|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
8-810 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1513.85 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 8 ENGPAEYGADSIKVLKGLDAVRKRPGMYIGDTDDGSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGI 87
Cdd:PRK14939 1 SMMSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 88 PTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTG 167
Cdd:PRK14939 81 PTDIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVG 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 168 EAgSETGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSdvKQDELMYEGGLEAFVTYLDRAKKPL 247
Cdd:PRK14939 161 ET-DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDG--KEEEFHYEGGIKAFVEYLNRNKTPL 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 248 VDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCR 327
Cdd:PRK14939 238 HPNIFYFSGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAR 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 328 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKG 407
Cdd:PRK14939 318 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 408 ALDISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGT 487
Cdd:PRK14939 398 ALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGC 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 488 SIGKDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEDYL 567
Cdd:PRK14939 478 GIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYL 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 568 IGSGLDDAALELSSGEVRVGQDILELIQDALRLRTLLDGLHSRYNRAIVEQAAIAGALNLELSHDREAYAAkavevahrl 647
Cdd:PRK14939 558 IELALEGATLHLADGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA--------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 648 dliaeetergwegsvasdgglrfermvrgvkefahIDMALIGSSDARHIDQLSARLKETYTVPPALRRKDGQVEISGPRA 727
Cdd:PRK14939 629 -----------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSFEE 673
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 728 LLDAIFAAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVAN 807
Cdd:PRK14939 674 ALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNVAN 753
|
...
gi 1801119162 808 LDI 810
Cdd:PRK14939 754 LDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
9-810 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1056.55 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 9 NGPAEYGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIP 88
Cdd:COG0187 1 AKKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 89 TDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGE 168
Cdd:COG0187 80 VDIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 169 AGsETGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQDELMYEGGLEAFVTYLDRAKKPLV 248
Cdd:COG0187 160 TD-RTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEPKEETFHYEGGIKDFVEYLNEDKEPLH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 249 DKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCRE 328
Cdd:COG0187 239 PEVIYFEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 329 GLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKGA 408
Cdd:COG0187 319 GLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRKSA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 409 LDISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTS 488
Cdd:COG0187 399 LESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 489 IGkDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEDYLi 568
Cdd:COG0187 479 IG-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELL- 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 569 gsglddaalelssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevahrld 648
Cdd:COG0187 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 649 liaeetergwegsvasdgglrfermvrgvKEFahidmaligssdarhidqlsarlketytvppalrrkdgqveisgpral 728
Cdd:COG0187 557 -----------------------------KEL------------------------------------------------ 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 729 ldaifaAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVANL 808
Cdd:COG0187 560 ------KGKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFVRNL 633
|
..
gi 1801119162 809 DI 810
Cdd:COG0187 634 DI 635
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
14-810 |
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: 1028.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 14 YGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHK 93
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 94 EEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAgSET 173
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGET-KKT 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 174 GTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQDELMYEGGLEAFVTYLDRAKKPLVDKPIA 253
Cdd:TIGR01059 159 GTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 254 IRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCREGLTAV 333
Cdd:TIGR01059 239 IKGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 334 LSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKGALDISS 413
Cdd:TIGR01059 319 ISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGG 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 414 LPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDe 493
Cdd:TIGR01059 399 LPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIGKD- 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 494 FNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEdyligsgLD 573
Cdd:TIGR01059 478 FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKD-------LV 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 574 DAALElssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevahrldliaee 653
Cdd:TIGR01059 551 GEALE--------------------------------------------------------------------------- 555
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 654 tergwegsvasdgglrfermvrgvkefahidmaligssDARHIDQLSARLKEtytvpPALRRKDGQVeisgpralldaif 733
Cdd:TIGR01059 556 --------------------------------------DLKALYIYSDKEKE-----EAKTQIPVHL------------- 579
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1801119162 734 aaGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVANLDI 810
Cdd:TIGR01059 580 --GRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNLDV 654
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
44-802 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 750.54 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 44 GLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGG 123
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 124 LHGVGVSVVNALSVSLKLKIRRAGSIHEMSFT-HGVADGPLKVTGEAGsETGTEVTFLPSSETFSNI-EFVYSTLEHRLR 201
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTK-KDGTKVTFKPDLEIFGMTtDDDFELLKRRLR 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 202 ELAFLNSGVRILLTDRRHSDVKQDElmYEGGLEAFVTYLDRAKKPLVDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFT 281
Cdd:smart00433 160 ELAFLNKGVKITLNDERSDEEKTFL--FEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIVSFV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 282 NNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKvtLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVE 361
Cdd:smart00433 238 NNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKN--IKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 362 SLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKgALDISSLPGKLADCSERDPAKSEVFLVEGDSAGG 441
Cdd:smart00433 316 KIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSAGG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 442 SAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDeFNADKLRYHKIIIMTDADVDGAHIRTLL 521
Cdd:smart00433 395 SAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKD-FDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 522 LTFFFRQMPELIERGHLYIAQPPLYKVARGKSsqylknEKALEDYligsglddaalelssgevrvgqdileliqdalrlr 601
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK------KYVYSFY----------------------------------- 512
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 602 tlldglhsrynraiveqaaiagalnlelshdreayaakavevahrldliAEETERGWegsvasdgglrfermvrgvkefa 681
Cdd:smart00433 513 -------------------------------------------------SLDEYEKW----------------------- 520
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 682 hidmaligssdarhidqlsarlketytvppaLRRKDGqveisgpralldaifaaGRKGLSMQRYKGLGEMNAEQLWETTL 761
Cdd:smart00433 521 -------------------------------LEKTEG-----------------NKSKYEIQRYKGLGEMNADQLWETTM 552
|
730 740 750 760
....*....|....*....|....*....|....*....|.
gi 1801119162 762 DPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENA 802
Cdd:smart00433 553 DPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
45-219 |
1.15e-98 |
|
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: 303.69 E-value: 1.15e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 45 LHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGL 124
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 125 HGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAgSETGTEVTFLPSSETFSNIEFVYSTLEHRLRELA 204
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGET-KKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170
....*....|....*
gi 1801119162 205 FLNSGVRILLTDRRH 219
Cdd:cd16928 160 FLNKGLKIVLEDERT 174
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
232-387 |
2.26e-62 |
|
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: 207.08 E-value: 2.26e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 232 GLEAFVTYLDRAKKPLVDKPIAIRGE--KDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAE 309
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGEspDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1801119162 310 SSGIMKKEKVTLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVV 387
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
8-810 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 1513.85 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 8 ENGPAEYGADSIKVLKGLDAVRKRPGMYIGDTDDGSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGI 87
Cdd:PRK14939 1 SMMSNSYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGI 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 88 PTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTG 167
Cdd:PRK14939 81 PTDIHPEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHGVPVAPLKVVG 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 168 EAgSETGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSdvKQDELMYEGGLEAFVTYLDRAKKPL 247
Cdd:PRK14939 161 ET-DKTGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDG--KEEEFHYEGGIKAFVEYLNRNKTPL 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 248 VDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCR 327
Cdd:PRK14939 238 HPNIFYFSGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAR 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 328 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKG 407
Cdd:PRK14939 318 EGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTRRKG 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 408 ALDISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGT 487
Cdd:PRK14939 398 ALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGC 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 488 SIGKDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEDYL 567
Cdd:PRK14939 478 GIGRDEFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGKQEQYLKDDEALDDYL 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 568 IGSGLDDAALELSSGEVRVGQDILELIQDALRLRTLLDGLHSRYNRAIVEQAAIAGALNLELSHDREAYAAkavevahrl 647
Cdd:PRK14939 558 IELALEGATLHLADGPAISGEALEKLVKEYRAVRKIIDRLERRYPRAVLEALIYAPALDLDDLADEAAVAA--------- 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 648 dliaeetergwegsvasdgglrfermvrgvkefahIDMALIGSSDARHIDQLSARLKETYTVPPALRRKDGQVEISGPRA 727
Cdd:PRK14939 629 -----------------------------------LDADFLTSAEYRRLVELAEKLRGLIEEGAYLERGERKQPVSSFEE 673
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 728 LLDAIFAAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVAN 807
Cdd:PRK14939 674 ALDWLLAEARKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQVTIEDAIAADEIFTTLMGDEVEPRREFIEENALNVAN 753
|
...
gi 1801119162 808 LDI 810
Cdd:PRK14939 754 LDV 756
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
9-810 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1056.55 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 9 NGPAEYGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIP 88
Cdd:COG0187 1 AKKSNYDASSIQVLEGLEAVRKRPGMYIGSTDE-RGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 89 TDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGE 168
Cdd:COG0187 80 VDIHPKEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERGKPVGPLEKIGK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 169 AGsETGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQDELMYEGGLEAFVTYLDRAKKPLV 248
Cdd:COG0187 160 TD-RTGTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEEPKEETFHYEGGIKDFVEYLNEDKEPLH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 249 DKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCRE 328
Cdd:COG0187 239 PEVIYFEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 329 GLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKGA 408
Cdd:COG0187 319 GLTAVISVKLPEPQFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVRRKSA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 409 LDISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTS 488
Cdd:COG0187 399 LESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 489 IGkDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEDYLi 568
Cdd:COG0187 479 IG-DDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKKGKKTYYAYSDAELDELL- 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 569 gsglddaalelssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevahrld 648
Cdd:COG0187 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 649 liaeetergwegsvasdgglrfermvrgvKEFahidmaligssdarhidqlsarlketytvppalrrkdgqveisgpral 728
Cdd:COG0187 557 -----------------------------KEL------------------------------------------------ 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 729 ldaifaAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVANL 808
Cdd:COG0187 560 ------KGKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFVRNL 633
|
..
gi 1801119162 809 DI 810
Cdd:COG0187 634 DI 635
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
7-810 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1041.98 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 7 TENGPAEYGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRG 86
Cdd:PRK05644 1 KEEKAQEYDASQIQVLEGLEAVRKRPGMYIGSTGE-RGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRG 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 87 IPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVT 166
Cdd:PRK05644 80 IPVDIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEVI 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 167 GEAgSETGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQDELMYEGGLEAFVTYLDRAKKP 246
Cdd:PRK05644 160 GET-DETGTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGEEKEETFHYEGGIKEYVEYLNRNKEP 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 247 LVDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDC 326
Cdd:PRK05644 239 LHEEPIYFEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 327 REGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRK 406
Cdd:PRK05644 319 REGLTAVISVKHPEPQFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 407 GALDISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALG 486
Cdd:PRK05644 399 SALESSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 487 TSIGkDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKsSQYLKNEKALEdy 566
Cdd:PRK05644 479 TGIG-DDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-KEYAYSDEELD-- 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 567 ligsglddaalelssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevahr 646
Cdd:PRK05644 --------------------------------------------------------------------------------
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 647 ldliaeetergwegsvasdgglrfermvrgvkefahidmaligssdarhidqlsarlketytvppalrrkdgqveisgpr 726
Cdd:PRK05644 --------------------------------------------------------------------------------
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 727 ALLDAIFAAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVA 806
Cdd:PRK05644 555 EILAELKLKGNPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENAKYVR 634
|
....
gi 1801119162 807 NLDI 810
Cdd:PRK05644 635 NLDI 638
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
14-810 |
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: 1028.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 14 YGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHK 93
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGE-TGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 94 EEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAgSET 173
Cdd:TIGR01059 80 EEGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERGIPVGPLEVVGET-KKT 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 174 GTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQDELMYEGGLEAFVTYLDRAKKPLVDKPIA 253
Cdd:TIGR01059 159 GTTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGKGKKVTFHYEGGIKSFVKYLNRNKEPLHEEIIY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 254 IRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCREGLTAV 333
Cdd:TIGR01059 239 IKGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAV 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 334 LSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKGALDISS 413
Cdd:TIGR01059 319 ISVKVPDPQFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTRRKSALDSGG 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 414 LPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDe 493
Cdd:TIGR01059 399 LPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIGKD- 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 494 FNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEdyligsgLD 573
Cdd:TIGR01059 478 FDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGKKERYIKDDKEKD-------LV 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 574 DAALElssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevahrldliaee 653
Cdd:TIGR01059 551 GEALE--------------------------------------------------------------------------- 555
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 654 tergwegsvasdgglrfermvrgvkefahidmaligssDARHIDQLSARLKEtytvpPALRRKDGQVeisgpralldaif 733
Cdd:TIGR01059 556 --------------------------------------DLKALYIYSDKEKE-----EAKTQIPVHL------------- 579
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1801119162 734 aaGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENALSVANLDI 810
Cdd:TIGR01059 580 --GRKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEVEPRREFIEANALDVKNLDV 654
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
11-802 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 822.04 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 11 PAEYGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTD 90
Cdd:PRK05559 5 TNNYNADSIEVLEGLEPVRKRPGMYIGSTDT-RGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVG 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 91 IHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAG 170
Cdd:PRK05559 84 IHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFEGGDPVGPLEVVGTAG 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 171 SE-TGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRRHSDVKQdelmYEGGLEAFVTYLDRAKKPLVD 249
Cdd:PRK05559 164 KRkTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERERQTFH----YENGLKDYLAELNEGKETLPE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 250 KPI-AIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKvTLTGDDCRE 328
Cdd:PRK05559 240 EFVgSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLPKGK-KLEGEDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 329 GLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARelTRRKGA 408
Cdd:PRK05559 319 GLAAVLSVKIPEPQFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAKKV--KRKKKT 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 409 LdISSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTS 488
Cdd:PRK05559 397 S-GPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVAIGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 489 IGkDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYlknekALEDyli 568
Cdd:PRK05559 476 PG-DSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKKIY-----ALDE--- 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 569 gsglddaalelssgevrvgqdileliqdalrlrtlldglhsrynraiveqaaiagalnlelshdreayaakavevAHRLD 648
Cdd:PRK05559 547 ---------------------------------------------------------------------------EEKEE 551
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 649 LIAEetergwegsvasdgglrfermvrgvkefahidmaligssdarhidqlsarlketytvppaLRRKDGQVEIsgpral 728
Cdd:PRK05559 552 LLKK------------------------------------------------------------LGKKGGKPEI------ 565
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1801119162 729 ldaifaagrkglsmQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENA 802
Cdd:PRK05559 566 --------------QRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENG 625
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
44-802 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 750.54 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 44 GLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGG 123
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 124 LHGVGVSVVNALSVSLKLKIRRAGSIHEMSFT-HGVADGPLKVTGEAGsETGTEVTFLPSSETFSNI-EFVYSTLEHRLR 201
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSnNGKPLSEPKIIGDTK-KDGTKVTFKPDLEIFGMTtDDDFELLKRRLR 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 202 ELAFLNSGVRILLTDRRHSDVKQDElmYEGGLEAFVTYLDRAKKPLVDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFT 281
Cdd:smart00433 160 ELAFLNKGVKITLNDERSDEEKTFL--FEGGIKDYVELLNKNKELLSPEPTYIEGEKDNIRVEVAFQYTDGYSENIVSFV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 282 NNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKvtLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVE 361
Cdd:smart00433 238 NNIATTEGGTHENGFKDALTRVINEYAKKKKKLKEKN--IKGEDVREGLTAFISVKIPEPQFEGQTKEKLGTSEVRFGVE 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 362 SLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKgALDISSLPGKLADCSERDPAKSEVFLVEGDSAGG 441
Cdd:smart00433 316 KIVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKK-KLSSISLPGKLADASSAGPKKCELFLVEGDSAGG 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 442 SAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDeFNADKLRYHKIIIMTDADVDGAHIRTLL 521
Cdd:smart00433 395 SAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKD-FDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 522 LTFFFRQMPELIERGHLYIAQPPLYKVARGKSsqylknEKALEDYligsglddaalelssgevrvgqdileliqdalrlr 601
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGKK------KYVYSFY----------------------------------- 512
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 602 tlldglhsrynraiveqaaiagalnlelshdreayaakavevahrldliAEETERGWegsvasdgglrfermvrgvkefa 681
Cdd:smart00433 513 -------------------------------------------------SLDEYEKW----------------------- 520
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 682 hidmaligssdarhidqlsarlketytvppaLRRKDGqveisgpralldaifaaGRKGLSMQRYKGLGEMNAEQLWETTL 761
Cdd:smart00433 521 -------------------------------LEKTEG-----------------NKSKYEIQRYKGLGEMNADQLWETTM 552
|
730 740 750 760
....*....|....*....|....*....|....*....|.
gi 1801119162 762 DPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQENA 802
Cdd:smart00433 553 DPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENA 593
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
13-802 |
2.46e-176 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 530.61 E-value: 2.46e-176
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 13 EYGADSIKVLKGLDAVRKRPGMYIGDTDDgSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIH 92
Cdd:PTZ00109 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDE-KGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVS 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 93 KEEGVSAAEVIMTQLHAGGKF--------------DQNS--------------------------YKVSGGLHGVGVSVV 132
Cdd:PTZ00109 178 EKTGKSGLETVLTVLHSGGKFqdtfpknsrsdkseDKNDtksskkgksshvkgpkeakekessqmYEYSSGLHGVGLSVV 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 133 NALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAGSETGTEVTFLP---------------SSETFSNIEFVYSTLE 197
Cdd:PTZ00109 258 NALSSFLKVDVFKGGKIYSIELSKGKVTKPLSVFSCPLKKRGTTIHFLPdykhifkthhqhtetEEEEGCKNGFNLDLIK 337
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 198 HRLRELAFLNSGVRILLTDRRHSD----VKQDELMYEGGLEAFVTYLDRAKKPLVdKP---IAIRGEKDGITVEVAMWWN 270
Cdd:PTZ00109 338 NRIHELSYLNPGLTFYLVDERIANennfYPYETIKHEGGTREFLEELIKDKTPLY-KDiniISIRGVIKNVNVEVSLSWS 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 271 -DSYHENVLCFTNNIpQRDGGTHMAGFRGALTRQVVSYAESSGIMKKEKVTLTGDDCREGLTAVLSVKVPDPKFSSQTKD 349
Cdd:PTZ00109 417 lESYTALIKSFANNV-STTAGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLNGAEFDGQTKT 495
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 350 KLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKARELTRRKGALDISS-LPGKLADCSERDPAK 428
Cdd:PTZ00109 496 KLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQKNNQYYSTiLPGKLVDCISDDIER 575
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 429 SEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFD-KMLSSQEIGTLITALGTSI----------------GK 491
Cdd:PTZ00109 576 NELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNNkKVFENSEIKLLITSIGLSVnpvtwrqydlshgtkaSK 655
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 492 DEF----NA-----------DKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQY 556
Cdd:PTZ00109 656 DESvqnnNStltkkknslfdTPLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNNRMKQF 735
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 557 LKNEKALEDYligsglddaalelssgevrvgqdILELIQDALrlrtlldglhsryNRAIVeqaaiagalnlELSHDREAY 636
Cdd:PTZ00109 736 NVSTKNSKKY-----------------------IYTWSDEEL-------------NVLIK-----------LLNKDYSSK 768
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 637 aakavevahrldliaEETERGWEGSVASDGGLRFERMVRGVKEFAHIDMALIGSSdarhiDQLSARLKETYTVPPalrrk 716
Cdd:PTZ00109 769 ---------------ETTRSVEEKGNAPDLDNEYEDEKLDNKNMRENNVDEVELK-----TELGTNVADTEQTDE----- 823
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 717 dgqveisgprALLDAIFAAGRKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRD 796
Cdd:PTZ00109 824 ----------LDINKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQSRKQ 893
|
....*.
gi 1801119162 797 FIQENA 802
Cdd:PTZ00109 894 FIFENS 899
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
14-567 |
7.56e-161 |
|
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: 481.34 E-value: 7.56e-161
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 14 YGADSIKVLKGLDAVRKRPGMYIgdtdDGSGLHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHK 93
Cdd:TIGR01055 4 YSAKDIEVLDGLEPVRKRPGMYT----DTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 94 EEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAGSE- 172
Cdd:TIGR01055 80 KEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAKVTDLISAGTCGKRl 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 173 TGTEVTFLPSSETFSNIEFVYSTLEHRLRELAFLNSGVRILLTDRrhSDVKQDELMYEGGLEAFVTYLDRAKKPLVDKPI 252
Cdd:TIGR01055 160 TGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDE--VNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPF 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 253 AIRGEKDGITVEVAMWWNDSYHENVL-CFTNNIPQRDGGTHMAGFRGALTRQVVSYAESSGIMKKeKVTLTGDDCREGLT 331
Cdd:TIGR01055 238 SGNFEGDDEAVEWALLWLPEGGELFMeSYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNLPR-GVKLTAEDIWDRCS 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 332 AVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVVEAAAAREAARKAREltrRKGALDI 411
Cdd:TIGR01055 317 YVLSIKMQDPQFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRKRAAKKVV---RKKLTSG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 412 SSLPGKLADCSERDPAKSEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGtsIGK 491
Cdd:TIGR01055 394 PALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALG--IDP 471
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1801119162 492 DEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQPPLYKVARGKSSQYLKNEKALEDYL 567
Cdd:TIGR01055 472 DSNDLSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLSKEVYYALDEEEKEKLL 547
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
45-219 |
1.15e-98 |
|
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: 303.69 E-value: 1.15e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 45 LHHMVYEVVDNAIDEALAGHADIVTVTLNADGSVTVTDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGL 124
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHPKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 125 HGVGVSVVNALSVSLKLKIRRAGSIHEMSFTHGVADGPLKVTGEAgSETGTEVTFLPSSETFSNIEFVYSTLEHRLRELA 204
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGGPLTPLEVIGET-KKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170
....*....|....*
gi 1801119162 205 FLNSGVRILLTDRRH 219
Cdd:cd16928 160 FLNKGLKIVLEDERT 174
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
231-387 |
5.99e-79 |
|
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: 251.71 E-value: 5.99e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 231 GGLEAFVTYLDRAKKPLVDKPIAIRGEKDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAES 310
Cdd:cd00822 1 GGLKDFVEELNKDKEPLHEEPIYIEGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1801119162 311 SGIMKKEKVTLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVV 387
Cdd:cd00822 81 NNLLKKKDVKLTGDDIREGLTAVISVKVPEPQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAI 157
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
429-543 |
5.91e-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: 244.10 E-value: 5.91e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 429 SEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGkDEFNADKLRYHKIIIMT 508
Cdd:cd03366 1 SELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIG-EDFDLEKLRYHKIIIMT 79
|
90 100 110
....*....|....*....|....*....|....*
gi 1801119162 509 DADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQP 543
Cdd:cd03366 80 DADVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
429-543 |
7.53e-70 |
|
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: 225.08 E-value: 7.53e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 429 SEVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDEFNADKLRYHKIIIMT 508
Cdd:cd01030 1 CELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGKDDFDLDKLRYGKIIIMT 80
|
90 100 110
....*....|....*....|....*....|....*
gi 1801119162 509 DADVDGAHIRTLLLTFFFRQMPELIERGHLYIAQP 543
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 ... |
232-387 |
2.26e-62 |
|
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: 207.08 E-value: 2.26e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 232 GLEAFVTYLDRAKKPLVDKPIAIRGE--KDGITVEVAMWWNDSYHENVLCFTNNIPQRDGGTHMAGFRGALTRQVVSYAE 309
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKEIIYFEGEspDNRIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1801119162 310 SSGIMKKEKVTLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRPVVESLVNEALSTWMEEHPTDAKTLIGKVV 387
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDPQFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
17-556 |
2.60e-52 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 192.66 E-value: 2.60e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 17 DSIKVLKGLDAVRKRPGMYIGDTD--------DGS--------GLHHMVYEVVDNAIDEALAG---HADIVTVTLNaDGS 77
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAyeaherflFGKftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTIK-NNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 78 VTVTDNGRGIP----TDIHKEEgVSAAEVIMTQLHAGGKFDqNSYKVSGGLHGVGVSVVNALSVSlklkirragsihems 153
Cdd:PHA02569 81 VTVSDNGRGIPqamvTTPEGEE-IPGPVAAWTRTKAGSNFD-DTNRVTGGMNGVGSSLTNFFSVL--------------- 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 154 FTHGVADGPLKVT-------------GEAGSETGTEVTFLPSSETFSNIEFVYSTLE---HRLRELAFLNSGVRILLTDR 217
Cdd:PHA02569 144 FIGETCDGKNEVTvncsngaeniswsTKPGKGKGTSVTFIPDFSHFEVNGLDQQYLDiilDRLQTLAVVFPDIKFTFNGK 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 218 RHS-DVKQDELMYegGLEAFVTYLDRAKkplvdkpIAIRGEKDGItvevamwwndsyheNVLCFTNNIPQRDGGTHMAGF 296
Cdd:PHA02569 224 KVSgKFKKYAKQF--GDDTIVQENDNVS-------IALAPSPDGF--------------RQLSFVNGLHTKNGGHHVDCV 280
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 297 RGALTRQVVSyaessGIMKKEKVTLTGDDCREGLTAVLSVK-VPDPKFSSQTKDKLVSS--EVRPVVEslvnealstwme 373
Cdd:PHA02569 281 MDDICEELIP-----MIKKKHKIEVTKARVKECLTIVLFVRnMSNPRFDSQTKERLTSPfgEIRNHID------------ 343
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 374 ehpTDAKTlIGKVVEAAAAREAARKARELTRR----KGALDISSLPGKLADCSERDPA-------KSEVFLVEGDSAGGS 442
Cdd:PHA02569 344 ---LDYKK-IAKQILKTEAIIMPIIEAALARKlaaeKAAETKAAKKAKKAKVAKHIKAnligkdaETTLFLTEGDSAIGY 419
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 443 AKQGRSRENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDefnADKLRYHKIIIMTDADVDG-AHIRTLL 521
Cdd:PHA02569 420 LIEVRDEELHGGYPLRGKVLNTWGMSYADILKNKELFDICAITGLVLGEK---AENMNYKNIAIMTDADVDGkGSIYPLL 496
|
570 580 590
....*....|....*....|....*....|....*
gi 1801119162 522 LTFFFRqMPELIERGHLYIAQPPLYKVARGKSSQY 556
Cdd:PHA02569 497 LAFFSR-WPELFEQGRIRFVKTPVIIAQVGKETKW 530
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
31-555 |
2.88e-45 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 176.05 E-value: 2.88e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 31 RPGMYIGDT----------DDGS----------GLHHMVYEVVDNAIDEALAG-HADIVTVTLNAD-GSVTVTDNGRGIP 88
Cdd:PLN03128 19 RPDTYIGSTekhtqtlwvyEGGEmvnrevtyvpGLYKIFDEILVNAADNKQRDpSMDSLKVDIDVEqNTISVYNNGKGIP 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 89 TDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIR--RAGSIHEMSFTHG--VADGPLK 164
Cdd:PLN03128 99 VEIHKEEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETAdgNRGKKYKQVFTNNmsVKSEPKI 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 165 VTGEAgSETGTEVTFLPSSETFSNIEF---VYSTLEHRLRELA-FLNSGVRILLTDRRHSdVKqdelmyegGLEAFVTYL 240
Cdd:PLN03128 179 TSCKA-SENWTKITFKPDLAKFNMTRLdedVVALMSKRVYDIAgCLGKKLKVELNGKKLP-VK--------SFQDYVGLY 248
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 241 DRAKKPLVDKPIAIRGEKDGITVEVAMwwNDSYHENVlCFTNNIPQRDGGTHMAgfrgALTRQVVSYAESSgIMKKEKVT 320
Cdd:PLN03128 249 LGPNSREDPLPRIYEKVNDRWEVCVSL--SDGSFQQV-SFVNSIATIKGGTHVD----YVADQIVKHIQEK-VKKKNKNA 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 321 --LTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSE-------------VRPVVESLVNEALSTWME-EHPTDAKTLIG 384
Cdd:PLN03128 321 thVKPFQIKNHLWVFVNCLIENPTFDSQTKETLTTRPssfgskcelseefLKKVEKCGVVENILSWAQfKQQKELKKKDG 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 385 kvveaaaareaarkarelTRRKGALDISslpgKLADCSERDPAKSE---VFLVEGDSAGGSAKQGRS---RENQAILPLR 458
Cdd:PLN03128 401 ------------------AKRQRLTGIP----KLDDANDAGGKKSKdctLILTEGDSAKALAMSGLSvvgRDHYGVFPLR 458
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 459 GKILNVERARFDKMLSSQEIGTLITALGTSIGK--DEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIER- 535
Cdd:PLN03128 459 GKLLNVREASHKQIMKNAEITNIKQILGLQFGKtyDEENTKSLRYGHLMIMTDQDHDGSHIKGLIINFFHSFWPSLLKIp 538
|
570 580
....*....|....*....|
gi 1801119162 536 GHLYIAQPPLYKVARGKSSQ 555
Cdd:PLN03128 539 GFLVEFITPIVKATKGGKSL 558
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
31-548 |
5.20e-43 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 169.46 E-value: 5.20e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 31 RPGMYIGDT----------DDGSGlhHMVYEVVD------NAIDEALAGHADI--------------VTVTlNADGSVTV 80
Cdd:PTZ00108 22 RPDTYIGSIetqtedmwvyDEEKN--RMVYKTITyvpglyKIFDEILVNAADNkardkgghrmtyikVTID-EENGEISV 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 81 TDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKIR--RAGSIHEMSFTHGV 158
Cdd:PTZ00108 99 YNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECVdsKSGKKFKMTWTDNM 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 159 --ADGPlKVTGEAGSETGTEVTFLPSSETFSNIEF---VYSTLEHRLRELAFLNSGVRILLTDRR--HSDVKQDELMYEG 231
Cdd:PTZ00108 179 skKSEP-RITSYDGKKDYTKVTFYPDYAKFGMTEFdddMLRLLKKRVYDLAGCFGKLKVYLNGERiaIKSFKDYVDLYLP 257
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 232 GLEAFVTyldrAKKPLVDKPIAIRgekdgitVEVAMWWNDSYHENVlCFTNNIPQRDGGTHMAGFRGALTRQVVSYAESs 311
Cdd:PTZ00108 258 DGEEGKK----PPYPFVYTSVNGR-------WEVVVSLSDGQFQQV-SFVNSICTTKGGTHVNYILDQLISKLQEKAKK- 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 312 giMKKEKVTLTGDDCREGLTAVLSVKVPDPKFSSQTKDKLVSSEVRP-----VVESLVNEALSTwmeehptdakTLIGKV 386
Cdd:PTZ00108 325 --KKKKGKEIKPNQIKNHLWVFVNCLIVNPSFDSQTKETLTTKPSKFgstceLSEKLIKYVLKS----------PILENI 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 387 VEAAAAREAARKAREL--TRRKGaldISSLPgKLADCSERDPAKSEV---FLVEGDSAGGSAKQGRS---RENQAILPLR 458
Cdd:PTZ00108 393 VEWAQAKLAAELNKKMkaGKKSR---ILGIP-KLDDANDAGGKNSEEctlILTEGDSAKALALAGLSvvgRDYYGVFPLR 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 459 GKILNVERARFDKMLSSQEIGTLITALGTSIGKDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPELIE-RGH 537
Cdd:PTZ00108 469 GKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHFWPSLLKnPGF 548
|
570
....*....|.
gi 1801119162 538 LYIAQPPLYKV 548
Cdd:PTZ00108 549 LKEFITPIVKA 559
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
737-799 |
1.63e-35 |
|
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: 128.26 E-value: 1.63e-35
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1801119162 737 RKGLSMQRYKGLGEMNAEQLWETTLDPNVRSLLQVKVTDATDADGLFARLMGDEVEPRRDFIQ 799
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
5-534 |
1.49e-31 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 133.06 E-value: 1.49e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 5 PETENGPAEYGADSIKVLKGlDAVRKRPGMYIgdtddgSGLHHMVYEVVDNAIDEALAG-HADIVTVTLNAD-GSVTVTD 82
Cdd:PLN03237 45 PDTYIGSIEKHTQTLWVYET-DKMVQRSVTYV------PGLYKIFDEILVNAADNKQRDpKMDSLRVVIDVEqNLISVYN 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 83 NGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVSGGLHGVGVSVVNALSVSLKLKI---RRAGSIHEM-SFTHGV 158
Cdd:PLN03237 118 NGDGVPVEIHQEEGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEFVIETadgKRQKKYKQVfSNNMGK 197
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 159 ADGPLkVTGEAGSETGTEVTFLPSSETFSNIEF---VYSTLEHRLRELA-FLNSGVRILLTDRRhSDVKqdelmyegGLE 234
Cdd:PLN03237 198 KSEPV-ITKCKKSENWTKVTFKPDLAKFNMTHLeddVVALMKKRVVDIAgCLGKTVKVELNGKR-IPVK--------SFS 267
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 235 AFVT-YLDRAKKPLVDKPIAIRgEKDGITVEVAMWWNDSYHENVlCFTNNIPQRDGGTHMagfrGALTRQVVSYAESSgI 313
Cdd:PLN03237 268 DYVDlYLESANKSRPENLPRIY-EKVNDRWEVCVSLSEGQFQQV-SFVNSIATIKGGTHV----DYVTNQIANHVMEA-V 340
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 314 MKKEK-VTLTGDDCREGLTAVLSVKVPDPKFSSQTKDKL------------VSSEV-RPVVESLVNEALSTWME-EHPTD 378
Cdd:PLN03237 341 NKKNKnANIKAHNVKNHLWVFVNALIDNPAFDSQTKETLtlrqssfgskceLSEDFlKKVMKSGIVENLLSWADfKQSKE 420
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 379 AKTLIGKvveaaaareaarkareltrRKGALdiSSLPgKLADCSE---RDPAKSEVFLVEGDSAGGSAKQGRS---RENQ 452
Cdd:PLN03237 421 LKKTDGA-------------------KTTRV--TGIP-KLEDANEaggKNSEKCTLILTEGDSAKALAVAGLSvvgRNYY 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 453 AILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDEFNADKLRYHKIIIMTDADVDGAHIRTLLLTFFFRQMPEL 532
Cdd:PLN03237 479 GVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYESVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSFWPSL 558
|
..
gi 1801119162 533 IE 534
Cdd:PLN03237 559 LK 560
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
433-535 |
9.97e-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: 99.68 E-value: 9.97e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 433 LVEGDSAGGSAKQGRS---RENQAILPLRGKILNVERARFDKMLSSQEIGTLITALGTSIGKDEF-NADKLRYHKIIIMT 508
Cdd:cd03365 5 LTEGDSAKALAVAGLSvvgRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDYeSTKSLRYGRLMIMT 84
|
90 100
....*....|....*....|....*..
gi 1801119162 509 DADVDGAHIRTLLLTFFFRQMPELIER 535
Cdd:cd03365 85 DQDHDGSHIKGLLINFIHSFWPSLLKI 111
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
233-351 |
3.77e-18 |
|
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: 80.38 E-value: 3.77e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 233 LEAFVTYLDRAKKPlvDKPIAIRGEKDGITVEVAMWWND---SYHENVLCFTNNIPQRDGGTHMAGFRGALTRqvvsyae 309
Cdd:cd00329 1 LKDRLAEILGDKVA--DKLIYVEGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTR------- 71
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 1801119162 310 ssgimkkekvTLTGDDCREGLTAVLSVKVPD--PKFS-SQTKDKL 351
Cdd:cd00329 72 ----------ALNGDDVRRYPVAVLSLKIPPslVDVNvHPTKEEV 106
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
430-543 |
2.24e-15 |
|
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: 72.00 E-value: 2.24e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 430 EVFLVEGDSAGGSAKQGRSRENQAILPLRGKILNVERARFDKMLssqeigtlitalgtsigkDEFNADKLRYHKIIIMTD 509
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKAL------------------KALKELALKAKEVILATD 62
|
90 100 110
....*....|....*....|....*....|....*.
gi 1801119162 510 ADVDGAHIRTLLLTFFfrqmpELIER--GHLYIAQP 543
Cdd:pfam01751 63 PDREGEAIALKLLELK-----ELLENagGRVEFSEL 93
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
41-148 |
2.54e-15 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 72.68 E-value: 2.54e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 41 DGSGLHHMVYEVVDNAIDEALAGhaDIVTVTLNADG---SVTVTDNGRGIPtdihkeegvsaAEVIMTQLHAGGKFDQNS 117
Cdd:smart00387 2 DPDRLRQVLSNLLDNAIKYTPEG--GRITVTLERDGdhvEITVEDNGPGIP-----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110
....*....|....*....|....*....|.
gi 1801119162 118 YKVSGglHGVGVSVVNALSVSLKLKIRRAGS 148
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELHGGEISVESE 97
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
40-136 |
6.04e-14 |
|
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: 68.55 E-value: 6.04e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 40 DDGSGLHHMVYEVVDNAIDEAlaGHADIVTVTLNADG--SVTVTDNGRGIPTDIHKeegvsaaevimtqlHAGGKFDQnS 117
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP--------------RIFEPFST-A 63
|
90
....*....|....*....
gi 1801119162 118 YKVSGGLHGVGVSVVNALS 136
Cdd:pfam02518 64 DKRGGGGTGLGLSIVRKLV 82
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
44-181 |
3.79e-13 |
|
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: 67.36 E-value: 3.79e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 44 GLHHMVYEVVDNAID-EALAGHADIVTVTLNAD-GSVTVTDNGRGIPTDIHKEEGVSAAEVIMTQLHAGGKFDQNSYKVS 121
Cdd:cd16930 4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDPEnNEISVWNNGKGIPVVIHKEEKIYVPEMIFGHLLTSSNYDDDEKKVT 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1801119162 122 GGLHGVGVSVVNALSVSLKLKI--RRAGSIHEMSFTHGVAD-GPLKVTGEAGSETGTEVTFLP 181
Cdd:cd16930 84 GGRNGYGAKLCNIFSTEFTVETadSESKKKFKQTWTNNMGKaSEPKITPYEKGKDYTKVTFKP 146
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
429-528 |
4.30e-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: 45.50 E-value: 4.30e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 429 SEVFLVEGDSAGGSAKQGRSReNQAILPLRGKILNVERARFDKMLSsqeigtlitalgtsigkdefnadklRYHKIIIMT 508
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGY-GGAVVALGGHALNKTRELLKRLLG-------------------------EAKEVIIAT 54
|
90 100
....*....|....*....|
gi 1801119162 509 DADVDGAHIRTLLLTFFFRQ 528
Cdd:cd00188 55 DADREGEAIALRLLELLKSL 74
|
|
| HATPase |
cd00075 |
Histidine kinase-like ATPase domain; This superfamily includes the histidine kinase-like ... |
45-144 |
5.42e-06 |
|
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: 45.67 E-value: 5.42e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1801119162 45 LHHMVYEVVDNAIDEALAGhaDIVTVTLNADGS---VTVTDNGRGIPTDIhkeegvsaaevimtQLHAGGKFDQNSYKVS 121
Cdd:cd00075 1 LEQVLSNLLDNALKYSPPG--GTIEISLRQEGDgvvLEVEDNGPGIPEED--------------LERIFERFYRGDKSRE 64
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90 100
....*....|....*....|...
gi 1801119162 122 GGLHGVGVSVVNALSVSLKLKIR 144
Cdd:cd00075 65 GGGTGLGLAIVRRIVEAHGGRIT 87
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| HATPase_MutL-MLH-PMS-like |
cd16926 |
Histidine kinase-like ATPase domain of DNA mismatch repair proteins Escherichia coli MutL, ... |
49-88 |
2.79e-03 |
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Histidine kinase-like ATPase domain of DNA mismatch repair proteins Escherichia coli MutL, human MutL homologs (MLH/ PMS), and related domains; This family includes the histidine kinase-like ATPase (HATPase) domains of Escherichia coli MutL, human MLH1 (mutL homolog 1), human PMS1 (PMS1 homolog 1, mismatch repair system component), human MLH3 (mutL homolog 3), and human PMS2 (PMS1 homolog 2, mismatch repair system component). MutL homologs (MLH/PMS) participate in MMR (DNA mismatch repair), and in addition have role(s) in DNA damage signaling and suppression of homologous recombination (recombination between partially homologous parental DNAs). The primary role of MutL in MMR is to mediate protein-protein interactions during mismatch recognition and strand removal; a ternary complex is formed between MutS, MutL, and the mismatched DNA, which activates the MutH endonuclease.
Pssm-ID: 340403 [Multi-domain] Cd Length: 188 Bit Score: 39.73 E-value: 2.79e-03
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 1801119162 49 VYEVVDNAIDealAGhADIVTVTLNADG--SVTVTDNGRGIP 88
Cdd:cd16926 18 VKELVENSID---AG-ATRIDVEIEEGGlkLIRVTDNGSGIS 55
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