7ST5

Structure of Fab CC-95251 in complex with SIRP-alpha

• PDB DOI: https://doi.org/10.2210/pdb7ST5/pdb

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


• Deposited: 2021-11-12 Released: 2023-05-17 
• Deposition Author(s): Fenalti, G.
• Funding Organization(s): Other private

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.280 
• R-Value Work: 0.245 
• R-Value Observed: 0.246 

Literature

Discovery and preclinical activity of CC-95251, a SIRP-alpha antibody mediating tumor cell phagocytosis, in combination with target therapies

Fenalti, G.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

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

Biological Assembly Evidence: surface plasmon resonance

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

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

Macromolecule Content

• Total Structure Weight: 122.34 kDa 
• Atom Count: 7,644 
• Modelled Residue Count: 1,040 
• Deposited Residue Count: 1,132 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab CC-95251 anti-SIRP-alpha heavy chain	A [auth H], D [auth h]	227	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab CC-95251 anti-SIRP-alpha light chain	B [auth L], E [auth l]	214	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein phosphatase non-receptor type substrate 1	C [auth F], F [auth A]	125	Homo sapiens	Mutation(s): 0  Gene Names: SIRPA, BIT, MFR, MYD1, PTPNS1, SHPS1, SIRP
UniProt & NIH Common Fund Data Resources
Find proteins for P78324 (Homo sapiens) Explore P78324  Go to UniProtKB:  P78324
PHAROS:  P78324 GTEx:  ENSG00000198053

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	H [auth L]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	G [auth H], I [auth F], J [auth l], K [auth l], L [auth l], M [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 0.280 
• R-Value Work: 0.245 
• R-Value Observed: 0.246 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.957	α = 77.18
b = 97.704	β = 85.92
c = 103.385	γ = 85.74

Software Package:

Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-05-17 
Deposition Author(s): Fenalti, G.

---

Funding Organization	Location	Grant Number
Other private	United States	--

Revision History  

• Version 1.0: 2023-05-17
  Type: Initial release
  
• Version 1.1: 2023-10-25
  Changes: Data collection, Refinement description