4X8J

Crystal Structure of murine 12F4 Fab monoclonal antibody against ADAMTS5

• PDB DOI:  https://doi.org/10.2210/pdb4X8J/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Mus musculus
• Expression System: Mus musculus
• Mutation(s): No 


• Deposited: 2014-12-10 Released: 2015-04-08 
• Deposition Author(s): Larkin, J., Lohr, T.A., Elefante, L., Shearin, J., Matico, R., Su, J.-L., Xue, Y., Liu, F., Genell, C., Miller, R.E., Tran, P.B., Malfait, A.-M., Maier, C.C., Matheny, C.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.234 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 

Literature

Translational development of an ADAMTS-5 antibody for osteoarthritis disease modification.

Larkin, J., Lohr, T.A., Elefante, L., Shearin, J., Matico, R., Su, J.L., Xue, Y., Liu, F., Genell, C., Miller, R.E., Tran, P.B., Malfait, A.M., Maier, C.C., Matheny, C.J.

(2015) Osteoarthritis Cartilage 23: 1254-1266

• PubMed: 25800415 
• DOI: https://doi.org/10.1016/j.joca.2015.02.778
• Primary Citation of Related Structures:  
  4X80, 4X8J


• PubMed Abstract: 
  

  Aggrecanase activity, most notably ADAMTS-5, is implicated in pathogenic cartilage degradation. Selective monoclonal antibodies (mAbs) to both ADAMTS-5 and ADAMTS-4 were generated and in vitro, ex vivo and in vivo systems were utilized to assess target engagement, aggrecanase inhibition and modulation of disease-related endpoints with the intent of selecting a candidate for clinical development in osteoarthritis (OA).

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Organizational Affiliation: 

Translational Medicine - Biopharm R&D, GlaxoSmithKline, Upper Merion, PA, USA.

Biological Assembly 1  

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 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)

Macromolecule Content

• Total Structure Weight: 95.54 kDa 
• Atom Count: 6,674 
• Modelled Residue Count: 830 
• Deposited Residue Count: 864 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
12F4 FAB Light chain	A [auth L], C [auth B]	214	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
12F4 FAB Heavy chain	B [auth H], D [auth A]	218	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
2PE	F [auth H], G [auth H]	NONAETHYLENE GLYCOL C18 H38 O10 YZUUTMGDONTGTN-UHFFFAOYSA-N
ZN	E [auth L], H	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.234 
• R-Value Work: 0.217 
• R-Value Observed: 0.218 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 149.08	α = 90
b = 149.08	β = 90
c = 116.774	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-04-08 
Deposition Author(s): Larkin, J., Lohr, T.A., Elefante, L., Shearin, J., Matico, R., Su, J.-L., Xue, Y., Liu, F., Genell, C., Miller, R.E., Tran, P.B., Malfait, A.-M., Maier, C.C., Matheny, C.J.

Revision History  

• Version 1.0: 2015-04-08
  Type: Initial release
  
• Version 1.1: 2015-08-05
  Changes: Data collection