4NYL | pdb_00004nyl

Crystal structure of adalimumab FAB fragment

• PDB DOI: https://doi.org/10.2210/pdb4NYL/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-12-10 Released: 2014-12-10 
• Deposition Author(s): Fan, L.J., Lv, L.L., Zhang, Q.J., Chen, C.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.358 (Depositor), 0.360 (DCC) 
• R-Value Work: 
  0.275 (Depositor), 0.273 (DCC) 
• R-Value Observed: 
  0.277 (Depositor) 

Literature

Crystal structure of adalimumab FAB fragment

Fan, L.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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 192.33 kDa 
• Atom Count: 10,495 
• Modeled Residue Count: 1,449 
• Deposited Residue Count: 1,776 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adalimumab Light Chain	A [auth L], C [auth B], E [auth D], G [auth F]	214	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Adalimumab Heavy Chain	B [auth H], D [auth A], F [auth C], H [auth E]	230	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.358 (Depositor), 0.360 (DCC) 
• R-Value Work:  0.275 (Depositor), 0.273 (DCC) 
• R-Value Observed: 0.277 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 131.42	α = 90
b = 47.048	β = 101.33
c = 168.515	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASES	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-12-10 
Deposition Author(s): Fan, L.J., Lv, L.L., Zhang, Q.J., Chen, C.L.

Revision History  

• Version 1.0: 2014-12-10
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Database references, Structure summary