1AVD

THREE-DIMENSIONAL STRUCTURE OF THE TETRAGONAL CRYSTAL FORM OF EGG-WHITE AVIDIN IN ITS FUNCTIONAL COMPLEX WITH BIOTIN AT 2.7 ANGSTROMS RESOLUTION

Structural Biology Knowledgebase: 1AVD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Observed: 0.174

Literature

Macromolecules
Sequence Display for 1AVD

Classification: BIOTIN-BINDING PROTEIN

Total Structure Weight: 29410.23

Macromolecule Entities
Molecule Chains Length Organism Details
AVIDIN A, B 128 Gallus gallus Mutation: I34T
Gene Name(s): AVD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BTN
Query on BTN

A, B BIOTIN
C10 H16 N2 O3 S
YBJHBAHKTGYVGT-ZKWXMUAHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BTN N/A in BindingDB
N/A in BindingMoad
Kd: 1E-6 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Observed: 0.174
  • Space Group: P 42 21 2

Unit Cell:

Length (Å) Angle (°)
a = 80.15 α = 90.00
b = 80.15 β = 90.00
c = 85.28 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1993-03-05
  • Released Date: 1994-01-31
  • Deposition author(s): Pugliese, L., Coda, A., Malcovati, M., Bolognesi, M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values