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Protein

HTH-type transcriptional activator TtdR

Gene

ttdR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Positive regulator required for L-tartrate-dependent anaerobic growth on glycerol. Induces expression of the ttdA-ttdB-ygjE operon.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi23 – 4220H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG12694-MONOMER.
ECOL316407:JW3032-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
HTH-type transcriptional activator TtdR
Gene namesi
Name:ttdR
Synonyms:ygiP
Ordered Locus Names:b3060, JW3032
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12694. ttdR.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 310310HTH-type transcriptional activator TtdRPRO_0000105795Add
BLAST

Proteomic databases

PaxDbiP45463.
PRIDEiP45463.

Interactioni

Protein-protein interaction databases

BioGridi4263515. 3 interactions.
DIPiDIP-12223N.
IntActiP45463. 6 interactions.
STRINGi511145.b3060.

Structurei

3D structure databases

ProteinModelPortaliP45463.
SMRiP45463. Positions 8-292.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini6 – 6358HTH lysR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105EJC. Bacteria.
ENOG410XNQA. LUCA.
HOGENOMiHOG000233519.
InParanoidiP45463.
OMAiYYRRASE.
OrthoDBiEOG6Q8J00.
PhylomeDBiP45463.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR005119. LysR_subst-bd.
IPR000847. Tscrpt_reg_HTH_LysR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00126. HTH_1. 1 hit.
PF03466. LysR_substrate. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS50931. HTH_LYSR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P45463-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLNSWPLAKD LQVLVEIVHS GSFSAAAATL GQTPAFVTKR IQILENTLAT
60 70 80 90 100
TLLNRSARGV ALTESGQRCY EHALEILTQY QRLVDDVTQI KTRPEGMIRI
110 120 130 140 150
GCSFGFGRSH IAPAITELMR NYPELQVHFE LFDRQIDLVQ DNIDLDIRIN
160 170 180 190 200
DEIPDYYIAH LLTKNKRILC AAPEYLQKYP QPQSLQELSR HDCLVTKERD
210 220 230 240 250
MTHGIWELGN GQEKKSVKVS GHLSSNSGEI VLQWALEGKG IMLRSEWDVL
260 270 280 290 300
PFLESGKLVQ VLPEYAQSAN IWAVYREPLY RSMKLRVCVE FLAAWCQQRL
310
GKPDEGYQVM
Length:310
Mass (Da):35,315
Last modified:October 1, 1996 - v2
Checksum:i17C0072B72B08885
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28379 Genomic DNA. Translation: AAA89140.1.
U00096 Genomic DNA. Translation: AAC76096.1.
AP009048 Genomic DNA. Translation: BAE77111.1.
L14781 Unassigned DNA. No translation available.
PIRiB65094.
RefSeqiNP_417532.1. NC_000913.3.
WP_000935206.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC76096; AAC76096; b3060.
BAE77111; BAE77111; BAE77111.
GeneIDi947562.
KEGGiecj:JW3032.
eco:b3060.
PATRICi32121532. VBIEscCol129921_3153.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28379 Genomic DNA. Translation: AAA89140.1.
U00096 Genomic DNA. Translation: AAC76096.1.
AP009048 Genomic DNA. Translation: BAE77111.1.
L14781 Unassigned DNA. No translation available.
PIRiB65094.
RefSeqiNP_417532.1. NC_000913.3.
WP_000935206.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP45463.
SMRiP45463. Positions 8-292.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263515. 3 interactions.
DIPiDIP-12223N.
IntActiP45463. 6 interactions.
STRINGi511145.b3060.

Proteomic databases

PaxDbiP45463.
PRIDEiP45463.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76096; AAC76096; b3060.
BAE77111; BAE77111; BAE77111.
GeneIDi947562.
KEGGiecj:JW3032.
eco:b3060.
PATRICi32121532. VBIEscCol129921_3153.

Organism-specific databases

EchoBASEiEB2557.
EcoGeneiEG12694. ttdR.

Phylogenomic databases

eggNOGiENOG4105EJC. Bacteria.
ENOG410XNQA. LUCA.
HOGENOMiHOG000233519.
InParanoidiP45463.
OMAiYYRRASE.
OrthoDBiEOG6Q8J00.
PhylomeDBiP45463.

Enzyme and pathway databases

BioCyciEcoCyc:EG12694-MONOMER.
ECOL316407:JW3032-MONOMER.

Miscellaneous databases

PROiP45463.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR005119. LysR_subst-bd.
IPR000847. Tscrpt_reg_HTH_LysR.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00126. HTH_1. 1 hit.
PF03466. LysR_substrate. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
PROSITEiPS50931. HTH_LYSR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  2. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. "Possible new genes as revealed by molecular analysis of a 5-kb Escherichia coli chromosomal region 5' to the rpsU-dnaG-rpoD macromolecular-synthesis operon."
    Nesin M., Lupski J.R., Svec P., Godson G.N.
    Gene 51:149-161(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-41.
  4. "Identification of the L-tartrate dehydratase genes (ttdA and ttdB) of Escherichia coli and evolutionary relationship with the class I fumarase genes."
    Reaney S.K., Begg C., Bungard S.I., Guest J.R.
    J. Gen. Microbiol. 139:1523-1530(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-23.
    Strain: K12.
  5. "Detection of new genes in a bacterial genome using Markov models for three gene classes."
    Borodovsky M., McIninch J., Koonin E.V., Rudd K.E., Medigue C., Danchin A.
    Nucleic Acids Res. 23:3554-3562(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION.
  6. "Functional identification of ygiP as a positive regulator of the ttdA-ttdB-ygjE operon."
    Oshima T., Biville F.
    Microbiology 152:2129-2135(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiTTDR_ECOLI
AccessioniPrimary (citable) accession number: P45463
Secondary accession number(s): Q2M9E5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: October 1, 1996
Last modified: March 16, 2016
This is version 119 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  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.