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1nj8A
Query: 1nj8_A mol:protein length:459 Proline-tRNA Synthetase, from PDB1009

Results of FFAS03 search in JCSG1009
Master-slave alignment 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 GSHMLEFSEWYSDILEKAEIYDVRYPIKGCGVYLPYGFKIRRYTFEIIRNLLDESGHDEALFPMLIPEDLLAKEAEHIKGFEDEVYWVTHGGKTQLDVKLALRPTSETPIYYMMKLWVKVHTDLPIKIYQIVNTFRYETKHTRPLIRLREIMTFKEAHTAHSTKEEAENQVKEAISIYKKFFDTLGIPYLISKRPEWDKFPGAEYTMAFDTIFPDGRTMQIATVHNLGQNFSKTFEIIFETPTGDKDYAYQTCYGISDRVIASIIAIHGDEKGLILPPIVAPIQVVIVPLIFKGKEDIVMEKAKEIYEKLKGKFRVHIDDRDIRPGRKFNDWEIKGVPLRIEVGPKDIENKKITLFRRDTMEKFQVDETQLMEVVEKTLNNIMENIKNRAWEKFENFITILEDINPDEIKNILSEKRGVILVPFKEEIYNEELEEKVEATILGETEYKGNKYIAIAKTYLast
1 -68.000TM0514 TM0514 282387 Selected-2001-10-12  ali follow..  23  23...........HEYLLRGGF--IRKVAAGIYTYLPLGRRVLLKIENIVREEMNRIGAQEILMPILQPAELWKQSG-RWDDYGPEMMKL----KDRHERDFTLGPTHEEIVTDLVKNELRSYKQLPLTLYQIANKYRDEIRPRFGLLRAREFI-MKDAYSFHASWESLDETYEQFKKAYSRIMERLGVRYMIIEAETGAIGGNASHEFVVGEPLKATKGIELGHIFKLGTKYSEAMKAYFMDENGEMKPFIMGCYGWGSRTMAAVVEHFHDENGMIWPLSIAPYTVVVDILNMN--DAEQKQVGEKIYQVLEKGEEVVLDDREVSPGFKFKDADLIGFPIRINVG-RSLKEGVVELKKRYSKELVKVNIKNGFGALLETLEKMKREYDPKEAVR.................................................................. 577
2 -50.300TM0740 TM0740 282610 Purified-2001-12-18  ali follow..  19  231..KFLEEAQRHRKLGPQLELFMLNTEYPGMPFFLPKGVVVLNELMKFSRELHRERGYQEIFTPLIMNEQLWKISG-HWDHYAENMYFI-----EKDEERYAVKPMNCPGHILVYKSRTVSYRDLPLRFFEFGRVHRYERSGVLHGLMRVRSFTQDDAHIFC-TPDQIEEEILGVLDLINTIYSQFGFTYRVELSTMPEDGEGAFYGPKIDFHIRDGREWQCATI-QLDFMMPEKFNVTYIGPDNKEHRAVMIHYGSLERFFGILIEHFAGA----FPTWLAPIQVAVIPI-----SEKHNDGAEKVARRIQEGFRVFFDNRRETLGYRIRQAQTQKIPYMIIIGDKELESGKISVRTRTGKEIKDVDPEHFVETLRNEVLSRKLELSMEG..................................................................... 640
3 -21.100ME1090A 104162038 371962 Purified-2006-10-26  ali follow..  16  7........................SRIKGTQDIAFEDIDYWHFAEEIIRNISHKYAFTEIRTPIFEATELFKRSGESTDVVQKEMYTF----EDKGGRSITLRPEGTASVARAFIENSFINLGSPVKLFYSGPMFRYEKPQA----RLRQFHQF-GAEILGSESPLADFE---IIEMAYSFLKELKINNAKLFINSIGCPACAGIDYEVDQFLVRGLDYYTRTAFEIRSS-GGRYDGLVEYIGGKSCPAVGFAIGL-ERIVMLL------KSENVRINGPETSEVAILTF----GREESVRGFDYAKRLRKMGVSTFVDVMERNMRNKMKHASRIGAKISLLIGKEEIERDIVTIKVMNDGSQFQVDSDYMADYVVDKLRDIS............................................................................ 424
4 -20.200TM1090 TM1090 282956 Crystal|NMR-2005-04-06  ali follow..  17  4........................RRIKGTNDIFGEEIWYWRYVEETFRNVCESAGIEEIRTPIFEQTELFVRSGEESDIVQKEMYTF----QDKAGRSITLRPEGTAPVVRAFLENSLIDRGFQQRYYYIGPMFRYEKPQS----RLRQFHQV-GFEIIGPESPKADFE---VIMLVDTFLRRLGLTKYKIHLNSKEYLNTFEIEYVEDHTLVRGLDYYTRTVFEVRHE-GGRYDGLFAELGGSSVPALGFAGGI-ERIILAL------KAEGIEIPMKNVHLVYIATL----GEKAFMDGVRLAGELRKKGLSVDVDIMDRKLSGQLKHASRMGSRYAVIIGDEELEKGIVILRDLETGDQVEIDRDFAADYIAERVSK.............................................................................. 419
5 -17.500TM1379 TM1379 283240 Crystal|NMR-2004-06-10  ali follow..  17  139.......PLAHWDLGPAWGLMDFSRASKRFTVMYGKLARLERALINFLDVHTKEHGYTEVWVPHLVKRETITITG-QLPKFEEELYLAE-------RDDLFLIPTAEVPLAALHSGEILEEKELPKKYVSYTPCYRREAKDVRGMIRQHQFDKVE---VWVTTPERSFEDLEELVKDAETILRKLELPYRVVSLCTGDLGFTSAKTYDIEVWLPSYNAYEISSCSNVTDFQARRGNMRYRRRSDGKLEYVHTLNGSGGRALVAILENYQQPDGVRVPEVLVPY................................................................................................................................................................................ 418
6 -9.780XB5588A NP_841331.1 358726 Purified-2005-05-02  ali follow..  10  8...........................EYIEDVLPRDAYRIEKIRRLIMDMLFAHGYQFVMPPLLEYVESLLAGSG--SGMNLRMFKVV---DQLSGRMMGLRADMTPQAARIDAHLLNI--SGVTRLCYASSVVHTVPDEI-----RTREPFQVGAELYGHSGIESDLE---IQCLLLECLSVSGIHSIHLDLGHIRVFRSLIRDSGIKPEFEMEAALWAKDISSLKELVRTGLNKRLTRSVQNALLLLPELYGDGTVLLSARQH-----------------------LPDFPEIGEALDQLEHVARILQPVDRITFDLAHYHTGMVF-AVYTPGCPAPIALGGR-YDEIGKSFGRARPATGFSLDLKQLSQLTDMN-KPEDEKLAAMVRQLRAEGHIVVTELPGEENQEVTGCDRKLVFR---GNWEIDPVTG........................ 391
7 -8.870PG1090A YP_165923.1 372297 Selected-2006-09-08  ali follow..  7........................................ILEQAARLRAGFEAAGAQGVETPILQPAETL------LDLYGEDIRARAYVTSDALRGEQMLRP---DFTVPVVQKHMEH-GAEPARYTYAGEVFRRQEHDP----RANEYIQVGYEVFDRTNPAAADAE---VFALIAQALDGLALRAATGDIGILMAAVEGLKTTEPRKAALMRHIWRPRRFRALLDRYAGRTTVP-AALLAESEPLADGAPEIGKRSRAEVEARIEVLRADAAAAPISDNEMAGLDLSVRETMPYALEHLRDIAVDLPQITPALDRLEARIAALRARGINVDRLDFEASYGRTSMEDGFVGFYAERRPDLPPIATGGRYDALTRRLGN.............................................................................. 338
8 -6.280FR15344A NP_815988.1 392233 Purified-2008-06-10  ali follow..  5..........................................................................................................................................................................................................................................................................................INILVVEPGRPPRPARVDYSLETFSQLVGGDLAMGCFLPQRVMLLYNEEANRQGLPPNRCNPFNECISGTFLLCGLSDGEGFCSLSPAQQAEFQRLFAS--PGEFMMLGANHICTSPAEFAETVSRLWGGMASGESVVLTKWGGTES.............................. 150
9 -6.090FH7617A CAUR_25MAY01_CONTIG936_REVISED_GENE4170 367119 Purified-2006-05-23  ali follow..  10  1............................................................................................................................................................................................................................................VSVDDLIDTTSLELLVAPAPLADFLRQSSAMHRH--RQVLGARMGMYAGELLGLTLPQKNKRLYTFVET---------GCFADGVSVTTGCWLGRRTMR----------MDEGKVAATFVDTQTGQAFRIAPRDLARQYAPNARSRWHAYLIAYQLMPLTDLLIAQPITLTDLKAIISRNGLRTTCDHCGEEIINAREVIRDGQTLCRTCGGEGYYTITG... 209
10 -5.530MJ15486A YP_137436.1 403012 Purified-2009-08-29  ali follow..  10  58.....................................................................................................................................................................................................................................YHGDVFEEYWGEYDC---FIGLMASGIAMRKTAHLLDDKWDDPAICVVDEELTWAIPIT-----GGHHGANQVADDLASMGAVPAKQGVEKQAKALDAHVVNGDKRNKDDGIVLGVAGADVEQFHAAWEQALDEADLDRDDVEFVATGTRKADEEGMLAAAEEW-----LGVIAFEKETLEGFEGPTPSRSKELIGWPGIAEAAAGSEHDLLAEKTRYDEAVTVAIGR.. 323

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.

Ye Y, Li Z, and Godzik A. Modeling and Analyzing Three-Dimensional Structures of Human Disease Proteins Pacific Symposium on Biocomputing 11:439-450(2006) [PDF]