YRC Public Data Repository - Protein Structure Prediction

Protein:	RSMB_MOUSE
Organism:	Mus musculus
Length:	231 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 RSMB_MOUSE.

Description	E-value	Query Range	Subject Range
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	139.0	[0..1]	[212..38]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	139.0	[0..1]	[214..1]
gi\|5870129 - gi\|5870129\|gb\|AAD54488.1\| small nuclear ribonucleoprotein B [Homo sapiens]	137.0	[0..1]	[211..1]
gi\|57045593, gi\|... - gi\|73950980\|ref\|XP_848476.1\| PREDICTED: similar to small nuclear ribonucleoparticle-associated prote... gi\|149691049 - gi\|149691049\|ref\|XP_001492752.1\| PREDICTED: similar to small nuclear ribonucleoprotein polypeptide N...	133.0	[0..1]	[212..1]
RSMB_MACEU - Small nuclear ribonucleoprotein-associated protein B' OS=Macropus eugenii GN=SNRPB PE=2 SV=1	133.0	[0..1]	[167..1]
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...	132.0	[0..1]	[168..1]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	132.0	[0..1]	[168..1]

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Predicted Domain #1

Region A:
Residues: [1-93]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTVGKSSKML QHIDYRMRCI LQDGRIFIGT FKAFDKHMNL ILCDCDEFRK IKPKNSKQAE  60
   61 REEKRVLGLV LLRGENLVSM TVEGPPPKDT GIA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.69897
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

Predicted Domain #2

Region A:
Residues: [94-231]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RVPLAGAAGG PGIGRAAGRG IPAGVPMPQA PAGLAGPVRG VGGPSQQVMT PQGRGTVAAA  60
   61 AAAATASIAG APTQYPPGRG GPPPPMGRGA PPPGMMGPPP GMRPPMGPPM GLPPGRGTPM 120
  121 GMPPPGMRPP PPGMRGLL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.0
Match:	1y0fB
Description:	No description for 1y0fB was found.

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: