YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm-5
Organism:	Caenorhabditis elegans
Length:	91 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 lsm-5.

Description	E-value	Query Range	Subject Range
gi\|5870130 - gi\|5870130\|gb\|AAD54489.1\| small nuclear ribonucleoprotein B' [Homo sapiens]	97.0	[0..10]	[90..1]
gi\|47211209 - gi\|47211209\|emb\|CAF90166.1\| unnamed protein product [Tetraodon nigroviridis]	97.0	[0..3]	[90..1]
gi\|86438323 - gi\|86438323\|gb\|AAI12635.1\| SNRPB protein [Bos taurus]	94.0	[0..10]	[90..1]
gi\|112305, gi\|206694 - gi\|206694\|gb\|AAA42059.1\| snRNP-associated polypeptide N, pir\|\|A35448 small nuclear ribonucleoprotein...	94.0	[0..10]	[90..1]
gi\|50732968 - gi\|50732968\|ref\|XP_418849.1\| PREDICTED: similar to LSM5 homolog, U6 small nuclear RNA associated [Ga...	94.0	[0..1]	[89..75]
gi\|114656016 - gi\|114656016\|ref\|XP_523182.2\| PREDICTED: hypothetical protein [Pan troglodytes]	93.0	[0..5]	[90..33]

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Predicted Domain #1

Region A:
Residues: [1-91]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATSTSTNPN TLLPLELIDK CIGSKIWVIM KNDKEIVGTL TGFDDYVNMV LEDVVEYENT  60
   61 ADGKRMTKLD TILLNGNHIT MLVPGGEGPE I

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	13.221849
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: