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Query: d4kd5a_ c.94.1.0 (A:) automated matches {Clostridium difficile [TaxId: 272563]}, from SCOP206

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 SVELNISAAASLKEAMAKIEEEYKKVDSNVKLTVNYGASGSLQQQIEQGAPCDLFISAGQKQMKVLDEEKLLVSDTMKDLVKNDLVLISSADSSVSGMKDLTTDKVKKIAVGEAESVPAGKYADEVLTNLNLKDKLKDKLVFAKDVKEVLAWVQSGNADVGFVYFSDTVNNDKIKVVEKTDEKTHSPITYPVSVIKASKNVDAAKKFEEFLLSESGQKIFEEFGYKKVELast
1 -116.000d4kd5a_ c.94.1.0 (A:) automated matches {Clostridium difficile [TaxId: 272563]}  ali model 3D-neighbors  100  1SVELNISAAASLKEAMAKIEEEYKKVDSNVKLTVNYGASGSLQQQIEQGAPCDLFISAGQKQMKVLDEEKLLVSDTMKDLVKNDLVLISSADSSVSGMKDLTTDKVKKIAVGEAESVPAGKYADEVLTNLNLKDKLKDKLVFAKDVKEVLAWVQSGNADVGFVYFSDTVNNDKIKVVEKTDEKTHSPITYPVSVIKASKNVDAAKKFEEFLLSESGQKIFEEFGYKKVE 229
2 -103.000d3gzga_ c.94.1.0 (A:) automated matches {Xanthomonas axonopodis [TaxId: 92829]}  ali model 3D-neighbors follow..  33  1TAPVTVFAAASLKESMDEAATAYEKA-TGTPVRVSYAASSALARQIEQGAPADVFLSADLEWMDYLQQHGLVLPAQRHNLLGNTLVLVAPASSKLR--IAKALGENGRLAVGQTASVPAGSYAAAALRKLGQWDSVSNRLAESESVRAALMLVSRGEAPLGIVYGSDARADAKVRVVATFPDDSHDAIVYPVAALKNSNNPA-TAAFVSWLGSKPAKAIFARRGFSL.. 231
3 -102.000d4rxla_ c.94.1.0 (A:) automated matches {Vibrio cholerae [TaxId: 243277]}  ali model 3D-neighbors follow..  32  1..TLHIYAASSMTNAVNALVADYSQQH-DVKLVTVYGGSSSLARQIEAGAPADLFISANEEWANYLVEKGLVKPNKVVTLAANSLVLIRPTAQPVAAAAWQTALADSRLAVAQVDAVPAGMYAKQALQHAGVWPELESRLAQTNNVRLALALVERGESPLGIVYKTDALLSDKVTIVTAFSAQSHQPIRYPLAQLNDKAA---SAEWVAYLRSDAAQQILQRFGFESV. 228
4 -81.200d1atga_ c.94.1.1 (A:) Molybdate-binding protein, ModA {Azotobacter vinelandii [TaxId: 354]}  ali model 3D-neighbors follow..  24  1..ELKVVTATNFLGTLEQLAGQFAKQ-TGHAVVISSGSSGPVYAQIVNGAPYNVFFSADEKSPEKLDNQGFALPGSRFTYAIGKLVLWSAKPGLVNQGKVLAGNGWRHIAISNPQIAPYGLAGTQVLTHLGLLDKLQERIVEANSVGQAHSQTASGAADLGFVALAQIIQAAAKIPGSFPPANYYEPIVQQAVITKSTAEKANAEQFMSWMKGPKAVAIIKAAGYVLPQ 231
5 -55.100d2onsa2 c.94.1.1 (A:32-342) Molybdate-binding protein, ModA {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  23  1NVKLKVFHAGSLTEPMKAFKRAFEEKHPNVEVQTEAAGSAATIRKVELGRKADVIATADYTLIQKMMYPEFA--NWTIMFAKNQIVLAYRNDSRYADYEILKRPDV-RFGFSNPNDDPCGYRSLMAIQLAELYEINKSKIMIRSMEMELIHLVESGELDYFFIYKSVAKQHSKVKVLANGKEVTGKPIVYGITIPKNAENRELAVEFVKLVISEEGQEILRELGQEPLV 293
6 -18.000d4eloa_ c.94.1.0 (A:) automated matches {Thermus thermophilus HB8 [TaxId: 300852]}  ali model 3D-neighbors follow..  17  1..TLTIYSGRG-QSLVEPLVKQFEAE-TGIRVQVRYSTDAQILAALEEGSPADLFWANTAGALGQASAKGLLRPLGETLLVTVRLRVLAYNPDRIKSLLDLPRFAREKGLVGRVGWTPTYSSFQDMVAGMIALYGEEKTREWLLAMKAMLDAIRAGEVDLGSTYYVVRFRRAGYRLGMHHFRDGDAGNLALVGLLKTSKNLAAATRFLTYLLSPQAQQYFVGNIGE... 262
7 -17.700d1twya_ c.94.1.1 (A:) ABC transporter, periplasmic substrate-binding protein VCA0807 {Vibrio cholerae [TaxId: 666]}  ali model 3D-neighbors follow..  17  2..EITISGSTSVARIMDVLAEKYNQQHPETYVAVQGVGSTAGISLLKKGV-ADIAMTS------YLTESEAQNTLHTFTLAFDGLAIVVNQANPVTN---LTREQLYGIYKGQITN-EASSGTRYSFESLMGLTKTVKDREVSDVAPTALVVNSNSMMTQAVGFISIGSVDKSVKAIQDPTSDNIAKHTYQLSLHYSDNADEQTKEFIAFLKSESAKKLIVEYGY.... 246
8 -17.300d4n13a_ c.94.1.0 (A:) automated matches {Borrelia burgdorferi [TaxId: 224326]}  ali model 3D-neighbors follow..  17  3..IVSIGGSTTVSPILDEMILRYDKINNNTKVTYDAQGSSVGINGLFNKI-YKIAISSRD-----LTKEEIEQGAKETVFAYDALIFITSPEIKITN---ITEENLAKILNGEIQN-DSSSGSYSSIKDLLL-AQFRQDGIVVKSNGEVIEKTSLTPHSIGYIYAKNSIEKGLNILSVNSTYPTKETINYTIKVTNNKYEDKSVTQFIDFMTSSTGQDIVEEQGFLGIK 254
9 -17.100d1xvxa_ c.94.1.1 (A:) Ferric-binding protein FbpA {Yersinia enterocolitica, YfuA [TaxId: 630]}  ali model 3D-neighbors follow..  17  3DSGIVVYNAQH-ENLVKSWVDGFTKD-TGIKVTLRNGGDSELGNQLQEGSPADVFLTENSPAMVLVDNAKLFAP------LDAVTQAQVAQEYRPEHGRWTGIAARSTVFVYNPEKIPSGADFQAIVSAMEWLKAMKTNFTAYKGNSTVMKAVNAGQIDGGVIYAKTGENSGKTQLHYFKHQDPGAFVISGGGVLASSKHPKEAQEFVKWITGKSGQDILRT....... 262
10 -16.900d1nnfa_ c.94.1.1 (A:) Ferric-binding protein FbpA {Haemophilus influenzae [TaxId: 727]}  ali model 3D-neighbors follow..  21  1..DITVYNGQQ-KEAATAVAKAFEQE-TGIKVTLNSGKSEQLAGQLEEGTPADVFYTEQTATFADLSEAGLLAPSGRSRVVVYDHTKLSEKDMEKSVLDYATPKWKGKIGYVSTSGA-VALSKMKGDKVALNWKGLKENGKLYAKNSVALQAVENGEVPAALINKEKGVENLKSRLYFVRHQDPGALVYSGAAVLKASKNQAEAQKFVDFLASKKGQEALVAARAE... 264
11 -16.200d4ecfa_ c.94.1.0 (A:) automated matches {Lactobacillus brevis [TaxId: 387344]}  ali model 3D-neighbors follow..  16  2GESITAVGSTALQPLVEAAGEQYTGEHLGTFINVQGGGTGTGLSQIQEGAVQIGNSDLFAGEQKGINARQLVD----HRVAVVGITPIVNKKVGV---KNLSTNQLIKIFTGQITN-AQGSGTRATFEQFGLANHRSKTAQEQDSSGMVRSIVATTPGAISYVYVNKTVQALSLNHVAPTEVNVTTRIWSYEHLYTKGHPTGLTKAFITYVQSPAIQNLVRQLGYLSPD 245
12 -14.400d1sbpa_ c.94.1.1 (A:) Sulphate-binding protein {Salmonella typhimurium [TaxId: 90371]}  ali model 3D-neighbors follow..  15  2DIQLLNVSYDPTRELYEQYNKAFQETGDNVVIDQSHGGSGKQATSVINGIEADTVTLALAYDVNAIAERGRIDKNWIKRLPDDSIVFLVRKGNPIHDWNDLIKPGVSVIT--NPKSSGGARWNDQAKAEDFVKALFKNVEVLDSGARSTNTFVERGIGDVLIAWENEALLATN--VTPSESILAEPTVSVVDKVVEKKDTKAVAEAYLKYLYSPEGQEIAAKNFYRPRD 264
13 -14.100d2fyia1 c.94.1.1 (A:88-307) LysR-type regulatory protein Cbl {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  11  7..VLTIATTHTQRYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNG-EADIGIASERLSND--------PQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPL----TYRQGITGRSRIDDAFARKGLLADIVLAQDSDVIKTYVALG-LGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKR....... 215
14 -13.900d1al3a_ c.94.1.1 (A:) Cofactor-binding fragment of LysR-type protein CysB {Klebsiella aerogenes [TaxId: 28451]}  ali model 3D-neighbors follow..  11  7..SLYVATTHTQRYALPGVIKGFIERYPRVSLHMHQGSPTQIAEAVSKG-NADFAIATEALHLY--------DDLVMLPCYHWNRSIVVTPEHPLATKGSVSIEELAQYPL----TYTFGFTGRSELDTAFNRAGLTPRIVFATDADVIKTYVRLG-LGVGVIASMAVDPVSDPDLVKLDANGIFSHSTTKIGFRRSTFLRSYMYDFIQRFAPHLTRDVVDT....... 215
15 -13.200d4edpa_ c.94.1.0 (A:) automated matches {Clostridium perfringens [TaxId: 195103]}  ali model 3D-neighbors follow..  14  1..KLVVSTWGLNEDVLKEVFEPFAKEH-GVEIVLDIGNNSERLTKMKNNSQIDITY-LAESFAEQGVEAGIFDKLDYSKIPNASIVVDPSAGIEINSWEDLWKPELNKIAIPDITTTNGPAMVEIAAEKAGELEALKPNVVTYSKSSDLANMFSNGEIVAAVASDFAFISKAKPEVINVIPESGTYLNFNTININKNSKNKDLAYEFINYALSKEVQEKTAKA...... 263
16 -12.400d3e13x_ c.94.1.1 (X:) Ferric-binding protein FbpA {Campylobacter jejuni [TaxId: 197]}  ali model 3D-neighbors follow..  23  2..ELNIYSARH-YNADFEIIKKFEEK-TGIKVNHTQAKASELIKRLSSNSPADIFITADISNLTEAKNLGLLSPVSSKYLEEF--IIAYNKNSKMKNYEDLAKAE-GEIVMRSATAP----YSKTLLASIIANDGNKEAKAWAKGVRDQARQVFAGEAKFAVM-PKDVEVGNSLGIIFPNQDNRGTHIISGIAMTKSSKNQDAAKKFMEFMLSPEIQKILTDSNYE... 271
17 -11.000d1q35a_ c.94.1.1 (A:) Ferric-binding protein FbpA {Mannheimia haemolytica [TaxId: 75985]}  ali model 3D-neighbors follow..  14  1ANEVNVYSYRQ-PYLIEPMLKNFEKD-TGIKVNIIFADKGLVDRVKQEGSPADVLLTVDISRVMEIVNADLAQKIDSKVLEKN-----IPAQFRDSNDQWFGLTTRARVIYTSKDRVGKLPYNVSLFAAMIEHYGIEKTKAFLEGLRDQVKAIKEGICDYSIG-EKQKSWAEAAIINFPSGEHGTHKNISGVVIAKHSPNKANAVKLIEYLSGEKAQGLYAELNHE... 268
18 -10.900d4r6ha_ c.94.1.0 (A:) automated matches {Bacillus subtilis [TaxId: 224308]}  ali model 3D-neighbors follow..  15  15.......STDSERDTFRKLAAAFEKEHSDIHVSLHFPGNNMMRVRMAANDLPDLFDTRDMKWTQDLDPNAYPINQAKDGLAYNRNILDRYGIAPPETMDDFIKALRTIKEKSKGSIVPFWFAGYDKSSFAQYYDQFATPLLITDPAHNEKKQLINGTFQAKKSQLIELMAQNKIDVAQINPNVKVGIIPTPAAAWKDSPQLKEAKDFIAFMARPANAKQMAE....... 314
19 -9.900d1ixca2 c.94.1.1 (A:90-294) LysR-type regulatory protein CbnR {Ralstonia eutropha [TaxId: 106590]}  ali model 3D-neighbors follow..  8......YFGTPIYRSLPLLLRAFLTSTPTATVSLTHMTKDEQVEGLLAGT-IHVGFSRFFPRHPGI---------EIVNIAQEDLYLAVHRSQSGKFGKTCKLADLRAVELTLFPRGGRPSFADEVIGLFKHAGIEPRIARVVEDATAALALTMAG---AASSIVPASVAAIRWPDIAFARIVGTRVKVPISCIFRKEKQPPILARFVEHVRR................ 201
20 -9.600d2v84a_ c.94.1.0 (A:) automated matches {Treponema pallidum [TaxId: 243276]}  ali model 3D-neighbors follow..  13  14................TSLIKKFEQQYNVQVVYDDYASNEDMFAKLSIGASGYDLVVPSGDFVSIMKRKHLLEKIDL---------------SKIPNVQFIKESVRARIAYKMEYSVPIAVNKKAVPSYARTWSIFAYRMSMMDDMREVMKSFASGDFVVAHGFAEAFFAAMHEHIDFFIPQDVASPVYVDFCIPKGARNRDLAHAFINFFLEPAHYAEFLDT...... 267
21 -9.460d4r9fa_ c.94.1.0 (A:) automated matches {Caldanaerobius polysaccharolyticus [TaxId: 44256]}  ali model 3D-neighbors follow..  14  12........AGPDGDAVVSLAKEYSKTHPNVQIKAQMGGQGKFLSAVAAGNPPDLVLYWGQDALPGLADQGAIIP--------DDYLKDVDTSKFFEAAYNAMKYKGKIYGLPEMVNVRVLFWNKDLFKQAGLIAELDQMALVDSNGNPILSPDKNPQLLNLLKWANDPFVLGKVAMMISGEKQYNPKLNFGVGIPKGSKHPQEAMDFIKWTMDPQRIADTAD....... 325
22 -9.440d2voza_ c.94.1.0 (A:) automated matches {Synechocystis sp. [TaxId: 1148]}  ali model 3D-neighbors follow..  17  2..TINLYSSRH-YNTDDALYDAFGEVN------IEASAEELIERIQSEGSPGDILFTVDAGMLWRAEQAGLFQPVRSGKLNER--VLYYSRDADLSTYEALADPQ-GKILVRPSSNV----YNLSLTASRIAIHGEPETRRWLQGLTAQIRAIAAGIGDVAIA-PADQEVVEKVSLFGSGERGTHVNVS--AGVLKNAPNRDAAIAFLEYLASDDAQRYFAEGNNE... 267

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.

Damiano JS, Stehlik C, Pio F, Godzik A., Reed JC. CLAN, a novel human CED-4-like gene. Genomics. 2001 Jul;75(1-3):77-83.