YRC Public Data Repository - Protein Structure Prediction

Protein:	CE01966
Organism:	Caenorhabditis elegans
Length:	279 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 CE01966.

Description	E-value	Query Range	Subject Range
gi\|160773414, gi... - gi\|47086745\|ref\|NP_997812.1\| vesicle-associated membrane protein, associated protein B and C [Danio ... gi\|166158015, gi... - gi\|166158015\|ref\|NP_001107417.1\| hypothetical protein LOC100135257 [Xenopus (Silurana) tropicalis], ...	190.0	[0..23]	[245..5]
gi\|11288305, gi\|... - gi\|7329670\|emb\|CAB82664.1\| putative protein [Arabidopsis thaliana], pir\|\|T47871 hypothetical protein...	186.0	[0..21]	[230..18]
gi\|73992635 - gi\|73992635\|ref\|XP_534466.2\| PREDICTED: similar to Vesicle-associated membrane protein-associated pr...	185.0	[0..22]	[244..4]
gi\|29387053, gi\|... - gi\|34785640\|gb\|AAH57123.1\| Vesicle-associated membrane protein, associated protein B and C [Mus musc...	183.0	[0..22]	[244..4]
gi\|109091460, gi... - gi\|109091460\|ref\|XP_001085791.1\| PREDICTED: VAMP (vesicle-associated membrane protein)-associated pr... CCDS33498.1_1 - null gi\|60655589, gi\|... - gi\|60655589\|gb\|AAX32358.1\| VAMP-associated protein B and C [synthetic construct], gi\|60655587\|gb\|AAX... gi\|90080367 - gi\|90080367\|dbj\|BAE89665.1\| unnamed protein product [Macaca fascicularis] gi\|114682798, gi... - gi\|114682798\|ref\|XP_001135464.1\| PREDICTED: VAMP-associated protein B/C isoform 3 [Pan troglodytes],... VAPB - VAMP (vesicle-associated membrane protein)-associated protein B and C	183.0	[0..22]	[244..4]
gi\|109091456 - gi\|109091456\|ref\|XP_001085676.1\| PREDICTED: VAMP (vesicle-associated membrane protein)-associated pr...	183.0	[0..22]	[244..4]
gi\|76633047 - gi\|76633047\|ref\|XP_581024.2\| PREDICTED: similar to Vesicle-associated membrane protein-associated pr...	183.0	[0..22]	[244..4]

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Predicted Domain #1

Region A:
Residues: [1-155]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METKQSMDYI IKGPGGTTKP IAPKLITVNP LNIIIESNSG QIDKTLELKN IYPCRIAFRV  60
   61 RTNGPTRYTV CPSKGFLSNG EKVAIQITLI DGTKYQSNHQ FIVQAMPSPG DFADRKFIWK 120
  121 QPNFLGIFTN TRVKTMRPAQ SLPKSNPKSP AKVST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	31.0
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: [156-279]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PTDSGMSSPV ASSESLVTPS VPSWSKSPSS PIDHGKFAEN INDLSVQVKK AIDEKNTRTS  60
   61 EMVSVVNQIK AVEVDLDRQA QLVNELSERV KRGEIQYSNL VMHERSLRVE LGRLKNNEAE 120
  121 SIGQ

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.483	N/A	N/A	b.40.4	Nucleic acid-binding proteins
View	Download	0.390	N/A	N/A	a.24.14	FAT domain of focal adhesion kinase
View	Download	0.341	N/A	N/A	a.29.5	alpha-ketoacid dehydrogenase kinase, N-terminal domain
View	Download	0.320	N/A	N/A	b.40.4	Nucleic acid-binding proteins
View	Download	0.294	N/A	N/A	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore

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