YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm5
Organism:	Schizosaccharomyces pombe
Length:	80 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 lsm5.

Description	E-value	Query Range	Subject Range
gi\|50728518 - gi\|50728518\|ref\|XP_416157.1\| PREDICTED: similar to Small nuclear ribonucleoprotein F (snRNP-F) (Sm p...	101.0	[0..1]	[74..205]
gi\|73978207 - gi\|73978207\|ref\|XP_539726.2\| PREDICTED: similar to Small nuclear ribonucleoprotein F (snRNP-F) (Sm p...	101.0	[0..1]	[74..195]
gi\|94388852 - gi\|94388852\|ref\|XP_919276.2\| PREDICTED: similar to Small nuclear ribonucleoprotein F (snRNP-F) (Sm p...	101.0	[0..1]	[74..152]
gi\|5870130 - gi\|5870130\|gb\|AAD54489.1\| small nuclear ribonucleoprotein B' [Homo sapiens]	100.0	[0..3]	[79..1]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	99.0	[0..3]	[79..1]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	99.0	[0..3]	[79..1]

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Predicted Domain #1

Region A:
Residues: [1-80]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSMTILPLEL IDKCIGSNLW VIMKSEREFA GTLVGFDDYV NIVLKDVTEY DTVTGVTEKH  60
   61 SEMLLNGNGM CMLIPGGKPE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	13.0
Match:	2fwkA
Description:	Crystal structure of Cryptosporidium parvum U6 snRNA-associated Sm-like protein LSm5
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
protein binding	0.441246606284457	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: