current user: public




Query: gi|15895531|ref|NP_348880.1| ATP-dependent exonuclease synthesis protein AddB (CA_C2263) [Clostridium acetobutylicum ATCC 824] (Range: 751-1153), from C.acetobutylicum

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.
    .   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
# Score Template Links and tools%idFirst ISYTNQVDYISEEKALKLYGGSLKMSVSRLEKYIECPFSYYVQYGLNIKDRKIFSLTPPDLGSFMHKVIDRFCETIKEENIDWNEVNDHICEEKIYKIVDQEIEGRGGSILNSSPRYSYIALRLKRILKRTVRIVAEQFKRGSFKPVGYEVSFENGGSYPPITVGLNDGSEVVLTGRIDRIDMMEKDGSTYIRIVDYKSGNKIFKLSDVYYGFDIQLLLYLNAILENENLDEEDKVLPGAILYFTMDDPIIKGKNNLTDEQIREEIMKSLKMKGLLLSDPDVIKEMDREMEGSSIIIPASIKKDGTLGRSSAATKEQFDILIEHVRNLVVKNCENLLMGDIRIKPYKKGKEKPCDYCMYSSICRFDTMFDGNNYRYVKEKSDEEVWKLIEREMSEEGDERGEDLast
1 -8.540d1w36b3 c.52.1.24 (B:899-1174) Exodeoxyribonuclease V beta chain (RecB), C-terminal domain {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  15  49........................................................RGASPGTFLHSLFEDL----------------DFTQPVDPNWVREKLELGGFESQWEPVLTEWITAVLQAPLNETGVSLSQLSARNKQVEMEFYLPISEPLIASQLDTLIRQFDPLSLKGFIDLV--FRHEGRYY--LLDYKSNQQAMAAAMQAHRYDLQYQLYLHRYLRHRIADYDYEHHFGGVIYLFLRG-----------------VDKEHPQQGIYTTNAGLIALMDEMFAG............................................................................................................... 276
2 -5.240d2o1oa_ a.128.1.0 (A:) automated matches {Cryptosporidium parvum [TaxId: 5807]}  ali model 3D-neighbors follow..  11  151..............................................................................................................................................................YNESIFFTVLGQHLDLSYF--DLSKADKISERYFSMVEMKTS---------RYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYEFYQVHNDVSDYFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVF.................................................................. 322
3 -5.180d1q3qa2 c.8.5.2 (A:217-369) Thermosome, A-domain {Thermococcus sp. ks-1, alpha chain [TaxId: 79679]}  ali model 3D-neighbors follow..  10  1................................................................................................................................................................................................................................................................................RGVVIDKEVVHPRMPKRVENAKIALALEVKKTETDAKINITSPDQLMSFLEQEEKMLKDMVDHIAQTGANVVFVQKGIDDLAQHYLAKYGIMAVRRVKKSDMEKLAKATGAKIVTNVKDLTPED....... 127
4 -5.110d1wb9a4 d.75.2.1 (A:2-116) DNA repair protein MutS, domain I {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  17  27.................................................................................................................................................................................................LLFYRMG----DFYTLFYDDAKRASQLLDISLTKRGASAGEPIPMAGIPYHAVENYLAKLVNQGESVAICEQIGDPATSKGPV--ERKVVRIV..................................................................................................................... 113
5 -4.990d1gmla_ c.8.5.2 (A:) Thermosome, A-domain {Mouse (Mus musculus), gamma chain [TaxId: 10090]}  ali model 3D-neighbors follow..  10  5...............................................................................................................................................................................................................................................................................LRGVMINKDVTHPRMRRYIKNPRIVLSLEYKKGESQTDIEITREEDFTRILQMEEEYIHQLCEDIIQLKPDVVITEKGISDLAQHYLMRANVTAIRRVRKTDNNRIARACGARIVSRPEELREDD....... 132
6 -4.550d3vj8a_ a.128.1.2 (A:) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  1.................................................................................................SLSSSLKTCYKYLNQTSRSFAAVIQALDGEMRNAVCIFYLVLRALDTLEDDMTISVEKKVPLHNFHSFLYQPDWRFMESKEKDRQVLEDFPTISLEFRNLAEKYQT-VIADICRRMGIGMAEFLDKHVTSEQEWDKYCHYVAGLVGIGLSRLFSASEFEDPLVGEDTERANSM---GLFLQKTNIIRDYLEDQQGGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQS..................................................... 250
7 -4.360d2hj1a1 d.15.3.4 (A:11-87) Hypothetical protein HI0395 {Haemophilus influenzae [TaxId: 727]}  ali model 3D-neighbors follow..  13  3..................................................................................................................................................INIEIAYAFPERYYLKSFQVDEGITVQILSQFPEIDLSTNKIGIFSRPIKLTDVLKEGDRIEIYRPL.............................................................................................................................................................................................. 76
8 -4.270d3miza_ c.93.1.0 (A:) automated matches {Rhizobium etli [TaxId: 347834]}  ali model 3D-neighbors follow..  13  1.................................................RSNTFGIITDYVSTYSVDIVRGIQDWANANGKTILIANTGGSSEREVEIWKMFQSHRIDGVLYVTMYRRIVDPESGDVSIPTVMINCRPQTRELLPSIEPD---DYQGARDLTRYLLERGHR-----RIGYIRLNPILLGAELRLDAFRRTTSEFGLT-ISLGMDGPVGAENNYVFAAATEMLKQDDRPTAIM--------------SGNDEMAIQIYIAAMALGLRIPQDVSIVGFDDFRTVTMALKP----------ELTTAALPYYDLGREGAKWLNDLIAGEKIYPGSRVVSCKLVERSSAAF............................................... 281
9 -4.270d4c92b1 b.38.1.0 (B:2-95) automated matches {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  12...............................................................................................................................................................QEVVVELKND--IEIKGTLQSVDQFLNLKLDNISCTDEKKYPHLGSVRNIF-------------------------IRGSTVRYVYLNKNMVDTNLLQDATRREVMTERK...................................................................................................................................... 94
10 -4.250d1c4ka3 d.125.1.1 (A:570-730) Ornithine decarboxylase C-terminal domain {Lactobacillus sp., strain 30a [TaxId: 1591]}  ali model 3D-neighbors follow..  10..............................................................................................................IYAANEERYNGYTIRELCQELHDFYKNN------NTFTYQKRLFLREFFPEQGMLPYEARQEFIRNHNKLVPLNKIEGEIALEALPYPPGVFCVAPGEKWSE---TAVKYFTILQDGINNFPGFAPEIQGVYFKQEGDKVVAYGEVYDAEVAKNDDRYN...................................................................................................................................... 160

FFAS is supported by the NIH grant R01-GM087218-01
8 5 8 8 9   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.

Ye Y, Godzik A. Comparative analysis of protein domain organization. Genome Res. 2004 Mar;14(3):343-53.