YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm6
Organism:	Schizosaccharomyces pombe
Length:	75 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 lsm6.

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...	102.0	[0..1]	[71..207]
gi\|73978207 - gi\|73978207\|ref\|XP_539726.2\| PREDICTED: similar to Small nuclear ribonucleoprotein F (snRNP-F) (Sm p...	102.0	[0..1]	[71..197]
gi\|94388852 - gi\|94388852\|ref\|XP_919276.2\| PREDICTED: similar to Small nuclear ribonucleoprotein F (snRNP-F) (Sm p...	102.0	[0..1]	[71..154]
gi\|33876795 - gi\|33876795\|gb\|AAH02505.2\| SNRPF protein [Homo sapiens]	100.0	[0..1]	[71..48]
gi\|74353864 - gi\|74353864\|gb\|AAI02193.1\| SNRPF protein [Bos taurus]	100.0	[0..1]	[71..36]
gi\|495021 - gi\|495021\|gb\|AAA28445.1\| membrane-associated protein [Drosophila melanogaster]	97.0	[0..1]	[75..5]

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Predicted Domain #1

Region A:
Residues: [1-75]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSSPNEFLN KVIGKKVLIR LSSGVDYKGI LSCLDGYMNL ALERTEEYVN GKKTNVYGDA  60
   61 FIRGNNVLYV SALDD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.09691
Match:	1i4kA
Description:	Archaeal homoheptameric Sm 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	2.44117021254507	bayes_pls_golite062009
protein binding	0.318488892917007	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: