6I3Z

Fab fragment of an antibody selective for wild-type alpha-1-antitrypsin in complex with its antigen


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.307 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.263 

wwPDB Validation 3D Report Full Report



Literature

Characterisation of polymers extracted from the liver tissue of individuals with the MZ alpha-1-antitrypsin deficiency genotype

Laffranchi, M.Elliston, E.L.K.Miranda, E.Perez, J.Heyer-Chauhan, N.Gangemi, F.Jagger, A.M.Fra, A.Irving, J.A.Lomas, D.A.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Alpha-1-antitrypsin
A
356Homo sapiensMutation(s): 0 
Gene Names: SERPINA1AATPIPRO0684PRO2209
Find proteins for P01009 (Homo sapiens)
Go to UniProtKB:  P01009
NIH Common Fund Data Resources
PHAROS  P01009

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Alpha-1-antitrypsin
B
41Homo sapiensMutation(s): 0 
Gene Names: SERPINA1AATPIPRO0684PRO2209
Find proteins for P01009 (Homo sapiens)
Go to UniProtKB:  P01009
NIH Common Fund Data Resources
PHAROS  P01009

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Fab 2H2 heavy chain
H
216Mus musculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

Find similar proteins by: Sequence  |  Structure

Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Fab 2H2 light chain
L
214Mus musculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
NA
Query on NA

Download CCD File 
A, L
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.307 
  • R-Value Work: 0.261 
  • R-Value Observed: 0.263 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.538α = 84.31
b = 51.93β = 81.47
c = 105.869γ = 78.95
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (United Kingdom)United KingdomMR/N024842/1
Other privateItalyFondazione Cariplo 2013-0967
Other privateUnited StatesAlpha-1 Foundation project grant to James Irving
Other governmentUnited KingdomUCLH/NIHR Biomedical Research Centre

Revision History 

  • Version 1.0: 2019-11-20
    Type: Initial release