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 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 #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: