YRC Public Data Repository - Protein Structure Prediction

Protein:	VAMP2_RAT
Organism:	Rattus norvegicus
Length:	116 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 VAMP2_RAT.

Description	E-value	Query Range	Subject Range
gi\|113547541, gi... - gi\|215697298\|dbj\|BAG91292.1\| unnamed protein product [Oryza sativa Japonica Group], gi\|115450939\|ref... gi\|125542540 - gi\|125542540\|gb\|EAY88679.1\| hypothetical protein OsI_10154 [Oryza sativa Indica Group]	134.0	[0..26]	[113..128]
gi\|2660907, gi\|1... - gi\|2660907\|gb\|AAB88137.1\| synaptobrevin [Xenopus laevis], gi\|148235941\|ref\|NP_001080943.1\| vesicle-a...	124.0	[0..21]	[116..19]
gi\|68357982 - gi\|68357982\|ref\|XP_692479.1\| PREDICTED: similar to Vesicle-associated membrane protein 1 (VAMP-1) (S...	124.0	[0..26]	[116..72]
gi\|29840934 - gi\|29840934\|gb\|AAP05935.1\| SJCHGC01984 protein [Schistosoma japonicum]	123.0	[0..1]	[115..1]
gi\|50752072 - gi\|50752072\|ref\|XP_422640.1\| PREDICTED: similar to vesicle associated membrane protein VAMP-2 [Gallu...	121.0	[0..1]	[116..1]
Syb-PB - The gene Synaptobrevin is referred to in FlyBase by the symbol Dmel\Syb (CG12210, FBgn0003660). It i... gi\|220949470 - gi\|220949470\|gb\|ACL87278.1\| Syb-PB [synthetic construct]	121.0	[0..7]	[115..21]
SYB_TETCF - Synaptobrevin OS=Tetronarce californica PE=2 SV=1	120.0	[0..1]	[99..1]

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Predicted Domain #1

Region A:
Residues: [1-116]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSATAATVPP AAPAGEGGPP APPPNLTSNR RLQQTQAQVD EVVDIMRVNV DKVLERDQKL  60
   61 SELDDRADAL QAGASQFETS AAKLKRKYWW KNLKMMIILG VICAIILIII IVYFST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.69897
Match:	1sfcA
Description:	Synaptobrevin
Matching Structure (courtesy of the PDB):

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