YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|15640766, gi\|...
Organism:	Vibrio cholerae O1 biovar El Tor str. N16961
Length:	188 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|15640766, gi|....

Description	E-value	Query Range	Subject Range
gi\|37678938, gi\|... - gi\|37678938\|ref\|NP_933547.1\| transcriptional regulator [Vibrio vulnificus YJ016], gi\|37197680\|dbj\|BA...	194.0	[0..16]	[188..16]
ISCR_VIBVY - HTH-type transcriptional regulator IscR OS=Vibrio vulnificus (strain YJ016) GN=iscR PE=3 SV=2 ISCR_VIBVU - HTH-type transcriptional regulator iscR OS=Vibrio vulnificus GN=iscR PE=3 SV=1 ISCR_VIBVU - HTH-type transcriptional regulator IscR OS=Vibrio vulnificus (strain CMCP6) GN=iscR PE=3 SV=1	193.0	[0..16]	[188..1]
gi\|91190094, gi\|... - gi\|91225151\|ref\|ZP_01260373.1\| hypothetical protein V12G01_13025 [Vibrio alginolyticus 12G01], gi\|91...	193.0	[0..16]	[188..1]
ISCR_VIBPA - HTH-type transcriptional regulator IscR OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 22106... ISCR_VIBPA - HTH-type transcriptional regulator iscR OS=Vibrio parahaemolyticus GN=iscR PE=3 SV=1	192.0	[0..16]	[188..1]
gi\|116186581, gi... - gi\|75857377\|ref\|ZP_00764993.1\| COG1959: Predicted transcriptional regulator [Vibrio sp. Ex25], gi\|11...	192.0	[0..16]	[188..1]
gi\|45442337, gi\|... - gi\|45442337\|ref\|NP_993876.1\| DNA-binding transcriptional regulator IscR [Yersinia pestis biovar Micr... gi\|186699296, gi... - gi\|186896270\|ref\|YP_001873382.1\| DNA-binding transcriptional regulator IscR [Yersinia pseudotubercul... gi\|169750055, gi... - gi\|170023521\|ref\|YP_001720026.1\| DNA-binding transcriptional regulator IscR [Yersinia pseudotubercul... gi\|21958101, gi\|... - gi\|22125232\|ref\|NP_668655.1\| DNA-binding transcriptional regulator IscR [Yersinia pestis KIM], gi\|21...	191.0	[0..4]	[188..12]
ISCR_XENNE - HTH-type transcriptional regulator iscR OS=Xenorhabdus nematophilus GN=iscR PE=3 SV=1 ISCR_XENNA - HTH-type transcriptional regulator IscR OS=Xenorhabdus nematophila (strain ATCC 19061 / DSM 3370 / L...	190.0	[0..16]	[188..1]
ISCR_YERE8 - HTH-type transcriptional regulator IscR OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain... gi\|77976668 - gi\|77976668\|ref\|ZP_00832144.1\| COG1959: Predicted transcriptional regulator [Yersinia intermedia ATC... gi\|238723775, gi... - gi\|77974688\|ref\|ZP_00830227.1\| COG1959: Predicted transcriptional regulator [Yersinia frederiksenii ...	187.0	[0..16]	[188..1]
gi\|238765525, gi... - gi\|238765525\|ref\|ZP_04626441.1\| HTH-type transcriptional regulator iscR [Yersinia kristensenii ATCC ... gi\|238719501, gi... - gi\|77963408\|ref\|ZP_00827218.1\| COG1959: Predicted transcriptional regulator [Yersinia mollaretii ATC...	187.0	[0..16]	[188..1]
ISCR_YERPA - HTH-type transcriptional regulator IscR OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=iscR PE=3... ISCR_YERPN - HTH-type transcriptional regulator IscR OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=iscR PE=... gi\|229899050, gi... - gi\|229899050\|ref\|ZP_04514194.1\| Iron-sulfur cluster regulator IscR [Yersinia pestis biovar Orientali... gi\|229701292, gi... - gi\|229895486\|ref\|ZP_04510657.1\| Iron-sulfur cluster regulator IscR [Yersinia pestis Pestoides A], gi... gi\|229838481, gi... - gi\|229838481\|ref\|ZP_04458640.1\| Iron-sulfur cluster regulator IscR [Yersinia pestis biovar Orientali... ISCR_YERPS - HTH-type transcriptional regulator iscR OS=Yersinia pseudotuberculosis GN=iscR PE=3 SV=1 ISCR_YERPG - HTH-type transcriptional regulator IscR OS=Yersinia pestis bv. Antiqua (strain Angola) GN=iscR PE=3 ... ISCR_YERP3 - HTH-type transcriptional regulator IscR OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 3175... gi\|165928257, gi... - gi\|165928257\|ref\|ZP_02224089.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... gi\|165992647, gi... - gi\|166008265\|ref\|ZP_02229163.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... gi\|166212578, gi... - gi\|166212578\|ref\|ZP_02238613.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... gi\|167398867, gi... - gi\|167398867\|ref\|ZP_02304391.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... ISCR_YERPE - HTH-type transcriptional regulator IscR OS=Yersinia pestis GN=iscR PE=3 SV=1 ISCR_YERPP - HTH-type transcriptional regulator IscR OS=Yersinia pestis (strain Pestoides F) GN=iscR PE=3 SV=1 gi\|167421227, gi... - gi\|167421227\|ref\|ZP_02312980.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... gi\|149365356, gi... - gi\|149365356\|ref\|ZP_01887391.1\| Fe-S cluster-containing transcription factor [Yersinia pestis CA88-4... gi\|167423261, gi... - gi\|167423261\|ref\|ZP_02315014.1\| iron-sulfur cluster assembly transcription factor IscR [Yersinia pes... gi\|218929956, gi... - gi\|218929956\|ref\|YP_002347831.1\| DNA-binding transcriptional regulator IscR [Yersinia pestis CO92], ... ISCR_YERPS - HTH-type transcriptional regulator IscR OS=Yersinia pseudotuberculosis serotype I (strain IP32953) G...	187.0	[0..16]	[188..1]

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Predicted Domain #1

Region A:
Residues: [1-188]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MENFQPHKQC GYGVIMRLTS KGRYAVTAML DVALHSQQNP VPLADISERQ GISLSYLEQL  60
   61 FSKLRKAGLV ASVRGPGGGY RLGMDSYAIS IGTVIAAVDE SVDATKCNGK GDCQGGTRCL 120
  121 THTLWRDLSS RITDFLNNIT LGELMMDNEV LEVSDRQDLH LAVSQRVSQN NSNTVTIGAA 180
  181 PFGINVRS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.522879
Match:	1ylfA
Description:	X-ray crystal structure of BC1842 protein from Bacillus cereus, a member of the Rrf2 family of putative transcription regulators.
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	4.03124001296907	bayes_pls_golite062009
DNA binding	3.6318990385733	bayes_pls_golite062009
nucleic acid binding	3.62005343025125	bayes_pls_golite062009
transcription factor activity	2.87763604150694	bayes_pls_golite062009
binding	2.62737887048829	bayes_pls_golite062009
sequence-specific DNA binding	1.11065232292582	bayes_pls_golite062009
transcription activator activity	1.0291156554117	bayes_pls_golite062009
transcription repressor activity	0.910965849978864	bayes_pls_golite062009
protein binding	0.498124455750984	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.303382870006146	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: