7ZMK

Structure of human MFAP4 in complex with the Fab fragment of the AS0326 monoclonal antibody

• PDB DOI: https://doi.org/10.2210/pdb7ZMK/pdb

• Classification: CELL ADHESION
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2022-04-19 Released: 2023-03-01 
• Deposition Author(s): Laursen, N.S., Andersen, G.R.
• Funding Organization(s): Novo Nordisk Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.277 
• R-Value Work: 0.239 
• R-Value Observed: 0.240 

Starting Models: experimental

Literature

MFAP4-targeted immunotherapy inhibits retinal neovascularization and vascular leakage

Pilecki, B.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Hetero 24-mer - A8B8C8 Pseudo Symmetry: Dihedral - D2  (Explore in 3D)
Pseudo Stoichiometry: Hetero 24-mer - A16B8 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 611.84 kDa 
• Atom Count: 41,016 
• Modelled Residue Count: 5,248 
• Deposited Residue Count: 5,528 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Microfibril-associated glycoprotein 4	A, D, I, L, O, R, U, X	255	Homo sapiens	Mutation(s): 0  Gene Names: MFAP4
UniProt & NIH Common Fund Data Resources
Find proteins for P55083 (Homo sapiens) Explore P55083  Go to UniProtKB:  P55083
PHAROS:  P55083 GTEx:  ENSG00000166482

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
heavy chain of antibody AS0326	B, E, G, J, M, P, S, V	222	Mus musculus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Light chain of AS0326	C, F, H, K, N, Q, T, W	214	Mus musculus	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	AA [auth I], BA [auth L], CA [auth O], DA [auth R], EA [auth U], FA [auth X], Y [auth A], Z [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 0.277 
• R-Value Work: 0.239 
• R-Value Observed: 0.240 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 317.32	α = 90
b = 126.6	β = 98.857
c = 187.55	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-01 
Deposition Author(s): Laursen, N.S., Andersen, G.R.

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Funding Organization	Location	Grant Number
Novo Nordisk Foundation	Denmark	--

Revision History  

• Version 1.0: 2023-03-01
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description