1QCF | pdb_00001qcf

CRYSTAL STRUCTURE OF HCK IN COMPLEX WITH A SRC FAMILY-SELECTIVE TYROSINE KINASE INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb1QCF/pdb

• Classification: TYROSINE KINASE
• Organism(s): Homo sapiens
• Mutation(s): Yes 


• Deposited: 1999-05-04 Released: 1999-06-08 
• Deposition Author(s): Schindler, T., Sicheri, F., Pico, A., Gazit, A., Levitzki, A., Kuriyan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.257 (Depositor) 
• R-Value Work: 
  0.215 (Depositor) 

Literature

Crystal structure of Hck in complex with a Src family-selective tyrosine kinase inhibitor.

Schindler, T., Sicheri, F., Pico, A., Gazit, A., Levitzki, A., Kuriyan, J.

(1999) Mol Cell 3: 639-648

• PubMed: 10360180 
• DOI: https://doi.org/10.1016/s1097-2765(00)80357-3
• Primary Citation Related Structures: 
  1QCF


• PubMed Abstract: 
  

  The crystal structure of the autoinhibited form of Hck has been determined at 2.0 A resolution, in complex with a specific pyrazolo pyrimidine-type inhibitor, PP1. The activation segment, a key regulatory component of the catalytic domain, is unphosphorylated and is visualized in its entirety. Tyr-416, the site of activating autophosphorylation in the Src family kinases, is positioned such that access to the catalytic machinery is blocked. PP1 is bound at the ATP-binding site of the kinase, and a methylphenyl group on PP1 is inserted into an adjacent hydrophobic pocket. The enlargement of this pocket in autoinhibited Src kinases suggests a route toward the development of inhibitors that are specific for the inactive forms of these proteins.

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Organizational Affiliation: 
• Laboratories of Molecular Biophysics, Rockefeller University, New York, New York 10021, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 52.28 kDa 
• Atom Count: 3,959 
• Modeled Residue Count: 450 
• Deposited Residue Count: 454 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein kinase HCK	A	454	Homo sapiens	Mutation(s): 3  Gene Names: HCK EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P08631 (Homo sapiens) Explore P08631  Go to UniProtKB:  P08631
PHAROS:  P08631 GTEx:  ENSG00000101336

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PP1	B [auth A]	1-TER-BUTYL-3-P-TOLYL-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-YLAMINE C16 H19 N5 ZVPDNRVYHLRXLX-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR	A	L-PEPTIDE LINKING	C9 H12 N O6 P		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.257 (Depositor) 
• R-Value Work:  0.215 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.015	α = 90
b = 99.002	β = 90
c = 103.387	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-06-08 
Deposition Author(s): Schindler, T., Sicheri, F., Pico, A., Gazit, A., Levitzki, A., Kuriyan, J.

Revision History  

• Version 1.0: 1999-06-08
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2022-12-21
  Changes: Database references, Derived calculations, Source and taxonomy, Structure summary
• Version 1.5: 2024-10-09
  Changes: Data collection, Structure summary