Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 12640.53 
• Atom Count: 889 
• Residue Count: 107 
• Unique protein chains: 1

1FKF

ATOMIC STRUCTURE OF FKBP-FK506, AN IMMUNOPHILIN-IMMUNOSUPPRESSANT COMPLEX

• DOI: 10.2210/pdb1FKF/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens


• Deposited: 1991-05-07 Released: 1991-07-15 
• Deposition Author(s): Vanduyne, G.D., Standaert, R.F., Karplus, P.A., Schreiber, S.L., Clardy, J.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Work: 0.170 

Literature

Atomic structure of FKBP-FK506, an immunophilin-immunosuppressant complex.

Van Duyne, G.D., Standaert, R.F., Karplus, P.A., Schreiber, S.L., Clardy, J.

(1991) Science 252: 839-842

• PubMed: 1709302 


• PubMed Abstract: 
  

The structure of the human FK506 binding protein (FKBP), complexed with the immunosuppressant FK506, has been determined to 1.7 angstroms resolution by x-ray crystallography. The conformation of the protein changes little upon complexation, but the conformation of FK506 is markedly different in the bound and unbound forms. The drug's association with the protein involves five hydrogen bonds, a hydrophobic binding pocket lined with conserved aromatic residues, and an unusual carbonyl binding pocket. The nature of this complex has implications for the mechanism of rotamase catalysis and for the biological actions of FK506 and rapamycin.

---

Related Citations: 

• Molecular Cloning and Overexpression of the Human Fk506-Binding Protein Fkbp
  Standaert, R.F.,Galat, A.,Verdine, G.L.,Schreiber, S.L.
  (1990) Nature 346: 671




---

Organizational Affiliation: 

Department of Chemistry, Baker Laboratory, Cornell University, Ithaca, NY 14853-1301.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
FK506 BINDING PROTEIN	A	107	Homo sapiens	Mutation(s): 0  Gene Names: FKBP1A (FKBP1, FKBP12) EC: 5.2.1.8
Find proteins for P62942 (Homo sapiens) Go to Gene View: FKBP1A Go to UniProtKB:  P62942

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
FK5	A	8-DEETHYL-8-[BUT-3-ENYL]-ASCOMYCIN K506 C44 H69 N O12 QJJXYPPXXYFBGM-LFZNUXCKSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
FK5	IC50: 2.3 - 1000 nM (100) BINDINGDB
FK5	Ki: 0.4 nM (100) BINDINGDB
FK5	Kd: 0.2 nM (100) BINDINGDB
FK5	Kd: 0.4 nM BINDINGMOAD
FK5	Kd: 0.4 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.7 Å
• R-Value Work: 0.170 
• Space Group: P 4₂ 2₁ 2

Unit Cell:

Length (Å)	Angle (°)
a = 58.070	α = 90.00
b = 58.070	β = 90.00
c = 55.650	γ = 90.00

Software Package:

Software Name	Purpose
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1991-05-07 
• Released Date: 1991-07-15 
• Deposition Author(s): Vanduyne, G.D., Standaert, R.F., Karplus, P.A., Schreiber, S.L., Clardy, J.

Revision History 

• Version 1.0: 1991-07-15
  Type: Initial release
• Version 1.1: 2008-03-03
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2011-11-16
  Type: Atomic model
• Version 1.4: 2017-11-29
  Type: Derived calculations, Other