YRC Public Data Repository - Protein Structure Prediction

Protein:	rnp-4
Organism:	Caenorhabditis elegans
Length:	142 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 rnp-4.

Description	E-value	Query Range	Subject Range
gi\|82802757 - gi\|82802757\|gb\|ABB92429.1\| PABP3 [Hylobates lar]	141.0	[0..2]	[142..121]
gi\|47217896 - gi\|47217896\|emb\|CAG05018.1\| unnamed protein product [Tetraodon nigroviridis]	139.0	[0..2]	[142..108]
gi\|12855391, gi\|... - gi\|26325704\|dbj\|BAC26606.1\| unnamed protein product [Mus musculus], gi\|255652857\|ref\|NP_001157308.1\|...	139.0	[0..2]	[142..121]
gi\|27730131, gi\|... - gi\|27730131\|ref\|XP_217884.1\| PREDICTED: similar to polyA binding protein, cytoplasmic homolog [Rattu...	139.0	[0..2]	[142..121]
gi\|73974158 - gi\|73974158\|ref\|XP_848864.1\| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...	139.0	[0..2]	[142..121]
gi\|82802753 - gi\|82802753\|gb\|ABB92427.1\| PABP3 [Gorilla gorilla]	139.0	[0..2]	[142..121]
PABP2_ARATH - Polyadenylate-binding protein 2 OS=Arabidopsis thaliana GN=PAB2 PE=1 SV=1	139.0	[0..2]	[142..146]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDNEVEMED VVANAERSRG RGLAQSRNRE RITYDVVDEE SSATSGAPQR SVEGWIVFVT  60
   61 NIHEEATEDD VHDKFSEYGK IKNIHLNLDR RTGFLKGYAL VEYETQKEAN EAIDQSNDTD 120
  121 LLGQNVKVDW CFVKGKKTSG KR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	20.39794
Match:	1hl6A
Description:	CG8781 protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.10590295737522	bayes_pls_golite062009
nucleic acid binding	1.43479844212501	bayes_pls_golite062009
RNA binding	0.426544317458995	bayes_pls_golite062009
protein binding	0.303849616374798	bayes_pls_golite062009

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

Predicted functions: