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View Structure Prediction Details

Protein: SEC1
Organism: Saccharomyces cerevisiae
Length: 724 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 SEC1.

Description E-value Query
Range		 Subject
Range
SEC1_YEAST - Protein transport protein SEC1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SEC1 PE=1...
gi|190404882 - gi|190404882|gb|EDV08149.1| SNARE docking complex subunit [Saccharomyces cerevisiae RM11-1a]
SEC1 - Sm-like protein involved in docking and fusion of exocytic vesicles through binding to assembled SNA...
 0.0 [1..724] [1..724]
STXB2_MOUSE - Syntaxin-binding protein 2 OS=Mus musculus GN=Stxbp2 PE=1 SV=1
 0.0 [9..649] [12..593]
STXBP2 - syntaxin binding protein 2
gi|208967548 - gi|208967548|dbj|BAG73788.1| syntaxin binding protein 2 [synthetic construct]
 0.0 [9..649] [12..593]
STXB2_CANLF - Syntaxin-binding protein 2 OS=Canis lupus familiaris GN=STXBP2 PE=2 SV=1
 0.0 [2..649] [4..593]
STXB2_RAT - Syntaxin-binding protein 2 OS=Rattus norvegicus GN=Stxbp2 PE=2 SV=1
 0.0 [8..649] [11..594]

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Predicted Domain #1
Region A:
Residues: [1-132] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDLIELQRN YLIGVLNQIE TKNNLKFLII DKTVETILSY LFLTPQELLN NVTSVDLIDS  60
   61 PTRKGQSSIE AIYILEPTKY NINCIDADFM VRPPKYRRCH IRFLPGLTNP IFQFFQSKRY 120
  121 IAQNLESFKP IE

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 639.54902
Match: 1fvfA_
Description: Neuronal Sec1, NSec1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
SNARE binding 4.56428593085019 bayes_pls_golite062009
syntaxin binding 3.46044132736061 bayes_pls_golite062009
binding 2.7837022903231 bayes_pls_golite062009
protein binding 2.77285532000616 bayes_pls_golite062009
syntaxin-1 binding 0.269372794919901 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [133-264] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGFFVKESQF FETLQMEHSL QVFFNNNCKA LIPTNVRKIV GSLVSLCVIT GEYPIVRYSV  60
   61 SNPVEEEDAR NGNAVVNANS LTRSIANAFQ IAIDTYARNN PDFPPQNTER PRSILIITDR 120
  121 TLDPFAPILH DF

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [514-657] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VPAVGNILSK VIANPLLLSE QYFPYLKDKP IELLNEEEFQ AGLANTSANS SSSLRNPRHK  60
   61 AAWTTKSSNI KKNIPRQRFF YYVIGGISIP EIKAAYDQSN LKNRDIFIGS DEILTPTKFL 120
  121 DEVERLQNPR EFFKFKEDQR QQVN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 639.54902
Match: 1fvfA_
Description: Neuronal Sec1, NSec1
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [265-384] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SYQAMAYDLV ANVDTQKDIY HYSAENEAGE QEEKVSKLVD LYDPDWIDLK HQHIMDANEY  60
   61 IQGRIKELIA KNPLLVDRSN VKNTTDLLSV VAHLKDFDEE RRRLILHKTL VDECLGENAE 120
  121

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 639.54902
Match: 1fvfA_
Description: Neuronal Sec1, NSec1
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [385-513] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RKLADISAIE QNLSGFGMDF SGEKIKHIID DLLPALAMKE PTILDKLRYI IAYALFRGGI  60
   61 IELDFIKLLN FIGVTHEHEN FQQYLKIFRN YDLIDFKLIK DKPKDKPFQK EWFHDTLVND 120
  121 PNIYHTSRF

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 639.54902
Match: 1fvfA_
Description: Neuronal Sec1, NSec1
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [658-724] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PPDFLLREMK PVAQPVSHVH LKSQDNSPKS GTSSPKAAGS LKSEPPEKEK KRSKFSRFLK  60
   61 RKSHHDK

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score		 SCOP
Match		 SCOP Description
View Download 0.396 a.60.12 DNA polymerase beta-like, second domain

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