YRC Public Data Repository - Protein Structure Prediction

Protein:	RPN12
Organism:	Saccharomyces cerevisiae
Length:	274 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 RPN12.

Description	E-value	Query Range	Subject Range
PSD8A_ARATH - 26S proteasome non-ATPase regulatory subunit 8 homolog A OS=Arabidopsis thaliana GN=RPN12A PE=1 SV=1	5.0E-68	[2..274]	[3..267]
gi\|215715252, gi... - gi\|50936535\|ref\|XP_477795.1\| 26S proteasome regulatory particle non-ATPase subunit12 [Oryza sativa (...	1.0E-67	[2..274]	[3..267]
gi\|207345603 - gi\|207345603\|gb\|EDZ72369.1\| YFR052Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190406627 - gi\|190406627\|gb\|EDV09894.1\| 32-34 kDa protein [Saccharomyces cerevisiae RM11-1a] RPN12_YEAST - 26S proteasome regulatory subunit RPN12 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=... RPN12 - Subunit of the 19S regulatory particle of the 26S proteasome lid; synthetically lethal with RPT1, wh... gi\|151940816 - gi\|151940816\|gb\|EDN59203.1\| regulatory particle non-ATPase [Saccharomyces cerevisiae YJM789]	1.0E-66	[1..274]	[1..274]
gi\|13278567, gi\|... - gi\|13543079\|gb\|AAH05717.1\| Psmd8 protein [Mus musculus], gi\|13278567\|gb\|AAH04075.1\| Proteasome (pros...	8.0E-66	[7..274]	[1..257]
PSMD8 - proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 gi\|208967160 - gi\|208967160\|dbj\|BAG73594.1\| proteasome (prosome, macropain) 26S subunit, non-ATPase, 8 [synthetic c...	2.0E-64	[7..274]	[1..257]
rpn12 - 19S proteasome regulatory subunit Rpn12 RPN12_SCHPO - 26S proteasome regulatory subunit rpn12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rp...	8.0E-64	[11..274]	[9..270]
Rpn12-PA - The gene Rpn12 is referred to in FlyBase by the symbol Dmel\Rpn12 (CG4157, FBgn0028693). It is a pro... gi\|220948334, gi... - gi\|220957560\|gb\|ACL91323.1\| Rpn12-PA [synthetic construct], gi\|220948334\|gb\|ACL86710.1\| Rpn12-PA [sy...	1.0E-61	[1..274]	[1..264]
gi\|7494228 - pir\|\|T18458 26S proteasome regulatory complex chain p31 [similarity] - malaria parasite (Plasmodium ... gi\|3764007, gi\|1... - gi\|3764007\|emb\|CAA15600.1\| 26S proteasome regulatory subunit S14, putative [Plasmodium falciparum 3D...	4.0E-57	[1..274]	[35..304]
gi\|18463067 - gi\|18463067\|gb\|AAL72635.1\|AF404120_1 proteasome regulatory non-ATP-ase subunit 12 [Trypanosoma bruce...	1.0E-56	[8..274]	[18..274]
rpn-12 - vegetative protein X like status:Confirmed UniProt:Q23449 protein_id:CAA93778.1	4.0E-54	[14..274]	[13..250]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPSLAELTKS LSIAFENGDY AACEKLLPPI KIELIKNNLL IPDLSIQNDI YLNDLMITKR  60
   61 ILEVGALASI QTFNFDSFEN YFNQLKPYYF SNNH

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.865	0.008	ubiquitin-dependent protein catabolic process	a.24.9	alpha-catenin/vinculin

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
structural constituent of ribosome	1.48815906385664	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
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

Predicted Domain #2

Region A:
Residues: [95-274]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KLSESDKKSK LISLYLLNLL SQNNTTKFHS ELQYLDKHIK NLEDDSLLSY PIKLDRWLME  60
   61 GSYQKAWDLL QSGSQNISEF DSFTDILKSA IRDEIAKNTE LSYDFLPLSN IKALLFFNNE 120
  121 KETEKFALER NWPIVNSKVY FNNQSKEKAD YEDEMMHEED QKTNIIEKAM DYAISIENIV 180
  181

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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: