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Query: gi|13507742|ref|NP_109691.1| DNA gyrase subunit B MPN003 [Mycoplasma pneumoniae M129], from M.pneumoniae

Results of FFAS03 search in SCOP206
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 MEDNNKTQAYDSSSIKILEGLEAVRKRPGMYIGSTGEEGLHHMIWEIIDNSIDEAMGGFASTVKLTLKDNFVTIVEDDGRGIPVDIHPKTNRSTVETVFTVLHAGGKFDNDSYKVSGGLHGVGASVVNALSSSFKVWVAREHQQYFLAFHNGGEVIGDLVNEGKCDKEHGTKVEFVPDFTVMEKSDYKQTVIASRLQQLAFLNKGIQIDFVDERRQNPQSFSWKYDGGLVQYIHHLNNEKEPLFEDIIFGEKTDTVKSVSRDESYTIKVEVAFQYNKTYNQSIFSFCNNINTTEGGTHVEGFRNALVKIINRFAVENKFLKETDEKITRDDICEGLTAIISIKHPNPQYEGQTKKKLGNTEVRPLVNSIVSEIFERFMLENPQEANAIIRKTLLAQEARRRSQEARELTRRKSPFDSGSLPGKLADCTTRDPSISELYIVEGDSAGGTAKTGRDRYFQAILPLRGKILNVEKSHFEQIFNNVEISALVMAVGCGIKPDFELEKLRYNKIIIMTDADVDGAHIRTLLLTFFFRFMYPLVEQGNIYIAQPPLYKVSYSNKDLYMQTDVQLEEWKQQHPNLKYNLQRYKGLGEMDAIQLWETTMDPKVRTLLKVTVEDASIADKAFSLLMGDEVPPRREFIEQNARNVKNIDILast
1 -97.400d3m4ia_ e.78.1.1 (A:) DNA gyrase beta-prime domain {Mycobacterium tuberculosis [TaxId: 1773]}  ali model 3D-neighbors follow..  56  1.............................................................................................................................................................................................................................................................................................................................................................................................................................................TDPRKSELYVVEGDSAGGSAKSGRDSMFQAILPLRGKIINVEKARIDRVLKNTEVQAIITALGTGIHDEFDIGKLRYHKIVLMADADVDGQHISTLLLTLLFRFMRPLIENGHVFLAQPPLYKLKWQRSDEFAYSDRERDGLLEAGLKAEDGIQRYKGLGEMDAKELWETTMDPSVRVLRQVTLDDAAAADELFSILMGE..................... 207
2 -87.700d4k4oa1 d.122.1.0 (A:18-224) automated matches {Enterococcus faecalis [TaxId: 226185]}  ali model 3D-neighbors follow..  53  1...................GLEAVRKRPGMYIGSTSGEGLHHLVWEIVDNSIDEALAGFAKSIQVIIEPDDSITVIDDGRGIPVGIQAKTGRPAVETVFTVLHAGGKFGGGGYKVSGGLHGVGSSVVNALSTSLDVRVYKDGKVYYQEYRRGAVV-DDLKVIEETDR-HGTTVHFIPDPEIFETTVYDFDKLATRVRELAFLNRGLHISIEDRREGQEDKKEYHYEG....................................................................................................................................................................................................................................................................................................................................................................................................................................... 207
3 -83.300d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]}  ali model 3D-neighbors follow..  36  1...................................................................................................................................................................................................................................GVASFAKALAEGEDLLYEKPFLIRG----------THGEVEVEVGFLHTQGYNAEILTYANMIPTRDGGTHLTAFKSAYSRALNQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGKLLNPEAGTAVGQVVYERLLEILEENPRIAKAVYEKALRAAQAREAARKARELV................................................................................................................................................................................................................................................. 172
4 -81.600d3cwva1 d.122.1.0 (A:8-206) automated matches {Myxococcus xanthus [TaxId: 246197]}  ali model 3D-neighbors follow..  26  3...................IVENVRKRPGMYCGDVGEYGLHHLVYFLLDVAYEEARRGECRDVVLEVGGDGSIALFCTSRTVTA-----------ENLVRVATGAGFLGRPPGDGWGWDSML--VVSLALSSRYQVDIWADGRQWRVMGEHGHPAVTPMEPMPVSAE-RGVRVHFVPDATIFEVLAFDRARLSRRCNELAALAPGLRVSFADLQRG--ERTLWHLPG....................................................................................................................................................................................................................................................................................................................................................................................................................................... 199
5 -70.800d3cwva2 d.14.1.0 (A:207-356) automated matches {Myxococcus xanthus [TaxId: 246197]}  ali model 3D-neighbors follow..  23  1...................................................................................................................................................................................................................................GVAQWAHVLTEARPQLHPEPVVFDF----------TWDGLRVQCALQWCEDEDSTLLSFANAVRTVRHGAHVKGVTQALRGALAKLS------GETRGAFPWARVAQGLTAIVAVSGPRRQFAGPTKELLAIPGLEEAIRKQLQPLFIELLREHPVTPALLARR................................................................................................................................................................................................................................................................... 150
6 -70.700d4prxa2 d.14.1.0 (A:221-377) automated matches {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  35  1...................................................................................................................................................................................................................................GIKAFVEYLNKNKTPIHPNIFYFST----------EKDGIGVEVALQWNDGFQENIYCFTNNIPQRDGGTHLAGFRAAMTRTLNAYMDKEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQQMNELLAEYLLENPTDAKIVVGKII................................................................................................................................................................................................................................................................. 156
7 -68.100d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  40  1..................................TDTTRPNHLGQEVIDNSVDEALAGHAKRVDVILHADQSLEVIDDGRGMPVDIHPEEGVPAVELILCI-----------------------SVVNALSKRVEVNVRRDGQVYNIAFENGEKV-QDLQVVGTCGKRTGTSVHFWPDETFFDSPRFSVSRLTHVLKAKAVLCPGVEITFKDEINN--TEQRWCYQ........................................................................................................................................................................................................................................................................................................................................................................................................................................ 167
8 -64.300d3lnua2 d.14.1.0 (A:261-422) automated matches {Xanthomonas oryzae [TaxId: 291331]}  ali model 3D-neighbors follow..  25  1..................................................................................................................................................................................................................................NGLRDYLKGEMAEHEMLPADLFVGSL----------KKDTEIVDWAAGWVPEGELVQESYVNLIPTAQHGTHVNGLRSGLTDALREFCDFRNLLPR-GVKLAPEDVWDRVTFVLSLKMTDPQFSGQTKERLSSRQAAGFIEGAAHDAFSLYLNQNVEIGEKIAQIAIDRASAR........................................................................................................................................................................................................................................................... 162
9 -59.700d4hyma2 d.14.1.0 (A:216-377) automated matches {Francisella tularensis [TaxId: 376619]}  ali model 3D-neighbors follow..  29  2...................................................................................................................................................................................................................................GLKGYLDHKLEAETLPAEPFIIDNF----------SNGDSYLDAVFCWCEDPSESIKSYVNLIPTPQDGTHVTGLKNGIYDAIKAYIEKNSLSVK-NIKITANDSFAQLNYVISVKITNPQFAGQTKEKLSNKDVTNFVATAVKDLLTIWLNQNPDEARQIVENISKVAQ............................................................................................................................................................................................................................................................. 161
10 -45.500d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  26  3...........SDKYQKISQLEHILKRPDTYIGSVEVPGLFKIFDEILVNAADNKVRPSMKRIDVNIHEEHTIEVKNDGKGIPIEIHNKENIYIPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEFILETLNVGQKYVQKWENNMSICHPPKITSYKKGPSYTKVTFKPDLTRFGMKELDNDILGVMRRRVYDINRDINVYLNGKS.................................................................................................................................................................................................................................................................................................................................................................................................................................................... 235
11 -38.300d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  22  3..........................................................................................................................................................................................................................KNYVELYLKSLEKKRQLDNGEDGAAKSDIPTILY----------ERINNRWEVAFAVSD-ISFQQISFVNSIATTMGGTHVNYITDQIVKKISEILK-----KKKKKSVKSFQIKNNMFIFINCLIENPAFTSQTKEQLTTRVKDFGSRCEIPLEYINKIMKTD-----LATRMFEIADA............................................................................................................................................................................................................................................................ 161
12 -23.200d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  30  10......................................................................................................................................................................................................................................................................................................................................................................................................................................KLEDANTKEGYKCTLVLTEGDSALSLAVAGLGRDYYGCYPLRGKMLNVREASADQILKNAEIQAIKKIMGLQHRKKYDTKSLRYGHLMIMTDQDHDGSHIKGLIINFLESSFLGLLDQGFLLEFITPIIKVSITKPTKNTYNMPDYEKWREEESHFTWKQKYYKGLGTSLAQEVRESNLDRHLKIFHSLQGNDKDYIDLAFSK---KKADDRKEWLRQ.......... 238
13 -18.000d4aoha_ d.5.1.1 (A:) Angiogenin {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  14  34.....................................................RGLTSPCKDINTFIHGNSIKAICENKNGNPHRENLRISKSSFQVTTCKLHGGSPWPPCQYRATAGFRNVVVACENGLPVHLDQSIFRR............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................. 123
14 -12.500d2hkja3 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {Sulfolobus shibatae [TaxId: 2286]}  ali model 3D-neighbors follow..  16  1..............LSPAEFFKRNPELAGF---PNPARALYQTVRELIENSLDAT-HGILPNIKITIDLIDDVNVVDNGIGIPPQ--------EVPNAFGRVLYSSKYVN---RQTRGMYGLGVKAAVLYSQEIETSPVNSKRIYTFKLNKNEPIIVERGSVENTRGFHGTSVAI----SIPGDWPKAKSRIYEYIKRTYIITPYAEFIFKDPEGN.................................................................................................................................................................................................................................................................................................................................................................................................................................................. 202
15 -9.100d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  15  10..........................................AVKELVENSLDAG----ATNIDLKLKDYGLIEVSDNGCGVEEENFE---------GLTLKHHTSKIQEFADLTQVETFGFRGEALSSLCALSDVTISTCHASAKVGTRLMFDHNGKIIQKTPYPRPRGTTVSVQ--KEFQRNIKKEYAKMVQVLHAYCIISAGIRVSCTNQLGQGKRQPVVCTGGS...................................................................................................................................................................................................................................................................................................................................................................................................................................... 192

FFAS is supported by the NIH grant R01-GM087218-01
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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.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Friedberg I, Nika K, Tautz L, Saito K, Cerignoli F, Friedberg I, Godzik A, Mustelin T. Identification and characterization of DUSP27, a novel dual-specific protein phosphatase. FEBS Lett. 2007 May 29;581(13):2527-33. Epub 2007 Apr 30.