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Standard Name	kdpD
Gene Synonym(s)	ECK0683, b0695, JW0683, kac^[1], kac
Product Desc.	KdpD^[2]^[3], KdpD-P^his^[2]^[3] Component of KdpD^[2]^[3] Sensor kinase for the kdp operon; has autokinase activity and KdpE-directed phosphotransferase and phosphatase activities; dimeric^[4]
Product Synonyms(s)	fused sensory histidine kinase in two-component regulatory system with KdpE: signal sensing protein^[1], sensory histidine kinase^[1], B0695^[2]^[1], Kac^[2]^[1], sensor kinase-phosphotransferase KdpD-P^his^[2]^[1], phospho-KdpD^[2]^[1], sensor kinase-phosphotransferase KdpD^[2]^[1], ECK0683, JW0683, kac, b0695
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): kdpDE^[2]
Regulation/Activity
Quick Links
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Notes

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Inhibition of KdpD phosphatase activity leads to an accumulation of phospho-KdpE and activation of kdpFABC transcription.^[4]

Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	kdpD
Mnemonic	K+- DePendence
Synonyms	ECK0683, b0695, JW0683, kac^[1], kac
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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain	Map location	Genome coordinates	Genome browsers	Sequence links
MG1655	15.54 minutes	MG1655: 723637..720953 <gbrowseImage> name=NC_000913:720953..723637 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 706512..703825 <gbrowseImage> name=NC_012967:703825..706512 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 623713..626397 <gbrowseImage> name=NC_012759:623713..626397 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 724836..722152 <gbrowseImage> name=NC_007779:722152..724836 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 776229..773545 <gbrowseImage> name=NC_010473:773545..776229 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Reference	Availability
ΔkdpD (Keio:JW0683)	deletion	deletion	PMID:16738554	Shigen CGSC8765^[5]
ΔkdpD744::kan			PMID:16738554	CGSC:101612
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Notes

Genetic Interactions

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Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW0683	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAATAACGAACCCTTACGTCC Primer 2:CCCATATCCTCATGAAATTCTTC
11A10	Kohara Phage	Genobase	PMID:3038334
asnB3057::Tn10	Linked marker	CAG18433 = CGSC7349^[5]	est. P1 cotransduction: 48% ^[6] Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.
nadA57::Tn10	Linked marker	CAG12147 = CGSC7351^[5]	est. P1 cotransduction: 5% ^[6]
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10516	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10516	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000509	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946744	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0511	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002368	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name	KdpD
Synonyms	fused sensory histidine kinase in two-component regulatory system with KdpE: signal sensing protein^[1], sensory histidine kinase^[1], B0695^[2]^[1], Kac^[2]^[1], sensor kinase-phosphotransferase KdpD-P^his^[2]^[1], phospho-KdpD^[2]^[1], sensor kinase-phosphotransferase KdpD^[2]^[1], ECK0683, JW0683, kac, b0695
Product description	KdpD^[2]^[3], KdpD-P^his^[2]^[3] Component of KdpD^[2]^[3] Sensor kinase for the kdp operon; has autokinase activity and KdpE-directed phosphotransferase and phosphatase activities; dimeric^[4]
EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology

See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier	GO ID	GO term name	Reference	Evidence Code	with/from	Aspect	Notes	Status
	GO:0000155	two-component sensor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003661	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000155	two-component sensor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003852	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000155	two-component sensor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	F	Seeded from EcoCyc (v14.0)	complete
	GO:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003594	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0067	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9909	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016310	phosphorylation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004358	P	Seeded from EcoCyc (v14.0)	complete
	GO:0018106	peptidyl-histidine phosphorylation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005467	P	Seeded from EcoCyc (v14.0)	complete
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Interactions

See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	Notes	References	Evidence
Protein	Subunits of KdpD	could be indirect
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source
plasma membrane	C-terminus localized in the cytoplasm with 4 predicted transmembrane domains	Daley et al. (2005) ^[7]
plasma membrane			From EcoCyc^[3]
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence	at EcoCyc MNNEPLRPDP DRLLEQTAAP HRGKLKVFFG ACAGVGKTWA MLAEAQRLRA QGLDIVVGVV ETHGRKDTAA MLEGLAVLPL KRQAYRGRHI SEFDLDAALA RRPALILMDE LAHSNAPGSR HPKRWQDIEE LLEAGIDVFT TVNVQHLESL NDVVSGVTGI QVRETVPDPF FDAADDVVLV DLPPDDLRQR LKEGKVYIAG QAERAIEHFF RKGNLIALRE LALRRTADRV DEQMRAWRGH PGEEKVWHTR DAILLCIGHN TGSEKLVRAA ARLASRLGSV WHAVYVETPA LHRLPEKKRR AILSALRLAQ ELGAETATLS DPAEEKAVVR YAREHNLGKI ILGRPASRRW WRRETFADRL ARIAPDLDQV LVALDEPPAR TINNAPDNRS FKDKWRVQIQ GCVVAAALCA VITLIAMQWL MAFDAANLVM LYLLGVVVVA LFYGRWPSVV ATVINVVSFD LFFIAPRGTL AVSDVQYLLT FAVMLTVGLV IGNLTAGVRY QARVARYREQ RTRHLYEMSK ALAVGRSPQD IAATSEQFIA STFHARSQVL LPDDNGKLQP LTHPQGMTPW DDAIAQWSFD KGLPAGAGTD TLPGVPYQIL PLKSGEKTYG LVVVEPGNLR QLMIPEQQRL LETFTLLVAN ALERLTLTAS EEQARMASER EQIRNALLAA LSHDLRTPLT VLFGQAEILT LDLASEGSPH ARQASEIRQH VLNTTRLVNN LLDMARIQSG GFNLKKEWLT LEEVVGSALQ MLEPGLSSPI NLSLPEPLTL IHVDGPLFER VLINLLENAV KYAGAQAEIG IDAHVEGENL QLDVWDNGPG LPPGQEQTIF DKFARGNKES AVPGVGLGLA ICRAIVDVHG GTITAFNRPE GGACFRVTLP QQTAPELEEF HEDM
Length	894
Mol. Wt	98.719 kDa
pI	6.8 (calculated)
Extinction coefficient	96,370 - 97,120 (calc based on 13 Y, 14 W, and 6 C residues)
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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type	Residues	Description	References
Domain	774..882	PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase	PMID:19920124
Domain	663..730	PF00512 His Kinase A (phosphoacceptor) domain	PMID:19920124
Domain	20..230	PF02702 Osmosensitive K+ channel His kinase sensor domain	PMID:19920124
Domain	249..373	PF00582 Universal stress protein family	PMID:19920124
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<motif_map/>

Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=kdpD taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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Resource type	Source	Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16128671	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946744	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002368	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P21865	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10516	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10516	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946744	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000509	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0511	Escherichia coli str. K-12 substr. MG1655
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Notes

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Name	URL	Comments
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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Cellular Levels

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See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	Ecoli K-12	8.768+/-0.241	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.0085693	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	68	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	40	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
Protein	E. coli K-12 MG1655	17	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
kdpDE
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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:723617..723657 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type	Reference	Notes
microarray	GEO Profiles:b0695 (EcoliWiki Page)	NCBI GEO profiles for kdpD
microarray	GenExpDB:b0695 (EcoliWiki Page)	Summary of data for kdpD from multiple microarray studies
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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name	Resource Type	Description	Source	Notes
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Notes

Accessions Related to kdpD Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
EcoCyc	EcoCyc:EG10516	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0511	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0695
EcoGene	EcoGene:EG10516	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000509	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002368	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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Evolution

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Homologs in Other Organisms

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<protect> See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism	Homologs (Statistics)	Comments
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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF02702 Osmosensitive K+ channel His kinase sensor domain
Pfam (EcoliWiki Page)	PF00512 His Kinase A (phosphoacceptor) domain
Pfam (EcoliWiki Page)	PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
Superfamily (EcoliWiki Page)	SUPERFAMILY:47384
Panther (EcoliWiki Page)	PTHR24423:SF200
Superfamily (EcoliWiki Page)	SUPERFAMILY:55874
Pfam (EcoliWiki Page)	PF00582 Universal stress protein family
EcoCyc	EcoCyc:EG10516	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10516	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000509	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0511	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002368	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 ^1.11 ^1.12 ^1.13 ^1.14 ^1.15 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 ^2.14 ^2.15 ^2.16 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^6.0 ^6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

kdpD:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to kdpD Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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