YRC Public Data Repository - Protein Structure Prediction

Protein:	vpr-1
Organism:	Caenorhabditis elegans
Length:	245 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[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 vpr-1.

Description	E-value	Query Range	Subject Range
gi\|157746103 - gi\|157746103\|ref\|XP_001668148.1\| Hypothetical protein CBG04017 [Caenorhabditis briggsae AF16] gi\|187036205, gi... - gi\|39595373\|emb\|CAE60411.1\| Hypothetical protein CBG04017 [Caenorhabditis briggsae], gi\|187036205\|em...	237.0	[0..1]	[245..1]
gi\|8099350 - gi\|8099350\|gb\|AAF72105.1\|AF154847_1 33 kDa Vamp-associated protein [Homo sapiens]	236.0	[0..1]	[243..1]
gi\|73962054, gi\|... - gi\|73962056\|ref\|XP_859801.1\| PREDICTED: similar to Vesicle-associated membrane protein-associated pr...	234.0	[0..1]	[243..8]
gi\|61365583, gi\|... - gi\|61365587\|gb\|AAX42732.1\| VAMP-associated protein A [synthetic construct], gi\|61365583\|gb\|AAX42731....	232.0	[0..1]	[243..1]
VAPA_MOUSE - Vesicle-associated membrane protein-associated protein A OS=Mus musculus GN=Vapa PE=1 SV=2	229.0	[0..1]	[243..8]

Back

Predicted Domain #1

Region A:
Residues: [1-137]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEKHSLLQV TPNRELVFTG PFSDVVTSHM TLKNTSTNPV CFKVKTTAPK QYCVRPNSGL  60
   61 LKSGDSKQIT VMLQPLEGIP SDAGRHKFMV QSCVAPSEDL PDLESVWKII DPAELTYSKL 120
  121 MVTFVDKRDP ASGDDTK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	36.39794
Match:	2criA
Description:	Solution structure of the MSP domain of mouse VAMP-associated proteinA
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [138-245]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TFAVRNEDSF ASSGQAQELG SSYSGTPSHD GTVNSLRKSL KSTVDEKEEL QKKVHGLEQE  60
   61 IEVMLKKNRK LQQSHSDGAL VDGAYPTLQI FLIAVAALLI GLIVGRLF

[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