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# Query Length Result vs. Range Score %id Covered by template(s)
1 gi|6319249|ref|NP_009332.1|(removed signalp:1-20) hypothetical protein; Pau8p (YAL068C) [Saccharomyces cerevisiae] 100 VFDB 1-94 -5.730 VFG043206(gi:123442797) (cheY) chemotaxis regulatory protein CheY [peritrichous flagella (AI145)] [Yersinia enterocolitica subsp. enterocolitica 8081]
2 gi|33438754|ref|NP_878038.1| Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; Yal067w-ap (YAL067W-A) [Saccharomyces cerevisiae] 75 VFDB 9-74 -4.230 18  VFG001944(gi:15792468) (neuA1) bifunctional beta-1,4-N-acetylgalactosaminyltransferase/CMP-Neu5Ac synthase [LOS (VF0326)] [Campylobacter jejuni subsp. jejuni NCTC 11168]
3 gi|6319250|ref|NP_009333.1| Putative permease, member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide; Seo1p (YAL067C) [Saccharomyces cerevisiae] 593 VFDB 125-565 -33.300 12  VFG001089(gi:16802879) (hpt) hexose phosphate transport protein [Hpt (VF0264)] [Listeria monocytogenes EGD-e]
4 gi|6319252|ref|NP_009335.1| Putative protein of unknown function; has homology to FLO1; possible pseudogene; (YAL065C) [Saccharomyces cerevisiae] 128 VFDB 69-127 -6.330 16  VFG000138(gi:15598350) (wzy) O-antigen chain length regulator [LPS (VF0085)] [Pseudomonas aeruginosa PAO1]
5 gi|6319253|ref|NP_009336.1| Fungal-specific protein of unknown function; Yal064w-bp (YAL064W-B) [Saccharomyces cerevisiae] 126 VFDB 25-88 -6.360 20  VFG037136(gi:15677705) (fHbp) factor H binding protein [fHbp (VF0452)] [Neisseria meningitidis MC58]
6 gi|7839146|ref|NP_058136.1| Putative protein of unknown function; YAL064C-A is not an essential gene; Yal064c-ap (YAL064C-A) [Saccharomyces cerevisiae] 126 VFDB 2-123 -27.200 12  VFG002295(gi:3478672) (C2II) C2 toxin (component-II) [C2 toxin (VF0384)] [Clostridium botulinum C str. 203U28]
7 gi|6319254|ref|NP_009337.1| Protein of unknown function; may interact with ribosomes, based on co-purification experiments; (YAL064W) [Saccharomyces cerevisiae] 108 VFDB 13-98 -5.000 20  VFG000007(gi:33592928) (fimB) chaperone protein [Fimbriae (VF0031)] [Bordetella pertussis Tohama I]
8 gi|33438755|ref|NP_878039.1| Putative protein of unknown function; identified by expression profiling and mass spectrometry; Yal063c-ap (YAL063C-A) [Saccharomyces cerevisiae] 96 VFDB 15-96 -5.600 15  VFG001856(gi:52841094) (ccmC) cytochrome c-type biogenesis protein CcmC, putative heme lyase for CcmE [CcmC (VF0292)] [Legionella pneumophila subsp. pneumophila str. Philadelphia 1]
9 gi|6319255|ref|NP_009338.1|(removed signalp:1-24) Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation; Flo9p (YAL063C) [Saccharomyces cerevisiae] (Range: 1-500) 500 VFDB 6-499 -15.600 VFG000677(gi:4894326) (pagA) anthrax toxin moiety, protective antigen [Anthrax toxin (VF0142)] [Bacillus anthracis str. Sterne]
10 gi|6319255|ref|NP_009338.1|(removed signalp:1-24) Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation; Flo9p (YAL063C) [Saccharomyces cerevisiae] (Range: 251-750) 500 VFDB 14-296 -11.900 VFG002419(gi:21281935) (coa) staphylocoagulase precursor [Staphylocoagulase (VF0421)] [Staphylococcus aureus subsp. aureus MW2]
15-449 -10.600 11  VFG000337(gi:16272928) (iga1) immunoglobin A1 protease [IgA1 protease (VF0045)] [Haemophilus influenzae Rd KW20]
11 gi|6319255|ref|NP_009338.1|(removed signalp:1-24) Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation; Flo9p (YAL063C) [Saccharomyces cerevisiae] (Range: 501-1000) 500 VFDB 1-424 -13.100 11  VFG000337(gi:16272928) (iga1) immunoglobin A1 protease [IgA1 protease (VF0045)] [Haemophilus influenzae Rd KW20]
12 gi|6319255|ref|NP_009338.1|(removed signalp:1-24) Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation; Flo9p (YAL063C) [Saccharomyces cerevisiae] (Range: 751-1250) 500 VFDB 1-246 -10.200 VFG004773(gi:21284319) (lip) triacylglycerol lipase precursor [Lipase (CVF091)] [Staphylococcus aureus subsp. aureus MW2]
34-462 -15.100 10  VFG000337(gi:16272928) (iga1) immunoglobin A1 protease [IgA1 protease (VF0045)] [Haemophilus influenzae Rd KW20]
229-500 -12.100 VFG002419(gi:21281935) (coa) staphylocoagulase precursor [Staphylocoagulase (VF0421)] [Staphylococcus aureus subsp. aureus MW2]
13 gi|6319255|ref|NP_009338.1|(removed signalp:1-24) Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation; Flo9p (YAL063C) [Saccharomyces cerevisiae] (Range: 1001-1298) 298 VFDB 1-271 -14.300 VFG002419(gi:21281935) (coa) staphylocoagulase precursor [Staphylocoagulase (VF0421)] [Staphylococcus aureus subsp. aureus MW2]
14 gi|6319256|ref|NP_009339.1| NADP(+)-dependent glutamate dehydrogenase, synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh1p; expression regulated by nitrogen and carbon sources; Gdh3p (YAL062W) [Saccharomyces cerevisiae] 457 VFDB 5-454 -6.440 12  VFG015515(gi:15599409) (phzE1) phenazine biosynthesis protein PhzE [Phenazines biosynthesis (CVF536)] [Pseudomonas aeruginosa PAO1]
15 gi|6319257|ref|NP_009340.1| Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively active PDR1 and PDR3; BDH2 is an essential gene; Bdh2p (YAL061W) [Saccharomyces cerevisiae] 417 VFDB 175-291 -6.930 11  VFG010898(gi:52840984) (iraA) Small-molecule methyltransferase IraA [Iron acquisition/assimilation locus (CVF361)] [Legionella pneumophila subsp. pneumophila str. Philadelphia 1]
16 gi|6319258|ref|NP_009341.1| NAD-dependent (R,R)-butanediol dehydrogenase, catalyzes oxidation of (R,R)-2,3-butanediol to (3R)-acetoin, oxidation of meso-butanediol to (3S)-acetoin, and reduction of acetoin; enhances use of 2,3-butanediol as an aerobic carbon source; Bdh1p (YAL060W) [Saccharomyces cerevisiae] 382 VFDB 175-290 -7.340 13  VFG010898(gi:52840984) (iraA) Small-molecule methyltransferase IraA [Iron acquisition/assimilation locus (CVF361)] [Legionella pneumophila subsp. pneumophila str. Philadelphia 1]
17 gi|6319259|ref|NP_009342.1| Protein of unknown function, localized in the nucleoplasm and the nucleolus, genetically interacts with MTR2 in 60S ribosomal protein subunit export; Ecm1p (YAL059W) [Saccharomyces cerevisiae] 212 VFDB 2-212 -7.210 VFG004773(gi:21284319) (lip) triacylglycerol lipase precursor [Lipase (CVF091)] [Staphylococcus aureus subsp. aureus MW2]
18 gi|6319260|ref|NP_009343.1|(removed signalp:1-19) Calnexin; integral membrane ER chaperone involved in folding and quality control of glycoproteins; chaperone activity is inhibited by Mpd1p, with which Cne1p interacts; 24% identical to mammalian calnexin; Ca+ binding not yet shown in yeast; Cne1p (YAL058W) [Saccharomyces cerevisiae] 483 VFDB 63-409 -5.150 VFG013365(gi:16272813) (wbaP/rfbP) undecaprenyl-phosphate galactosephosphotransferase [LOS (CVF494)] [Haemophilus influenzae Rd KW20]
19 gi|41629666|ref|NP_009345.2| Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; inhibits Ras activity through direct interactions with Ira1p/2p; regulated by G-alpha protein Gpa2p; homolog of Gpb1p; Gpb2p (YAL056W) [Saccharomyces cerevisiae] 880 VFDB 1-880 -8.790 11  VFG042861(gi:52840865) (pilY1) type IV pilus biogenesis PilY1-related protein [type IV pili (AI111)] [Legionella pneumophila subsp. pneumophila str. Philadelphia 1]
20 gi|6319263|ref|NP_009346.1| Putative peroxisomal membrane protein required for import of peroxisomal proteins, functionally complements a Pichia pastoris pex22 mutation; Pex22p (YAL055W) [Saccharomyces cerevisiae] 180 VFDB 2-178 -6.460 VFG014486(gi:15596639) (fliL) flagellar basal body protein FliL [Deoxyhexose linking sugar, 209 Da capping structure (AI138)] [Pseudomonas aeruginosa PAO1]


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, Godzik A. FATCAT: a web server for flexible structure comparison and structure similarity searching. Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W582-5.