1DF8

S45A MUTANT OF STREPTAVIDIN IN COMPLEX WITH BIOTIN

Structural Biology Knowledgebase: 1DF8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.169

Literature

Macromolecules
Sequence Display for 1DF8

Classification: BINDING PROTEIN

Total Structure Weight: 27019.55

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (STREPTAVIDIN) A, B 127 Streptomyces avidinii Fragment: CORE, RESIDUES 13-139
Mutation: S45A
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 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)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BTN Kd: 1 nM (99) BindingDB
ΔH: -123 - -66.9 kJ/mol (98 - 99) BindingDB

Kd: 0.2 nM  BindingMOAD
Kd: 0.20 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 0.225
  • R-Value Work: 0.169
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 46.20 α = 90.00
b = 93.90 β = 90.00
c = 104.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-18
  • Released Date: 2000-09-20
  • Deposition author(s): Hyre, D.E., Le Trong, I., Freitag, S., Stenkamp, R.E., Stayton, P.S.

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