YRC Public Data Repository - Protein Structure Prediction

Protein:	SNRPB
Organism:	Homo sapiens
Length:	240 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 SNRPB.

Description	E-value	Query Range	Subject Range
gi\|113461768, gi... - gi\|113461768\|ref\|YP_719837.1\| large adhesin [Haemophilus somnus 129PT], gi\|112823811\|gb\|ABI25900.1\| ...	4.0E-35	[76..239]	[1451..1627]
gi\|23128642, gi\|... - gi\|23128642\|ref\|ZP_00110483.1\| hypothetical protein Npun02007810 [Nostoc punctiforme PCC 73102], gi\|...	8.0E-32	[78..240]	[388..559]
CO6A2_CHICK - Collagen alpha-2(VI) chain OS=Gallus gallus GN=COL6A2 PE=2 SV=1	1.0E-26	[82..239]	[425..573]
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	1.0E-25	[1..212]	[38..249]
gi\|91083753 - gi\|91083753\|ref\|XP_971465.1\| PREDICTED: similar to Tubulin tyrosine ligase-like protein 2 (Testis-sp...	1.0E-25	[86..239]	[348..529]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	8.0E-25	[1..212]	[1..212]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	9.0E-25	[1..168]	[1..168]
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...	2.0E-24	[1..168]	[1..168]
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...	4.0E-24	[1..212]	[1..212]

Back

Predicted Domain #1

Region A:
Residues: [1-84]

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

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.045757
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: [85-240]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PPPKDTGIAR VPLAGAAGGP GIGRAAGRGI PAGVPMPQAP AGLAGPVRGV GGPSQQVMTP  60
   61 QGRGTVAAAA AAATASIAGA PTQYPPGRGG PPPPMGRGAP PPGMMGPPPG MRPPMGPPMG 120
  121 IPPGRGTPMG MPPPGMRPPP PGMRGPPPPG MRPPRP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.69897
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: