8D3H

Crystal structure of human Apoptosis-Inducing Factor (AIF) W196A mutant complexed with 7-chloroquinolin-4-amine

• PDB DOI: https://doi.org/10.2210/pdb8D3H/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2022-06-01 Released: 2023-11-08 
• Deposition Author(s): Brosey, C.A., Tainer, J.A.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI), Cancer Prevention and Research Institute of Texas (CPRIT)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free: 0.231 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 

Literature

Integrating early structural selection into chemical library screening for drug discovery with high-throughput small-angle X-ray scattering (SAXS)

Brosey, C.A., Link, T., Shen, R., Moiani, D., Burnett, K., Hura, G., Jones, D.E., Tainer, J.A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: SAXS

Macromolecule Content

• Total Structure Weight: 120.75 kDa 
• Atom Count: 6,802 
• Modelled Residue Count: 866 
• Deposited Residue Count: 1,086 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Apoptosis-inducing factor 1, mitochondrial	A	543	Homo sapiens	Mutation(s): 1  Gene Names: AIFM1, AIF, PDCD8 EC: 1.6.99
UniProt & NIH Common Fund Data Resources
Find proteins for O95831 (Homo sapiens) Explore O95831  Go to UniProtKB:  O95831
PHAROS:  O95831 GTEx:  ENSG00000156709

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Apoptosis-inducing factor 1, mitochondrial	B	543	Homo sapiens	Mutation(s): 1  Gene Names: AIFM1, AIF, PDCD8 EC: 1.6.99
UniProt & NIH Common Fund Data Resources
Find proteins for O95831 (Homo sapiens) Explore O95831  Go to UniProtKB:  O95831
PHAROS:  O95831 GTEx:  ENSG00000156709

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	C [auth A], F [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
QBC (Subject of Investigation/LOI)	D [auth A], G [auth B]	7-chloroquinolin-4-amine C9 H7 Cl N2 NDRZSRWMMUGOBP-UHFFFAOYSA-N
EDO	E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSX	A	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.51 Å
• R-Value Free: 0.231 
• R-Value Work: 0.204 
• R-Value Observed: 0.206 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.787	α = 90
b = 114.767	β = 90
c = 120.907	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-08 
Deposition Author(s): Brosey, C.A., Tainer, J.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	R35 CA220430
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	P01 CA092584
Cancer Prevention and Research Institute of Texas (CPRIT)	United States	RP180813

Revision History  

• Version 1.0: 2023-11-08
  Type: Initial release