YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM4_ORYSA
Organism:	Oryza sativa
Length:	147 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_ORYSA.

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...	122.0	[0..1]	[147..1]
gi\|38047763 - gi\|38047763\|gb\|AAR09784.1\| similar to Drosophila melanogaster CG17768 [Drosophila yakuba]	121.0	[0..3]	[147..1]
gi\|91084013 - gi\|91084013\|ref\|XP_975325.1\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated [Tr...	118.0	[0..2]	[128..14]
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	118.0	[0..1]	[119..1]
gi\|46100481, gi\|... - gi\|71020725\|ref\|XP_760593.1\| hypothetical protein UM04446.1 [Ustilago maydis 521], ref\|XP_402061.1\| ...	117.0	[0..1]	[146..1]
gi\|116058235 - gi\|116058235\|emb\|CAL53424.1\| glycine rich protein-common tobacco sp\|Q43582\|LSM4_TOBAC Probable U6 sn...	114.0	[0..1]	[89..659]
gi\|115739071, gi... - gi\|115739071\|ref\|XP_783129.2\| PREDICTED: similar to LSM4 homolog, U6 small nuclear RNA associated (S...	113.0	[0..1]	[82..1]
LSM4_FAGSY - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Fagus sylvatica GN=LSM4 PE=2 SV=1	112.0	[0..1]	[136..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	112.0	[0..1]	[147..1]

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Predicted Domain #1

Region A:
Residues: [1-147]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLPLSLLKTA QGHPMLVELK NGETYNGHLV NCDTWMNIHL REVICTSKDG DKFWRMPECY  60
   61 IRGNTIKYLR VPDEVIDKVQ EETSKSRSDR RPPGVGRGRG RGDIGTKPGG RGIGRGQDDG 120
  121 GSKGGGGRGR GGIGGKGGIK GGGRGRG

[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