current user: public

anford Burnham Prebys Medical Discovery Institute
We are hiring bioinformatics experts and software developers. Join us!

Query: 4S3U Entity 1(prereleased), from PDB0516

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.
    .   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
# Score Template Links and tools%idFirst YKLVCYFTSWSQYREGVGSFLPDAIQPFLCTHIIYSFANISSDNMLSTWEWNDESNYDKLNKLKTRNTNLKTLLSVGGWKFGGKRFSEIASNTERRTAFVRSVAPFLRSYGFDGLDLAWLYPRLRDKQYFSTLIKELNAEFTKEVQPGREKLLLSAALSAGKVAIDTGYDIAQIAQHLDFINLMTYDFHGVWRQITGHHSPLFQGQKDTRFDRYSNVNYAVQYMIRLGAQASKLLMGIPTFGKSFTLASSENQLGAPISGEGLPGRFTKEAGTLAYYEICDFLKGAEVHRLSNEKVPFATKGNQWVGYEDKESVKNKVRFLKEKKLAGAMVWALDLDDFQGTCQPKEFFPLTNAIKDALALast
1 -5.290 VFG002377(gi:123443295) (ddhA) glucose-1-phosphate cytidylyltransferase [O-antigen (VF0392)] [Yersinia enterocolitica subsp. enterocolitica 8081]  ali follow..  12  2..................................................................ECKVKAVILAGGLGTRLSEETVIKPKPMVEMPILWHIMKLYSSYGINDFIICCGYKGYVIKEYFANYFMHMSD-ITFSMRDNEMKVHQKRVEPWNVTLVDTGEHLKRVKDYVKDDDAFCFTYGDG---------------------SDINISELINFHKSHGKKAT--LTATYPPGRFGALDIENKQVRSFKEKPKGDGALINGGYFVLSPKVIDLIDGDKSIWEQEPLMILADNGEEHTGFWQPMDTLRDKIYLQQLWEEGQAPWKV.......................... 259
2 -4.490 VFG002121(gi:15801940) (nleA/espI) Type III secretion system effector NleA [NleA/EspI (VF0338)] [Escherichia coli O157:H7 str. EDL933]  ali follow..  17  39...............................................................................................QAGFVVNIPDDIQQHAPECGETTALLSLIKDKGLLSGLDEYIAPHLE-EGSIGKKTLDMFGLFNVTQMALEIPSSVSGISKYGVQLNIVKPDIHPTSGNYFLQIFPLH----DEIGFNFKDLPGPLKNALSNSNISTTAVSTIASTGTSATTSTVTTEPKDPIPWFGLTAQVVRNHGV---LPIVKTENGWKLVGETTPDGPKANYTEEWVGEADFKYGASPLQATLGLEFGAHFKWDLDNPNTKYAV-------LTNAAANALG 295
3 -4.470 VFG000413(gi:16082755) (yopH) type III secretion system effector YopH, protein tyrosine phosphatase [TTSS (VF0140)] [Yersinia pestis CO92]  ali follow..  193...................................................ARAELSSRLTTLRNTLAPATNDPRYL--GEKLNRFRDIQCCRQTA------VRADLNANYIQVGNIACQYPLQSQLESHFRMLAENRTPV----------AVLASSSEIANQRFGMPDYFRQSGTYGSITVESKMTQQVGLGDGIMADMYTLTIREAGQKTISVPV-VHVGNWPDQTAVSSSLVDQTAETKRNMYESKGSSAVGDDRAGVGRTAQLISRNSQLSVEDMVSQMRVQRNGIMVQKDEQLDV............................................................ 453
4 -4.260 VFG000322(gi:15644676) (wbcJ) GDP fucose synthase [LPS (VF0056)] [Helicobacter pylori 26695]  ali follow..  13  43....................................................DKDNVQAYLKEYKPTGIIHCAGRVGGIVANMNDLSTYMVENLLMGLYLFSSALDSGVKKAINLASSCAYP-------------------KFAPNPLKESDLLNGSL----EPTNEGYALAKLSVMVFYKTLVPCNLYGEFDKFEEKIAHMIPGLIARMHTAKLKNEKEFAMWGDGTARREYLNAKDLARFISLAYENIASIPSVMNVGSG------VDYSIEEYYEKVAQVLDYKGVFVKDLSKPVGMQ-QKLMDISKQRALKWELEIPLEQGIKEAYEYYLKLLE...................... 309
5 -4.240 VFG001812(gi:15609023) (fbpB) Secreted antigen 85-B FbpB (85B) (antigen 85 complex B) (mycolyl transferase 85B) (fibronectin-binding protein B) (extracellular alpha-antigen) [Antigen 85 (VF0311)] [Mycobacterium tuberculosis H37Rv]  ali follow..  10  65.............................................................QFQSGGNNSPAVYLLDGLRAQDDYNGWDINTPAFEWYYQSGLSIVMPVGGQSSFYSDWYSPACGKAGCQTFLTSELPQWLSANRAVKPTGSAAIGLSMAGSSAMILAAYHPQQ-----------FIYAGSLSALLDPSQGMGPSLIGLAMGDAGGYK-AADMW---GPSSDPAWERNDPTQQIPKLVANNTRL---YCGNGTPNELGGANIPAEFLENFKFQDAYNAAGGHNAVFNFPPNGTHSWEYWGAQLNAMKGDLQSSLGAG................................. 325
6 -4.150 VFG002488(gi:53722532) (tssL-5) Type VI secretion system protein TssJ [T6SS-1 (VF0429)] [Burkholderia pseudomallei K96243]  ali follow..  12  40......................AGAPAADVDDALFAVCAWIDEALLNS-GWDDADRWTL-----------LLQKRYFDTSHAGVVFFERLGTLDGARASVLEVYLLCLRLGFRG-----RYGYDGGDGPLDAIRQRALDALSAHAPPCAAGE................................................................................................................................................................................................................ 153
7 -4.120 VFG001811(gi:57116693) (fbpC) Secreted antigen 85-C FbpC (85C) (antigen 85 complex C) (AG58C) (mycolyl transferase 85C) (fibronectin-binding protein C) [Antigen 85 (VF0311)] [Mycobacterium tuberculosis H37Rv]  ali follow..  70..............................................................VQFQGGGPHAVYLLDGLRAQDDYNGWDINTPAFEEYYQSGLSVIMPVGGQSSFYTDWYQPSQSNGQNYTFLTREMPAWLQANKGVSPTGNAAVGLSMSGGSALILAAYYPQQ-----------FPYAASLSGFLNPSEGWWPTLIGLAMNDSGGYN-ANSMW---GPSSDPAWKRNDPMVQIPRLVANNTRI---YCGNGTPSDLGGDNIPAKFLEGLTLRTNQT--------------------FRDTYAADGGRNGVFNFPPNGTHSWPYWNEQLVAM.................. 318
8 -4.080 VFG001419(gi:15610940) (fbpA) Secreted antigen 85-a FbpA (mycolyl transferase 85A) (fibronectin-binding protein A) (antigen 85 complex A) [Antigen 85 (VF0311)] [Mycobacterium tuberculosis H37Rv]  ali follow..  10  68.............................................................QFQSGGANSPALYLLDGLRAQDDFSGWDINTPAFEWYDQSGLSVVMPVGGQSSFYSDWYQPACGKAGC-TFLTSELPGWLQANRHVKPTGSAVVGLSMAASSALTLAIYHPQQ-----------FVYAGAMSGLLDPSQAMGPTLIGLAMGDAGGYK-ASDMW---GPKEDPAWQRNDPLLNVGKLIANNTRV---YCGNGKPSDLGGNNLPAKFLEGFKFQDAYNAGGGHNGVFDFPDSGHSWEYWGAQ................................................. 313
9 -3.990 VFG022162(gi:15607433) (eccE3) Type VII secretion system transmembrane protein EccE3 [ESX-3 (VF0521)] [Mycobacterium tuberculosis H37Rv]  ali follow..  13  75.............................................................AEPATCTRTTVLVWVGPPASDTNVLP------------LTLIARYLDRYGIDTIRITSRVTASGDCRTWVGLDDNLAALQARSARIPLQETAQVAARRLADHLREIGWEAGTAAPD-EIPALVAADSRETWRGMRSDYVAAYRVSANAELPDTLPAIRSR--------PAQETWIALEIAYAAGSSTRYTVAAACALRTDWRPGGTAPVAGL....................................................................................... 274
10 -3.940 VFG000252(gi:15676004) (siaC/synC) polysialic acid capsule biosynthesis protein SiaC [Capsule (VF0079)] [Neisseria meningitidis MC58]  ali follow..  11  105.................................MIFISTPFSRAAALRLQRMDIPAYKIGSGECNNYPLIKLVASFG---------PIILSTGMNSIESIKKSVEIIREAGVP-LHCTNIYPTPYEDVRLGGM-NDLSEAFPD-SDHTLDNYACLGAVALGGSILERHFTDRMDRPGPDICSMNPDTFKELKQGAHALKLARGGKKDTIIAGEKPTKDFA-----------FASVVADKDIKKGELLSGDNLWVKRPGNGDFSVNEYETLFGKVAACNI................................................................................. 337

FFAS is supported by the NIH grant R01-GM087218-01
1 1 6 5 8 4   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.

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.

Jaroszewski L, Rychlewski L, Zhang B, Godzik A. Fold prediction by a hierarchy of sequence, threading, and modeling methods. Protein Sci. 1998 Jun;7(6):1431-40.