YRC Public Data Repository - Protein Structure Prediction

Protein:	ncbp-2
Organism:	Caenorhabditis elegans
Length:	154 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 ncbp-2.

Description	E-value	Query Range	Subject Range
gi\|110749772 - gi\|110749772\|ref\|XP_394166.3\| PREDICTED: similar to found in neurons CG4396-PA [Apis mellifera]	139.0	[0..20]	[153..10]
gi\|89266927 - gi\|89266927\|emb\|CAJ82281.1\| ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen ...	139.0	[0..24]	[153..54]
gi\|62739311 - gi\|62739311\|gb\|AAH94189.1\| Elavl2-a protein [Xenopus laevis]	139.0	[0..24]	[153..24]
gi\|73971067 - gi\|73971067\|ref\|XP_865045.1\| PREDICTED: similar to ELAV-like 2 isoform 3 isoform 2 [Canis familiaris... gi\|157928304, gi... - gi\|157928304\|gb\|ABW03448.1\| ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen ... gi\|109111348, gi... - gi\|109111352\|ref\|XP_001106502.1\| PREDICTED: similar to ELAV-like 2 isoform 3 isoform 5 [Macaca mulat... ENSPTRT00000045482 - null gi\|119578986, gi... - gi\|55957841\|emb\|CAI13376.1\| ELAV (embryonic lethal, abnormal vision, Drosophila)-like 2 (Hu antigen ...	138.0	[0..24]	[153..26]
gi\|34869592, gi\|... - gi\|62649218\|ref\|XP_579702.1\| PREDICTED: hypothetical protein XP_579702 [Rattus norvegicus], ref\|XP_3... gi\|123857818, gi... - gi\|74206254\|dbj\|BAE24886.1\| unnamed protein product [Mus musculus], gi\|123858466\|emb\|CAM16694.1\| ELA...	138.0	[0..24]	[153..26]
gi\|114624146 - gi\|114624146\|ref\|XP_520515.2\| PREDICTED: similar to ELAV (embryonic lethal, abnormal vision, Drosoph...	138.0	[0..24]	[153..168]

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Predicted Domain #1

Region A:
Residues: [1-154]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVFDPRTLDN PKEISAYRDQ RYQGTVRDQE TALRTSCTLY VGNLSYYTKE DQVYELFGRA  60
   61 GDVRRVIMGL DRFKKTPCGF CFVEYYTRED AELALQNISN TRMDDRVIRA DWDAGFIEGR 120
  121 QYGRGKHGGQ VRDEYRKDYD PERGGYNRAI AQKG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.522879
Match:	1h2tZ
Description:	CBP20, 20KDa nuclear cap-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	6.73097473547076	bayes_pls_golite062009
	6.62953239642182	bayes_pls_golite062009
RNA cap binding	5.43390507836051	bayes_pls_golite062009
mRNA binding	5.29759606920196	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.64400841800969	bayes_pls_golite062009
snRNA binding	3.28448936696877	bayes_pls_golite062009
poly-pyrimidine tract binding	3.11990160533699	bayes_pls_golite062009
single-stranded RNA binding	2.93798024346416	bayes_pls_golite062009
U1 snRNA binding	2.26303528058407	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
protein binding	1.12215421354121	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
transporter activity	0.628672636801176	bayes_pls_golite062009
mRNA 3'-UTR binding	0.591700155096213	bayes_pls_golite062009
transmembrane transporter activity	0.505106991526286	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009
substrate-specific transporter activity	0.182749906784328	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.096231856558874	bayes_pls_golite062009
pyrophosphatase activity	0.059732432409948	bayes_pls_golite062009
snoRNA binding	0.0568636182001701	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.0510390778764699	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.0484248928275733	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: