1FKB

ATOMIC STRUCTURE OF THE RAPAMYCIN HUMAN IMMUNOPHILIN FKBP-12 COMPLEX

• PDB DOI: https://doi.org/10.2210/pdb1FKB/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 1992-07-02 Released: 1993-10-31 
• Deposition Author(s): Van Duyne, G.D., Standaert, R.F., Schreiber, S.L., Clardy, J.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Work: 0.165 

Literature

Atomic Structure of the Rapamycin Human Immunophilin Fkbp-12 Complex

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

(1991) J Am Chem Soc 113: 7433

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 12.75 kDa 
• Atom Count: 1,037 
• Modelled Residue Count: 107 
• Deposited Residue Count: 107 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FK506 BINDING PROTEIN	A	107	Homo sapiens	Mutation(s): 0  EC: 5.2.1.8
UniProt & NIH Common Fund Data Resources
Find proteins for P62942 (Homo sapiens) Explore P62942  Go to UniProtKB:  P62942
PHAROS:  P62942 GTEx:  ENSG00000088832

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RAP	B [auth A]	RAPAMYCIN IMMUNOSUPPRESSANT DRUG C51 H79 N O13 QFJCIRLUMZQUOT-HPLJOQBZSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
RAP	BindingDB:  1FKB	Ki: min: 0.2, max: 1 (nM) from 2 assay(s)
		Kd: 0.3 (nM) from 1 assay(s)
		IC50: min: 0.45, max: 20 (nM) from 4 assay(s)
		EC50: min: 30, max: 36 (nM) from 2 assay(s)
	PDBBind:  1FKB	Kd: 0.2 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Work: 0.165 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.42	α = 90
b = 49.16	β = 90
c = 54.74	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 1993-10-31 
Deposition Author(s): Van Duyne, G.D., Standaert, R.F., Schreiber, S.L., Clardy, J.C.

Revision History  

• Version 1.0: 1993-10-31
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Derived calculations