YRC Public Data Repository - Protein Structure Prediction

Protein:	SKP1
Organism:	Saccharomyces cerevisiae
Length:	194 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for SKP1.

Description	E-value	Query Range	Subject Range
gi\|151942304 - gi\|151942304\|gb\|EDN60660.1\| suppressor of kinetochore protein mutant [Saccharomyces cerevisiae YJM78... gi\|190404731 - gi\|190404731\|gb\|EDV07998.1\| suppressor of kinetochore protein 1 [Saccharomyces cerevisiae RM11-1a] SKP1_YEAST - Suppressor of kinetochore protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SKP1... SKP1 - Evolutionarily conserved kinetochore protein that is part of multiple protein complexes, including t... gi\|207346443 - gi\|207346443\|gb\|EDZ72935.1\| YDR328Cp-like protein [Saccharomyces cerevisiae AWRI1631]	1.0E-60	[1..194]	[1..194]
gi\|146387063, gi... - gi\|146387063\|pdb\|2OVR\|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegn Complex, gi\|146387060\|pdb\|2O...	6.0E-57	[4..194]	[2..149]
gi\|13434998 - gi\|13434998\|gb\|AAK26104.1\|AF132729_1 SKP1-like protein ASK10 [Arabidopsis thaliana]	3.0E-56	[3..193]	[5..166]
gi\|194121686, gi... - gi\|195347434\|ref\|XP_002040258.1\| GM19084 [Drosophila sechellia], gi\|194121686\|gb\|EDW43729.1\| GM19084... skpA-PF, skpA-PC... - The gene skpA is referred to in FlyBase by the symbol Dmel\skpA (CG16983, FBgn0025637). It is a prot... gi\|195564469, gi... - gi\|195564469\|ref\|XP_002105840.1\| GD16521 [Drosophila simulans], gi\|194203202\|gb\|EDX16778.1\| GD16521 ... gi\|220942842 - gi\|220942842\|gb\|ACL83964.1\| skpA-PA [synthetic construct]	2.0E-55	[4..194]	[2..162]
gi\|49528718, gi\|... - gi\|50293985\|ref\|XP_449404.1\| hypothetical protein CAGL0M01364g [Candida glabrata CBS138], gi\|4952871... gi\|49528718, gi\|... - gi\|5931944\|gb\|AAD56717.1\|AF072472_1 centromere binding factor 3d; skp1p [Candida glabrata], gi\|49528...	1.0E-54	[4..194]	[6..179]
gi\|49643848, gi\|... - gi\|49643848\|emb\|CAG99800.1\| KLLA0E16941p [Kluyveromyces lactis], gi\|4102463\|gb\|AAD01496.1\| centromer... gi\|50309411, gi\|... - gi\|50309411\|ref\|XP_454713.1\| unnamed protein product [Kluyveromyces lactis], gi\|49643848\|emb\|CAG9980...	7.0E-54	[5..194]	[7..182]
gi\|16024893 - gi\|16024893\|gb\|AAL11454.1\| Skp1 [Physarum polycephalum]	1.0E-53	[2..194]	[6..165]

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Predicted Domain #1

Region A:
Residues: [1-194]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVTSNVVLVS GEGERFTVDK KIAERSLLLK NYLNDMHDSN LQNNSDSESD SDSETNHKSK  60
   61 DNNNGDDDDE DDDEIVMPVP NVRSSVLQKV IEWAEHHRDS NFPDEDDDDS RKSAPVDSWD 120
  121 REFLKVDQEM LYEIILAANY LNIKPLLDAG CKVVAEMIRG RSPEEIRRTF NIVNDFTPEE 180
  181 EAAIRRENEW AEDR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	384.68867
Match:	1fqvB_
Description:	Cyclin A/CDK2-associated p45, Skp1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	6.78934422958647	bayes_pls_golite062009
small conjugating protein ligase activity	6.52079977531395	bayes_pls_golite062009
acid-amino acid ligase activity	5.78412146341235	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	4.95822114853319	bayes_pls_golite062009
voltage-gated cation channel activity	2.77401933213311	bayes_pls_golite062009
transporter activity	2.7339908225983	bayes_pls_golite062009
binding	2.73171412378045	bayes_pls_golite062009
cation channel activity	2.71768147195598	bayes_pls_golite062009
voltage-gated potassium channel activity	2.65490556751361	bayes_pls_golite062009
voltage-gated ion channel activity	2.64938600384117	bayes_pls_golite062009
voltage-gated channel activity	2.64838408752747	bayes_pls_golite062009
potassium channel activity	2.62652737979087	bayes_pls_golite062009
transmembrane transporter activity	2.61347075279737	bayes_pls_golite062009
substrate-specific transporter activity	2.58329333159441	bayes_pls_golite062009
gated channel activity	2.57592710439337	bayes_pls_golite062009
ion channel activity	2.574752452969	bayes_pls_golite062009
cation transmembrane transporter activity	2.54922823284862	bayes_pls_golite062009
substrate-specific channel activity	2.51918375917065	bayes_pls_golite062009
passive transmembrane transporter activity	2.5028491309185	bayes_pls_golite062009
channel activity	2.5028491309185	bayes_pls_golite062009
ion transmembrane transporter activity	2.50017243561816	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.49050794760122	bayes_pls_golite062009
metal ion transmembrane transporter activity	2.38629208611427	bayes_pls_golite062009
transcription regulator activity	2.25604087102385	bayes_pls_golite062009
transcription repressor activity	1.8778052324763	bayes_pls_golite062009
DNA binding	1.86676140250361	bayes_pls_golite062009
nucleic acid binding	1.7811266334013	bayes_pls_golite062009
ligase activity	1.75579073151181	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	1.55472700872528	bayes_pls_golite062009
protein binding	1.38558174459188	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.36342887345344	bayes_pls_golite062009
transcription factor activity	1.28275177677518	bayes_pls_golite062009
structure-specific DNA binding	0.784594789263781	bayes_pls_golite062009
delayed rectifier potassium channel activity	0.744657282641449	bayes_pls_golite062009
catalytic activity	0.112500532859479	bayes_pls_golite062009
chromatin binding	0.0843873092365177	bayes_pls_golite062009
double-stranded DNA binding	0.033499769837058	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: