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HGC00311
Query: HGC00311 gi|163635536|dbj|BABG01000737.1|2.0 TMP00178;, from HGM_OVER

Results of FFAS03 search in SCOP175
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 MAKPKNLEQLRAEKEQVETQLAQEQHKLKRLENRKKYLEKGERQKRTHRLCNLGGTIESLAPEFKDLTRTEMTELMEYIFSLPEVQRAVRHMAITHINQASRGKEQKADGNIPLHRHPDQTQLast
1 -5.470d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]}  ali model 3D-neighbors follow..  11  5......LNKMFDPTKRTLNRYEKIANDIDAIRGDYENLSDDALKHKTIEFLEKGATTDDLLVEAFAVVREASRRVT.............................................. 77
2 -5.470d1ppja2 d.185.1.1 (A:234-442) Cytochrome bc1 core subunit 1 {Cow (Bos taurus) [TaxId: 9913]}  ali model 3D-neighbors follow..  107....GQWMRLCTSATESEVLRGKNLLRNALVSHLDGTTPVCEDIGRSLLTYGRRIPLAEWESRIAEVDARVVREVCSKYFYDQC...................................... 186
3 -5.400d1m70a1 a.3.1.4 (A:1-92) Cytochrome c4 {Pseudomonas stutzeri [TaxId: 316]}  ali model 3D-neighbors follow..  35.........................QGERYLLKQLQDIKAGSTPGAPEGVGRKVLEMTGM---LDPLSDQDLEDIAAYFSSQK....................................... 89
4 -5.290d1pixa2 c.14.1.4 (A:1-287) Glutaconyl-CoA decarboxylase A subunit {Acidaminococcus fermentans [TaxId: 905]}  ali model 3D-neighbors follow..  15  25.ANEEQLKKIEEEIHQLIKEAQEAGKADADVNKRGELTA----LQRIEKLVEPGSWRP................................................................ 77
5 -5.160d2azea1 e.63.1.1 (A:199-346) Transcription factor DP-1 {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  12  1...AQECQNLEVERQRRLERIKQKQSQLQELILQQIAFKN-QRNRHAEQQASRPPPPNSVIHLPFIIVNTSKKTVID............................................. 75
6 -5.120d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}  ali model 3D-neighbors follow..  10  16...KIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVLRGNNVVLIQPQ........................................................... 75
7 -5.030d1hr6a2 d.185.1.1 (A:234-470) Mitochondrial processing peptidase (MPP) alpha chain {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  15  117.QMYNTFANKDLRLTEDEVSRAKNQLKSSLLMNLESKLVELEDMGRQVLMHGRKIPVNEMISKIEDLKPDDISRVAEMIFTGNVNNAGN................................. 204
8 -5.030d1r89a2 d.218.1.7 (A:1-142) tRNA nucleotidyltransferase, N-terminal domain {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  12  1MKVEEILEKALELVIPDEEEVRKGREAEEELRRRL--------DELGVEYVFVGSYARNTW--LKGSLEIDVFLLFPEEFSKEELRERGLEIGKAVLDSYEIRYAE................ 96
9 -4.940d1ybza1 a.130.1.1 (A:2-75) mono-domain chorismate mutase {Pyrococcus furiosus [TaxId: 2261]}  ali model 3D-neighbors follow..  15  2.....TLKLLRKEIDKIDNQIISLLKKRLEIAQAIGKIKKELDRKREEEVLRRAGEFREIFEKILEVS...................................................... 69
10 -4.860d2ga1a1 a.4.1.16 (A:1-102) Hypothetical protein Ava_0674 (Alr1493 orthologue) {Anabaena variabilis [TaxId: 1172]}  ali model 3D-neighbors follow..  19  1MNKKTQLLEVALPEELVDQALNYVQMLQNPIQITPGVCGGQARIRNTRAYRQQGAPDKELLANYPGLTAEDLSAAWHYYEQNPE...................................... 93

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.

Liu T, Rojas A, Ye Y, Godzik A. Homology modeling provides insights into the binding mode of the PAAD/DAPIN/pyrin domain, a fourth member of the CARD/DD/DED domain family. Protein Sci. 2003 Sep;12(9):1872-81.