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Query: [L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit, from VFDB

Results of FFAS03 search in VFDB
Master-slave alignment(slide right to see more) does not show gaps in the query sequence, use ali links to display alignment between query and templates.
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# Score Template Links and tools%idFirst MSETTNDNYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCSDIIVTIHDDNSVSVQDDGGGIPVDIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSDKLQLTIRRQGHVHEQFYHLGEPQSPLTVIGETEATGTTVRFWPSSDIFAITTFDYKILAKRLRELSFLNSGVSIRLIDKRDGSEDHFHYEGGIQAFVEYLNKNKNPIHPKPFYFTAEKDGIGVEVALQWNDGVNENVYCFTNNIPQRDGGTHLAGFRGALTRSLNSYMENEGMLKKEKVATSGDDAREGLVAIISVKVPDPKFSSQTKDKLVSSEVKSAVESAMNEKMQEYLLENPADAKIIVNQIIMAARAREAARKAREMTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKVGRDRKTQAILPLKGKILNVEKARFDKMLSSQEVGTLITALGCGIGRDEYNPDKLRYHHIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYVYIAQPPLYKVKKGKQERYIKDADEMEQYELTLALDGAELHISTNAPAMNALVFEKLVAEYNSVQKLIGRLNRHYPAPVLQGLIYQSPISIEMMKEESAVENWGKSFVEQLTAKETEAHQYSVRTQFNAERQVYEAVITVRKHGIDTDYFLNFDFVHGNEYAKIVSLNKQLNGLLEEGAYVIRGEKVQPVRSFEQAVEWLVKESRKGLEVQRYKGLGEMNADQLWETTMDPNSRRMLKVSIKDAVAADQLFTTLMGDEVEPRREFIELNALRANLDVLast
1 -203.000[L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit  ali  100  1MSETTNDNYGASSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCSDIIVTIHDDNSVSVQDDGGGIPVDIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVNALSDKLQLTIRRQGHVHEQFYHLGEPQSPLTVIGETEATGTTVRFWPSSDIFAITTFDYKILAKRLRELSFLNSGVSIRLIDKRDGSEDHFHYEGGIQAFVEYLNKNKNPIHPKPFYFTAEKDGIGVEVALQWNDGVNENVYCFTNNIPQRDGGTHLAGFRGALTRSLNSYMENEGMLKKEKVATSGDDAREGLVAIISVKVPDPKFSSQTKDKLVSSEVKSAVESAMNEKMQEYLLENPADAKIIVNQIIMAARAREAARKAREMTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKVGRDRKTQAILPLKGKILNVEKARFDKMLSSQEVGTLITALGCGIGRDEYNPDKLRYHHIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGYVYIAQPPLYKVKKGKQERYIKDADEMEQYELTLALDGAELHISTNAPAMNALVFEKLVAEYNSVQKLIGRLNRHYPAPVLQGLIYQSPISIEMMKEESAVENWGKSFVEQLTAKETEAHQYSVRTQFNAERQVYEAVITVRKHGIDTDYFLNFDFVHGNEYAKIVSLNKQLNGLLEEGAYVIRGEKVQPVRSFEQAVEWLVKESRKGLEVQRYKGLGEMNADQLWETTMDPNSRRMLKVSIKDAVAADQLFTTLMGDEVEPRREFIELNALRANLDV 806
2 -14.000[L] COG1389 DNA topoisomerase VI, subunit B  ali follow..  15  1MSGKHREISVAEFFEKNKHI----------LGYSNPAKAIITVVKEAVDNALDACEAGILPDIFVRISKVDDIVVEDNGPGIPREQIPK--------VFGKLLYGSRF--HEIRQSRGQQGIGISAAVLYAQTVISKTPDEDRAKKVVLYINTKKNEPEIVEEGEESGTKIELEVAGNYVRERK---QSVYEYLRETSVINPHAKITFVEPDGKSTRATTLRRFLKEEFVRVGEKIADDVLRKAGFSGDETPQEVEVGLAYGGEIKSELLRYANKIPL------YQQGGCALTKAVESVNWKSYGMVQNRGELP----SAPAVILIHLASTNIPYTSESKESVAAIP-------EIIDETRLALQEVGRRLKEYLER-----KSRQQKKKKKEEMIGKVLPLIAKKVCEILEKEPLEIDRIVARIMGYLHVERIVEE-RDGVKVVTIRVSNFTRSKKSIKLYEMCSGNVEADGAKVSGSGYSTVTWSLEVKPDEEVEVSKNPLVEGVEEDLLS..................................................................................................................................................................................................................................................................................................... 594
3 -12.000[L] KOG1978 DNA mismatch repair protein - MLH2/PMS1/Pms2 family  ali follow..  11  1MSQNKIERISKEVAERLTTAQVVVS--------------LSSAIRQLIDNSIDAG----STIIDIRVKNNGSIEVQDNGSGIEAR-HSTSKL-------------TQFSDFDKLATLGFRGEALNALCTVSS-VSIFTRASDTEIGTRLTYDHSGNIICRQSAARELGTTIIFLPVRRKERSQKREFVKLLSTVQSFALLCPHIKILCTNNINGKKTNLICTPGANLFGIARKIENSKIGSGLIPIQQNQPDVEIIHSVPMEEMHFFDLFKIRGFVSSCEHGCGRGTSDRQFVYINNRPVEYSRVCSVINDVYKQFNKKQYPIIVLFIDVPPEKIDTPDKKTVMLEKERHLLA-VVRASMMKTYLKIVGSHSTVRSSVEDRRIMNLSQQSFSNASFMSSK...................................................................................................................................................................................................................................................................................................................................................................................................................... 398
4 -11.900[L] KOG1979 DNA mismatch repair protein - MLH1 family  ali follow..  11  1MDVNSRAKIRPLDQLVINKIAAIIERPE-------------NAIKELIENSLDAG----STSIDVLLKDGGLLQITDNGSGIQYD---------LPYLCQR-FSTSKFNDLQHLQTFGFRGEALASISHVAKTVVTKLSSDIHAWKAFYVDGALAMSPAPQPCAGKQGTVITAE---DLFYNVRSRKSALKNGSEEFRRIMILVQKYAIHNDQVSFNCKKVGDTVASLSLSSRLSKADKIRHIYGPRVASHLRDFSISNADFQDKKSNLILFINNRLVES-----VELRHALEETYAKYLHKGAS-----------------FVYLSLNMSPEQLD-PSKRIVHFLYDQEIAT-SICDKLGEILERTDTERSYPLQAMIPSISNTKNAESSSQKAVRLQRSSNNYDNEIIEKVDSANSNKNATNDIKDLQTEEIVEEGNSIDLESIKSLQKQVINSMHVLATNILTEHKY--------VGLVCPTRRIAAVQHNIGLYVVDY-------GKLSYHLFYQICLTEFGNYGEFVLETPL............................................................................................................................................................................................................................................................................. 527
5 -11.600[D] KOG1845 MORC family ATPases  ali follow..  12  80..KAGDDDEAAPVPLYCSNDAAVRVHPQFLHANATSHKWALGALAELLDNSLDEVSNG-ATYVHVDSTINKRLIVEDNGGGMN-----------PSTFRECLSLGYS-RKRNMANRVGQYGNGFTSTMRLGADAIVFSRSRGIMLSYTFLYETRKCEADQFNHLEEQGTRIVIY-DDEGKMELDFDTDPHDIQLRGVNRDEKNIDMAKTYPNSRHFLTYRHS---ILYLKRPDNFRIILRGEDVEHHSVLDDMMKIEEKTYKPMRSPEWPDQEEMVASLKLGFVKDAHHHIDIQGFNVYHKNRLIKPFWRVWNAAGSDGRGVIGILEANFIQP---AHNKQGFERTVVLAKLESRLVTHQKNYWSSRRSYYGLGISSFKETGSVNLEAELQKVKQESAKLVSELQRQKQLLELQESKAKIQNL--REKEVLELQLKESKARIQNLENRQEGVSTIFQQERARRDVTEDGLRKKLREASDVIDGLRKQVDTFKGKRIL..................................................................................................................................................................................................................................................................................................................... 706
6 -10.600[L] COG0323 DNA mismatch repair enzyme (predicted ATPase)  ali follow..  13  19.....................EVIERPAS-------------VVKELVENAIDAG----SSQIIIEIEEAGLVQITDNGHGIALRRHATSKIKNQADLFRI--------------TLGFRGEALPSIASVSVLTLLTAVDGASHGTKLVARGGEVEEVIPATS--PVGTKVCVEPARLKYKSQQAELSHIIDIVNRLGLAHPEISFSLISDGKEMTRTAGTGQLRQAIAGIYGLV---SAKKMIEIENSDLDFEISGFVELTRANRNYISLFIN-------GRYIKNLNRAILDGFGSKLMVGRF-----------------LAVIHIHIDPYLADVNVHP--TKQEVRISKEKELMTLVSEAIANSLKEQTLIPDALENLAKSTVRNREKVEQTAERKPANYDQLDHPELDLASIDKAYDKLEREEASSFPELEFFGQMHGTYLFAQGRDGLYIIDQHAAQERVKYEEYRE-------SIGNVDQSQQQLLVPYIFEFPADDALGVFLAEY--QFILREHPIWMAEEEIESGIYEMCDMLLLTKE------VSIKKYRAELAIMMSCKRSIKANHRIDDHSARQLLYQLSQCD.................................................................................................................................................................................................................... 609
7 -8.800[O] KOG0019 Molecular chaperone (HSP90 family)  ali follow..  11  74.GSGEKFEYQAEVSRLLD-VHSLYSHKEVFL--------------ELVSNASDPSLLGDGGDLEIRIKPDGTITITDTGIGMTKE----------ELILGTIAQSGALKENKDLGADGQFGVGFYSAFLVAEKVVVSTKSPKSDKQYVWESVYLIREETDPDNILRRGTQITLYLREDDKYEFAESTRIKNLVKNYSQFVGFPIYTWQEKSRTIEVEE---DEPVKEGEEGEPKKKKTTKTEKYWDWELANETKPLWMRNSKEVEKGEYNEFYKKAFTTEGEVEFRSITNPKTKNIRLYVKRVFISDDFDGELFPRYLS-----FVKGVVDSDDLPNVSREILQESRIVRIMRKRLIRKTFDMIQEISESENK-FGRFLKLGCIEDTGNHKRPLLRFFSSKNEEELTSLDDYIENMGENQKAIYYLATDSLKSAKSA-IQKDIEVLY----KFVDISKEDLEDREAKQEFNLLCDWIKQQLGDKVAKVNRLSSSPCVLVSGKFGWSANMERLM..................................................................................................................................................................................................................................................................................................... 655
8 -8.570[O] KOG0020 Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family  ali follow..  12  70.EKAKKFTFQTEVNRMMK-INSLYRNKEIFL--------------ELISNASDSKELETNPELHIRIKADKALHIMDSGIGMTHQ----------DLILGTIAKSGKMQDPSKSEGLGQFGVGFYSAFLVADRVVVTTKHDDKQYIWESDANSFSITEDPRGDTLKRGSVISLKEEAQDFLEEDTVRELIRKYSQFINF-SKTVEEEVPVEEEAKPEKSEDDVEDEDAKVEEAEDEKPKTKKVSKTTWDWTLINDSKPI--AEVTEDEYTSFYKSLTKD---THFIAEGEVTFKSLLYVPKVQPSESFNRYGTKSDNIK----VFITDEFNDPNYLSFIRGVVDSDDLP------VSRETLQQHKLIKVIKKKLVRKVLDMLKKIDKEAYEKSTNIKLGVMEDPSNRSRLAK------------LLRFQTSNGKGVTSLAEYKERMKAKQEHIYYIAGANRAEVEKSPFVERL----------------LSKGYEVLYLVEA-VDEYCISAL...................................................................................................................................................................................................................................................................................................... 577
9 -8.270[O] COG0326 Molecular chaperone, HSP90 family  ali follow..  12  8.QNQETRGFQSEVKQLLQ-IHSLYSNKEIFL--------------ELISNASDPALYEGDGDLRVRVSFDGTITISDNGIGM-------TREQVIDHLGTIAKSGTKEFLTALGQDQGQFGVGFYSAFIVADKVTVKTRAEEADKAVLWESAGEGEYSVADIEKKSRGTDVILREDEKEF----LNEWRLREIIGKYSHIGLPVEMLTKEYDDEGKECGEKWEKINKSDALWTRSKNDVSDEEYKAFYKHLSHDFVDPVTWAHNKVEGNQAY-TSLLYVPAKAPWDLFNREHKHGLKLYVQRVFIMDD-------EQFIPNYLRFMRGLIDSNDLPNVSREILQDNKITAALRKALTKRSLQMLEK-------------------LAKDDAEKYLQFWKEFGLVLKEGPAEDFANKETVAKLLRFASTHNDGSEQTVSLEDYILRMKEGQKAIYYITADSYVAAKNSPHLELFNK----------------KGIEVLLLSDR-IDEWMLSYL...................................................................................................................................................................................................................................................................................................... 480
10 -8.120[E] KOG0068 D-3-phosphoglycerate dehydrogenase, D-isomer-specific 2-hydroxy acid dehydrogenase superfamily  ali follow..  12  114..........EDLKKKVAESDALIVRSGTKVTREVFEAAKGRL--KVVGRAIDN--------VDLQAATEHGCLVVNAPTA--------NTVAAAEHGIALLASAGKWERSKYKTLAGFGKVGTEVARAKGLGMTVISHDPYAPADRARALGVDLVSFDQAISTAD----VSLHMPLTPATKKVFNDETFSKMKKGVRLINVA------------------RGGVDALVRALDAGI--------------AQAALDVFCEEPPSKDSRLIQHENVTVTPHLGASTEGVAIEIAEAVAGALKGELSATAVNAPMVAPEVLSELTPYIVLAEKLGRLAVQL---ASGGKGVQSIRVVYRSARDRDDLDTRLLRAMITKGIIEPISDSYVNLVNADFIAKQKGLRISEERMVVDSSPEYPVDSIQVQILNVESNFAGAVSDAGDISIELTCVGSFGVDVSLEGNLILCRQVDQPGMIGQVGNILGEQNVNVNFMSVGRMAIGVDEEPDNKTLERI...................................................................................................................................................................................................................................................................................................... 610
FFAS is supported by the NIH grant R01-GM087218-01
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Comments and questions to: webmaster
Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Mayya Sedova, Mallika Iyer, Zhanwen Li, Lukasz Jaroszewski, Kai W Post, Thomas Hrabe, Eduard Porta-Pardo, Adam Godzik Cancer3D 2.0:: interactive analysis of 3D patterns of cancer mutations in cancer subsets. Nucleic Acids Research, gky1098 2018; Published on November 8 2018.

Jaroszewski L, Li W, Godzik A. In search for more accurate alignments in the twilight zone. Protein Sci. 2002 Jul;11(7):1702-13.