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- PDB-1e0h: Inhibitor Protein Im9 bound to its partner E9 DNase -

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Basic information

Entry
Database: PDB / ID: 1e0h
TitleInhibitor Protein Im9 bound to its partner E9 DNase
ComponentsIMMUNITY PROTEIN FOR COLICIN E9
KeywordsBACTERIOCIN / COLICIN IMMUNITY PROTEIN / E-TYPE COLICINS / INHIBITOR OF E9 DNASE
Function / homology
Function and homology information


bacteriocin immunity / toxic substance binding / protein domain specific binding / protein-containing complex
Similarity search - Function
Colicin E immunity protein / Colicin immunity protein/pyocin immunity protein / Colicin E immunity protein superfamily / Colicin immunity protein / pyocin immunity protein / Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A / Orthogonal Bundle / Mainly Alpha
Similarity search - Domain/homology
Colicin-E9 immunity protein
Similarity search - Component
Biological speciesESCHERICHIA COLI (E. coli)
MethodSOLUTION NMR / torsion angle dynamics
AuthorsBoetzel, R. / Czisch, M. / Kaptein, R. / Hemmings, A.M. / James, R. / Kleanthous, C. / Moore, G.R.
CitationJournal: Protein Sci. / Year: 2000
Title: NMR investigation of the interaction of the inhibitor protein Im9 with its partner DNase.
Authors: Boetzel, R. / Czisch, M. / Kaptein, R. / Hemmings, A.M. / James, R. / Kleanthous, C. / Moore, G.R.
History
DepositionMar 28, 2000Deposition site: PDBE / Processing site: PDBE
Revision 1.0Oct 30, 2000Provider: repository / Type: Initial release
Revision 1.1May 8, 2011Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Oct 9, 2019Group: Data collection / Database references / Other / Category: citation / pdbx_database_status
Item: _citation.page_last / _citation.pdbx_database_id_DOI ..._citation.page_last / _citation.pdbx_database_id_DOI / _citation.title / _pdbx_database_status.status_code_mr
Revision 1.4May 15, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: IMMUNITY PROTEIN FOR COLICIN E9


Theoretical massNumber of molelcules
Total (without water)9,5931
Polymers9,5931
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)20 / 20LOWEST ENERGY STRUCTURES WITH NO RESTRAINT VIOLATIONS >0.4
RepresentativeModel #1

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Components

#1: Protein IMMUNITY PROTEIN FOR COLICIN E9


Mass: 9592.500 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Details: BOUND TO COLICIN E9 DNASE DOMAIN / Source: (natural) ESCHERICHIA COLI (E. coli) / Strain: JM105 / References: UniProt: P13479

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1111H
12115N HSQC
131CBCA(CO)NH
141HNCA
151HNCO
161(H)CCH-TOCSY
1713D-13C-NOESY
1813D-15N-NOESY
NMR detailsText: THE STRUCTURE WAS DETERMINED USING TRIPLE RESONANCE NMR EXPERIMENTS ON 13C,15N-LABELLED IM9 BOUND TO UNLABELLED E9 DNASE.

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Sample preparation

DetailsContents: 10% WATER/90% D2O
Sample conditionspH: 6.2 / Pressure: 1 atm / Temperature: 295 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Varian UNITYPLUSVarianUNITYPLUS5001
Varian INOVAVarianINOVA6002
Bruker AMXBrukerAMX7503

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Processing

NMR software
NameDeveloperClassification
DYANAGUNTERT,WUTHRICHrefinement
DYANAstructure solution
RefinementMethod: torsion angle dynamics / Software ordinal: 1
NMR ensembleConformer selection criteria: LOWEST ENERGY STRUCTURES WITH NO RESTRAINT VIOLATIONS >0.4
Conformers calculated total number: 20 / Conformers submitted total number: 20

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