YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|88192891, gi\|...
Organism:	Homo sapiens
Length:	125 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 gi|88192891, gi|....

Description	E-value	Query Range	Subject Range
gi\|34785490, gi\|... - gi\|34785490\|gb\|AAH57709.1\| MGC68842 protein [Xenopus laevis], gi\|148225624\|ref\|NP_001079940.1\| hypot...	122.0	[0..1]	[125..1]
gi\|89267868, gi\|... - gi\|89267868\|emb\|CAJ82723.1\| splicing factor 3B, 14 kDa subunit (sf3b14) [Xenopus tropicalis], gi\|628...	119.0	[0..1]	[125..1]
gi\|47222698 - gi\|47222698\|emb\|CAG00132.1\| unnamed protein product [Tetraodon nigroviridis]	119.0	[0..1]	[125..1]
gi\|76698314 - gi\|76698314\|ref\|XP_873644.1\| PREDICTED: similar to Pre-mRNA branch site protein p14 (SF3B 14 kDa sub...	119.0	[0..1]	[125..1]
gi\|88192897, gi\|... - gi\|88192899\|pdb\|2F9J\|B Chain B, 3.0 Angstrom Resolution Structure Of A Y22m Mutant Of The Spliceosom...	117.0	[0..1]	[125..1]
gi\|94373120 - gi\|94373120\|ref\|XP_982196.1\| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein A3 [Mus m...	116.0	[0..11]	[124..27]
gi\|114582052 - gi\|114582052\|ref\|XP_525973.2\| PREDICTED: similar to Heterogeneous nuclear ribonucleoprotein A3 [Pan ...	114.0	[0..11]	[124..69]

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Predicted Domain #1

Region A:
Residues: [1-125]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAMQAAKRAN IRLPPEVNRI LYIRNLPYKI TAEEMYDIFG KYGPIRQIRV GNTPETRGTA  60
   61 YVVYEDIFDA KNACDHLSGF NVCNRYLVVL YYNANRAFQK MDTKKKEEQL KLLKEKYGIN 120
  121 TDPPK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.154902
Match:	2f9dA
Description:	2.5 angstrom resolution structure of the spliceosomal protein p14 bound to region of SF3b155
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	4.19321059609759	bayes_pls_golite062009
mRNA binding	3.12182789118099	bayes_pls_golite062009
binding	2.59476451386603	bayes_pls_golite062009
nucleic acid binding	2.4424340402417	bayes_pls_golite062009
	1.49638737900598	bayes_pls_golite062009
protein binding	1.0739686189111	bayes_pls_golite062009
single-stranded RNA binding	1.02921658232313	bayes_pls_golite062009
poly-pyrimidine tract binding	0.813292993207772	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: