YRC Public Data Repository - Protein Structure Prediction

Protein:	vps36
Organism:	Schizosaccharomyces pombe
Length:	467 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 vps36.

Description	E-value	Query Range	Subject Range
gi\|42552656, gi\|... - gi\|46121769\|ref\|XP_385439.1\| hypothetical protein FG05263.1 [Gibberella zeae PH-1], gi\|42552656\|gb\|E...	481.0	[0..4]	[455..5]
gi\|39952123, gi\|... - gi\|39952123\|ref\|XP_363778.1\| hypothetical protein MG01704.4 [Magnaporthe grisea 70-15], gb\|EAA56053....	475.0	[0..5]	[454..6]
gi\|49103659, gi\|... - gi\|67541747\|ref\|XP_664641.1\| hypothetical protein AN7037.2 [Aspergillus nidulans FGSC A4], ref\|XP_41...	451.0	[0..5]	[453..546]
gi\|114195490, gi... - gi\|115387801\|ref\|XP_001211406.1\| conserved hypothetical protein [Aspergillus terreus NIH2624], gi\|11...	436.0	[0..5]	[459..6]
gi\|76673869 - gi\|76673869\|ref\|XP_588518.2\| PREDICTED: similar to Vacuolar protein sorting 36 (yeast) isoform 1 [Bo...	423.0	[0..9]	[457..7]
gi\|169784239 - gi\|169784239\|ref\|XP_001826581.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|83775326 - gi\|83775326\|dbj\|BAE65448.1\| unnamed protein product [Aspergillus oryzae]	422.0	[0..5]	[461..6]
VPS36_MOUSE - Vacuolar protein-sorting-associated protein 36 OS=Mus musculus GN=Vps36 PE=1 SV=1	422.0	[0..9]	[453..7]
gi\|44983677 - gi\|44983677\|gb\|AAS52776.1\| AER092Wp [Ashbya gossypii ATCC 10895] gi\|44983677, gi\|... - gi\|45190698\|ref\|NP_984952.1\| AER092Wp [Ashbya gossypii ATCC 10895], gi\|44983677\|gb\|AAS52776.1\| AER09...	422.0	[0..4]	[451..13]
gi\|73993160 - gi\|73993160\|ref\|XP_534484.2\| PREDICTED: similar to vacuolar protein sorting 36 [Canis familiaris]	419.0	[0..9]	[457..7]
gi\|34879118, gi\|... - gi\|34879118\|ref\|XP_214382.2\| PREDICTED: similar to Vacuolar protein sorting protein 36 (ELL-associat...	419.0	[0..9]	[453..7]

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Predicted Domain #1

Region A:
Residues: [1-467]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAFYLETTPS NLPVLDPSEE ILLVQDQVGL YFGDEKSFRH NNGTLYLTKK HIFYVDSVDP  60
   61 KKNSLKIKIS DIRDVQHTSR YFRSSPKIRL SLRHVEKSWA CKICTFINVG DPINPCRNCG 120
  121 VANRFTIIKP KSDARFSQGL CTACTFQNYP DLNTCEICGN QLKNVDRNQL IQLSFRGSGS 180
  181 SKFYEAIKSE TDEIEKQRYS NKYDTKVLRK AILEKSLRMG GIHDLEQSHE MQLAKNGRTL 240
  241 VHAFQDLDAF FSLAKDTMSL ADQFAEKMDG LTGTQQSDKV QQLLNKSNQL GVLRGNHLDN 300
  301 VPVSANSRLY DIELCKSISE VLRTRLKADT DTVTMTQAWA IYNRSRKANL IPPTRFVKAC 360
  361 ELIDSMEVGI TTSKMNSGLI LFQLKTSNHS GKLLSAILEV MNPSTTALKC AMRLHWSIGV 420
  421 TLERLYQAEM DGYIVRDVYE ESGSSLLYWK NEFDELSEEL TKWFDES

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	117.0
Match:	1w7pD
Description:	ESCRT-II
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.95502209146398	bayes_pls_golite062009
DNA binding	4.49877554292304	bayes_pls_golite062009
nucleic acid binding	4.4138116788102	bayes_pls_golite062009
transcription factor activity	3.78905634607011	bayes_pls_golite062009
transcription repressor activity	3.35896772348591	bayes_pls_golite062009
binding	3.09940998297931	bayes_pls_golite062009
RNA polymerase II transcription factor activity	2.10135825467854	bayes_pls_golite062009
sequence-specific DNA binding	1.97423148823534	bayes_pls_golite062009
transcription activator activity	1.86787909680028	bayes_pls_golite062009
protein binding	0.753698599635855	bayes_pls_golite062009
molecular transducer activity	0.574575108509588	bayes_pls_golite062009
signal transducer activity	0.574575108509588	bayes_pls_golite062009
specific transcriptional repressor activity	0.51900654743421	bayes_pls_golite062009
transcription factor binding	0.35726633913804	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.18158516638045	bayes_pls_golite062009
hydrolase activity	0.140191206949582	bayes_pls_golite062009
ubiquitin-protein ligase activity	0.136726704233672	bayes_pls_golite062009
small conjugating protein ligase activity	0.118016217031359	bayes_pls_golite062009
structure-specific DNA binding	0.0384502189988831	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: