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- PDB-2lqy: Structure and orientation of the gH625-644 membrane interacting r... -

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Basic information

Entry
Database: PDB / ID: 2lqy
TitleStructure and orientation of the gH625-644 membrane interacting region of herpes simplex virus type 1 in a membrane mimetic system.
ComponentsEnvelope glycoprotein H
KeywordsVIRAL PROTEIN
Function / homology
Function and homology information


host cell endosome membrane / membrane => GO:0016020 / fusion of virus membrane with host plasma membrane / viral envelope / host cell plasma membrane / virion membrane
Similarity search - Function
Herpesvirus glycoprotein H / Herpesvirus glycoprotein H, C-terminal / Herpesvirus glycoprotein H, C-terminal domain superfamily / Herpesvirus glycoprotein H C-terminal domain
Similarity search - Domain/homology
Envelope glycoprotein H / Envelope glycoprotein H
Similarity search - Component
Biological speciesHuman herpesvirus 1 (Herpes simplex virus type 1)
MethodSOLUTION NMR / simulated annealing
Model detailsclosest to the average, model 4
AuthorsIsernia, C. / Galdiero, S. / Russo, L. / Falanga, A. / Cantisani, M. / Vitiello, M. / Fattorusso, R. / Malgieri, G. / Galdiero, M.
CitationJournal: Biochemistry / Year: 2012
Title: Structure and Orientation of the gH625-644 Membrane Interacting Region of Herpes Simplex Virus Type 1 in a Membrane Mimetic System.
Authors: Galdiero, S. / Russo, L. / Falanga, A. / Cantisani, M. / Vitiello, M. / Fattorusso, R. / Malgieri, G. / Galdiero, M. / Isernia, C.
History
DepositionMar 19, 2012Deposition site: BMRB / Processing site: RCSB
Revision 1.0Apr 25, 2012Provider: repository / Type: Initial release
Revision 1.1Jun 14, 2023Group: Database references / Other / Category: database_2 / pdbx_database_status
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.status_code_nmr_data
Revision 1.2May 15, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2 / Item: _database_2.pdbx_DOI

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Envelope glycoprotein H


Theoretical massNumber of molelcules
Total (without water)2,3031
Polymers2,3031
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 / 100structures with the lowest energy
RepresentativeModel #1closest to the average

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Components

#1: Protein/peptide Envelope glycoprotein H / UL22


Mass: 2302.636 Da / Num. of mol.: 1 / Fragment: UNP residues 625-644 / Source method: obtained synthetically / Details: Synthesized in the solid phase
Source: (synth.) Human herpesvirus 1 (Herpes simplex virus type 1)
References: UniProt: G8H907, UniProt: P06477*PLUS

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1112D 1H-1H COSY
1212D 1H-1H TOCSY
1312D 1H-1H NOESY

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Sample preparation

DetailsContents: 1 mM protein, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O
SampleConc.: 1 mM / Component: entity_1-1
Sample conditionspH: 6 / Pressure: ambient / Temperature: 300 K

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NMR measurement

NMR spectrometerType: Varian Unity / Manufacturer: Varian / Model: UNITY / Field strength: 500 MHz

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Processing

NMR software
NameDeveloperClassification
CYANAGuntert, Mumenthaler and Wuthrichstructure solution
CYANAGuntert, Mumenthaler and Wuthrichrefinement
RefinementMethod: simulated annealing / Software ordinal: 1
NMR representativeSelection criteria: closest to the average
NMR ensembleConformer selection criteria: structures with the lowest energy
Conformers calculated total number: 100 / Conformers submitted total number: 20

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