4OUU

anti-MT1-MMP monoclonal antibody

• PDB DOI: https://doi.org/10.2210/pdb4OUU/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-02-19 Released: 2014-12-17 
• Deposition Author(s): Udi, Y., Grossman, M., Solomonov, I., Dym, O., Rozenberg, H., Koziol, A., Cuniasse, P., Dive, V., Arroyo, A.G., Irit, S., Israel Structural Proteomics Center (ISPC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.253 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 

Literature

Inhibition mechanism of membrane metalloprotease by an exosite-swiveling conformational antibody.

Udi, Y., Grossman, M., Solomonov, I., Dym, O., Rozenberg, H., Moreno, V., Cuniasse, P., Dive, V., Arroyo, A.G., Sagi, I.

(2015) Structure 23: 104-115

• PubMed: 25482542 
• DOI: https://doi.org/10.1016/j.str.2014.10.012
• Primary Citation of Related Structures:  
  4OUU, 4P3C, 4P3D, 4QXU


• PubMed Abstract: 
  

  Membrane type 1 metalloprotease (MT1-MMP) is a membrane-anchored, zinc-dependent protease. MT1-MMP is an important mediator of cell migration and invasion, and overexpression of this enzyme has been correlated with the malignancy of various tumor types. Therefore, modulators of MT1-MMP activity are proposed to possess therapeutic potential in numerous invasive diseases. Here we report the inhibition mode of MT1-MMP by LEM-2/15 antibody, which targets a surface epitope of MT1-MMP. Specifically, the crystal structures of Fab LEM-2/15 in complex with the MT1-MMP surface antigen suggest that conformational swiveling of the enzyme surface loop is required for effective binding and consequent inhibition of MT1-MMP activity on the cell membrane. This inhibition mechanism appears to be effective in controlling active MT1-MMP in endothelial cells and at the leading edge of migratory cancer cells.

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Organizational Affiliation: 

Department of Biological Regulation, The Weizmann Institute of Science, Rehovot 76100, Israel.

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: 98.24 kDa 
• Atom Count: 6,302 
• Modelled Residue Count: 855 
• Deposited Residue Count: 900 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
anti_MT1-MMP Heavy chain	A [auth H], B	231	Mus musculus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
anti_MT1-MMP light chain	C [auth L], D [auth A]	219	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.253 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 
• Space Group: P 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.14	α = 90
b = 52.6	β = 103.68
c = 127.5	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-12-17 
Deposition Author(s): Udi, Y., Grossman, M., Solomonov, I., Dym, O., Rozenberg, H., Koziol, A., Cuniasse, P., Dive, V., Arroyo, A.G., Irit, S., Israel Structural Proteomics Center (ISPC)

Revision History  

• Version 1.0: 2014-12-17
  Type: Initial release
  
• Version 1.1: 2014-12-31
  Changes: Database references
• Version 1.2: 2015-01-28
  Changes: Database references
• Version 1.3: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary