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- PDB-1ojg: Sensory domain of the membraneous two-component fumarate sensor D... -

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Basic information

Entry
Database: PDB / ID: 1ojg
TitleSensory domain of the membraneous two-component fumarate sensor DcuS of E. coli
ComponentsSENSOR PROTEIN DCUS
KeywordsTRANSFERASE / FUMARATE / DCUS / HISTIDINE KINASE
Function / homology
Function and homology information


protein histidine kinase complex / signal transduction => GO:0007165 / protein histidine kinase activity / histidine kinase / phosphorelay sensor kinase activity / plasma membrane => GO:0005886 / phosphorelay signal transduction system / outer membrane-bounded periplasmic space / protein autophosphorylation / membrane => GO:0016020 ...protein histidine kinase complex / signal transduction => GO:0007165 / protein histidine kinase activity / histidine kinase / phosphorelay sensor kinase activity / plasma membrane => GO:0005886 / phosphorelay signal transduction system / outer membrane-bounded periplasmic space / protein autophosphorylation / membrane => GO:0016020 / protein phosphorylation / regulation of DNA-templated transcription / signal transduction / ATP binding / identical protein binding / plasma membrane / cytosol
Similarity search - Function
SpoOB, alpha-helical domain / Sensor_kinase_SpoOB-type, alpha-helical domain / Single cache domain 3 / Single cache domain 3 / Signal transduction histidine kinase, sporulation regulator SpoOB / Periplasmic sensor-like domain superfamily / PAS domain / Signal transduction histidine kinase-related protein, C-terminal / Histidine kinase domain / Histidine kinase domain profile. ...SpoOB, alpha-helical domain / Sensor_kinase_SpoOB-type, alpha-helical domain / Single cache domain 3 / Single cache domain 3 / Signal transduction histidine kinase, sporulation regulator SpoOB / Periplasmic sensor-like domain superfamily / PAS domain / Signal transduction histidine kinase-related protein, C-terminal / Histidine kinase domain / Histidine kinase domain profile. / Beta-Lactamase / PAS fold / PAS fold / PAS domain / PAS repeat profile. / Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase / PAS domain / Histidine kinase-like ATPases / PAS domain superfamily / Histidine kinase/HSP90-like ATPase / Histidine kinase/HSP90-like ATPase superfamily / 2-Layer Sandwich / Alpha Beta
Similarity search - Domain/homology
Sensor histidine kinase DcuS / Sensor histidine kinase DcuS
Similarity search - Component
Biological speciesESCHERICHIA COLI (E. coli)
MethodSOLUTION NMR / RESTRAINED MOLECULAR DYNAMICS
AuthorsPappalardo, L. / Janausch, I.G. / Vijayan, V. / Zientz, E. / Junker, J. / Peti, W. / Zweckstetter, M. / Unden, G. / Griesinger, C.
CitationJournal: J. Biol. Chem. / Year: 2003
Title: The NMR structure of the sensory domain of the membranous two-component fumarate sensor (histidine protein kinase) DcuS of Escherichia coli.
Authors: Pappalardo, L. / Janausch, I.G. / Vijayan, V. / Zientz, E. / Junker, J. / Peti, W. / Zweckstetter, M. / Unden, G. / Griesinger, C.
History
DepositionJul 10, 2003Deposition site: PDBE / Processing site: PDBE
Revision 1.0Aug 15, 2003Provider: repository / Type: Initial release
Revision 1.1May 8, 2011Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Jan 17, 2018Group: Database references / Source and taxonomy / Structure summary
Category: citation / entity_src_gen / struct
Item: _citation.journal_abbrev / _citation.page_last ..._citation.journal_abbrev / _citation.page_last / _citation.pdbx_database_id_DOI / _citation.title / _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id / _struct.title
Revision 1.4May 15, 2024Group: Data collection / Database references / Other
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_database_status / pdbx_nmr_software
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.status_code_mr / _pdbx_nmr_software.name
Remark 650 HELIX DETERMINATION METHOD: AUTHOR PROVIDED.

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: SENSOR PROTEIN DCUS


Theoretical massNumber of molelcules
Total (without water)15,0991
Polymers15,0991
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)10 / 200LOWEST TOTAL ENERGY
RepresentativeModel #1

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Components

#1: Protein SENSOR PROTEIN DCUS / DCUS


Mass: 15099.130 Da / Num. of mol.: 1 / Fragment: FUMARATE SENSORY DOMAIN, RESIDUES 45-180
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) ESCHERICHIA COLI (E. coli) / Strain: BL21(DE3) / Plasmid: PMW145 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3)
References: UniProt: P39272, UniProt: P0AEC8*PLUS, Transferases; Transferring phosphorus-containing groups; Phosphotransferases with a nitrogenous group as acceptor

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
11115N-HSQC
121NOESY-HSQC
131TOCSY-HSQC
141HSQC-NOESY-HSQC
151HNCO
161CBCA(CO)NH
171HN(CA)CB
181CC(CO)NH
191HBHA(CO)NH
1101(H)CCH-COSY
1111(H)CCH-ADIABATIC TOCSY

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Sample preparation

Sample conditionspH: 6.5 / Pressure: 1 atm / Temperature: 303 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Bruker DRXBrukerDRX6001
Bruker DRXBrukerDRX7002
Bruker DRXBrukerDRX8003

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Processing

NMR software
NameDeveloperClassification
Xplor-NIHBRUNGER, CLORE, TJrefinement
XwinNMRstructure solution
XEASYstructure solution
X-PLORstructure solution
RefinementMethod: RESTRAINED MOLECULAR DYNAMICS / Software ordinal: 1
NMR ensembleConformer selection criteria: LOWEST TOTAL ENERGY / Conformers calculated total number: 200 / Conformers submitted total number: 10

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