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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 PDB1018 1-91 -8.490 12  2jk1_A mol:protein length:139 HYDROGENASE TRANSCRIPTIONAL REGULATORY PROTEIN HUPR1
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 PDB1018 13-74 -6.140 18  1udz_A mol:protein length:182 Isoleucyl-tRNA synthetase
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 PDB1018 107-583 -25.600 10  4j05_A mol:protein length:530 Phosphate transporter
121-566 -45.100 12  1pw4_A mol:protein length:451 Glycerol-3-phosphate transporter
4 gi|6319252|ref|NP_009335.1| Putative protein of unknown function; has homology to FLO1; possible pseudogene; (YAL065C) [Saccharomyces cerevisiae] 128 PDB1018 55-118 -7.790 14  2dk8_A mol:protein length:81 DNA-directed RNA polymerase III 39 kDa polypeptide
5 gi|6319253|ref|NP_009336.1| Fungal-specific protein of unknown function; Yal064w-bp (YAL064W-B) [Saccharomyces cerevisiae] 126 PDB1018 32-126 -6.980 20  1fft_A mol:protein length:663 UBIQUINOL OXIDASE
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 PDB1018 1-126 -55.300 70  4gq7_A mol:protein length:224 Flocculin
7 gi|6319254|ref|NP_009337.1| Protein of unknown function; may interact with ribosomes, based on co-purification experiments; (YAL064W) [Saccharomyces cerevisiae] 108 PDB1018 1-101 -6.700 13  5lfp_A mol:protein length:131 Bacterial proteasome activator
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 PDB1018 16-92 -7.090 10  1c0f_S mol:protein length:127 GELSOLIN SEGMENT 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 PDB1018 1-254 -42.400 85  4lhl_A mol:protein length:263 Flocculation protein FLO1
110-499 -15.500 10  5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
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 PDB1018 40-491 -11.100 6fhj_A mol:protein length:1009 protein,protein
103-500 -18.700 5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
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 PDB1018 30-241 -10.700 11  5fur_J mol:protein length:677 TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 6
77-500 -18.200 5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
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 PDB1018 1-415 -19.300 5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
412-500 -13.100 10  6fhs_H mol:protein length:491 les2
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 PDB1018 1-287 -19.900 5ife_C mol:protein length:1304 Splicing factor 3B subunit 1
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 PDB1018 2-456 -116.000 49  3r3j_A mol:protein length:456 Glutamate dehydrogenase
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 PDB1018 1-378 -90.400 29  5vm2_A mol:protein length:347 Alcohol dehydrogenase
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 PDB1018 1-377 -89.600 25  5vm2_A mol:protein length:347 Alcohol dehydrogenase
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 PDB1018 1-169 -7.040 6b5v_A mol:protein length:730 Transient receptor potential cation channel subfamily V member 5
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 PDB1018 1-421 -135.000 31  1jhn_A mol:protein length:424 calnexin
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 PDB1018 4-880 -21.800 12  2zw9_A mol:protein length:695 Leucine carboxyl methyltransferase 2
276-871 -43.900 11  5gqt_A mol:protein length:478 Nitrile-specifier protein 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 PDB1018 51-180 -74.100 97  2y9m_B mol:protein length:130 PEROXISOME ASSEMBLY PROTEIN 22


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.

Mayya Sedova, Mallika Iyer, Zhanwen Li, Lukasz Jaroszewski, Kai W Post, Thomas Hrabe, Eduard Porta-Pardo, Adam Godzik Cancer3D 2.0:: interactive analysis of 3D patterns of cancer mutations in cancer subsets. Nucleic Acids Research, gky1098 2018; Published on November 8 2018.

Plewczynski D, Tkacz A, Godzik A., Rychlewski L. A support vector machine approach to the identification of phosphorylation sites. Cell Mol Biol Lett. 2005;10(1):73-89.