YRC Logo
PROTEIN SEARCH:
Descriptions Names[Advanced Search]

View Structure Prediction Details

Protein: VAM3
Organism: Saccharomyces cerevisiae
Length: 283 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



[What does the above image mean?]


[Show Ginzu Version Information]


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 VAM3.

Description E-value Query
Range
Subject
Range
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
3.0E-46 [34..281] [1..254]
gi|3123708, gi|9... - gi|9625039|ref|NP_062506.1| syntaxin 1B1 [Mus musculus], gi|3123708|dbj|BAA25986.1| syntaxin1B [Mus ...
3.0E-45 [1..281] [1..282]
STX1B_MOUSE - Syntaxin-1B OS=Mus musculus GN=Stx1b PE=1 SV=1
gi|251471 - gi|251471|gb|AAB22526.1| syntaxin, P35B [rats, brain, Peptide, 288 aa]
ENSCJAT00000005845 - null
gi|114662156 - gi|114662156|ref|XP_001145497.1| PREDICTED: similar to syntaxin B [Pan troglodytes]
STX1B - syntaxin 1B
STX1B_RAT - Syntaxin-1B OS=Rattus norvegicus GN=Stx1b PE=1 SV=1
4.0E-45 [6..281] [1..282]
gi|447739 - gi|447739|prf||1915304A nylB upstream ORF
1.0E-44 [6..281] [1..282]
gi|18859443, gi|... - gi|7107406|gb|AAF36403.1|AF229154_1 syntaxin 1B [Danio rerio], gi|18859443|ref|NP_571598.1| syntaxin...
2.0E-44 [6..281] [1..282]
gi|7595847, gi|7... - gi|7595847|gb|AAF64478.1| syntaxin 1A [Macaca mulatta], gi|74136291|ref|NP_001028037.1| syntaxin 1B ...
7.0E-44 [9..281] [6..283]

Back

Predicted Domain #1
Region A:
Residues: [1-121]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSFFDIEAQS SKGNSQQEPQ FSTNQKTKEL SNLIETFAEQ SRVLEKECTK IGSKRDSKEL  60
   61 RYKIETELIP NCTSVRDKIE SNILIHQNGK LSADFKNLKT KYQSLQQSYN QRKSLFPLKT 120
  121 P

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 395.30103
Match: 1hs7A_
Description: Vam3p N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
phosphatidic acid binding 4.54790612451186 bayes_pls_golite062009
SNAP receptor activity 3.50393203740159 bayes_pls_golite062009
binding 2.18404492932496 bayes_pls_golite062009
protein binding 1.82422117934251 bayes_pls_golite062009
transporter activity 1.74189664015129 bayes_pls_golite062009
substrate-specific transporter activity 1.2360389745429 bayes_pls_golite062009
transmembrane transporter activity 1.13101548288086 bayes_pls_golite062009
protein transporter activity 0.81087535212264 bayes_pls_golite062009
SNARE binding 0.71459772253941 bayes_pls_golite062009
substrate-specific transmembrane transporter activity 0.398018181744571 bayes_pls_golite062009
ion transmembrane transporter activity 0.0981818568206971 bayes_pls_golite062009
phospholipid binding 0.0172309833091902 bayes_pls_golite062009
cytoskeletal protein binding 0.00476738027966683 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [122-185]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ISPGTSKERK DIHPRTEAVR QDPESSYISI KVNEQSPLLH NEGQHQLQLQ EEQEQQQQGL  60
   61 SQEE

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term Confidence Notes
phosphatidic acid binding 3.99289411123023 bayes_pls_golite062009
SNAP receptor activity 2.87584659156593 bayes_pls_golite062009
binding 2.10865031355861 bayes_pls_golite062009
protein binding 1.71065434412329 bayes_pls_golite062009
transporter activity 1.70608335538771 bayes_pls_golite062009
substrate-specific transporter activity 1.17569067269837 bayes_pls_golite062009
transmembrane transporter activity 1.13402377922348 bayes_pls_golite062009
protein transporter activity 0.593122950767464 bayes_pls_golite062009
substrate-specific transmembrane transporter activity 0.396657939634767 bayes_pls_golite062009
SNARE binding 0.387098576112631 bayes_pls_golite062009
ion transmembrane transporter activity 0.0934422877951697 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [186-283]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDFQTIIHQE RSQQIGRIHT AVQEVNAIFH QLGSLVKEQG EQVTTIDENI SHLHDNMQNA  60
   61 NKQLTRADQH QRDRNKCGKV TLIIIIVVCM VVLLAVLS

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 13.98
Match: 1gl2B
Description: Syntaxin 7
Matching Structure (courtesy of the PDB):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle