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Protein

Sensor histidine kinase YpdA

Gene

ypdA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Member of the two-component regulatory system YpdA/YpdB involved in carbon control network. Activates YpdB by phosphorylation in response to extracellular pyruvate.1 Publication

Catalytic activityi

ATP + protein L-histidine = ADP + protein N-phospho-L-histidine.

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • phosphorelay sensor kinase activity Source: EcoCyc

GO - Biological processi

  • cellular response to nutrient Source: EcoCyc
  • cell wall organization Source: InterPro
  • phosphorelay signal transduction system Source: EcoCyc
  • signal transduction by protein phosphorylation Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Kinase, Transferase

Keywords - Biological processi

Two-component regulatory system

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7243-MONOMER.
ECOL316407:JW5388-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Sensor histidine kinase YpdA (EC:2.7.13.3)
Gene namesi
Name:ypdA
Ordered Locus Names:b2380, JW5388
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14148. ypdA.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 33CytoplasmicSequence analysis
Transmembranei4 – 2421HelicalSequence analysisAdd
BLAST
Topological domaini25 – 4521PeriplasmicSequence analysisAdd
BLAST
Transmembranei46 – 6621HelicalSequence analysisAdd
BLAST
Topological domaini67 – 748CytoplasmicSequence analysis
Transmembranei75 – 9521HelicalSequence analysisAdd
BLAST
Topological domaini96 – 10712PeriplasmicSequence analysisAdd
BLAST
Transmembranei108 – 12821HelicalSequence analysisAdd
BLAST
Topological domaini129 – 13911CytoplasmicSequence analysisAdd
BLAST
Transmembranei140 – 16021HelicalSequence analysisAdd
BLAST
Topological domaini161 – 17212PeriplasmicSequence analysisAdd
BLAST
Transmembranei173 – 19321HelicalSequence analysisAdd
BLAST
Topological domaini194 – 565372CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • integral component of membrane Source: UniProtKB-KW
  • intracellular Source: GOC
  • plasma membrane Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi371 – 3711H → Q: Lack of activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 565565Sensor histidine kinase YpdAPRO_0000201338Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei371 – 3711Phosphohistidine; by autocatalysisBy similarity

Post-translational modificationi

Autophosphorylated.By similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP0AA93.
PRIDEiP0AA93.

Interactioni

Protein-protein interaction databases

BioGridi4260545. 160 interactions.
STRINGi511145.b2380.

Structurei

3D structure databases

ProteinModelPortaliP0AA93.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini223 – 342120GAFAdd
BLAST
Domaini343 – 554212Histidine kinaseAdd
BLAST

Sequence similaritiesi

Contains 1 GAF domain.Curated
Contains 1 histidine kinase domain.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4108HRK. Bacteria.
COG3275. LUCA.
HOGENOMiHOG000242218.
InParanoidiP0AA93.
KOiK02478.
OMAiCDIIRRD.
OrthoDBiEOG6RVFWR.
PhylomeDBiP0AA93.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR010559. Sig_transdc_His_kin_internal.
IPR011620. Sig_transdc_His_kinase_LytS_TM.
[Graphical view]
PfamiPF07694. 5TM-5TMR_LYT. 1 hit.
PF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF06580. His_kinase. 1 hit.
[Graphical view]
SMARTiSM00387. HATPase_c. 1 hit.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 1 hit.
SSF55874. SSF55874. 1 hit.

Sequencei

Sequence statusi: Complete.

P0AA93-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MHEIFNMLLA VFDRAALMLI CLFFLIRIRL FRELLHKSAH SPKELLAVTA
60 70 80 90 100
IFSLFALFST WSGVPVEGSL VNVRIIAVMS GGILFGPWVG IITGVIAGIH
110 120 130 140 150
RYLIDIGGVT AIPCFITSIL AGCISGWINL KIPKAQRWRV GILGGMLCET
160 170 180 190 200
LTMILVIVWA PTTALGIDIV SKIGIPMILG SVCIGFIVLL VQSVEGEKEA
210 220 230 240 250
SAARQAKLAL DIANKTLPLF RHVNSESLRK VCEIIRDDIH ADAVAITNTD
260 270 280 290 300
HVLAYVGVGE HNYQNGDDFI SPTTRQAMNY GKIIIKNNDE AHRTPEIHSM
310 320 330 340 350
LVIPLWEKGV VTGTLKIYYC HAHQITSSLQ EMAVGLSQII STQLEVSRAE
360 370 380 390 400
QLREMANKAE LRALQSKINP HFLFNALNAI SSSIRLNPDT ARQLIFNLSR
410 420 430 440 450
YLRYNIELKD DEQIDIKKEL YQIKDYIAIE QARFGDKLTV IYDIDEEVNC
460 470 480 490 500
CIPSLLIQPL VENAIVHGIQ PCKGKGVVTI SVAECGNRVR IAVRDTGHGI
510 520 530 540 550
DPKVIERVEA NEMPGNKIGL LNVHHRVKLL YGEGLHIRRL EPGTEIAFYI
560
PNQRTPVASQ ATLLL
Length:565
Mass (Da):62,657
Last modified:September 13, 2005 - v1
Checksum:i1CD1B604BA5E48B1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75439.1.
AP009048 Genomic DNA. Translation: BAA16250.2.
PIRiA65012.
RefSeqiNP_416881.1. NC_000913.3.
WP_000544359.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75439; AAC75439; b2380.
BAA16250; BAA16250; BAA16250.
GeneIDi946723.
KEGGiecj:JW5388.
eco:b2380.
PATRICi32120139. VBIEscCol129921_2478.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00096 Genomic DNA. Translation: AAC75439.1.
AP009048 Genomic DNA. Translation: BAA16250.2.
PIRiA65012.
RefSeqiNP_416881.1. NC_000913.3.
WP_000544359.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP0AA93.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260545. 160 interactions.
STRINGi511145.b2380.

Proteomic databases

PaxDbiP0AA93.
PRIDEiP0AA93.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75439; AAC75439; b2380.
BAA16250; BAA16250; BAA16250.
GeneIDi946723.
KEGGiecj:JW5388.
eco:b2380.
PATRICi32120139. VBIEscCol129921_2478.

Organism-specific databases

EchoBASEiEB3900.
EcoGeneiEG14148. ypdA.

Phylogenomic databases

eggNOGiENOG4108HRK. Bacteria.
COG3275. LUCA.
HOGENOMiHOG000242218.
InParanoidiP0AA93.
KOiK02478.
OMAiCDIIRRD.
OrthoDBiEOG6RVFWR.
PhylomeDBiP0AA93.

Enzyme and pathway databases

BioCyciEcoCyc:G7243-MONOMER.
ECOL316407:JW5388-MONOMER.

Miscellaneous databases

PROiP0AA93.

Family and domain databases

Gene3Di3.30.565.10. 1 hit.
InterProiIPR003018. GAF.
IPR029016. GAF_dom-like.
IPR003594. HATPase_C.
IPR010559. Sig_transdc_His_kin_internal.
IPR011620. Sig_transdc_His_kinase_LytS_TM.
[Graphical view]
PfamiPF07694. 5TM-5TMR_LYT. 1 hit.
PF01590. GAF. 1 hit.
PF02518. HATPase_c. 1 hit.
PF06580. His_kinase. 1 hit.
[Graphical view]
SMARTiSM00387. HATPase_c. 1 hit.
[Graphical view]
SUPFAMiSSF55781. SSF55781. 1 hit.
SSF55874. SSF55874. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Construction of a contiguous 874-kb sequence of the Escherichia coli-K12 genome corresponding to 50.0-68.8 min on the linkage map and analysis of its sequence features."
    Yamamoto Y., Aiba H., Baba T., Hayashi K., Inada T., Isono K., Itoh T., Kimura S., Kitagawa M., Makino K., Miki T., Mitsuhashi N., Mizobuchi K., Mori H., Nakade S., Nakamura Y., Nashimoto H., Oshima T.
    , Oyama S., Saito N., Sampei G., Satoh Y., Sivasundaram S., Tagami H., Takahashi H., Takeda J., Takemoto K., Uehara K., Wada C., Yamagata S., Horiuchi T.
    DNA Res. 4:91-113(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. "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.
  4. "Global topology analysis of the Escherichia coli inner membrane proteome."
    Daley D.O., Rapp M., Granseth E., Melen K., Drew D., von Heijne G.
    Science 308:1321-1323(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, TOPOLOGY [LARGE SCALE ANALYSIS].
    Strain: K12 / MG1655 / ATCC 47076.
  5. "Identification of a target gene and activating stimulus for the YpdA/YpdB histidine kinase/response regulator system in Escherichia coli."
    Fried L., Behr S., Jung K.
    J. Bacteriol. 195:807-815(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, MUTAGENESIS OF HIS-371.
    Strain: K12 / MG1655 / ATCC 47076.

Entry informationi

Entry nameiYPDA_ECOLI
AccessioniPrimary (citable) accession number: P0AA93
Secondary accession number(s): P76523, P76950
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 13, 2005
Last sequence update: September 13, 2005
Last modified: July 6, 2016
This is version 90 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.