8R21 | pdb_00008r21

Alpha-1-antitrypsin (Ile340Trp) in the native conformation

• PDB DOI: https://doi.org/10.2210/pdb8R21/pdb

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


• Deposited: 2023-11-02 Released: 2024-11-13 
• Deposition Author(s): Aldobiyan, I., Lee, H.J., 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: 2.88 Å
• R-Value Free: 
  0.242 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.199 (Depositor) 

Starting Model: experimental

Literature

Structural determinants of instability in alpha-1-antitrypsin

Aldobiyan, I., Lee, H.J., 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.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 91.37 kDa 
• Atom Count: 5,434 
• Modeled Residue Count: 728 
• Deposited Residue Count: 808 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-1-antitrypsin	A, B	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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.88 Å
• R-Value Free:  0.242 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.199 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.45	α = 90
b = 113.45	β = 90
c = 136.743	γ = 120

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Aldobiyan, I., Lee, H.J., 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: 2024-11-13
  Type: Initial release