YRC Public Data Repository - Protein Structure Prediction

Protein:	VPS30
Organism:	Saccharomyces cerevisiae
Length:	557 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 VPS30.

Description	E-value	Query Range	Subject Range
gi\|73476201 - gi\|73476201\|emb\|CAJ26345.1\| beclin 1 [Saccharomyces paradoxus]	335.0	[0..1]	[557..1]
YDKA_SCHPO - Uncharacterized protein C20G8.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC20G8... gi\|3219940 - gi\|3219940\|sp\|P87117.3\|YDKA_SCHPO RecName: Full=Uncharacterized protein C20G8.10c	318.0	[0..53]	[540..24]
gi\|73587470 - gi\|73587470\|emb\|CAJ27517.1\| beclin 1 protein [Triticum aestivum]	315.0	[0..153]	[552..149]
BECN1_ARATH - Beclin-1-like protein OS=Arabidopsis thaliana GN=ATG6 PE=1 SV=2	309.0	[0..146]	[548..136]
gi\|73587464 - gi\|73587464\|emb\|CAJ27514.1\| beclin 1 protein [Hordeum vulgare]	309.0	[0..153]	[552..149]
gi\|73587480 - gi\|73587480\|emb\|CAJ27522.1\| beclin 1 protein [Malus x domestica]	299.0	[0..147]	[544..126]
gi\|73587474 - gi\|73587474\|emb\|CAJ27519.1\| beclin 1 protein [Glycine max]	298.0	[0..161]	[544..145]
gi\|73587484 - gi\|73587484\|emb\|CAJ27524.1\| beclin 1 protein [Solanum tuberosum]	298.0	[0..147]	[544..145]
gi\|73587478 - gi\|73587478\|emb\|CAJ27521.1\| beclin 1 protein [Solanum lycopersicum]	295.0	[0..147]	[544..146]

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Predicted Domain #1

Region A:
Residues: [1-339]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKCQTCHLPL QLDPSLEGLS LTQRNLLLSN NSIITATNEN VISNKGIEAA DNCGPQIPKE  60
   61 RLRRLGEIQN IKDLNLKDDK LITDSFVFLN HDDDDNANIT SNSREDQRYG NANGNDNKKA 120
  121 NSDTSDGTST FRDHDEEEQE ATDEDENQQI QLNSKTLSTQ VNAMTNVFNI LSSQTNIDFP 180
  181 ICQDCCNILI NRLKSEYDDA IKERDTYAQF LSKLESQNKE ISESNKEKQY SHNLSEKENL 240
  241 KKEEERLLDQ LLRLEMTDDD LDGELVRLQE KKVQLENEKL QKLSDQNLMD LNNIQFNKNL 300
  301 QSLKLQYELS LNQLDKLRKI NIFNATFKIS HSGPFATIN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.39794
Match:	1i84S
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [340-464]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GLRLGSIPES VVPWKEINAA LGQLILLLAT INKNLKINLV DYELQPMGSF SKIKKRMVNS  60
   61 VEYNNSTTNA PGDWLILPVY YDENFNLGRI FRKETKFDKS LETTLEIISE ITRQLSTIAS 120
  121 SYSSQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [465-557]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TLTTSQDESS MNNANDVENS TSILELPYIM NKDKINGLSV KLHGSSPNLE WTTAMKFLLT  60
   61 NVKWLLAFSS NLLSKSITLS PTVNYNDKTI SGN

[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.

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