YRC Public Data Repository - Protein Structure Prediction

Protein:	SPAC16C9.04c
Organism:	Schizosaccharomyces pombe
Length:	489 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 SPAC16C9.04c.

Description	E-value	Query Range	Subject Range
gi\|76689295 - gi\|76689295\|ref\|XP_881806.1\| PREDICTED: similar to poly(A) binding protein, cytoplasmic 4 isoform 1 ...	180.0	[0..2]	[386..175]
gi\|41388837 - gi\|41388837\|gb\|AAH65540.1\| PABPC4 protein [Homo sapiens]	178.0	[0..2]	[386..175]
gi\|73976771 - gi\|73976771\|ref\|XP_857168.1\| PREDICTED: similar to poly(A) binding protein, cytoplasmic 4 isoform 1 ...	176.0	[0..2]	[386..175]
gi\|109098676 - gi\|109098676\|ref\|XP_001096930.1\| PREDICTED: poly(A) binding protein, cytoplasmic 1 [Macaca mulatta]	173.0	[0..2]	[386..135]

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Predicted Domain #1

Region A:
Residues: [1-100]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKTQEIYSS EDEDDMCCPL CMEEIDISDK NFKPCQCGYR VCRFCWHHIK EDLNGRCPAC  60
   61 RRLYTEENVQ WRPVTAEEWK MDLHRKNERK KREKERKEVE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11.69897
Match:	1e4uA
Description:	Not-4 N-terminal RING finger domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	5.97121728620188	bayes_pls_golite062009
small conjugating protein ligase activity	5.78935175140238	bayes_pls_golite062009
acid-amino acid ligase activity	4.75377804653841	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	3.82459130917693	bayes_pls_golite062009
binding	2.78710909602478	bayes_pls_golite062009
transcription regulator activity	2.72498741013971	bayes_pls_golite062009
nucleic acid binding	2.32387297115017	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	2.11206038007886	bayes_pls_golite062009
DNA binding	2.00904221080834	bayes_pls_golite062009
protein binding	1.5975811408548	bayes_pls_golite062009
RNA binding	1.46657863864484	bayes_pls_golite062009
transcription factor activity	1.22579085356684	bayes_pls_golite062009
	1.22378902883043	bayes_pls_golite062009
small conjugating protein-specific protease activity	1.2126425713931	bayes_pls_golite062009
transcription factor binding	1.11842175076436	bayes_pls_golite062009
ubiquitin-specific protease activity	1.03469202541773	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.90321253993065	bayes_pls_golite062009
ligase activity	0.63517530468004	bayes_pls_golite062009
hydrolase activity	0.52386813728704	bayes_pls_golite062009
cysteine-type peptidase activity	0.50197530717959	bayes_pls_golite062009
transcription repressor activity	0.350170315296021	bayes_pls_golite062009
ubiquitin thiolesterase activity	0.265769062717221	bayes_pls_golite062009
transcription coactivator activity	0.255669498391574	bayes_pls_golite062009
transcription cofactor activity	0.233838999434784	bayes_pls_golite062009
catalytic activity	0.14112008370434	bayes_pls_golite062009
transcription activator activity	0.126093965701234	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [101-212]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSNRKHLANI RVVQKNLAYV NGLSPKVANE ENINVLKGPE YFGQYGKIIK IAINKKAAAN  60
   61 SANGHVGVYI TYQRKEDAAR AIAAIDGSVS DGRHLRASYG TTKYCTSYLR NQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.522879
Match:	2cpiA
Description:	Solution structure of the RNA recognition motif of CNOT4
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [213-274]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QCPNPSCMYL HEPGDEVDSY TKEDLASLQH TRPLSTKPNV VNGATHSPSP SLPFKTPLLP  60
   61 VT

[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 #4

Region A:
Residues: [275-489]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KTPLEEANSS PAAQNQHITT VDHVHPQVSM TPSLSTNNTA TSVPAPYSSA ASVNVVPGHA  60
   61 TTILHHEESS ALPPTAAWAK LSPSVLQERL RAAVNQQPLD ALKSSSTQTS IPKIQKLKAA 120
  121 KLPSEEENTT KWLNKAINDL VSSLSKINFS TEGTEFDKKQ IEMIQNLPPL FVFNARSVID 180
  181 KEVVPEQEKS AENQPPTSLG INNGNPVMPP PGFQS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.522879
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: