YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM4_FAGSY
Organism:	Fagus sylvatica
Length:	148 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_FAGSY.

Description	E-value	Query Range	Subject Range
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	126.0	[0..1]	[119..1]
gi\|47217413 - gi\|47217413\|emb\|CAG00773.1\| unnamed protein product [Tetraodon nigroviridis]	122.0	[0..2]	[143..2]
gi\|82623401, gi\|... - gi\|82623401\|gb\|ABB87115.1\| glycine rich protein-like [Solanum tuberosum], gi\|77745469\|gb\|ABB02633.1\|...	121.0	[0..1]	[118..1]
gi\|25012547 - gi\|25012547\|gb\|AAN71375.1\| RE35747p [Drosophila melanogaster]	121.0	[0..1]	[146..1]
gi\|66807347, gi\|... - gi\|66807347\|ref\|XP_637396.1\| LSM (like-Sm) domain-containing protein [Dictyostelium discoideum AX4],... LSM4_DICDI - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Dictyostelium discoideum GN=lsm4 PE=3 SV=1	121.0	[0..1]	[146..1]
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	120.0	[0..1]	[95..1]
gi\|13161882 - gi\|13161882\|emb\|CAC33027.1\| Lsm4 protein [Takifugu rubripes]	120.0	[0..1]	[142..1]
gi\|91084013 - gi\|91084013\|ref\|XP_975325.1\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated [Tr...	119.0	[0..2]	[129..14]
gi\|115739071, gi... - gi\|115739071\|ref\|XP_783129.2\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated (S...	119.0	[0..1]	[86..1]

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Predicted Domain #1

Region A:
Residues: [1-148]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLPLSLLKTA QGHPMLVELK SGETYNGHLV NCDTWMNIHL REVICTSKDG DRFWRMPDCY  60
   61 IRGNTIKYLR VPDEVIDKVQ EETKSRADRK PPGVGRGRGR GREEGSGARQ VRGAGRDVMM 120
  121 QVAKAWVEVR GRGASAGKSG GRGGRGRG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.0
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