current user: public

If you have questions about the server, please let us know.

Query: [L] COG1389 DNA topoisomerase VI, subunit B, from COG1018

Results of FFAS03 search in COG1018
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.
    .   10    .   20    .   30    .   40    .   50    .   60    .   70    .   80    .   90    .  100    .  110    .  120    .  130    .  140    .  150    .  160    .  170    .  180    .  190    .  200    .  210    .  220    .  230    .  240    .  250    .  260    .  270    .  280    .  290    .  300    .  310    .  320    .  330    .  340    .  350    .  360    .  370    .  380    .  390    .  400    .  410    .  420    .  430    .  440    .  450    .  460    .  470    .  480    .  490    .  500    .  510    .  520    .  530    .  540    .  550    .  560    .  570    .  580    .  590    .  600
# Score Template Links and tools%idFirst MSGKHREISVAEFFEKNKHILGYSNPAKAIITVVKEAVDNALDACEEAGILPDIFVRISKVDDHFKIVVEDNGPGIPREQIPKVFGKLLYGSRFHEIRQSRGQQGIGISAAVLYAQLTTGKPATVISKTPDEDRAKKVVLYINTKKNEPEIVEEGEEEWYLPSGTKIELEVAGNYVRERKQSVYEYLRETSVINPHAKITFVEPDGTINEFKRVTDDIPQPPKSIKPHPHGIELGTLMSMLKSTRATTLRRFLKEEFVRVGEKIADDVLRKAGFSGDETPQEMGRDDAAKLLNAFRQTDFLPPPTDCLSPIGEAMIAKSLMAEFQPEFVYAVTRKPKVYSGHPFLVEVGLAYGGEIKSEKVTLLRYANKIPLLYQQGGCALTKAVESVNWKSYGMVQNRGELPSAPAVILIHLASTNIPYTSESKESVAAIPEIIDETRLALQEVGRRLKEYLERKSRQQKKKKKEEMIGKVLPLIAKKVCEILEKEPLEIDRIVARIMGYLHVERIVEERDGVKVVTIRVSNFTRSKKSIKLYEMCSGNVEADGAKVSGSGYSTVTWSLEVKPDEEVEVSYRLKGRIINKNPLVEGVEEDLLSGAEVMNFALast
1 -194.000[L] COG1389 DNA topoisomerase VI, subunit B  ali  100  1MSGKHREISVAEFFEKNKHILGYSNPAKAIITVVKEAVDNALDACEEAGILPDIFVRISKVDDHFKIVVEDNGPGIPREQIPKVFGKLLYGSRFHEIRQSRGQQGIGISAAVLYAQLTTGKPATVISKTPDEDRAKKVVLYINTKKNEPEIVEEGEEEWYLPSGTKIELEVAGNYVRERKQSVYEYLRETSVINPHAKITFVEPDGTINEFKRVTDDIPQPPKSIKPHPHGIELGTLMSMLKSTRATTLRRFLKEEFVRVGEKIADDVLRKAGFSGDETPQEMGRDDAAKLLNAFRQTDFLPPPTDCLSPIGEAMIAKSLMAEFQPEFVYAVTRKPKVYSGHPFLVEVGLAYGGEIKSEKVTLLRYANKIPLLYQQGGCALTKAVESVNWKSYGMVQNRGELPSAPAVILIHLASTNIPYTSESKESVAAIPEIIDETRLALQEVGRRLKEYLERKSRQQKKKKKEEMIGKVLPLIAKKVCEILEKEPLEIDRIVARIMGYLHVERIVEERDGVKVVTIRVSNFTRSKKSIKLYEMCSGNVEADGAKVSGSGYSTVTWSLEVKPDEEVEVSYRLKGRIINKNPLVEGVEEDLLSGAEVMNFA 602
2 -23.300[T] KOG0787 Dehydrogenase kinase  ali follow..  22  287..........................ESHLNHAVFEILKNSLRATVEFHFFPPIKVIVAKGQEDITIKISDEGGGISRRNIPLVWSYMFTTASPANSTTPMAGFGFGLPLARLYTRYFGGD--LELISMEGYGTDVYIHLNRLCESAEP..................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 423
3 -22.700[T] COG5002 Signal transduction histidine kinase  ali follow..  17  468.TKEQHVEFIRNLPDRDLYVEI---DQDKITQVLDNIISNALKYSPEGGHV-TFSIDVNEEEELLYISVKDEGIGIPKKDVEKVFDRFYRVDKARTRKL--GGTGLGLAIAKEMVQAHGGD--IWADSIEGKGTTITFTLPYKEEQEDD..................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 607
4 -20.900[T] COG0642 Signal transduction histidine kinase  ali follow..  16  323SIAQKNGQTVTLSADGKIENTTILANESYLYRAFDNVIRNAVNYSPEGS---TILINIGQDHKHWIIDVTDNGPGVDEMQLPHIFTAFYRADS----SANKPGTGLGLALTQHIIEQHCGK--IIAENIKPNGLRMRFILPKKKTGSKTE.................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 464
5 -20.000[T] COG3290 Signal transduction histidine kinase regulating citrate/malate metabolism  ali follow..  17  407.RATDLGHTLILNSESQLPDSGSEDQVATLITTLGNLIENALEALGPEP-GGEISVTLHYRHGWLHCEVNDDGPGIAPDKIDHIFDKGVSTKG--------SERGVGLALVKQQVENLGGS--IAVESEPGIFTQFFVQIPWDGERSN...................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 542
6 -17.600[T] COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system  ali follow..  17  491LRSRFAGRMDAIRLDLPPDGLQALGNRIRLEQVLINLLQNALEAIGDSE-DGAIQVRCEEAAGGIALTVADNGPGIAADVREELFTPFNTSKE--------DGLGLGLAISKEIVSDYGGT---IEVESGPSGTTFAVNLKK............................................................................................................................................................................................................................................................................................................................................................................................................................................................................ 620
7 -17.500[S] COG5381 Uncharacterized protein conserved in bacteria  ali follow..  27LNFSLDRVNRLQRWRNYGLSADFLGDKGSVSYIANELLENAVKYSTTDH-DCPITITLHLYDHKLIFETSNISPLPTTIDYENFIKVLLEADPLKSALEDCEASQIGL---LTMINDYQAQFGWRFVPVSGSEDLIKVTVMTHLG......................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 196
8 -17.200[T] COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system  ali follow..  15  654.KAKRQQIKLINTLPDDLMVMA---DALSLEQVLINLIVNGCDASTTFAQPWVKLIALGTEQGMQRIAVIDSGQGFEHEVVDKLFTPFTTTKE--------VGLGLGLSICQSLVEKMQGR--IALASNLEKGAMVILELQQDEKYRTAD.................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 789
9 -17.200[T] COG3852 Signal transduction histidine kinase, nitrogen specific  ali follow..  23  209LVSMELPDNVRLIRDYDPSLPELPHDPEQIEQVLLNIVRNALQALGPEGGEITLRTRTERYRLAARIDVEDNGPGIPPHLQDTLFYPMVSGRE--------GGTGLGLSIARNLIDQHAGK---IEFTSWPGHTEFSVYLPI............................................................................................................................................................................................................................................................................................................................................................................................................................................................................ 347
10 -15.800[T] COG5000 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation  ali follow..  12  575VEVSRADITFERIFGNEPLKGTF--DSRLLAQAFGNVIKNAAEAIDGLEQKDIIRIQAGRQNGAIRIDVIDNGKGLPRENRQRLLEPYMTTRE--------KGTGLGLAIVKKIVEDHGGRLELHDAFHGGRGAMISIILPLAAVTPLRGEGKTEHERETEKVGNGV................................................................................................................................................................................................................................................................................................................................................................................................................................................... 738
11 -14.900[T] COG2205 Osmosensitive K+ channel histidine kinase  ali follow..  15  754LETTLSQHQIRVELPDEMVLINC--DASLLERVFINLLENAHKYAGHAA---LLGIRAEVQGEWLNVDVWDNGPGVTIGQENLIFDKFSRGNK----ESAIPGVGLGLAICRAIIDVHGGR--IWVEKRQEGGASFRFVLPLEKVPEIDADNIDTN.............................................................................................................................................................................................................................................................................................................................................................................................................................................................. 898
12 -14.000[L] COG0187 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit  ali follow..  15  1MSETTNDNYGASSIKVLKGLIGDTDDGTGLHHMVFEVVDNAIDEA-LAGHCSDIIVTIHDDNS---VSVQDDGGGIPVDIHPEIMTVLHAGGKFNSYKVSGGLHGVGVSVVNALSD-------KLQLTIRRQGHVHEQFYHLGEPQSPLTVIGETEA-----TGTTVRFWPSSDIFAITTKILAKRLRELSFLNSGVSIRLIDKRD-----------------------------------GSEDHFHYEGGIQAFVEYLNKNK---------------------------------------------------------NPIHPKPFYFTAEKDGI-------VEVALQWNDGVNEN---VYCFTNNIPQ-LAGFRGALTRSLNSYMENEGMLKKEKVATSREGLVAIISVKVPDPKFSSQTKDKLVSSEAMNEKMQEYLLENPADAKIIVNQRAREAARKAREMTRRKGALDIAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKVRDRKTQAILPLKGKILNVEKARFDKMLSSQEVGTLITALGCGIGRDEYNPDKLRYHHIIIM---------TDADVDGSHIRTLL........ 513
13 -13.800[D] KOG1845 MORC family ATPases  ali follow..  20  107...................LHANATSHKWALGALAELLDNSLDEVSNGATYVHVDSTIKRDGKSSILIVEDNGGGMNPSTFRECL-SLGYSRK-RNMANRVGQYGNGFKT----STMRLGADAIVFSRSRGINGNNPTQ............................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 221
14 -13.800[O] KOG0019 Molecular chaperone (HSP90 family)  ali follow..  13  81YQAEVSRL-IVHSLYSHKEVF------------LRELVSNASDALDK-GDGGDLEIRIKPDPDNGTITITDTGIGMTKEELIDCLGTIAQSGTSKFLKALKGQFGVGFYSAFLVAEK-----VVVSTKSPKSDKQYVWE---VADSSSYLIREETDPDNILRRGTQITLYLREDDKYEESTRIKNLVKNYSYTWQEKSRTIEVEEDEPVKEGEEGEPKKKKTTKTEKYWDWELANETKPLWMRNSKEVEKGEYNEFYKKAFKTKNIRLYVKRVFISDDFDGELFPRYLSFVKGVVDSDDLP-QESRIVRIMRKRLIRKTFDMIQEISESENKEDYKKFWENFGRFLKLGCIEDTGNHKRITPLLRFFSSKNEEELTSLDDYIENMGENQKAIYYLTDSLKSAKSAPFL----------KLIQKDIEVLYLVEPIDEVAIQNLQTYKEKKFVDISKEELGDEDEVKDREAKQEFNLLCDWIKQQLGDKVAKVQ.............................................................................................................. 628
15 -13.600[O] KOG0020 Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family  ali follow..  12  55IQLDGLNVAQLKEIREKAKKFTFQTEVNRMMKLIRELISNASDAIDK-ETNPELHIRIKADKENKALHIMDSGIGMTHQDLINNLGTIAKSGTADFLAKMQGQFGVGFYSAFLVADR-----VVVTTKHNDDKQYIW--------DANSFSITEDPRGDTLKRGSVISLYLKEEAQDLEEDTVRELIRKYSQFINFEDDVEDEDAKVEEAEDEKPKTKKVSKTTWDWTLINDSKPIWTRKPAEVTEDEYTSFYKSLTKIAEGEVTFKSLLYVPKVQPSESFNRYGTKSDNIKLYVRRVFITDEFNDMMETLQQHKLIKVIKKKLVRKVLDMLKKIDKEWKEFSTNIKLGVMEDPSNRSRLAKLLRFQTSNGKGVTSLAEYKERMKAKQEHIYYIAGANRAEVEKSPFV----------RLLSKGYEVLYLVEAVDEYCISALPEFDGKKFQNVAKEESEKSKKNFESLKSTFEPLVKWLNDVALKDQISKAQ.............................................................................................................. 632
16 -13.500[L] KOG1978 DNA mismatch repair protein - MLH2/PMS1/Pms2 family  ali follow..  11  5........KIERISKEVAERLTTAQVVVSLSSAIRQLIDNSIDA------STIIDIRVKNNGFES-IEVQDNGSGIEARNFDALCKP-HSTSKLTQFSATLGFRGEALNALCTVSSVS------IFTRASDTEIGTRLTYDIICRQSAARELGTTIIVNKLFETLPVRRKELERSQKREFVKLLSTVQSFALLCPHIKILCTNNINGKKT---------------------------NLICTPGGTTSIQDVVANLFGIARKIENSKIGSG------------------------------------LIPIQQNQPDVEIMTIHSVPMEEMHFFDLFKIRG--FVSSCEHGCGRGTSDRQ---FVYINNRPVEYSRVCSVINDVYKQFNKKQY------------PIIVLIDVPPEKIDVNTPDKKTVMLEKELLAVVRASMMKTYLKIVGSHSTVRSSVEDRRIMNLSQQSFSNASFMSSKSSTPDDFNNTTLNSTYPEDSLLNTSDLLKQRKENRSPPAKKSCPMIRR........................................................................ 446
17 -13.500[T] COG2172 Anti-sigma regulatory factor (Ser/Thr protein kinase)  ali follow..  17  13VPAKSEFVGVRLTVSGIANRLGYTYDDEDIKIAVAEACTNVVDHAYDEG--GTMGLSFHLYEDRMEIIVTDQGQSFDMDAFRESLGPIDGSKPIQDLKEG----GLGLFLINTLMD...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 124
18 -12.400[O] COG0326 Molecular chaperone, HSP90 family  ali follow..  12  15FQSEVKQL-MIHSLYSNKEIF------------LRELISNASDAADK-EGDGDLRVRVSFDADKGTITISDNGIGMTREQVIDHLGTIAKSGTKEFLTALGGQFGVGFYSAFIVADK-----VTVKTRAAGEEADKAVLWESAGEGE------SVADIEKKSRGTDVILHLREDEKELNEWRLREIIGKYSDHIGLPVEMLTKEYDDEGKECGEKWEKINKSDAL------------TRSKNDVSDEEYKAFYKHLSHDFVDPVT---YTSLLYVPAKAPWDLFNREHKHGLKLYVQRVFIMDDAEQFIPVSREILQAALRKALTKRSLQMLEKLAKDWKEFGLVLKEGPAEDFANKETVAKLLRFASTHNDGSEQ-EDYILRMKEGQKAIYYITADSYVAAKNSPHL----------LFNKKGIEVLLLSDRIDEWMLSYLTEFDGKQLQSITKADLDLGDLADKE----------SETQKQQDEAFGSFIERVKNLLGERVKTVRLTHNLTDTPAVVSTDNDQMTTQMAKLFAAAGQPVPEVKYTFELNPEHHLVKKVADIADET................................... 595
19 -11.800[L] KOG1979 DNA mismatch repair protein - MLH1 family  ali follow..  12  8........KIRPLDQLVINKIAAGEIIERPENAIKELIENSLDA------STSIDVLLKDGGLKL-LQITDNGSGIQYDDLPYLCQR-FSTSKIDNFNQTFGFRGEALASISHVAKVT------VVTKLSSDIHAWKAFYVDGALAPISPGMSPAPQPCAGKQGTVITAE---KNGSEEFRRIMILVQKYAIHNDQVSFNCKKVGDTVASLS--LSSRLSKADKIRHIYGPRVASHLRDFSLGEGQSSIVGFSANGFISNADFQDKKSNLILFINNRL--------------------------------VESVELRHALEETYAKYLHK---------GASYFVY------------------------------------------------------NMSPEQLDVNVHPSKRIVHFLYDQE-----ATSICDKLGEILER.............................................................................................................................................................. 347
20 -11.300[L] COG0323 DNA mismatch repair enzyme (predicted ATPase)  ali follow..  14  3........HIIELPEMLANQIAAGEVIERPASVVKELVENAIDA------SSQIIIEIEEAGLKK-VQITDNGHGIAHDEVELALRR-HATSKIKNQARTLGFRGEALPSIASVSVLT------LLTAVDGASHGTKLVAR----------EVEEVIPATSPVGTKVCV-------------------EDLFFNTPAR---------------------------------------------------LKYMKS----------------------------QQAELSHIIDIVNRLGLAHPEISMTRTAGTGQLRQAIAGIYGLVSAKKMIE---ENSDLDFEISGFVSLPELTRANRNYISLFINGRYIKNFLLNRAILDGFGSK--GRFPLAVIHIHIDPYLADVNVHPTKQEVRISKEKE-----MTLVSEAIANSLKE.............................................................................................................................................................. 328
21 -9.100[T] COG4564 Signal transduction histidine kinase  ali follow..  15  314..CERTGIETRFKADSLQETIK-PEPSTALYRVVQEALTNVERHSG----ATRVDIRLKGAHGKVTMTIADNGNGFAVRGL------------------KDPLSGLGLRNMQERMAHFGGV---LLVETSADGTQLTARLPKSATERRLE.................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 435

FFAS is supported by the NIH grant R01-GM087218-01
1 3 7 5 6 2   jobs submitted since Jan 1, 2011
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.

Veeramalai M, Ye Y, Godzik A. TOPS++FATCAT: fast flexible structural alignment using constraints derived from TOPS+ Strings Model. BMC Bioinformatics. 2008 Aug 31;9(1):35