2C0I | pdb_00002c0i

Src family kinase Hck with bound inhibitor A-420983

• PDB DOI: https://doi.org/10.2210/pdb2C0I/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 2005-09-03 Released: 2006-09-20 
• Deposition Author(s): Borhani, D.W., Burchat, A., Calderwood, D.J., Hirst, G.C., Li, B., Loew, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.274 (Depositor), 0.271 (DCC) 
• R-Value Work: 
  0.222 (Depositor), 0.222 (DCC) 
• R-Value Observed: 
  0.224 (Depositor) 

Starting Model: experimental

Literature

Discovery of A-770041, a Src-Family Selective Orally Active Lck Inhibitor that Prevents Organ Allograft Rejection.

Burchat, A., Borhani, D.W., Calderwood, D.J., Hirst, G.C., Li, B., Stachlewitz, R.F.

(2006) Bioorg Med Chem Lett 16: 118

• PubMed: 16216497 
• DOI: https://doi.org/10.1016/j.bmcl.2005.09.039
• Primary Citation Related Structures: 
  2C0I, 2C0O, 2C0T


• PubMed Abstract: 
  

  We describe the identification, SAR, and pharmacology of the src-family selective lck inhibitor A-770041 that prolongs the survival of major histocompatibility mismatched allografts in models of solid organ transplant rejection for greater than 65 days.

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Organizational Affiliation: 
• Abbott Bioresearch Center, 100 Research Drive, Worcester, MA 01605-5314, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PQS (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 105.27 kDa 
• Atom Count: 7,383 
• Modeled Residue Count: 868 
• Deposited Residue Count: 908 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TYROSINE-PROTEIN KINASE HCK	A, B	454	Homo sapiens	Mutation(s): 3  EC: 2.7.1.112 (PDB Primary Data), 2.7.10.2 (UniProt)
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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
L1G	C [auth A], E [auth B]	N-(4-{4-AMINO-1-[4-(4-METHYLPIPERAZIN-1-YL)-TRANS-CYCLOHEXYL]-1H-PYRAZOLO[3,4-D]PYRIMIDIN-3-YL}-2-METHOXYPHENYL)-1-METHYL-1H-INDOLE-2-CARBOXAMIDE C33 H39 N9 O2 STVKLDUINKMZFE-RQNOJGIXSA-N
CA	D [auth A], F [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.274 (Depositor), 0.271 (DCC) 
• R-Value Work:  0.222 (Depositor), 0.222 (DCC) 
• R-Value Observed: 0.224 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.078	α = 90
b = 73.124	β = 95.97
c = 179.485	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-09-20 
Deposition Author(s): Borhani, D.W., Burchat, A., Calderwood, D.J., Hirst, G.C., Li, B., Loew, A.

Revision History  

• Version 1.0: 2006-09-20
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2019-03-06
  Changes: Data collection, Derived calculations, Experimental preparation, Other
• Version 1.3: 2019-05-08
  Changes: Data collection, Experimental preparation
• Version 1.4: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.5: 2024-10-16
  Changes: Structure summary