YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM7_MOUSE
Organism:	Mus musculus
Length:	103 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 LSM7_MOUSE.

Description	E-value	Query Range	Subject Range
gi\|34862278, gi\|... - gi\|34862278\|ref\|XP_343158.1\| PREDICTED: similar to LSM7 homolog, U6 small nuclear RNA associated [Ra...	134.0	[0..1]	[103..1]
gi\|73987505 - gi\|73987505\|ref\|XP_854995.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm7 [Canis f...	132.0	[0..1]	[102..1]
gi\|76622371, gi\|... - gi\|76622371\|ref\|XP_586985.2\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm7 isoform ... LSM7 - LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) gi\|123996969, gi... - gi\|157928972\|gb\|ABW03771.1\| LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) [synthetic... gi\|114674535 - gi\|114674535\|ref\|XP_512258.2\| PREDICTED: U6 snRNA-associated Sm-like protein LSm7 [Pan troglodytes]	132.0	[0..1]	[102..1]
gi\|49522817, gi\|... - gi\|49522817\|gb\|AAH74231.1\| MGC83430 protein [Xenopus laevis], gi\|148231641\|ref\|NP_001086126.1\| MGC83...	131.0	[0..1]	[102..1]
gi\|94733579 - gi\|94733579\|emb\|CAK04599.1\| LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) [Danio rer...	130.0	[0..1]	[102..14]
gi\|47225688 - gi\|47225688\|emb\|CAG08031.1\| unnamed protein product [Tetraodon nigroviridis]	127.0	[0..1]	[102..1]
gi\|53130424, gi\|... - gi\|57530588\|ref\|NP_001006337.1\| LSM7 homolog, U6 small nuclear RNA associated [Gallus gallus], gi\|53...	122.0	[0..1]	[102..14]
gi\|49071362, gi\|... - gi\|71012485\|ref\|XP_758502.1\| hypothetical protein UM02355.1 [Ustilago maydis 521], ref\|XP_399970.1\| ...	118.0	[0..2]	[101..78]

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Predicted Domain #1

Region A:
Residues: [1-103]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MADKEKKKKE SILDLSKYID KTIRVKFQGG REASGILKGF DPLLNLVLDG TMEYMRDPDD  60
   61 QYKLTEDTRQ LGLVVCRGTS VVLICPQDGM EAIPNPFVQQ QDT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.221849
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	2.44117021254507	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: