YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm-7
Organism:	Caenorhabditis elegans
Length:	104 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-7.

Description	E-value	Query Range	Subject Range
gi\|73987505 - gi\|73987505\|ref\|XP_854995.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm7 [Canis f...	116.0	[0..3]	[103..2]
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]	116.0	[0..3]	[103..2]
gi\|34862278, gi\|... - gi\|34862278\|ref\|XP_343158.1\| PREDICTED: similar to LSM7 homolog, U6 small nuclear RNA associated [Ra...	115.0	[0..3]	[103..2]
gi\|49522817, gi\|... - gi\|49522817\|gb\|AAH74231.1\| MGC83430 protein [Xenopus laevis], gi\|148231641\|ref\|NP_001086126.1\| MGC83...	115.0	[0..3]	[103..2]
LSM7_MOUSE - U6 snRNA-associated Sm-like protein LSm7 OS=Mus musculus GN=Lsm7 PE=1 SV=1	114.0	[0..3]	[103..2]
gi\|94733579 - gi\|94733579\|emb\|CAK04599.1\| LSM7 homolog, U6 small nuclear RNA associated (S. cerevisiae) [Danio rer...	113.0	[0..3]	[103..15]
gi\|47225688 - gi\|47225688\|emb\|CAG08031.1\| unnamed protein product [Tetraodon nigroviridis]	111.0	[0..3]	[103..2]
gi\|157756057 - gi\|157756057\|ref\|XP_001670372.1\| Hypothetical protein CBG05961 [Caenorhabditis briggsae AF16] gi\|187034576, gi... - gi\|39593669\|emb\|CAE61961.1\| Hypothetical protein CBG05961 [Caenorhabditis briggsae], gi\|187034576\|em...	110.0	[0..1]	[103..1]
gi\|49071362, gi\|... - gi\|71012485\|ref\|XP_758502.1\| hypothetical protein UM02355.1 [Ustilago maydis 521], ref\|XP_399970.1\| ...	109.0	[0..2]	[102..77]

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Predicted Domain #1

Region A:
Residues: [1-104]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKDEGKRKK ESVVDLTRFL DKEIRVKFQG GREASGVLRG FDQLLNMVLD DCREYLRDPQ  60
   61 NPSVVGDETR QLGLIVARGT AITVVSPADG LEQIANPFAT QEEE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.522879
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: