Macromolecule Content

• Total Structure Weight: 5244.00 
• Atom Count: 370 
• Residue Count: 50 
• Unique protein chains: 1

1FDM

FD MAJOR COAT PROTEIN IN SDS MICELLES, NMR, 20 STRUCTURES

• DOI: 10.2210/pdb1FDM/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Enterobacteria phage fd


• Deposited: 1997-05-28 Released: 1997-09-17 
• Deposition Author(s): Almeida, F.C.L., Opella, S.J.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 220 
• Conformers Submitted: 20 
• Selection Criteria: 10 LOWEST ENERGY FOR EACH FAMILY OF STRUCTURE 

Literature

fd coat protein structure in membrane environments: structural dynamics of the loop between the hydrophobic trans-membrane helix and the amphipathic in-plane helix.

Almeida, F.C., Opella, S.J.

(1997) J.Mol.Biol. 270: 481-495

• PubMed: 9237913 
• DOI: 10.1006/jmbi.1997.1114


• PubMed Abstract: 
  

By performing multidimensional solution NMR experiments on micelle samples it was possible to determine the structure of the membrane-bound form of fd coat protein based on short-range distance and dihedral angle constraints using distance geometry and simulated annealing calculations. Its dynamics were described by 15N relaxation measurements (T1, T2, heteronuclear nuclear Overhauser enhancement (NOE)) fitted with the Lipari-Szabo model-free formalism adapted for the transmembrane and in-plane helices of a membrane protein. The overall correlation time of the protein in micelles was found to be approximately 9 ns, and the local motion of each backbone N-H vector was described by an order parameter and an effective correlation time. The 50 residue protein has an amphipathic alpha-helix (residues 7 to 16) and a hydrophobic alpha-helix (residues 27 to 44), which were found to be approximately perpendicular on the basis of NOEs in the residues that connect the two helices. The residues connecting the helices are of particular interest in membrane proteins, and in this case the loop consists of two turns. The relaxation data show the presence of an extra motion in the amphipathic alpha-helix on the nanosecond timescale and additional flexibility of several residues in the loop connecting the two helices.

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Organizational Affiliation: 

Department of Chemistry, University of Pennsylvania, Philadelphia 19104-6323, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
FD MAJOR COAT PROTEIN	A	50	Enterobacteria phage fd	Mutation(s): 0  Gene Names: VIII
Membrane protein mpstruct	Group:  TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group:  Virus Coat Proteins	Protein:  fd bacteriophage pVIII coat protein in lipid bilayers
Find proteins for P69539 (Enterobacteria phage fd) Go to UniProtKB:  P69539

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 220 
• Conformers Submitted: 20 
• Selection Criteria: 10 LOWEST ENERGY FOR EACH FAMILY OF STRUCTURE 
• Olderado: 1FDM Olderado

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-05-28 
• Released Date: 1997-09-17 
• Deposition Author(s): Almeida, F.C.L., Opella, S.J.

Revision History 

• Version 1.0: 1997-09-17
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance