YRC Public Data Repository - Protein Structure Prediction

Protein:	lsm-4
Organism:	Caenorhabditis elegans
Length:	123 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-4.

Description	E-value	Query Range	Subject Range
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	117.0	[0..2]	[120..1]
gi\|92899039 - gi\|92899039\|gb\|ABE94505.1\| Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core [Medicago tr...	115.0	[0..2]	[120..1]
gi\|47217413 - gi\|47217413\|emb\|CAG00773.1\| unnamed protein product [Tetraodon nigroviridis]	115.0	[0..3]	[96..2]
gi\|91084013 - gi\|91084013\|ref\|XP_975325.1\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated [Tr...	115.0	[0..3]	[120..14]
gi\|82623401, gi\|... - gi\|82623401\|gb\|ABB87115.1\| glycine rich protein-like [Solanum tuberosum], gi\|77745469\|gb\|ABB02633.1\|...	112.0	[0..2]	[120..1]
gi\|13161882 - gi\|13161882\|emb\|CAC33027.1\| Lsm4 protein [Takifugu rubripes]	111.0	[0..2]	[120..1]
gi\|54311207, gi\|... - gi\|54311207\|gb\|AAH84779.1\| LOC495318 protein [Xenopus laevis], gi\|147902804\|ref\|NP_001088454.1\| hypo...	111.0	[0..2]	[97..1]
gi\|39849973, gi\|... - gi\|52078460\|gb\|AAH82491.1\| LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae) [Xenopus tr...	111.0	[0..2]	[97..1]
gi\|116058235 - gi\|116058235\|emb\|CAL53424.1\| glycine rich protein-common tobacco sp\|Q43582\|LSM4_TOBAC Probable U6 sn...	110.0	[0..1]	[88..658]
gi\|109123961 - gi\|109123961\|ref\|XP_001115319.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm4 (Gly...	110.0	[0..2]	[89..124]

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Predicted Domain #1

Region A:
Residues: [1-123]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVLPLSLLKT AQNHPMLVEL KNGETYNGHL KACDSWMNIH LVDVIFTSKD GDKFFKMSEA  60
   61 YVRGSTIKYL RIPETVVDLV KTEVNEVRRQ QQREQSRGRG GGRGGRGGHR GGGGNRGGRG 120
  121 GAR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.045757
Match:	1b34A
Description:	D1 core SNRNP protein
Matching Structure (courtesy of the PDB):

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