YRC Public Data Repository - Protein Structure Prediction

Protein:	PHO23
Organism:	Saccharomyces cerevisiae
Length:	330 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 PHO23.

Description	E-value	Query Range	Subject Range
PHO23_YEAST - Transcriptional regulatory protein PHO23 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN... gi\|151944438 - gi\|151944438\|gb\|EDN62716.1\| phosphate metabolism-related protein [Saccharomyces cerevisiae YJM789] PHO23 - Probable component of the Rpd3 histone deacetylase complex, involved in transcriptional regulation o... gi\|190409085 - gi\|190409085\|gb\|EDV12350.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]	1.0E-63	[1..330]	[1..330]
gi\|31542998, gi\|... - gi\|31542998\|ref\|NP_076115.2\| inhibitor of growth family, member 3 [Mus musculus], gi\|26348763\|dbj\|BA...	3.0E-53	[17..330]	[1..404]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	4.0E-53	[23..326]	[28..336]
JARID1C - jumonji, AT rich interactive domain 1C	1.0E-52	[23..326]	[63..371]
gi\|7108675 - gi\|7108675\|gb\|AAF36510.1\|AF132069_1 SMCX [Sus scrofa]	2.0E-46	[24..326]	[1..308]

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Predicted Domain #1

Region A:
Residues: [1-35]

      1          11         21         31         41         51         
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    1 MSSPANLFPG LNDITDVLEE FPLATSRYLT LLHEI

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [81-207]

      1          11         21         31         41         51         
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    1 PSLEEKMHVS SIMLDNLDRL TSRLELAYEV AIKNTEIPRG LRLGVDNHPA MHLHHELMEK  60
   61 IESKSNSKSS QALKSESRRE AMAANRRQGE HYSASTHQQD DSKNDANYGG SRHESQDHTG 120
  121 NNTNSRK

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.33
Match:	2vsgA
Description:	Variant surface glycoprotein (N-terminal domain)
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [36-80]

      1          11         21         31         41         51         
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    1 DAKCVHSMPN LNERIDKFLK KDFNKDHQTQ VRLLNNINKI YEELM

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	7.33
Match:	2vsgA
Description:	Variant surface glycoprotein (N-terminal domain)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [208-273]

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    1 RANAANTNNA DPETKKRKRR VATTAVSPST ISTATAVNNG RIGTSTASRG VSSVGNSNNS  60
   61 RISRPK

[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	SCOP Match	SCOP Description
View	Download	0.452	a.5.2	UBA-like
View	Download	0.504	d.50.1	dsRNA-binding domain-like
View	Download	0.463	b.84.2	Rudiment single hybrid motif
View	Download	0.703	d.49.1	Signal recognition particle alu RNA binding heterodimer, SRP9/14
View	Download	0.495	d.50.1	dsRNA-binding domain-like
View	Download	0.429	d.49.1	Signal recognition particle alu RNA binding heterodimer, SRP9/14
View	Download	0.409	a.36.1	Signal peptide-binding domain
View	Download	0.359	d.9.2	Description not found.
View	Download	0.358	d.52.3	Prokaryotic type KH domain (KH-domain type II)
View	Download	0.351	f.14.1	Voltage-gated potassium channels
View	Download	0.324	b.49.1	N-terminal domain of alpha and beta subunits of F1 ATP synthase
View	Download	0.303	d.50.1	dsRNA-binding domain-like
View	Download	0.296	d.58.17	Metal-binding domain
View	Download	0.290	d.50.2	Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain
View	Download	0.280	a.60.1	SAM/Pointed domain
View	Download	0.234	d.93.1	SH2 domain
View	Download	0.233	a.163.1	Crustacean CHH/MIH/GIH neurohormone
View	Download	0.229	b.43.4	Riboflavin synthase domain-like
View	Download	0.218	b.114.1	N-utilization substance G protein NusG, insert domain

Predicted functions:

Term	Confidence	Notes
protein deacetylase activity	7.50578521120904	bayes_pls_golite062009
histone deacetylase activity	7.35162059871663	bayes_pls_golite062009
histone acetyltransferase activity	7.10262960897544	bayes_pls_golite062009
lysine N-acetyltransferase activity	7.10262960897544	bayes_pls_golite062009
deacetylase activity	6.55925777139018	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	5.24378850198774	bayes_pls_golite062009
N-acetyltransferase activity	5.0952093808777	bayes_pls_golite062009
	4.75659254650148	bayes_pls_golite062009
N-acyltransferase activity	4.73470737654883	bayes_pls_golite062009
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	4.39452339322141	bayes_pls_golite062009
acetyltransferase activity	4.29938591960121	bayes_pls_golite062009
methylated histone residue binding	4.19057851212315	bayes_pls_golite062009
acyltransferase activity	3.59302841227183	bayes_pls_golite062009
	3.57133019761926	bayes_pls_golite062009
transferase activity, transferring acyl groups other than amino-acyl groups	3.54892905221507	bayes_pls_golite062009
transferase activity, transferring acyl groups	3.34035867339622	bayes_pls_golite062009
histone binding	3.01402804224903	bayes_pls_golite062009
binding	2.78627791259335	bayes_pls_golite062009
nucleosome binding	1.69494047037058	bayes_pls_golite062009
protein binding	1.6308789519356	bayes_pls_golite062009
chromatin binding	1.0360039180364	bayes_pls_golite062009
nucleic acid binding	1.01735624308761	bayes_pls_golite062009
DNA binding	0.896491359501813	bayes_pls_golite062009
transcription regulator activity	0.723245820583374	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	0.655033722565177	bayes_pls_golite062009
kinase activity	0.596989785523293	bayes_pls_golite062009
histone methyltransferase activity	0.476506467104495	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.465950484314184	bayes_pls_golite062009
protein kinase activity	0.405766438875014	bayes_pls_golite062009
cytoskeletal protein binding	0.327424740985033	bayes_pls_golite062009
transferase activity	0.245705939593188	bayes_pls_golite062009
histone methyltransferase activity (H3-K4 specific)	0.0490968711985191	bayes_pls_golite062009
histone acetyl-lysine binding	0.0410393640547611	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [274-330]

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    1 TNDYGEPLYC YCNQVAYGEM VGCDGADCEL EWFHLPCIGL ETLPKGKWYC DDCKKKL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	5.69897
Match:	1f62A_
Description:	Williams-Beuren syndrome transcription factor, WSTF
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: