YRC Public Data Repository - Protein Structure Prediction

Protein:	SPAC644.16
Organism:	Schizosaccharomyces pombe
Length:	422 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 SPAC644.16.

Description	E-value	Query Range	Subject Range
gi\|73976805 - gi\|73976805\|ref\|XP_857859.1\| PREDICTED: similar to poly(A) binding protein, cytoplasmic 4 isoform 1 ...	222.0	[0..2]	[416..188]
gi\|41388837 - gi\|41388837\|gb\|AAH65540.1\| PABPC4 protein [Homo sapiens]	219.0	[0..2]	[416..188]
gi\|109002439 - gi\|109002439\|ref\|XP_001113342.1\| PREDICTED: poly A binding protein, cytoplasmic 4 [Macaca mulatta] CCDS438.1_1 - null	217.0	[0..2]	[416..188]
gi\|76689281 - gi\|76689281\|ref\|XP_881384.1\| PREDICTED: similar to Polyadenylate-binding protein 4 (Poly(A)-binding ...	217.0	[0..2]	[416..188]

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Predicted Domain #1

Region A:
Residues: [1-84]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNPSCVVYVG NIPYEMAEEQ VIDIFKQSGP VKSFQLVIDP ESGQPKGYGF CEYHDPATAA  60
   61 SAVRNLNNYD AGTRRLRVDF PTAD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.0
Match:	1p1tA
Description:	NMR Structure of the N-terminal RRM domain of Cleavage stimulation factor 64 KDa subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
RNA binding	5.15097136329571	bayes_pls_golite062009
mRNA binding	4.05281507540116	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
	3.4479220904723	bayes_pls_golite062009
binding	3.05116833253954	bayes_pls_golite062009
single-stranded RNA binding	1.46469774223879	bayes_pls_golite062009
poly-pyrimidine tract binding	1.36691748240059	bayes_pls_golite062009
protein binding	1.14508556628804	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snRNA binding	0.73428616955527	bayes_pls_golite062009
mRNA 3'-UTR binding	0.591700155096213	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [85-198]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QIRRLDKLLG PSRYGYYPQS YANQSYTYGN NFGSYPPTQP STQPLPQSYG YPSYPPAGYR  60
   61 GGSARPSGVL ANDEVYRVLA QLAPNEIDYM LSAIKALCLE APEQAAQLFE TNPQ

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [199-422]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSYAVFQAML MKRYTSESVV ADLLIPAGVN LPGAQEPNRG YFSPMHTYSS AVPGPISVPS  60
   61 APYGRASSTI AEVSPMYGSH AAPYASTPSA AVGSSRGSTP ASATVPISPA RGFPTTSAYN 120
  121 PAPPAYGMAN PAYGSTGIRS SSIPSSGSIR SPSLTTTSAQ ATTNATNNIT TTTAAQDENA 180
  181 TKAALIAQLM ALTDDQINVL PPDQKERILQ IRQALPSSYK TESK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.522879
Match:	1m2vB
Description:	Sec24
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

Predicted functions: