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Protein

Biofilm growth-associated repressor

Gene

bigR

Organism
Xylella fastidiosa (strain 9a5c)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Represses an operon that comprises itself, XF_0764, XF_0765, XF_0766 and blh. Binds to a palindromic AT-rich sequence spanning the -10 region of the blh promoter and blocks transcription of the operon.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi51 – 7424H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Biofilm growth-associated repressor
Gene namesi
Name:bigR
Ordered Locus Names:XF_0767
OrganismiXylella fastidiosa (strain 9a5c)
Taxonomic identifieri160492 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
Proteomesi
  • UP000000812 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 114114Biofilm growth-associated repressorPRO_0000305336Add
BLAST

Expressioni

Gene expression databases

CollecTFiEXPREG_000017b0.

Interactioni

Protein-protein interaction databases

STRINGi160492.XF0767.

Structurei

Secondary structure

1
114
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi17 – 3216Combined sources
Helixi35 – 4511Combined sources
Helixi51 – 588Combined sources
Helixi64 – 7411Combined sources
Beta strandi77 – 815Combined sources
Beta strandi83 – 853Combined sources
Beta strandi88 – 914Combined sources
Helixi96 – 10611Combined sources
Helixi108 – 1114Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3PQJX-ray2.48A/B/C/D13-114[»]
3PQKX-ray2.09A/B/C/D/E/F13-114[»]
ProteinModelPortaliQ9PFB1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9PFB1.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini17 – 11195HTH arsR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 HTH arsR-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG41080HT. Bacteria.
COG0640. LUCA.
OMAiVSTRREH.
OrthoDBiEOG6B3684.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR001845. HTH_ArsR_DNA-bd_dom.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF12840. HTH_20. 1 hit.
[Graphical view]
PRINTSiPR00778. HTHARSR.
SMARTiSM00418. HTH_ARSR. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS50987. HTH_ARSR_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9PFB1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVNEMRDDTR PHMTREDMEK RANEVANLLK TLSHPVRLML VCTLVEGEFS
60 70 80 90 100
VGELEQQIGI GQPTLSQQLG VLRESGIVET RRNIKQIFYR LTEAKAAQLV
110
NALYTIFCAQ EKQA
Length:114
Mass (Da):12,989
Last modified:October 1, 2000 - v1
Checksum:i3AB9B2C6C5A58CF7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003849 Genomic DNA. Translation: AAF83577.1.
PIRiD82766.
RefSeqiWP_010893290.1. NC_002488.3.

Genome annotation databases

EnsemblBacteriaiAAF83577; AAF83577; XF_0767.
GeneIDi1126301.
KEGGixfa:XF0767.
PATRICi24131533. VBIXylFas578_0807.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE003849 Genomic DNA. Translation: AAF83577.1.
PIRiD82766.
RefSeqiWP_010893290.1. NC_002488.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3PQJX-ray2.48A/B/C/D13-114[»]
3PQKX-ray2.09A/B/C/D/E/F13-114[»]
ProteinModelPortaliQ9PFB1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi160492.XF0767.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAF83577; AAF83577; XF_0767.
GeneIDi1126301.
KEGGixfa:XF0767.
PATRICi24131533. VBIXylFas578_0807.

Phylogenomic databases

eggNOGiENOG41080HT. Bacteria.
COG0640. LUCA.
OMAiVSTRREH.
OrthoDBiEOG6B3684.

Miscellaneous databases

EvolutionaryTraceiQ9PFB1.

Gene expression databases

CollecTFiEXPREG_000017b0.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR001845. HTH_ArsR_DNA-bd_dom.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF12840. HTH_20. 1 hit.
[Graphical view]
PRINTSiPR00778. HTHARSR.
SMARTiSM00418. HTH_ARSR. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS50987. HTH_ARSR_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The genome sequence of the plant pathogen Xylella fastidiosa."
    Simpson A.J.G., Reinach F.C., Arruda P., Abreu F.A., Acencio M., Alvarenga R., Alves L.M.C., Araya J.E., Baia G.S., Baptista C.S., Barros M.H., Bonaccorsi E.D., Bordin S., Bove J.M., Briones M.R.S., Bueno M.R.P., Camargo A.A., Camargo L.E.A.
    , Carraro D.M., Carrer H., Colauto N.B., Colombo C., Costa F.F., Costa M.C.R., Costa-Neto C.M., Coutinho L.L., Cristofani M., Dias-Neto E., Docena C., El-Dorry H., Facincani A.P., Ferreira A.J.S., Ferreira V.C.A., Ferro J.A., Fraga J.S., Franca S.C., Franco M.C., Frohme M., Furlan L.R., Garnier M., Goldman G.H., Goldman M.H.S., Gomes S.L., Gruber A., Ho P.L., Hoheisel J.D., Junqueira M.L., Kemper E.L., Kitajima J.P., Krieger J.E., Kuramae E.E., Laigret F., Lambais M.R., Leite L.C.C., Lemos E.G.M., Lemos M.V.F., Lopes S.A., Lopes C.R., Machado J.A., Machado M.A., Madeira A.M.B.N., Madeira H.M.F., Marino C.L., Marques M.V., Martins E.A.L., Martins E.M.F., Matsukuma A.Y., Menck C.F.M., Miracca E.C., Miyaki C.Y., Monteiro-Vitorello C.B., Moon D.H., Nagai M.A., Nascimento A.L.T.O., Netto L.E.S., Nhani A. Jr., Nobrega F.G., Nunes L.R., Oliveira M.A., de Oliveira M.C., de Oliveira R.C., Palmieri D.A., Paris A., Peixoto B.R., Pereira G.A.G., Pereira H.A. Jr., Pesquero J.B., Quaggio R.B., Roberto P.G., Rodrigues V., de Rosa A.J.M., de Rosa V.E. Jr., de Sa R.G., Santelli R.V., Sawasaki H.E., da Silva A.C.R., da Silva A.M., da Silva F.R., Silva W.A. Jr., da Silveira J.F., Silvestri M.L.Z., Siqueira W.J., de Souza A.A., de Souza A.P., Terenzi M.F., Truffi D., Tsai S.M., Tsuhako M.H., Vallada H., Van Sluys M.A., Verjovski-Almeida S., Vettore A.L., Zago M.A., Zatz M., Meidanis J., Setubal J.C.
    Nature 406:151-159(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 9a5c.
  2. "BigR, a transcriptional repressor from plant-associated bacteria, regulates an operon implicated in biofilm growth."
    Barbosa R.L., Benedetti C.E.
    J. Bacteriol. 189:6185-6194(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS A REPRESSOR.
    Strain: 9a5c.

Entry informationi

Entry nameiBIGR_XYLFA
AccessioniPrimary (citable) accession number: Q9PFB1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 2, 2007
Last sequence update: October 1, 2000
Last modified: January 20, 2016
This is version 86 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.