YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM4_TOBAC
Organism:	Nicotiana tabacum
Length:	146 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 LSM4_TOBAC.

Description	E-value	Query Range	Subject Range
FBpp0293054, CG1... - This gene is referred to in FlyBase by the symbol Dmel\CG17768 (CG17768, FBgn0032240). It is a prote...	131.0	[0..1]	[146..1]
gi\|38047763 - gi\|38047763\|gb\|AAR09784.1\| similar to Drosophila melanogaster CG17768 [Drosophila yakuba]	128.0	[0..3]	[146..1]
gi\|47217413 - gi\|47217413\|emb\|CAG00773.1\| unnamed protein product [Tetraodon nigroviridis]	121.0	[0..2]	[140..2]
gi\|82623401, gi\|... - gi\|82623401\|gb\|ABB87115.1\| glycine rich protein-like [Solanum tuberosum], gi\|77745469\|gb\|ABB02633.1\|...	120.0	[0..1]	[121..1]
LSM4_FAGSY - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Fagus sylvatica GN=LSM4 PE=2 SV=1	120.0	[0..1]	[136..1]
gi\|92899039 - gi\|92899039\|gb\|ABE94505.1\| Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core [Medicago tr...	118.0	[0..1]	[121..1]
gi\|116058235 - gi\|116058235\|emb\|CAL53424.1\| glycine rich protein-common tobacco sp\|Q43582\|LSM4_TOBAC Probable U6 sn...	118.0	[0..1]	[91..659]
gi\|118790653, gi... - gi\|118790653\|ref\|XP_318746.3\| AGAP009687-PA [Anopheles gambiae str. PEST], gi\|116118049\|gb\|EAA14138.... AGAP009687-PA - U6 snRNA-associated Sm-like protein LSm4\|protein_coding\|3R:38670340:38674295:1\|gene:AGAP009687	116.0	[0..1]	[92..1]
gi\|115739071, gi... - gi\|115739071\|ref\|XP_783129.2\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated (S...	116.0	[0..1]	[86..1]

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Predicted Domain #1

Region A:
Residues: [1-146]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLPLSLLKTA QGHPMLVELK NGETYNGHLV NCDTWMNIHL REVICTSKDG DRFWRMPECY  60
   61 VRGNTIKYLR VPDEVIDKVQ EEAKSRTDRK PPGVGRARAR GGRDDSAVGR QPKGIGRGMD 120
  121 DGGAKGRGKG GPSAKSGGRG GGRGRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.69897
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