8QZ5 | pdb_00008qz5

Alpha-1-antitrypsin (Tyr244Phe) in the native conformation

• PDB DOI: https://doi.org/10.2210/pdb8QZ5/pdb

• Classification: PROTEIN BINDING
• Organism(s): Homo sapiens
• Expression System: Escherichia coli K-12
• Mutation(s): Yes 


• Deposited: 2023-10-26 Released: 2024-11-06 
• Deposition Author(s): Aldobiyan, I., Lomas, D.A., Irving, J.A.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom), Other government, Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 
  0.213 (Depositor), 0.213 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

Structural determinants of instability in alpha-1-antitrypsin

Aldobiyan, I., Irving, J.A., Lomas, D.A.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 45.74 kDa 
• Atom Count: 3,038 
• Modeled Residue Count: 362 
• Deposited Residue Count: 404 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-1-antitrypsin	A	404	Homo sapiens	Mutation(s): 1  Gene Names: SERPINA1
UniProt & NIH Common Fund Data Resources
Find proteins for P01009 (Homo sapiens) Explore P01009  Go to UniProtKB:  P01009
PHAROS:  P01009 GTEx:  ENSG00000197249

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
OCS	A	L-PEPTIDE LINKING	C3 H7 N O5 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free:  0.213 (Depositor), 0.213 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.098	α = 90
b = 38.628	β = 104.52
c = 90.039	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-06 
Deposition Author(s): Aldobiyan, I., Lomas, D.A., Irving, J.A.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/V034243/1
Other government		NIHR investigator award to DAL
Other private		Alpha-1 Foundation to JAI 1036784

Revision History  

• Version 1.0: 2024-11-06
  Type: Initial release