq 592
Cdd:smart00433 472 LLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYV------------------------------------------- 508
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 593 ntvkvierlkrkypnsvmerliyqseiteadladeakvkewtntlvddliardedatifhagtehdternmyypvvnirq 672
Cdd:smart00433 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 673 hgvdkahvlnHDFITSRDYKRiaatgvnianlleegayvqrgektlavdnfvdalEWLINESKRGLY-IQRYKGLGEMNP 751
Cdd:smart00433 509 ----------YSFYSLDEYEK----------------------------------WLEKTEGNKSKYeIQRYKGLGEMNA 544
|
730 740 750 760
....*....|....*....|....*....|....*....|....*....
gi 937117441 752 DQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNA 800
Cdd:smart00433 545 DQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
36-216 |
1.49e-104 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 319.10 E-value: 1.49e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 36 LHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGL 115
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 116 HGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDATDTGTELRFWPSGETFSDLNFHYDILAKRLRELSF 195
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELAF 160
|
170 180
....*....|....*....|.
gi 937117441 196 LNSGVSIILTDEREEsKNDHF 216
Cdd:cd16928 161 LNKGLKIVLEDERTG-KEEVF 180
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
221-381 |
4.87e-67 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 219.79 E-value: 4.87e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 221 GIQAFVEYLNRNKTPVHKSVFHFTHEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYME 300
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGESPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 301 KEGFNKKAKttSNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKII 380
Cdd:pfam00204 81 KKGLLKKKD--EKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
.
gi 937117441 381 D 381
Cdd:pfam00204 159 Q 159
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
1-808 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1561.62 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:PRK14939 3 MSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPT 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:PRK14939 83 DIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TDTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREEsKNDHFKYDGGIQAFVEYLNRNKTPVHKSV 240
Cdd:PRK14939 163 DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDG-KEEEFHYEGGIKAFVEYLNRNKTPLHPNI 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 241 FHFTHEReeDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKTtsNATGDDAR 320
Cdd:PRK14939 242 FYFSGEK--DGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKV--SLTGDDAR 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 321 EGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKG 400
Cdd:PRK14939 318 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 401 AMDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGC 480
Cdd:PRK14939 398 ALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGC 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 481 GIGRDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDPALVDYL 560
Cdd:PRK14939 478 GIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYL 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 561 TSLALNNAALYTSEGAsALEGEELERIVHDYQNTVKVIERLKRKYPNSVMERLIYQSEITEADLADEAKVKEwtntlvdd 640
Cdd:PRK14939 558 IELALEGATLHLADGP-AISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA-------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 641 liardedatifhagtehdternmyypvvnirqhgvdkahvLNHDFITSRDYKRIAATGVNIANLLEEGAYVQRGEKTLAV 720
Cdd:PRK14939 629 ----------------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPV 668
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 721 DNFVDALEWLINESKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNA 800
Cdd:PRK14939 669 SSFEEALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENA 748
|
....*...
gi 937117441 801 LRVVNLDV 808
Cdd:PRK14939 749 LNVANLDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
1-808 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1080.44 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:COG0187 2 KKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPV 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:COG0187 81 DIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGKT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TDTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDER-EESKNDHFKYDGGIQAFVEYLNRNKTPVHKS 239
Cdd:COG0187 161 DRTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEReEEPKEETFHYEGGIKDFVEYLNEDKEPLHPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 240 VFHFthEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttSNATGDDA 319
Cdd:COG0187 241 VIYF--EGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKD--KNLTGDDV 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 320 REGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRK 399
Cdd:COG0187 317 REGLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 400 GAMDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALG 479
Cdd:COG0187 397 SALESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALG 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 480 CGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDpalvdy 559
Cdd:COG0187 477 TGIG-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSD------ 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 560 ltslalnnaalytsegasalegEELERIVHDYQNtvkvierlKRKYPnsvmerliyqseiteadladeakvkewtntlvd 639
Cdd:COG0187 550 ----------------------AELDELLKELKG--------KKKVE--------------------------------- 566
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 640 dliardedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektla 719
Cdd:COG0187 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 720 vdnfvdalewlineskrglyIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETN 799
Cdd:COG0187 567 --------------------IQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEEN 626
|
....*....
gi 937117441 800 ALRVVNLDV 808
Cdd:COG0187 627 AKFVRNLDI 635
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
1-808 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1063.94 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:PRK05644 4 KAQEYDASQIQVLEGLEAVRKRPGMYIGSTGE-RGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:PRK05644 83 DIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVIGET 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TDTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDERE-ESKNDHFKYDGGIQAFVEYLNRNKTPVHKS 239
Cdd:PRK05644 163 DETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREgEEKEETFHYEGGIKEYVEYLNRNKEPLHEE 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 240 VFHFthEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttSNATGDDA 319
Cdd:PRK05644 243 PIYF--EGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKD--DNLTGEDV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 320 REGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRK 399
Cdd:PRK05644 319 REGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 400 GAMDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALG 479
Cdd:PRK05644 399 SALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 480 CGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQErYIKDDpalvdy 559
Cdd:PRK05644 479 TGIG-DDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGGKE-YAYSD------ 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 560 ltslalnnaalytsegasalegEELERIvhdyqntvkvIERLKRKYPNSVmerliyqseiteadladeakvkewtntlvd 639
Cdd:PRK05644 551 ----------------------EELDEI----------LAELKLKGNPKY------------------------------ 568
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 640 dliardedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektla 719
Cdd:PRK05644 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 720 vdnfvdalewlineskrglYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETN 799
Cdd:PRK05644 569 -------------------GIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEEN 629
|
....*....
gi 937117441 800 ALRVVNLDV 808
Cdd:PRK05644 630 AKYVRNLDI 638
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
5-808 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 1061.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 5 YDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHE 84
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 85 EEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDATDTG 164
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 165 TELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREES-KNDHFKYDGGIQAFVEYLNRNKTPVHKSVFHF 243
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKgKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 244 THEREedGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttSNATGDDAREGL 323
Cdd:TIGR01059 240 KGEKE--GIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESK--PNLTGEDIREGL 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 324 TAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKGAMD 403
Cdd:TIGR01059 316 TAVISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 404 LAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIG 483
Cdd:TIGR01059 396 SGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 484 RDeYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDPAlvdyltsL 563
Cdd:TIGR01059 476 KD-FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKE-------K 547
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 564 ALNNAALYTSEGASALEGEELerivhdyqntvkvierlkrkypnsvmERLIYQSEiteadladeakvkewtntlvddlia 643
Cdd:TIGR01059 548 DLVGEALEDLKALYIYSDKEK--------------------------EEAKTQIP------------------------- 576
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 644 rdedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektlavdnf 723
Cdd:TIGR01059 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 724 vdalewlINESKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNALRV 803
Cdd:TIGR01059 577 -------VHLGRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDV 649
|
....*
gi 937117441 804 VNLDV 808
Cdd:TIGR01059 650 KNLDV 654
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
1-800 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 845.92 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 1 MSENYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPT 80
Cdd:PRK05559 4 MTNNYNADSIEVLEGLEPVRKRPGMYIGSTDT-RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 81 SIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDA 160
Cdd:PRK05559 83 GIHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 161 TD--TGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREEsknDHFKYDGGIQAFVEYLNRNKTPVHK 238
Cdd:PRK05559 163 GKrkTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERER---QTFHYENGLKDYLAELNEGKETLPE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 239 sVFHFTHEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAKttsNATGDD 318
Cdd:PRK05559 240 -EFVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGK---KLEGED 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 319 AREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKARemTRR 398
Cdd:PRK05559 316 VREGLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKV--KRK 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 399 KGAmDLAGLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITAL 478
Cdd:PRK05559 394 KKT-SGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAI 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 479 GCGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYIKDDpalvd 558
Cdd:PRK05559 473 GIGPG-DSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIYALDE----- 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 559 yltslalnnaalytsegasalegEELERIvhdyqntvkvIERLKRKypnsvmerliyqseiteadladeakvkewtntlv 638
Cdd:PRK05559 547 -----------------------EEKEEL----------LKKLGKK---------------------------------- 559
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 639 ddliardedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrgektl 718
Cdd:PRK05559 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 719 avdnfvdalewlinesKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIET 798
Cdd:PRK05559 560 ----------------GGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEE 623
|
..
gi 937117441 799 NA 800
Cdd:PRK05559 624 NG 625
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
35-800 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 776.35 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 35 GLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGG 114
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 115 LHGVGVSVVNALSEKLQLTIRREGKIHQQTYT-MGVPDAPLAIIGDATDTGTELRFWPSGETFS-DLNFHYDILAKRLRE 192
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 193 LSFLNSGVSIILTDEReESKNDHFKYDGGIQAFVEYLNRNKTPVHKSVFHFTHerEEDGISVEVSMQWNDGFQESIYCFT 272
Cdd:smart00433 161 LAFLNKGVKITLNDER-SDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEG--EKDNIRVEVAFQYTDGYSENIVSFV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 273 NNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAkttsNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSA 352
Cdd:smart00433 238 NNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEK----NIKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFG 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 353 VEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKgAMDLAGLPGKLADCQEKDPALSELYIVEGDSA 432
Cdd:smart00433 314 VEKIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSA 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 433 GGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYDPEKLRYHRIIIMTDADVDGSHIRT 512
Cdd:smart00433 393 GGSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIG-KDFDIEKLRYGKIIIMTDADVDGSHIKG 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 513 LLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYikddpalvdyltslalnnaalytsegasalegeelerivhdyq 592
Cdd:smart00433 472 LLLTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKKKYV------------------------------------------- 508
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 593 ntvkvierlkrkypnsvmerliyqseiteadladeakvkewtntlvddliardedatifhagtehdternmyypvvnirq 672
Cdd:smart00433 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 673 hgvdkahvlnHDFITSRDYKRiaatgvnianlleegayvqrgektlavdnfvdalEWLINESKRGLY-IQRYKGLGEMNP 751
Cdd:smart00433 509 ----------YSFYSLDEYEK----------------------------------WLEKTEGNKSKYeIQRYKGLGEMNA 544
|
730 740 750 760
....*....|....*....|....*....|....*....|....*....
gi 937117441 752 DQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIETNA 800
Cdd:smart00433 545 DQLWETTMDPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
3-800 |
5.16e-170 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 514.43 E-value: 5.16e-170
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 3 ENYDSSSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSI 82
Cdd:PTZ00109 98 SEYDADDIVVLEGLEAVRKRPGMYIGNTDE-KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDV 176
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 83 HEEEGVSAAEVIMTVLHAGGKFDD----------------------------------------NSYKVSGGLHGVGVSV 122
Cdd:PTZ00109 177 SEKTGKSGLETVLTVLHSGGKFQDtfpknsrsdksedkndtksskkgksshvkgpkeakekessQMYEYSSGLHGVGLSV 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 123 VNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDATD-TGTELRFWP---------------SGETFSDLNFHYDIL 186
Cdd:PTZ00109 257 VNALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVFSCPLKkRGTTIHFLPdykhifkthhqhtetEEEEGCKNGFNLDLI 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 187 AKRLRELSFLNSGVSIILTDEREESKNDHFKYD-----GGIQAFVEYLNRNKTPVHKSVFHFTHEREEDGISVEVSMQWN 261
Cdd:PTZ00109 337 KNRIHELSYLNPGLTFYLVDERIANENNFYPYEtikheGGTREFLEELIKDKTPLYKDINIISIRGVIKNVNVEVSLSWS 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 262 DG-FQESIYCFTNNIpQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKakTTSNATGDDAREGLTAVVSVKVPDPKFSSQT 340
Cdd:PTZ00109 417 LEsYTALIKSFANNV-STTAGTHIDGFKYAITRCVNGNIKKNGYFKG--NFVNIPGEFIREGMTAIISVKLNGAEFDGQT 493
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 341 KDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIDAARAREAARKAREMTRRKGAMDLA-GLPGKLADCQEKDP 419
Cdd:PTZ00109 494 KTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYStILPGKLVDCISDDI 573
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 420 ALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFD-KMLSSQEVATLITALGCGI---------------- 482
Cdd:PTZ00109 574 ERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGLSVnpvtwrqydlshgtka 653
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 483 GRDEY---------------DPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKkgkqe 547
Cdd:PTZ00109 654 SKDESvqnnnstltkkknslFDTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRIT----- 728
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 548 ryikddpalvdyltslalnnaalYTSEGASALEGEELERIVHDY--QNTVKVIERLKRKYPNSVMERLIYQSEITEADla 625
Cdd:PTZ00109 729 -----------------------NNRMKQFNVSTKNSKKYIYTWsdEELNVLIKLLNKDYSSKETTRSVEEKGNAPDL-- 783
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 626 deakVKEWTNTLVDDLiardedatifhagtehdternmyypvvNIRQHGVDKahvlnhdfITSRDykriaatgvnianll 705
Cdd:PTZ00109 784 ----DNEYEDEKLDNK---------------------------NMRENNVDE--------VELKT--------------- 809
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 706 EEGAYVQRGEKTLAVDnfvdaLEWLINESKRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLM 785
Cdd:PTZ00109 810 ELGTNVADTEQTDELD-----INKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLM 884
|
890
....*....|....*
gi 937117441 786 GDQVEPRRDFIETNA 800
Cdd:PTZ00109 885 GEDVQSRKQFIFENS 899
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
2-797 |
4.76e-151 |
|
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. This protein is active as an alpha(2)beta(2) heterotetramer. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130127 [Multi-domain] Cd Length: 625 Bit Score: 455.92 E-value: 4.76e-151
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 2 SENYDSSSIKVLKGLDAVRKRPGMYIgdtdDGTGLHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTS 81
Cdd:TIGR01055 1 TTNYSAKDIEVLDGLEPVRKRPGMYT----DTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVD 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 82 IHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDAT 161
Cdd:TIGR01055 77 IHPKEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCG 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 162 --DTGTELRFWPSGETFSDLNFHYDILAKRLRELSFLNSGVSIILTDEREESKnDHFKYDGGIQAFV-EYLNRNKTPVHK 238
Cdd:TIGR01055 157 krLTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTK-ALWNYPDGLKDYLsEAVNGDNTLPPK 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 239 SvfhFTHEREEDGISVEVSMQW--NDG--FQESiYCftNNIPQRDGGTHLAGFRAALTRTLNNYMEKEGFNKKAkttSNA 314
Cdd:TIGR01055 236 P---FSGNFEGDDEAVEWALLWlpEGGelFMES-YV--NLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPRG---VKL 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 315 TGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKIIdaARAREAARKARE 394
Cdd:TIGR01055 307 TAEDIWDRCSYVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAI--SSAQRRKRAAKK 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 395 MTRRKGAMDLAgLPGKLADCQEKDPALSELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATL 474
Cdd:TIGR01055 385 VVRKKLTSGPA-LPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDI 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 475 ITALGCgiGRDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQPPLYKVKKGKQERYikddp 554
Cdd:TIGR01055 464 EVALGI--DPDSNDLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYY----- 536
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 555 alvdyltslalnnaalytsegasALEGEELErivhdyqntvKVIERLKRKypnsvmerliyqseiteadladEAKVKewt 634
Cdd:TIGR01055 537 -----------------------ALDEEEKE----------KLLYKLKKK----------------------KGKPN--- 558
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 635 ntlvddliardedatifhagtehdternmyypvvnirqhgvdkahvlnhdfitsrdykriaatgvnianlleegayvqrg 714
Cdd:TIGR01055 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 715 ektlavdnfvdalewlineskrglyIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDA--VAADQLFATLMGDQV-EP 791
Cdd:TIGR01055 559 -------------------------VQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRsED 613
|
....*.
gi 937117441 792 RRDFIE 797
Cdd:TIGR01055 614 RFNWLQ 619
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
36-216 |
1.49e-104 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 319.10 E-value: 1.49e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 36 LHHMVFEVVDNSIDEALAGHCDDIFVTIHLDGSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGL 115
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 116 HGVGVSVVNALSEKLQLTIRREGKIHQQTYTMGVPDAPLAIIGDATDTGTELRFWPSGETFSDLNFHYDILAKRLRELSF 195
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELAF 160
|
170 180
....*....|....*....|.
gi 937117441 196 LNSGVSIILTDEREEsKNDHF 216
Cdd:cd16928 161 LNKGLKIVLEDERTG-KEEVF 180
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
422-536 |
1.26e-77 |
|
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173786 [Multi-domain] Cd Length: 114 Bit Score: 245.64 E-value: 1.26e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 422 SELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGrDEYDPEKLRYHRIIIMT 501
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIG-EDFDLEKLRYHKIIIMT 79
|
90 100 110
....*....|....*....|....*....|....*
gi 937117441 502 DADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQP 536
Cdd:cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
220-381 |
2.69e-76 |
|
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a heterodimer composed of two subunits. E. coli DNA gyrase B subunit is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Pssm-ID: 238419 [Multi-domain] Cd Length: 172 Bit Score: 244.39 E-value: 2.69e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 220 GGIQAFVEYLNRNKTPVHKSVFHFthEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYM 299
Cdd:cd00822 1 GGLKDFVEELNKDKEPLHEEPIYI--EGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYA 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 300 EKEGFNKKAKTtsNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKI 379
Cdd:cd00822 79 KKNNLLKKKDV--KLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKA 156
|
..
gi 937117441 380 ID 381
Cdd:cd00822 157 IL 158
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
422-536 |
5.02e-69 |
|
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173780 [Multi-domain] Cd Length: 115 Bit Score: 222.77 E-value: 5.02e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 422 SELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEYDPEKLRYHRIIIMT 501
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 937117441 502 DADVDGSHIRTLLLTFFYRQMPEIVEKGFIYIAQP 536
Cdd:cd01030 81 DADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
221-381 |
4.87e-67 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 219.79 E-value: 4.87e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 221 GIQAFVEYLNRNKTPVHKSVFHFTHEREEDGISVEVSMQWNDGFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNNYME 300
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGESPDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 301 KEGFNKKAKttSNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPVDAKTVVGKII 380
Cdd:pfam00204 81 KKGLLKKKD--EKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
.
gi 937117441 381 D 381
Cdd:pfam00204 159 Q 159
|
|
| GyrB_insert |
pfam18053 |
DNA gyrase B subunit insert domain; This is the insert domain found in DNA gyrase B subunit ... |
568-733 |
5.23e-58 |
|
DNA gyrase B subunit insert domain; This is the insert domain found in DNA gyrase B subunit proteins. Studies indicate that the insert has two functions, acting as a steric buttress to pre-configure the primary DNA-binding site, and serving as a relay that may help coordinate communication between different functional domains.
Pssm-ID: 465629 Cd Length: 167 Bit Score: 195.05 E-value: 5.23e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 568 AALYTSEGASALEGEELERIVHDYQNTVKVIERLKRKYPNSVMERLIYQSEITEADLADEAKVKEWTNTLVDDLIARDED 647
Cdd:pfam18053 1 AALYPNEGAPPISGEALEELARQYRLAEAIIKRLSRRYDPAVLEALLYLPPLDAEDLDDEAAAEAWAAALEARLNQDGLG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 648 ATIFHAGTEHDTERNMYYPVVNIRQHGVDKAHVLNHDFITSRDYKRIAATGVNIANLLEEGAYVQRGEKTLAVDNFVDAL 727
Cdd:pfam18053 81 GPRYRVSVEEDTERGKYLLRVTRRHHGNETVYVLDADFFESGDYRALAELGETLDGLIGEGAYIKRGEKEQPVESFKEAL 160
|
....*.
gi 937117441 728 EWLINE 733
Cdd:pfam18053 161 DWLMEE 166
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
22-547 |
4.02e-51 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 194.49 E-value: 4.02e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 22 RPGMYIGDT----------DDGTGlhHMVFEVV------------------DNSIDEALAGHCDDIFVTIHLD-GSVSVR 72
Cdd:PTZ00108 22 RPDTYIGSIetqtedmwvyDEEKN--RMVYKTItyvpglykifdeilvnaaDNKARDKGGHRMTYIKVTIDEEnGEISVY 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 73 DNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTIR--REGKIHQQTYT--MG 148
Cdd:PTZ00108 100 NDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFKMTWTdnMS 179
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 149 VPDAPlaIIGDATDTG--TELRFWPSGETFSDLNF---HYDILAKRLRELSFLNSGVSIILTDEREeskndhfkydgGIQ 223
Cdd:PTZ00108 180 KKSEP--RITSYDGKKdyTKVTFYPDYAKFGMTEFdddMLRLLKKRVYDLAGCFGKLKVYLNGERI-----------AIK 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 224 AFVEYLN-------RNKTPVHKSVFHFTHEREEDGISVEvsmqwNDGFQesIYCFTNNIPQRDGGTHLAGFRAALTRTLN 296
Cdd:PTZ00108 247 SFKDYVDlylpdgeEGKKPPYPFVYTSVNGRWEVVVSLS-----DGQFQ--QVSFVNSICTTKGGTHVNYILDQLISKLQ 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 297 NYMEKegFNKKAKTTSNATgddAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEKLTEFLLENPvdaktvv 376
Cdd:PTZ00108 320 EKAKK--KKKKGKEIKPNQ---IKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFGSTCELSEKLIKYVLKSP------- 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 377 gkIIDAARAREAARKAREMTRRKGAMD---LAGLPgKLADCQEKDPALSE---LYIVEGDSAGGSAKQG---RNRKNQAI 447
Cdd:PTZ00108 388 --ILENIVEWAQAKLAAELNKKMKAGKksrILGIP-KLDDANDAGGKNSEectLILTEGDSAKALALAGlsvVGRDYYGV 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 448 LPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEYDPEKLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVE 527
Cdd:PTZ00108 465 FPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLK 544
|
570 580
....*....|....*....|..
gi 937117441 528 -KGFIYIAQPPLYKV-KKGKQE 547
Cdd:PTZ00108 545 nPGFLKEFITPIVKAtKKGNQV 566
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
7-549 |
2.95e-48 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 180.72 E-value: 2.95e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 7 SSSIKVLKGLDAVRKRPGMYIGDTDDGT----------------GLHHMVFEVVDNSIDEALAG---HCDDIFVTIHlDG 67
Cdd:PHA02569 1 KDEFKVLSDREHILKRPGMYIGSVAYEAherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTIK-NN 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 68 SVSVRDNGRGIPTSI---HEEEGVSAAEVIMTVLHAGGKFDDNSyKVSGGLHGVGVSVVNALSE---------KLQLTIR 135
Cdd:PHA02569 80 QVTVSDNGRGIPQAMvttPEGEEIPGPVAAWTRTKAGSNFDDTN-RVTGGMNGVGSSLTNFFSVlfigetcdgKNEVTVN 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 136 REGKIHQQTYTmgvpDAPLAIigdatdTGTELRFWP---SGETFSDLNFHYDILAKRLRELSFLNSGVSiiltdereesk 212
Cdd:PHA02569 159 CSNGAENISWS----TKPGKG------KGTSVTFIPdfsHFEVNGLDQQYLDIILDRLQTLAVVFPDIK----------- 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 213 ndhFKYDGGIQAfveylnrNKTPVHKSVF---HFTHEREEDGISVEVSmqwNDGFQESiyCFTNNIPQRDGGTHLAGFRA 289
Cdd:PHA02569 218 ---FTFNGKKVS-------GKFKKYAKQFgddTIVQENDNVSIALAPS---PDGFRQL--SFVNGLHTKNGGHHVDCVMD 282
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 290 ALTRTLnnymeKEGFNKKAKTtsNATGDDAREGLTAVVSVK-VPDPKFSSQTKDKLVSS--EVKSAVeQAMAEKLTEFLL 366
Cdd:PHA02569 283 DICEEL-----IPMIKKKHKI--EVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSPfgEIRNHI-DLDYKKIAKQIL 354
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 367 ENPvdakTVVGKIIDAARAREAARKAREMTR-RKGAMDL-------AGLPGKLADcqekdpalSELYIVEGDSAGGSAKQ 438
Cdd:PHA02569 355 KTE----AIIMPIIEAALARKLAAEKAAETKaAKKAKKAkvakhikANLIGKDAE--------TTLFLTEGDSAIGYLIE 422
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 439 GRNRKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEydpEKLRYHRIIIMTDADVDG-SHIRTLLLTF 517
Cdd:PHA02569 423 VRDEELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEKA---ENMNYKNIAIMTDADVDGkGSIYPLLLAF 499
|
570 580 590
....*....|....*....|....*....|..
gi 937117441 518 FYRqMPEIVEKGFIYIAQPPLYKVKKGKQERY 549
Cdd:PHA02569 500 FSR-WPELFEQGRIRFVKTPVIIAQVGKETKW 530
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
22-546 |
8.06e-48 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 184.14 E-value: 8.06e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 22 RPGMYIGDTDDGT--------------------GLHHMVFEVVDNSIDEALAG-HCDDIFVTIHLD-GSVSVRDNGRGIP 79
Cdd:PLN03128 19 RPDTYIGSTEKHTqtlwvyeggemvnrevtyvpGLYKIFDEILVNAADNKQRDpSMDSLKVDIDVEqNTISVYNNGKGIP 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 80 TSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEklQLTIR----REGKIHQQTYT--MGVPDAP 153
Cdd:PLN03128 99 VEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFST--EFTVEtadgNRGKKYKQVFTnnMSVKSEP 176
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 154 LAIIGDATDTGTELRFWPSGETFSDLNFHYDI---LAKRLRELS-FLNSGVSIILTDEREESKndhfkydgGIQAFVE-Y 228
Cdd:PLN03128 177 KITSCKASENWTKITFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVELNGKKLPVK--------SFQDYVGlY 248
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 229 LNRNKTPVHK-SVFHFTHEREEDGISVevsmqwNDG-FQEsiYCFTNNIPQRDGGTHLagfrAALTRTLNNYMeKEGFNK 306
Cdd:PLN03128 249 LGPNSREDPLpRIYEKVNDRWEVCVSL------SDGsFQQ--VSFVNSIATIKGGTHV----DYVADQIVKHI-QEKVKK 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 307 KAKTTSNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQAMAEkltEFLlenpvdaKTVVGK-IIDAARA 385
Cdd:PLN03128 316 KNKNATHVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPSSFGSKCELSE---EFL-------KKVEKCgVVENILS 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 386 REAARKAREMTRRKGA--MDLAGLPgKLADCQEKDPALSE---LYIVEGDSAGGSAKQGR---NRKNQAILPLKGKILNV 457
Cdd:PLN03128 386 WAQFKQQKELKKKDGAkrQRLTGIP-KLDDANDAGGKKSKdctLILTEGDSAKALAMSGLsvvGRDHYGVFPLRGKLLNV 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 458 EKARFDKMLSSQEVATLITALGCGIGRdEYDPE---KLRYHRIIIMTDADVDGSHIRTLLLTFFYRQMPEIVE-KGFIYI 533
Cdd:PLN03128 465 REASHKQIMKNAEITNIKQILGLQFGK-TYDEEntkSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKiPGFLVE 543
|
570
....*....|...
gi 937117441 534 AQPPLYKVKKGKQ 546
Cdd:PLN03128 544 FITPIVKATKGGK 556
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
735-797 |
1.50e-40 |
|
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA topoisomerase II are similar, but they have a different carboxyl terminus. The amino-terminal portion of the DNA gyrase B protein is thought to catalyze the ATP-dependent super-coiling of DNA. See pfam00204. The carboxyl-terminal end supports the complexation with the DNA gyrase A protein and the ATP-independent relaxation. This family also contains Topoisomerase IV. This is a bacterial enzyme that is closely related to DNA gyrase,.
Pssm-ID: 460016 [Multi-domain] Cd Length: 63 Bit Score: 142.52 E-value: 1.50e-40
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 937117441 735 KRGLYIQRYKGLGEMNPDQLWETTMDPDARRMLKVTIEDAVAADQLFATLMGDQVEPRRDFIE 797
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
57-546 |
1.99e-30 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 129.60 E-value: 1.99e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 57 DDIFVTIHLD-GSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEKLQLTI- 134
Cdd:PLN03237 100 DSLRVVIDVEqNLISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIETa 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 135 --RREGKiHQQTYT--MGVPDAPLAIIGDATDTGTELRFWPSGETFSDLNFHYDILA---KRLRELS-FLNSGVSIILTD 206
Cdd:PLN03237 180 dgKRQKK-YKQVFSnnMGKKSEPVITKCKKSENWTKVTFKPDLAKFNMTHLEDDVVAlmkKRVVDIAgCLGKTVKVELNG 258
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 207 EREESKndhfkydgGIQAFVE-YLNRNKTPVHKSvFHFTHEREEDGISVEVSMqwNDG-FQESiyCFTNNIPQRDGGTHL 284
Cdd:PLN03237 259 KRIPVK--------SFSDYVDlYLESANKSRPEN-LPRIYEKVNDRWEVCVSL--SEGqFQQV--SFVNSIATIKGGTHV 325
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 285 AgfraALTRTLNNY-MEKegFNKKAKTtSNATGDDAREGLTAVVSVKVPDPKFSSQTKDKLV--SSEVKSAVEqamaekL 361
Cdd:PLN03237 326 D----YVTNQIANHvMEA--VNKKNKN-ANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLTlrQSSFGSKCE------L 392
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 362 TEFLLEnpvdaKTVVGKIIDAARAREAARKAREMTRRKGAMD--LAGLPgKLADCQE---KDPALSELYIVEGDSAGGSA 436
Cdd:PLN03237 393 SEDFLK-----KVMKSGIVENLLSWADFKQSKELKKTDGAKTtrVTGIP-KLEDANEaggKNSEKCTLILTEGDSAKALA 466
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 437 KQGRN---RKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRdEYDPEK-LRYHRIIIMTDADVDGSHIRT 512
Cdd:PLN03237 467 VAGLSvvgRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGK-QYESVKsLRYGHLMIMTDQDHDGSHIKG 545
|
490 500 510
....*....|....*....|....*....|....*.
gi 937117441 513 LLLTFFYRQMPEIVE-KGFIYIAQPPLYKV-KKGKQ 546
Cdd:PLN03237 546 LLINFIHSFWPSLLKvPSFLVEFITPIVKAtRRGKK 581
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
424-531 |
4.90e-25 |
|
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173785 [Multi-domain] Cd Length: 120 Bit Score: 100.45 E-value: 4.90e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 424 LYIVEGDSAGGSAKQGRN---RKNQAILPLKGKILNVEKARFDKMLSSQEVATLITALGCGIGRDEY-DPEKLRYHRIII 499
Cdd:cd03365 3 LILTEGDSAKALAVAGLSvvgRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYeSTKSLRYGRLMI 82
|
90 100 110
....*....|....*....|....*....|...
gi 937117441 500 MTDADVDGSHIRTLLLTFFYRQMPEIVE-KGFI 531
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSFWPSLLKiPGFL 115
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
222-344 |
1.74e-19 |
|
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch repair (MMR). Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families.
Pssm-ID: 238202 [Multi-domain] Cd Length: 107 Bit Score: 84.23 E-value: 1.74e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 222 IQAFVEYLNRNKtpVHKSVFHFthEREEDGISVEVSMQWND---GFQESIYCFTNNIPQRDGGTHLAGFRAALTRTLNny 298
Cdd:cd00329 1 LKDRLAEILGDK--VADKLIYV--EGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN-- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 937117441 299 mekegfnkkakttsnatGDDAREGLTAVVSVKVPD--PKFS-SQTKDKL 344
Cdd:cd00329 75 -----------------GDDVRRYPVAVLSLKIPPslVDVNvHPTKEEV 106
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
32-144 |
1.75e-19 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 84.24 E-value: 1.75e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 32 DGTGLHHMVFEVVDNSIDEALAGhcDDIFVTIHLDG---SVSVRDNGRGIPtsiheeegvsaAEVIMTVLHAGGKFDDNS 108
Cdd:smart00387 2 DPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIP-----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110
....*....|....*....|....*....|....*.
gi 937117441 109 YKVSGglHGVGVSVVNALSEKLQLTIRREGKIHQQT 144
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELHGGEISVESEPGGGT 102
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
423-518 |
3.19e-16 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 74.70 E-value: 3.19e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 423 ELYIVEGDSAGGSAKQGRNRKNQAILPLKGKILNVEKARFDKMLssqevatlitalgcgigrDEYDPEKLRYHRIIIMTD 502
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKAL------------------KALKELALKAKEVILATD 62
|
90
....*....|....*.
gi 937117441 503 ADVDGSHIRTLLLTFF 518
Cdd:pfam01751 63 PDREGEAIALKLLELK 78
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
31-144 |
3.35e-16 |
|
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 75.10 E-value: 3.35e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 31 DDGTGLHHMVFEVVDNSIDEAlaGHCDDIFVTIHLDG--SVSVRDNGRGIPTSIHEeegvsaaevimtvlHAGGKFDDnS 108
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP--------------RIFEPFST-A 63
|
90 100 110
....*....|....*....|....*....|....*.
gi 937117441 109 YKVSGGLHGVGVSVVNALSEKLQLTIRREGKIHQQT 144
Cdd:pfam02518 64 DKRGGGGTGLGLSIVRKLVELLGGTITVESEPGGGT 99
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
59-153 |
1.63e-10 |
|
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the histidine kinase-like ATPase (HATpase) domains of human topoisomerase IIA (TopIIA) and TopIIB, Saccharomyces cerevisae TOP2p, and related proteins. These proteins catalyze the passage of DNA double strands through a transient double-strand break in the presence of ATP.
Pssm-ID: 340407 [Multi-domain] Cd Length: 147 Bit Score: 60.04 E-value: 1.63e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 59 IFVTIHLD-GSVSVRDNGRGIPTSIHEEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSEK--LQLTIR 135
Cdd:cd16930 29 IKVTIDPEnNEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEftVETADS 108
|
90 100
....*....|....*....|
gi 937117441 136 REGKIHQQTYT--MGVPDAP 153
Cdd:cd16930 109 ESKKKFKQTWTnnMGKASEP 128
|
|
| HATPase |
cd00075 |
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ... |
36-135 |
8.17e-07 |
|
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ATPase (HATPase) domains of several ATP-binding proteins such as histidine kinase, DNA gyrase B, topoisomerases, heat shock protein 90 (HSP90), phytochrome-like ATPases and DNA mismatch repair proteins. Domains belonging to this superfamily are also referred to as GHKL (gyrase, heat-shock protein 90, histidine kinase, MutL) ATPase domains.
Pssm-ID: 340391 [Multi-domain] Cd Length: 102 Bit Score: 47.98 E-value: 8.17e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 36 LHHMVFEVVDNSIDEALAGhcDDIFVTIHLDGS---VSVRDNGRGIPTSIHEeegvsaaevimtvlHAGGKFDDNSYKVS 112
Cdd:cd00075 1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEEDLE--------------RIFERFYRGDKSRE 64
|
90 100
....*....|....*....|...
gi 937117441 113 GGLHGVGVSVVNALSEKLQLTIR 135
Cdd:cd00075 65 GGGTGLGLAIVRRIVEAHGGRIT 87
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
422-525 |
8.59e-06 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 44.73 E-value: 8.59e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 422 SELYIVEGDSAGGSAKQGRnRKNQAILPLKGKILNvekarfdkmlssQEVATLITALGcgigrdeydpeklRYHRIIIMT 501
Cdd:cd00188 1 KKLIIVEGPSDALALAQAG-GYGGAVVALGGHALN------------KTRELLKRLLG-------------EAKEVIIAT 54
|
90 100
....*....|....*....|....
gi 937117441 502 DADVDGSHIRTLLLTFFYRQMPEI 525
Cdd:cd00188 55 DADREGEAIALRLLELLKSLGKKV 78
|
|
| HATPase_TopVIB-like |
cd16933 |
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family ... |
20-133 |
3.97e-03 |
|
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family includes the histidine kinase-like ATPase (HATPase) domain of the B subunit of topoisomerase VI (Topo VIB). Topo VI is a heterotetrameric complex composed of two TopVIA and two TopVIB subunits and is categorized as a type II B DNA topoisomerase. It is found in archaea and also in plants. Type II enzymes cleave both strands of a DNA duplex and pass a second duplex through the resulting break in an ATP-dependent mechanism. DNA cleavage by Topo VI generates two-nucleotide 5'-protruding ends.
Pssm-ID: 340410 [Multi-domain] Cd Length: 203 Bit Score: 39.25 E-value: 3.97e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 937117441 20 RKRPGMyIGDTDDGTGLHHMVFEVVDNSIDEA-LAGHCDDIFVTIHLDG----SVSVRDNGRGIPtsiHEEegvsAAEVI 94
Cdd:cd16933 5 RKNKEM-LGFDNPIRSLYTTVRELVENSLDATeEAGILPDIKVEIEEIGkdhyKVIVEDNGPGIP---EEQ----IPKVF 76
|
90 100 110
....*....|....*....|....*....|....*....
gi 937117441 95 MTVLhAGGKFDDnsyKVSGGLHGVGVSVVNALSeklQLT 133
Cdd:cd16933 77 GKVL-YGSKYHN---KQSRGQQGLGISAAVLYS---QMT 108
|
|
| |
