YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|207345603
Organism:	Saccharomyces cerevisiae AWRI1631
Length:	274 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 gi|207345603.

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

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.769	0.008	ubiquitin-dependent protein catabolic process	a.24.3	Cytochromes
View	Download	0.865	0.008	ubiquitin-dependent protein catabolic process	a.24.9	alpha-catenin/vinculin
View	Download	0.814	0.008	ubiquitin-dependent protein catabolic process	a.24.4	Hemerythrin
View	Download	0.767	0.008	ubiquitin-dependent protein catabolic process	a.181.1	Antibiotic binding domain of TipA-like multidrug resistance regulators
View	Download	0.738	0.008	ubiquitin-dependent protein catabolic process	a.46.1	Methionine synthase domain
View	Download	0.698	0.008	ubiquitin-dependent protein catabolic process	a.24.16	Nucleotidyltransferase substrate binding subunit/domain
View	Download	0.675	0.008	ubiquitin-dependent protein catabolic process	a.118.8	TPR-like
View	Download	0.663	0.008	ubiquitin-dependent protein catabolic process	c.54.1	IIA domain of mannose transporter, IIA-Man
View	Download	0.638	0.008	ubiquitin-dependent protein catabolic process	a.177.1	Sigma2 domain of RNA polymerase sigma factors
View	Download	0.624	0.008	ubiquitin-dependent protein catabolic process	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.609	0.008	ubiquitin-dependent protein catabolic process	a.130.1	Chorismate mutase II
View	Download	0.601	0.008	ubiquitin-dependent protein catabolic process	a.24.3	Cytochromes
View	Download	0.580	0.008	ubiquitin-dependent protein catabolic process	a.118.1	ARM repeat
View	Download	0.538	0.008	ubiquitin-dependent protein catabolic process	a.24.9	alpha-catenin/vinculin
View	Download	0.506	0.008	ubiquitin-dependent protein catabolic process	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.495	0.008	ubiquitin-dependent protein catabolic process	a.24.7	FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View	Download	0.488	0.008	ubiquitin-dependent protein catabolic process	i.11.1	Computational models partly based on NMR data
View	Download	0.465	0.008	ubiquitin-dependent protein catabolic process	a.23.1	HSC20 (HSCB), C-terminal oligomerisation domain
View	Download	0.419	0.008	ubiquitin-dependent protein catabolic process	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.412	0.008	ubiquitin-dependent protein catabolic process	a.71.2	Helical domain of Sec23/24
View	Download	0.409	0.008	ubiquitin-dependent protein catabolic process	a.24.17	Group V grass pollen allergen
View	Download	0.403	0.008	ubiquitin-dependent protein catabolic process	a.4.9	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View	Download	0.401	0.008	ubiquitin-dependent protein catabolic process	a.71.1	Endoplasmic reticulum protein ERP29, C-domain
View	Download	0.400	0.008	ubiquitin-dependent protein catabolic process	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.396	0.008	ubiquitin-dependent protein catabolic process	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore
View	Download	0.391	0.008	ubiquitin-dependent protein catabolic process	a.7.2	Enzyme IIa from lactose specific PTS, IIa-lac
View	Download	0.387	0.008	ubiquitin-dependent protein catabolic process	a.118.11	Cytochrome c oxidase subunit E
View	Download	0.378	0.008	ubiquitin-dependent protein catabolic process	a.64.1	Saposin
View	Download	0.372	0.008	ubiquitin-dependent protein catabolic process	a.135.1	Tetraspanin
View	Download	0.368	0.008	ubiquitin-dependent protein catabolic process	a.118.8	TPR-like
View	Download	0.365	0.008	ubiquitin-dependent protein catabolic process	d.110.4	SNARE-like
View	Download	0.347	0.008	ubiquitin-dependent protein catabolic process	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.333	0.008	ubiquitin-dependent protein catabolic process	d.6.1	Prion-like
View	Download	0.333	0.008	ubiquitin-dependent protein catabolic process	a.24.3	Cytochromes
View	Download	0.331	0.008	ubiquitin-dependent protein catabolic process	a.91.1	Regulator of G-protein signalling, RGS
View	Download	0.331	0.008	ubiquitin-dependent protein catabolic process	d.110.4	SNARE-like
View	Download	0.328	0.008	ubiquitin-dependent protein catabolic process	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.323	0.008	ubiquitin-dependent protein catabolic process	d.217.1	SAND domain-like
View	Download	0.323	0.008	ubiquitin-dependent protein catabolic process	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.322	0.008	ubiquitin-dependent protein catabolic process	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.320	0.008	ubiquitin-dependent protein catabolic process	a.24.10	Histidine-containing phosphotransfer domain, HPT domain
View	Download	0.314	0.008	ubiquitin-dependent protein catabolic process	c.47.1	Thioredoxin-like
View	Download	0.314	0.008	ubiquitin-dependent protein catabolic process	a.29.4	RecG, N-terminal domain
View	Download	0.300	0.008	ubiquitin-dependent protein catabolic process	a.77.1	DEATH domain
View	Download	0.299	0.008	ubiquitin-dependent protein catabolic process	a.121.1	Tetracyclin repressor-like, C-terminal domain
View	Download	0.296	0.008	ubiquitin-dependent protein catabolic process	a.7.8	GAT domain
View	Download	0.279	0.008	ubiquitin-dependent protein catabolic process	a.26.1	4-helical cytokines
View	Download	0.278	0.008	ubiquitin-dependent protein catabolic process	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.275	0.008	ubiquitin-dependent protein catabolic process	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.272	0.008	ubiquitin-dependent protein catabolic process	a.64.1	Saposin
View	Download	0.269	0.008	ubiquitin-dependent protein catabolic process	a.156.1	S13-like H2TH domain
View	Download	0.264	0.008	ubiquitin-dependent protein catabolic process	a.64.1	Saposin
View	Download	0.260	0.008	ubiquitin-dependent protein catabolic process	a.65.1	Annexin
View	Download	0.253	0.008	ubiquitin-dependent protein catabolic process	a.60.5	Barrier-to-autointegration factor, BAF
View	Download	0.248	0.008	ubiquitin-dependent protein catabolic process	a.39.1	EF-hand
View	Download	0.245	0.008	ubiquitin-dependent protein catabolic process	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.245	0.008	ubiquitin-dependent protein catabolic process	b.36.1	PDZ domain-like
View	Download	0.241	0.008	ubiquitin-dependent protein catabolic process	a.39.1	EF-hand
View	Download	0.237	0.008	ubiquitin-dependent protein catabolic process	a.24.12	Outer surface protein C (OspC)
View	Download	0.235	0.008	ubiquitin-dependent protein catabolic process	a.69.1	C-terminal domain of alpha and beta subunits of F1 ATP synthase
View	Download	0.234	0.008	ubiquitin-dependent protein catabolic process	a.24.15	FAD-dependent thiol oxidase
View	Download	0.229	0.008	ubiquitin-dependent protein catabolic process	b.82.3	cAMP-binding domain-like
View	Download	0.222	0.008	ubiquitin-dependent protein catabolic process	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.221	0.008	ubiquitin-dependent protein catabolic process	a.57.1	Protein HNS-dependent expression A; HdeA
View	Download	0.220	0.008	ubiquitin-dependent protein catabolic process	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.217	0.008	ubiquitin-dependent protein catabolic process	a.41.1	Domain of poly(ADP-ribose) polymerase
View	Download	0.206	0.008	ubiquitin-dependent protein catabolic process	a.22.1	Histone-fold
View	Download	0.206	0.008	ubiquitin-dependent protein catabolic process	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.206	0.008	ubiquitin-dependent protein catabolic process	a.22.1	Histone-fold
View	Download	0.204	0.008	ubiquitin-dependent protein catabolic process	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.202	0.008	ubiquitin-dependent protein catabolic process	a.47.2	t-snare proteins
View	Download	0.201	0.008	ubiquitin-dependent protein catabolic process	a.7.6	Ribosomal protein S20
View	Download	0.200	0.008	ubiquitin-dependent protein catabolic process	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain

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 are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no 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: