YRC Public Data Repository - Protein Structure Prediction

Protein:	SMX2
Organism:	Saccharomyces cerevisiae
Length:	77 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 SMX2.

Description	E-value	Query Range	Subject Range
gi\|34902916, gi\|... - gi\|6016876\|dbj\|BAA85219.1\| unnamed protein product [Oryza sativa (japonica cultivar-group)], gi\|3490...	1.0E-18	[1..77]	[1..75]
LSM4_MOUSE - U6 snRNA-associated Sm-like protein LSm4 OS=Mus musculus GN=Lsm4 PE=1 SV=1	3.0E-17	[1..77]	[1..75]
LSM4_FAGSY - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Fagus sylvatica GN=LSM4 PE=2 SV=1	5.0E-17	[1..77]	[1..75]
LSM4_TOBAC - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Nicotiana tabacum PE=2 SV=1	5.0E-17	[1..77]	[1..75]
LSM4_ORYSJ - Probable U6 snRNA-associated Sm-like protein LSm4 OS=Oryza sativa subsp. japonica GN=Os01g0256900 PE... LSM4_ORYSA - Probable U6 snRNA-associated Sm-like protein LSm4 - Oryza sativa (Rice)	7.0E-17	[1..77]	[1..75]
gi\|13161882 - gi\|13161882\|emb\|CAC33027.1\| Lsm4 protein [Takifugu rubripes]	9.0E-17	[1..77]	[1..75]
LSM4_ARATH - Sm-like protein LSM4 OS=Arabidopsis thaliana GN=LSM4 PE=1 SV=1	2.0E-16	[1..77]	[1..75]
tr\|M3W8L3\|M3W8L3... - LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated OS=Felis catus GN=LSM4 PE=4 SV=1 LSM4 - LSM4 homolog, U6 small nuclear RNA associated (S. cerevisiae) gi\|208966682, gi... - gi\|208966682\|dbj\|BAG73355.1\| LSM4 homolog, U6 small nuclear RNA associated [synthetic construct], gi... gi\|73986139, gi\|... - gi\|73986139\|ref\|XP_852362.1\| PREDICTED: similar to U6 snRNA-associated Sm-like protein LSm4 (Glycine... LSM4_BOVIN - U6 snRNA-associated Sm-like protein LSm4 OS=Bos taurus GN=LSM4 PE=2 SV=1	3.0E-16	[1..77]	[1..75]

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Predicted Domain #1

Region A:
Residues: [1-77]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVSTPELKKY MDKKILLNIN GSRKVAGILR GYDIFLNVVL DDAMEINGED PANNHQLGLQ  60
   61 TVIRGNSIIS LEALDAI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	41.512579
Match:	1i81A_
Description:	Archaeal homoheptameric Sm 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	2.44117021254507	bayes_pls_golite062009
protein binding	0.318488892917007	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: