YRC Public Data Repository - Protein Structure Prediction

Protein:	snb-1
Organism:	Caenorhabditis elegans
Length:	109 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 snb-1.

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]	143.0	[0..16]	[107..126]
gi\|55276718 - gi\|55276718\|gb\|AAV49990.1\| putative synaptobrevin/VAMP [Hordeum vulgare subsp. vulgare]	130.0	[0..16]	[109..118]
VA727_ARATH - Vesicle-associated membrane protein 727 OS=Arabidopsis thaliana GN=VAMP727 PE=2 SV=1	128.0	[0..17]	[108..143]
gi\|29840934 - gi\|29840934\|gb\|AAP05935.1\| SJCHGC01984 protein [Schistosoma japonicum]	124.0	[0..5]	[108..6]
gi\|50752072 - gi\|50752072\|ref\|XP_422640.1\| PREDICTED: similar to vesicle associated membrane protein VAMP-2 [Gallu...	122.0	[0..4]	[97..10]
gi\|2660907, gi\|1... - gi\|2660907\|gb\|AAB88137.1\| synaptobrevin [Xenopus laevis], gi\|148235941\|ref\|NP_001080943.1\| vesicle-a...	120.0	[0..13]	[106..19]
SYB_TETCF - Synaptobrevin OS=Tetronarce californica PE=2 SV=1	120.0	[0..2]	[91..11]
gi\|68357982 - gi\|68357982\|ref\|XP_692479.1\| PREDICTED: similar to Vesicle-associated membrane protein 1 (VAMP-1) (S...	119.0	[0..18]	[106..72]

Back

Predicted Domain #1

Region A:
Residues: [1-109]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDAQGDAGAQ GGSQGGPRPS NKRLQQTQAQ VDEVVGIMKV NVEKVLERDQ KLSQLDDRAD  60
   61 ALQEGASQFE KSAATLKRKY WWKNIKMMII MCAIVVILII IIVLWAGGK

[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