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- PDB-1pjd: Structure and Topology of a Peptide Segment of the 6th Transmembr... -

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Entry
Database: PDB / ID: 1pjd
TitleStructure and Topology of a Peptide Segment of the 6th Transmembrane Domain of the Saccharomyces cerevisiae alpha-Factor Receptor in Phospholipid Bilayers
ComponentsPheromone alpha factor receptor
KeywordsMEMBRANE PROTEIN / ALPHA HELIX
Function / homology
Function and homology information


mating-type alpha-factor pheromone receptor activity / cytogamy / mating-type factor pheromone receptor activity / G protein-coupled receptor homodimeric complex / pheromone-dependent signal transduction involved in conjugation with cellular fusion / response to pheromone / pheromone binding / membrane => GO:0016020 / plasma membrane
Similarity search - Function
GPCR fungal pheromone mating factor, STE2 / Pheromone alpha factor receptor, double transmembrane domain superfamily / Fungal pheromone mating factor STE2 GPCR
Similarity search - Domain/homology
Pheromone alpha factor receptor / Pheromone alpha factor receptor
Similarity search - Component
MethodSOLID-STATE NMR / Direct structural fitting of 2D solid-state NMR spectra
AuthorsValentine, K.G. / Liu, S.-F. / Marassi, F.M. / Veglia, G. / Nevzorov, A.A. / Opella, S.J. / Ding, F.-X. / Wang, S.-H. / Arshava, B. / Becker, J.M. / Naider, F.
CitationJournal: Biopolymers / Year: 2001
Title: Structure and Topology of a Peptide Segment of the 6th Transmembrane Domain of the Saccharomyces cerevisiae alpha-Factor Receptor in Phospholipid Bilayers
Authors: Valentine, K.G. / Liu, S.-F. / Marassi, F.M. / Veglia, G. / Opella, S.J. / Ding, F.-X. / Wang, S.-H. / Arshava, B. / Becker, J.M. / Naider, F.
History
DepositionJun 2, 2003Deposition site: RCSB / Processing site: RCSB
Revision 1.0Sep 16, 2003Provider: repository / Type: Initial release
Revision 1.1Apr 29, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Oct 27, 2021Group: Advisory / Data collection ...Advisory / Data collection / Database references / Derived calculations
Category: database_2 / pdbx_database_remark ...database_2 / pdbx_database_remark / pdbx_nmr_software / pdbx_struct_assembly / pdbx_struct_oper_list / struct_ref_seq_dif
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_remark.text / _pdbx_nmr_software.name / _struct_ref_seq_dif.details
Remark 215NMR STUDY THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID- STATE NMR DATA. PROTEIN DATA ...NMR STUDY THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLID- STATE NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON THESE RECORDS ARE MEANINGLESS.

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: Pheromone alpha factor receptor


Theoretical massNumber of molelcules
Total (without water)1,9771
Polymers1,9771
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_5551
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)1 / 100
RepresentativeModel #1minimized average structure

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Components

#1: Protein/peptide Pheromone alpha factor receptor


Mass: 1977.411 Da / Num. of mol.: 1 / Mutation: C252A / Source method: obtained synthetically
Details: This sequence occurs naturally in a portion of the 6th transmembrane domain of the alpha factor receptor of Saccharomyces cerevisiae. 15N selectively labeled Fmoc-Leu, -Ala, -Phe, -Val, -Ile were used.
References: UniProt: P06842, UniProt: D6VTK4*PLUS

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Experimental details

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Experiment

ExperimentMethod: SOLID-STATE NMR
NMR experimentType: PISEMA
NMR detailsText: PISEMA: Polarization Inversion Spin Exchange at the Magic Angle

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Sample preparation

DetailsContents: Aligned sample on glass plates
Sample conditionspH: 7.0 / Pressure: ambient / Temperature: 278 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 spectrometerType: Home-built Magnex / Manufacturer: Home-built / Model: Magnex / Field strength: 700 MHz

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Processing

NMR software
NameVersionDeveloperClassification
Felix97Accelrysprocessing
Sructural Fitting1Nevzorov, Opellastructure solution
Sructural Fitting1Nevzorov, Opellarefinement
RefinementMethod: Direct structural fitting of 2D solid-state NMR spectra
Software ordinal: 1
Details: This structure was calculated by using a structural fitting algorithm that finds torsion angles between consecutive residues based on their NMR frequencies.
NMR representativeSelection criteria: minimized average structure
NMR ensembleConformers calculated total number: 100 / Conformers submitted total number: 1

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