6JP7

Human antibody 32D6 Fab in complex with PEG

• PDB DOI: https://doi.org/10.2210/pdb6JP7/pdb

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


• Deposited: 2019-03-26 Released: 2020-02-05 
• Deposition Author(s): Lee, C.C., Ko, T.P., Lin, L.L., Wang, A.H.J.
• Funding Organization(s): Academia Sinica (Taiwan)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free: 0.213 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 

Literature

Structural basis of polyethylene glycol recognition by antibody.

Lee, C.C., Su, Y.C., Ko, T.P., Lin, L.L., Yang, C.Y., Chang, S.S., Roffler, S.R., Wang, A.H.

(2020) J Biomed Sci 27: 12-12

• PubMed: 31907057 
• DOI: https://doi.org/10.1186/s12929-019-0589-7
• Primary Citation of Related Structures:  
  6JP7, 6JU0, 6JWC


• PubMed Abstract: 
  

  Polyethylene glycol (PEG) is widely used in industry and medicine. Anti-PEG antibodies have been developed for characterizing PEGylated drugs and other applications. However, the underlying mechanism for specific PEG binding has not been elucidated.

---

Organizational Affiliation: 

Institute of Biological Chemistry, Academia Sinica, Taipei, Taiwan. [e-mail].

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 49.6 kDa 
• Atom Count: 4,065 
• Modelled Residue Count: 454 
• Deposited Residue Count: 454 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
immunoglobulin Fab heavy chain	A [auth H]	238	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
immunoglobulin Fab light chain	B [auth L]	216	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
P6G (Subject of Investigation/LOI)	C [auth H], F [auth L]	HEXAETHYLENE GLYCOL C12 H26 O7 IIRDTKBZINWQAW-UHFFFAOYSA-N
3FX	D [auth L], E [auth L]	(2R)-3-(cyclohexylamino)-2-hydroxypropane-1-sulfonic acid C9 H19 N O4 S INEWUCPYEUEQTN-SECBINFHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.91 Å
• R-Value Free: 0.213 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.658	α = 90
b = 73.658	β = 90
c = 191.249	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data processing
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-02-05 
Deposition Author(s): Lee, C.C., Ko, T.P., Lin, L.L., Wang, A.H.J.

---

Funding Organization	Location	Grant Number
Academia Sinica (Taiwan)	Taiwan	--

Revision History  

• Version 1.0: 2020-02-05
  Type: Initial release
  
• Version 1.1: 2023-11-22
  Changes: Data collection, Database references, Refinement description