YRC Public Data Repository - Protein Structure Prediction

Protein:	LSM1_MOUSE
Organism:	Mus musculus
Length:	133 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 LSM1_MOUSE.

Description	E-value	Query Range	Subject Range
gi\|73979315 - gi\|73979315\|ref\|XP_532806.2\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm1 (Small n...	159.0	[0..1]	[133..87]
CCDS6103.1_1 - null ENSOCUP000000132... - pep:novel scaffold:oryCun2:GL018706:5254966:5267274:1 gene:ENSOCUG00000015399 transcript:ENSOCUT0000... gi\|114619705 - gi\|114619705\|ref\|XP_001170479.1\| PREDICTED: Lsm1 protein [Pan troglodytes] tr\|M3X6B3\|M3X6B3... - LSM1 homolog, mRNA degradation associated OS=Felis catus GN=LSM1 PE=4 SV=1 LSM1 - LSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)	148.0	[0..1]	[133..1]
gi\|109504379, gi... - gi\|157820263\|ref\|NP_001102346.1\| LSM1 homolog, U6 small nuclear RNA associated [Rattus norvegicus], ...	146.0	[0..1]	[133..1]
ENSCJAT00000005029 - null LSM1_BOVIN - U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus GN=LSM1 PE=2 SV=1	146.0	[0..1]	[133..1]
gi\|58332084, gi\|... - gi\|58332084\|ref\|NP_001011191.1\| LSM1 homolog, U6 small nuclear RNA associated [Xenopus (Silurana) tr...	143.0	[0..1]	[133..1]
gi\|148227316, gi... - gi\|76779739\|gb\|AAI06458.1\| MGC131170 protein [Xenopus laevis], gi\|148227316\|ref\|NP_001090109.1\| hypo...	143.0	[0..1]	[133..1]
gi\|47209042 - gi\|47209042\|emb\|CAF91744.1\| unnamed protein product [Tetraodon nigroviridis]	140.0	[0..1]	[133..1]
gi\|220679348, gi... - gi\|57525910\|ref\|NP_001003551.1\| Lsm1 protein [Danio rerio], gi\|50417210\|gb\|AAH78334.1\| Zgc:101136 [D...	137.0	[0..1]	[133..1]
gi\|157136994, gi... - gi\|157136994\|ref\|XP_001656966.1\| Sm protein G, putative [Aedes aegypti], gi\|108884233\|gb\|EAT48458.1\|...	124.0	[0..2]	[133..29]
gi\|109086170 - gi\|109086170\|ref\|XP_001090589.1\| PREDICTED: LSM1 homolog, U6 small nuclear RNA associated (S. cerevi...	122.0	[0..1]	[133..1]

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Predicted Domain #1

Region A:
Residues: [1-133]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNYMPGTASL IEDIDKKHLV LLRDGRTLIG FLRSIDQFAN LVLHQTVERI HVGKKYGDIP  60
   61 RGIFVVRGEN VVLLGEIDLE KESDTPLQQV SIEEILEEQR VQQQTRLEAE KLKVQTLKDR 120
  121 GLSIPRADTL DEY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.69897
Match:	1n9rA
Description:	Small nuclear ribonucleoprotein F, Smf
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