YRC Public Data Repository - Protein Structure Prediction

Protein:	SPBC3D6.08c
Organism:	Schizosaccharomyces pombe
Length:	140 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 SPBC3D6.08c.

Description	E-value	Query Range	Subject Range
gi\|151945004 - gi\|151945004\|gb\|EDN63259.1\| conserved protein [Saccharomyces cerevisiae YJM789] gi\|190409383 - gi\|190409383\|gb\|EDV12648.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a] LSM1_YEAST - Sm-like protein LSm1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LSM1 PE=1 SV=1 LSM1 - Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and L...	116.0	[0..10]	[140..40]
gi\|44984196 - gi\|44984196\|gb\|AAS53162.1\| AFL212Cp [Ashbya gossypii ATCC 10895] gi\|44984196, gi\|... - gi\|45198309\|ref\|NP_985338.1\| AFL212Cp [Ashbya gossypii ATCC 10895], gi\|44984196\|gb\|AAS53162.1\| AFL21...	115.0	[0..10]	[140..20]
gi\|113564476, gi... - gi\|222628944\|gb\|EEE61076.1\| hypothetical protein OsJ_14946 [Oryza sativa Japonica Group], gi\|1154586... gi\|218194932 - gi\|218194932\|gb\|EEC77359.1\| hypothetical protein OsI_16058 [Oryza sativa Indica Group]	114.0	[0..1]	[125..1]
gi\|159129580 - gi\|159129580\|gb\|EDP54694.1\| small nuclear ribonucleoprotein (LSM1), putative [Aspergillus fumigatus ... gi\|71001662, gi\|... - gi\|71001662\|ref\|XP_755512.1\| small nuclear ribonucleoprotein (LSM1) [Aspergillus fumigatus Af293], g...	111.0	[0..9]	[140..46]
gi\|46098907, gi\|... - gi\|71017769\|ref\|XP_759115.1\| hypothetical protein UM02968.1 [Ustilago maydis 521], ref\|XP_400583.1\| ...	109.0	[0..5]	[140..7]
gi\|46438093, gi\|... - gi\|68478982\|ref\|XP_716425.1\| potential mRNA decapping complex component Lsm1 [Candida albicans SC531... orf19.7290 - orf19.7290 CGDID:CAL0004008 Assembly 19, Contig19-2511 (15989, 15486) CDS, reverse complemented, tra...	108.0	[0..16]	[140..37]
gi\|114196177, gi... - gi\|115383876\|ref\|XP_001208485.1\| hypothetical protein ATEG_01120 [Aspergillus terreus NIH2624], gi\|1...	107.0	[0..1]	[140..29]
gi\|66770685 - gi\|66770685\|gb\|AAY54654.1\| IP04948p [Drosophila melanogaster]	107.0	[0..7]	[136..4]
LSM1A_ARATH - Sm-like protein LSM1A OS=Arabidopsis thaliana GN=LSM1A PE=1 SV=1	106.0	[0..13]	[125..12]

Back

Predicted Domain #1

Region A:
Residues: [1-140]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQATQIIPF TTSGSLVDYV DRKVIVVLRD GKKLIGILRS FDQFANLMLQ YTIERIYVDD  60
   61 MYGDIDRGVY IVRGENVVLL GELDLDKEYD AVKQLRRMPA EELYPLAKLH EEEKKKNIRE 120
  121 KGKYLHSVGF SVDGGHDDLY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.69897
Match:	1d3bB
Description:	B 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
protein binding	0.187097443004706	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: