YRC Public Data Repository - Protein Structure Prediction

Protein:	rpn-12
Organism:	Caenorhabditis elegans
Length:	250 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 rpn-12.

Description	E-value	Query Range	Subject Range
gi\|34855658, gi\|... - gi\|34855658\|ref\|XP_214888.2\| PREDICTED: similar to proteasome 26S non-ATPase subunit 8 [Rattus norve...	246.0	[0..2]	[250..95]
gi\|68390942 - gi\|68390942\|ref\|XP_683479.1\| PREDICTED: similar to proteasome 26S non-ATPase subunit 8 [Danio rerio]	243.0	[0..2]	[250..9]
gi\|57036591 - gi\|57036591\|ref\|XP_533681.1\| PREDICTED: similar to 26S proteasome non-ATPase regulatory subunit 8 (2...	242.0	[0..2]	[250..93]
gi\|46329769 - gi\|46329769\|gb\|AAH68963.1\| LOC414691 protein [Xenopus laevis]	241.0	[0..1]	[250..8]
gi\|26387510, gi\|... - gi\|27229063\|ref\|NP_080821.2\| proteasome 26S non-ATPase subunit 8 [Mus musculus], gi\|26387510\|dbj\|BAB...	241.0	[0..2]	[250..31]

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Predicted Domain #1

Region A:
Residues: [1-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSAAHKNLLA VWAKEPKDLV AVEKALNELT KVLSASSDLN DKQSALASKD LYEISVLLAI  60
   61 LKHDFETFDD YINQMHTYYT MAPENSENKH LMTGLHLMFL LAANRLSDFH MLLEQIPQKE 120
  121 QTSNAYISTP VRIEQSLMEG AYNKVVLTEK NIPSPFYTIF IRIMLDTIRR EIATSIEKSF 180
  181 KVLTAKDATV MLLFDNDEQM KKFGQERKWH LDGERYVFEI EVAQEKPVNL DTVRVATQTL 240
  241 FYAKQLEQIV

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.05
Match:	1rz4A
Description:	Crystal Structure of Human eIF3k
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.76236644111948	bayes_pls_golite062009
hydrolase activity	2.62777210765927	bayes_pls_golite062009
protein binding	1.5114863464349	bayes_pls_golite062009
nucleic acid binding	1.08079130332447	bayes_pls_golite062009
sequence-specific DNA binding	1.06350696248374	bayes_pls_golite062009
transcription repressor activity	0.700922242779288	bayes_pls_golite062009
cytoskeletal protein binding	0.37240198519167	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.224432853777564	bayes_pls_golite062009
DNA binding	0.180353635969032	bayes_pls_golite062009
transcription regulator activity	0.147335771550418	bayes_pls_golite062009
ubiquitin-protein ligase activity	0.142921675412538	bayes_pls_golite062009
small conjugating protein ligase activity	0.124542865343065	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: