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 are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

Found no 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: