YRC Public Data Repository - Protein Structure Prediction

Protein:	LSm1-PA
Organism:	Drosophila melanogaster
Length:	137 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-PA.

Description	E-value	Query Range	Subject Range
gi\|66770685 - gi\|66770685\|gb\|AAY54654.1\| IP04948p [Drosophila melanogaster]	127.0	[0..1]	[137..1]
gi\|73979315 - gi\|73979315\|ref\|XP_532806.2\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm1 (Small n...	126.0	[0..4]	[136..87]
LSM1_MOUSE - U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus GN=Lsm1 PE=1 SV=1	121.0	[0..4]	[136..1]
gi\|109504379, gi... - gi\|157820263\|ref\|NP_001102346.1\| LSM1 homolog, U6 small nuclear RNA associated [Rattus norvegicus], ...	120.0	[0..4]	[136..1]
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)	119.0	[0..4]	[136..1]
ENSCJAT00000005029 - null LSM1_BOVIN - U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus GN=LSM1 PE=2 SV=1	118.0	[0..4]	[136..1]
gi\|58332084, gi\|... - gi\|58332084\|ref\|NP_001011191.1\| LSM1 homolog, U6 small nuclear RNA associated [Xenopus (Silurana) tr...	117.0	[0..4]	[136..1]
gi\|148227316, gi... - gi\|76779739\|gb\|AAI06458.1\| MGC131170 protein [Xenopus laevis], gi\|148227316\|ref\|NP_001090109.1\| hypo...	117.0	[0..4]	[136..1]
gi\|58395646, gi\|... - gi\|58395646\|ref\|XP_321407.2\| ENSANGP00000012242 [Anopheles gambiae str. PEST], gi\|55233669\|gb\|EAA009...	116.0	[0..2]	[136..1]

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Predicted Domain #1

Region A:
Residues: [1-137]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDDLNPLAGT AHLLEEVDKK LMVLLRDGRT LIGYLRSVDQ FANLVLQRTI ERIHVGNEYG  60
   61 DIPRGVFIIR GENVVLLGEI DREKEQKLPL KEISVDEILD AQRREQEQRQ EKHRLVSKAL 120
  121 KERGLAVDAN IINEDFC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	14.0
Match:	1b34A
Description:	D1 core SNRNP protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	9.36615441177233	bayes_pls_golite062009
RNA binding	5.81718051012035	bayes_pls_golite062009
nucleic acid binding	2.69031444148163	bayes_pls_golite062009
mRNA binding	2.57166143288861	bayes_pls_golite062009
binding	2.04681172391952	bayes_pls_golite062009

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

Predicted functions: