YRC Public Data Repository - Protein Structure Prediction

Protein:	RDS2
Organism:	Saccharomyces cerevisiae
Length:	446 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 RDS2.

Description	E-value	Query Range	Subject Range
RDS2_YEAST - Regulator of drug sensitivity 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RDS2 PE=... RDS2 - Zinc cluster transcriptional activator involved in conferring resistance to ketoconazole	0.0	[1..446]	[1..446]
gi\|32403994, gi\|... - gi\|32403994\|ref\|XP_322610.1\| hypothetical protein [Neurospora crassa], gi\|28917526\|gb\|EAA27225.1\| hy... gi\|85079987 - gi\|85079987\|ref\|XP_956461.1\| hypothetical protein [Neurospora crassa OR74A]	0.0	[5..438]	[42..458]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[30..444]	[43..528]
gi\|14669834 - gi\|14669834\|dbj\|BAB62022.1\| xylanolytic transcriptional activator [Aspergillus kawachii]	2.0E-48	[3..268]	[41..300]
XLNR_ASPNG - Transcriptional activator xlnR OS=Aspergillus niger GN=xlnR PE=4 SV=1	1.0E-47	[3..268]	[41..300]
XLNR_ASPFN - Xylanolytic transcriptional activator xlnR OS=Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / ... XLNR_ASPOR - Xylanolytic transcriptional activator xlnR OS=Aspergillus oryzae GN=xlnR PE=1 SV=2 XLNR_ASPOR - Xylanolytic transcriptional activator xlnR OS=Aspergillus oryzae (strain ATCC 42149 / RIB 40) GN=xln...	4.0E-39	[3..268]	[115..394]
gi\|27524883 - gi\|27524883\|emb\|CAC81360.1\| putative transcription factor [Emericella nidulans]	2.0E-38	[3..268]	[59..308]

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Predicted Domain #1

Region A:
Residues: [1-55]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSANSGVKRA SKAFKTCLFC KRSHVVCDKQ RPCSRCVKRD IAHLCREDDI AVPNE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	30.457575
Match:	1pyc__
Description:	Hap1 (Cyp1)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.03513015433673	bayes_pls_golite062009
DNA binding	3.83205668382335	bayes_pls_golite062009
nucleic acid binding	3.67300498747674	bayes_pls_golite062009
binding	2.91929847152301	bayes_pls_golite062009
transcription factor activity	2.68631095170929	bayes_pls_golite062009
sequence-specific DNA binding	2.68175655600795	bayes_pls_golite062009
transcription activator activity	1.89281746291341	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.69668907232116	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	1.63882951698535	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [56-197]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPSQHESSPN DNNIQGKYAN KAHTGIPSDY QNEPVNKSGS TYGEELSPKL DSSLVNDTTS  60
   61 LLLPQQPVFV SENVGSEFSS LNEFLSMLEN PLLTQTSLSS SSASNVHLEN GSQTTQSPLE 120
  121 YQNDNRRDEI GVARQENRSP TI

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.443	0.948	response to xenobiotic stimulus	a.1.1	Globin-like

Predicted Domain #3

Region A:
Residues: [198-446]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSGSSNSISK GDKQDQEKEE SRILANANEN SAPTPKEQFF LTAADPSTEM TPEHRLKLVI  60
   61 NAKLEAGLLK PYNYAKGYAR LQDYMDKYMN QSSKQRILKP LSTIRPAFRT IARSLKDVDL 120
  121 VLVEESFERM LLSYDRVFTS MSMPACLCRR TGEIYRANKE FASLVDCTVD DLRDGKLAIY 180
  181 ELMTEESAVN FWEKYGSIAF DKGQKAVLTS CSLRTKDGIR KRPCCFSFTI RRDRYNIPIC 240
  241 IVGNFIPLS

[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.

Found no confident structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [269-446]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YNYAKGYARL QDYMDKYMNQ SSKQRILKPL STIRPAFRTI ARSLKDVDLV LVEESFERML  60
   61 LSYDRVFTSM SMPACLCRRT GEIYRANKEF ASLVDCTVDD LRDGKLAIYE LMTEESAVNF 120
  121 WEKYGSIAFD KGQKAVLTSC SLRTKDGIRK RPCCFSFTIR RDRYNIPICI VGNFIPLS

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.77
Match:	1kouA
Description:	Photoactive yellow protein, PYP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	3.7467368529492	bayes_pls_golite062009
DNA binding	3.40921169912637	bayes_pls_golite062009
nucleic acid binding	3.24167117005747	bayes_pls_golite062009
binding	3.0194696248926	bayes_pls_golite062009
transcription activator activity	2.83653821066646	bayes_pls_golite062009
transcription factor activity	2.82130392807705	bayes_pls_golite062009
protein binding	2.65718874796652	bayes_pls_golite062009
sequence-specific DNA binding	2.35155212316148	bayes_pls_golite062009
transcription factor binding	2.0886105134698	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.80286525617588	bayes_pls_golite062009
protein heterodimerization activity	1.6684022582724	bayes_pls_golite062009
RNA polymerase II transcription factor activity, enhancer binding	1.34975446517091	bayes_pls_golite062009
protein dimerization activity	1.32117360800315	bayes_pls_golite062009
transcription cofactor activity	0.894812998943802	bayes_pls_golite062009
transcription coactivator activity	0.718695359890957	bayes_pls_golite062009
histone acetyltransferase binding	0.398021385666875	bayes_pls_golite062009
receptor binding	0.19484761881511	bayes_pls_golite062009
nuclear hormone receptor binding	0.180141371842267	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:

Predicted functions: