YRC Public Data Repository - Protein Structure Prediction

Protein:	smb1
Organism:	Schizosaccharomyces pombe
Length:	147 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 smb1.

Description	E-value	Query Range	Subject Range
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1	154.0	[0..3]	[139..6]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	153.0	[0..3]	[138..6]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	152.0	[0..3]	[139..6]
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	151.0	[0..3]	[138..43]
gi\|50540540, gi\|... - gi\|8099650\|gb\|AAF72188.1\| snRNP-associated protein; SmB [Danio rerio], gi\|50540540\|ref\|NP_991230.1\| ...	151.0	[0..3]	[139..6]
gi\|114680545 - gi\|114680545\|ref\|XP_001155793.1\| PREDICTED: hypothetical protein LOC470014 isoform 1 [Pan troglodyte... gi\|119631003, gi... - gi\|45708426\|gb\|AAH03530.1\| SNRPB protein [Homo sapiens], gi\|194375339\|dbj\|BAG62782.1\| unnamed protei... gi\|109092660 - gi\|109092660\|ref\|XP_001113926.1\| PREDICTED: small nuclear ribonucleoprotein polypeptides B and B1 is...	150.0	[0..3]	[139..6]
RSMB_MOUSE - Small nuclear ribonucleoprotein-associated protein B OS=Mus musculus GN=Snrpb PE=1 SV=1 gi\|54035580 - gb\|AAH84002.1\| Unknown (protein for MGC:98150) [Xenopus laevis] gi\|146327314, gi... - gi\|147898161\|gb\|AAI40305.1\| Small nuclear ribonucleoprotein B [synthetic construct], gi\|146327314\|gb...	148.0	[0..3]	[139..6]
gi\|114680543 - gi\|114680543\|ref\|XP_001156133.1\| PREDICTED: hypothetical protein LOC470014 isoform 2 [Pan troglodyte... gi\|149733143 - gi\|149733143\|ref\|XP_001497520.1\| PREDICTED: similar to Small nuclear ribonucleoprotein-associated pr... gi\|73991485 - gi\|73991485\|ref\|XP_542930.2\| PREDICTED: similar to Small nuclear ribonucleoprotein associated protei... gi\|109092658 - gi\|109092658\|ref\|XP_001114065.1\| PREDICTED: small nuclear ribonucleoprotein polypeptides B and B1 is... gi\|149023280, gi... - gi\|189339196\|ref\|NP_599185.1\| small nuclear ribonucleoprotein polypeptide B [Rattus norvegicus], gi\|... gi\|208967442 - gi\|208967442\|dbj\|BAG73735.1\| small nuclear ribonucleoprotein polypeptides B and B1 [synthetic constr... gi\|4507125, gi\|5... - gi\|6018503\|emb\|CAB57867.1\| snRNP B protein [Homo sapiens], gi\|5441443\|emb\|CAB46714.1\| small nuclear ...	148.0	[0..3]	[139..6]

Back

Predicted Domain #1

Region A:
Residues: [1-147]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGTTKMVSLL NHSLNVTTKD GRTFVGQLLA FDGFMNLVLS DCQEYRHIKK QNVPSNSVYE  60
   61 EKRMLGLVIL RGEFIVSLSV QGPPPMDPSM RGSLLSGPGV ARPAGRGIPL GQAPVGLAGP 120
  121 VRGVGYTAPP PPAGFGRGAP PPGFRPV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.154902
Match:	1d3bB
Description:	B core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	9.36615441177233	bayes_pls_golite062009
RNA binding	5.81718051012035	bayes_pls_golite062009
nucleic acid binding	2.69031444148163	bayes_pls_golite062009
mRNA binding	2.57166143288861	bayes_pls_golite062009
binding	2.04681172391952	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: