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- PDB-1ls4: NMR structure of apolipophorin-III from Locusta migratoria -

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Basic information

Entry
Database: PDB / ID: 1ls4
TitleNMR structure of apolipophorin-III from Locusta migratoria
ComponentsApolipophorin-III
KeywordsLIPID TRANSPORT / Helix-bundle / exchangeable apolipoprotein
Function / homologyApolipoprotein / lipid transport / Four Helix Bundle (Hemerythrin (Met), subunit A) / Up-down Bundle / extracellular region / Mainly Alpha / Apolipophorin-3b
Function and homology information
Biological speciesLocusta migratoria (migratory locust)
MethodSOLUTION NMR / simulated annealing
Model type detailsminimized average
AuthorsFan, D. / Wang, J.
CitationJournal: J.Biol.Chem. / Year: 2003
Title: NMR solution structure and dynamics of an exchangeable apolipoprotein,locusta migratoria apolipophorin III.
Authors: Fan, D. / Zheng, Y. / Yang, D. / Wang, J.
History
DepositionMay 16, 2002Deposition site: RCSB / Processing site: RCSB
Revision 1.0Jun 17, 2003Provider: repository / Type: Initial release
Revision 1.1Apr 28, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 23, 2022Group: Database references / Derived calculations
Category: database_2 / pdbx_struct_assembly / pdbx_struct_oper_list
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession
Revision 1.4May 22, 2024Group: Data collection / Category: chem_comp_atom / chem_comp_bond

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Apolipophorin-III


Theoretical massNumber of molelcules
Total (without water)19,2091
Polymers19,2091
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)21 / 50target function
RepresentativeModel #1minimized average structure

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Components

#1: Protein Apolipophorin-III / APOLP-III


Mass: 19209.256 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Locusta migratoria (migratory locust) / Plasmid: LAPOIII-PET22B / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL-21(DE3) / References: UniProt: P10762

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1113D 15N-separated NOESY
1213D 13C-separated NOESY
NMR detailsText: The structure was determined using triple-resonance NMR spectroscopy

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Sample preparation

DetailsContents: 1 mM apolipophorin-III, 15N/13C uniformly labeled, 200 mM phosphate buffer, 0.5 mM sodium Azide
Solvent system: 95% H2O/5% D2O
Sample conditionsIonic strength: 200 mM phosphate / pH: 6.4 / Pressure: 1 atm / Temperature: 303 K
Crystal grow
*PLUS
Method: other / Details: NMR

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NMR measurement

RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M
Radiation wavelengthRelative weight: 1
NMR spectrometer
TypeManufacturerModelField strength (MHz)Spectrometer-ID
Varian INOVAVarianINOVA5001
Varian INOVAVarianINOVA6002

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Processing

NMR software
NameVersionDeveloperClassification
X-PLOR3.851Brungerstructure solution
NMRPipe2.1F. Delaglioprocessing
X-PLOR3.851Brungerrefinement
RefinementMethod: simulated annealing / Software ordinal: 1
NMR representativeSelection criteria: minimized average structure
NMR ensembleConformer selection criteria: target function / Conformers calculated total number: 50 / Conformers submitted total number: 21

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