4HI8 | pdb_00004hi8

Structure of integrin-linked kinase ankyrin repeat domain in complex with PINCH1 LIM1 domain collected at high energy, wavelength 0.32800

• PDB DOI: https://doi.org/10.2210/pdb4HI8/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-10-11 Released: 2013-12-11 
• Deposition Author(s): Stiegler, A.L., Jakoncic, J., Stojanoff, V., Chiswell, B.P., Calderwood, D.A., Boggon, T.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 
  0.168 (Depositor), 0.166 (DCC) 
• R-Value Work: 
  0.144 (Depositor), 0.141 (DCC) 
• R-Value Observed: 
  0.145 (Depositor) 

Starting Model: experimental

Literature

Structure of integrin-linked kinase ankyrin repeat domain in complex with PINCH1 LIM1 domain collected at high energy, wavelength 0.32800

Stiegler, A.L., Jakoncic, J., Stojanoff, V., Chiswell, B.P., Calderwood, D.A., Boggon, T.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content 

• Total Structure Weight: 28.77 kDa 
• Atom Count: 2,511 
• Modeled Residue Count: 242 
• Deposited Residue Count: 251 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Integrin-linked protein kinase	A	179	Homo sapiens	Mutation(s): 0  Gene Names: ILK, ILK1, ILK2 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q13418 (Homo sapiens) Explore Q13418  Go to UniProtKB:  Q13418
PHAROS:  Q13418 GTEx:  ENSG00000166333

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
LIM and senescent cell antigen-like-containing domain protein 1	B	72	Homo sapiens	Mutation(s): 0  Gene Names: LIMS1, PINCH, PINCH1
UniProt & NIH Common Fund Data Resources
Find proteins for P48059 (Homo sapiens) Explore P48059  Go to UniProtKB:  P48059
PHAROS:  P48059 GTEx:  ENSG00000169756

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
ZN	D [auth B], E [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free:  0.168 (Depositor), 0.166 (DCC) 
• R-Value Work:  0.144 (Depositor), 0.141 (DCC) 
• R-Value Observed: 0.145 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 37.093	α = 79.87
b = 41.859	β = 68.82
c = 46.983	γ = 85.77

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-12-11 
Deposition Author(s): Stiegler, A.L., Jakoncic, J., Stojanoff, V., Chiswell, B.P., Calderwood, D.A., Boggon, T.J.

Revision History  

• Version 1.0: 2013-12-11
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description