YRC Public Data Repository - Protein Structure Prediction

Protein:	smd3
Organism:	Schizosaccharomyces pombe
Length:	97 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 smd3.

Description	E-value	Query Range	Subject Range
LSM4_MOUSE - U6 snRNA-associated Sm-like protein LSm4 OS=Mus musculus GN=Lsm4 PE=1 SV=1	111.0	[0..3]	[97..2]
gi\|47217413 - gi\|47217413\|emb\|CAG00773.1\| unnamed protein product [Tetraodon nigroviridis]	108.0	[0..3]	[97..2]
gi\|46123175, gi\|... - gi\|46123175\|ref\|XP_386141.1\| hypothetical protein FG05965.1 [Gibberella zeae PH-1], gi\|42552767\|gb\|E...	105.0	[0..1]	[96..255]
gi\|50732862 - gi\|50732862\|ref\|XP_418799.1\| PREDICTED: similar to KIAA0851 protein [Gallus gallus]	104.0	[0..6]	[92..652]
gi\|109123961 - gi\|109123961\|ref\|XP_001115319.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm4 (Gly...	103.0	[0..3]	[82..125]
gi\|92899039 - gi\|92899039\|gb\|ABE94505.1\| Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core [Medicago tr...	103.0	[0..3]	[90..2]
gi\|116058235 - gi\|116058235\|emb\|CAL53424.1\| glycine rich protein-common tobacco sp\|Q43582\|LSM4_TOBAC Probable U6 sn...	102.0	[0..1]	[88..658]
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	102.0	[0..3]	[96..2]
gi\|13161882 - gi\|13161882\|emb\|CAC33027.1\| Lsm4 protein [Takifugu rubripes]	102.0	[0..3]	[96..2]
gi\|114606503 - gi\|114606503\|ref\|XP_518362.2\| PREDICTED: similar to snRNP core Sm protein homolog Sm-X5 [Pan troglod...	101.0	[0..3]	[94..83]

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Predicted Domain #1

Region A:
Residues: [1-97]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLCIKLLHE TQGHIVTMEL ENGSTYRGKL IEAEDNMNCQ MRDISVTARD GRVSHLDQVY  60
   61 IRGSHIRFLI VPDMLRNAPM FKVGPGRSVP LPTRGRR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.09691
Match:	1d3bA
Description:	D3 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