1BDD

STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE

Structural Biology Knowledgebase: 1BDD SBKB.org


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 55
  • Conformers Submitted: 1
  • Selection Criteria: At First the Depositors Carried Out the Distance Geometry Calculation by Starting From 55 Initial Structures. This Calculation Resulted in 41 Solutions Which Had Correct Polypeptide Folds Excluding 14 Mirror Image Substructures. Next the Dynamical Simulated Annealing Calculations Were Performed by Using These 41 Substructures. the Distance and Torsion Angle Violations of the 41 Solutions Obtained by the Dynamical Simulated Annealing Calculations Were Smaller Than 0.6 Angstroms and 27 Degrees Respectively. the Depositors Selected 10 Solutions That Had the Distance and Torsion Angle Violations of Smaller Than 0.5 Angstroms and 10 Degrees Respectively.

Literature

Macromolecules
Sequence Display for 1BDD

Classification: IMMUNOGLOBULIN-BINDING PROTEIN

Total Structure Weight: 6778.49

Macromolecule Entities
Molecule Chains Length Organism Details
STAPHYLOCOCCUS AUREUS PROTEIN A A 60 Staphylococcus aureus Fragment: B DOMAIN
Gene Name(s): spa
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG


Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 55
  • Conformers Submitted: 1
  • Selection Criteria: AT FIRST, THE DEPOSITORS CARRIED OUT THE DISTANCE GEOMETRY CALCULATION BY STARTING FROM 55 INITIAL STRUCTURES. THIS CALCULATION RESULTED IN 41 SOLUTIONS, WHICH HAD CORRECT POLYPEPTIDE FOLDS EXCLUDING 14 MIRROR-IMAGE SUBSTRUCTURES. NEXT, THE DYNAMICAL SIMULATED ANNEALING CALCULATIONS WERE PERFORMED BY USING THESE 41 SUBSTRUCTURES. THE DISTANCE AND TORSION ANGLE VIOLATIONS OF THE 41 SOLUTIONS OBTAINED BY THE DYNAMICAL SIMULATED ANNEALING CALCULATIONS WERE SMALLER THAN 0.6 ANGSTROMS AND 27 DEGREES, RESPECTIVELY. THE DEPOSITORS SELECTED 10 SOLUTIONS THAT HAD THE DISTANCE AND TORSION ANGLE VIOLATIONS OF SMALLER THAN 0.5 ANGSTROMS AND 10 DEGREES, RESPECTIVELY.

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1996-06-28
  • Released Date: 1997-01-11
  • Deposition author(s): Gouda, H., Torigoe, H., Saito, A., Sato, M., Arata, Y., Shimada, I.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4