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Protein

Uncharacterized HTH-type transcriptional regulator YddM

Gene

yddM

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi24 – 4320H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:G6774-MONOMER.
ECOL316407:JW5908-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Uncharacterized HTH-type transcriptional regulator YddM
Gene namesi
Name:yddM
Ordered Locus Names:b1477, JW5908
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13784. yddM.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 9494Uncharacterized HTH-type transcriptional regulator YddMPRO_0000149759Add
BLAST

Proteomic databases

PaxDbiP67699.
PRIDEiP67699.

Interactioni

Protein-protein interaction databases

BioGridi4262904. 7 interactions.
STRINGi511145.b1477.

Structurei

3D structure databases

ProteinModelPortaliP67699.
SMRiP67699. Positions 1-94.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini13 – 6755HTH cro/C1-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the VapA/VapI family.Curated
Contains 1 HTH cro/C1-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG41084S7. Bacteria.
COG3093. LUCA.
HOGENOMiHOG000265974.
OMAiGRSAESW.
OrthoDBiEOG67DPQ2.
PhylomeDBiP67699.

Family and domain databases

Gene3Di1.10.260.40. 1 hit.
InterProiIPR001387. Cro/C1-type_HTH.
IPR010982. Lambda_DNA-bd_dom.
IPR013430. Toxin_antidote_HigA.
[Graphical view]
PfamiPF01381. HTH_3. 1 hit.
[Graphical view]
SMARTiSM00530. HTH_XRE. 1 hit.
[Graphical view]
SUPFAMiSSF47413. SSF47413. 1 hit.
TIGRFAMsiTIGR02607. antidote_HigA. 1 hit.
PROSITEiPS50943. HTH_CROC1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P67699-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKMANHPRPG DIIQESLDEL NVSLREFARA MEIAPSTASR LLTGKAALTP
60 70 80 90
EMAIKLSVVI GSSPQMWLNL QNAWSLAEAE KTVDVSRLRR LVTQ
Length:94
Mass (Da):10,401
Last modified:October 11, 2004 - v1
Checksum:iE330280EDA2AEC1B
GO

Sequence cautioni

The sequence BAE76451.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAD13441.2.
AP009048 Genomic DNA. Translation: BAE76451.1. Different initiation.
PIRiH64900.
RefSeqiNP_415994.4. NC_000913.3.
WP_000781370.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAD13441; AAD13441; b1477.
BAE76451; BAE76451; BAE76451.
GeneIDi946040.
KEGGiecj:JW5908.
eco:b1477.
PATRICi32118248. VBIEscCol129921_1544.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAD13441.2.
AP009048 Genomic DNA. Translation: BAE76451.1. Different initiation.
PIRiH64900.
RefSeqiNP_415994.4. NC_000913.3.
WP_000781370.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP67699.
SMRiP67699. Positions 1-94.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4262904. 7 interactions.
STRINGi511145.b1477.

Proteomic databases

PaxDbiP67699.
PRIDEiP67699.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAD13441; AAD13441; b1477.
BAE76451; BAE76451; BAE76451.
GeneIDi946040.
KEGGiecj:JW5908.
eco:b1477.
PATRICi32118248. VBIEscCol129921_1544.

Organism-specific databases

EchoBASEiEB3546.
EcoGeneiEG13784. yddM.

Phylogenomic databases

eggNOGiENOG41084S7. Bacteria.
COG3093. LUCA.
HOGENOMiHOG000265974.
OMAiGRSAESW.
OrthoDBiEOG67DPQ2.
PhylomeDBiP67699.

Enzyme and pathway databases

BioCyciEcoCyc:G6774-MONOMER.
ECOL316407:JW5908-MONOMER.

Miscellaneous databases

PROiP67699.

Family and domain databases

Gene3Di1.10.260.40. 1 hit.
InterProiIPR001387. Cro/C1-type_HTH.
IPR010982. Lambda_DNA-bd_dom.
IPR013430. Toxin_antidote_HigA.
[Graphical view]
PfamiPF01381. HTH_3. 1 hit.
[Graphical view]
SMARTiSM00530. HTH_XRE. 1 hit.
[Graphical view]
SUPFAMiSSF47413. SSF47413. 1 hit.
TIGRFAMsiTIGR02607. antidote_HigA. 1 hit.
PROSITEiPS50943. HTH_CROC1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  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.

Entry informationi

Entry nameiYDDM_ECOLI
AccessioniPrimary (citable) accession number: P67699
Secondary accession number(s): P76125, Q2MBA5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: January 20, 2016
This is version 84 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

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.