Biological Assembly 1  

 3D View: Structure | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Hetero 9-mer - A3B3C3 Pseudo Symmetry: Cyclic - C3  (3D View)
Pseudo Stoichiometry: Hetero 9-mer - A6B3 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 189.19 kDa 
• Atom Count: 13170 
• Modelled Residue Count: 1731 
• Deposited Residue Count: 1749 
• Unique protein chains: 3

1I9R

STRUCTURE OF CD40L IN COMPLEX WITH THE FAB FRAGMENT OF HUMANIZED 5C8 ANTIBODY

• DOI: 10.2210/pdb1I9R/pdb

• Classification: CYTOKINE/IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Komagataella pastoris
• Mutation(s): No 


• Deposited: 2001-03-20 Released: 2002-03-20 
• Deposition Author(s): Karpusas, M., Lucci, J., Ferrant, J., Benjamin, C., Hsu, Y.-M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.285 
• R-Value Work: 0.233 
• R-Value Observed: 0.233 

Literature

Structure of CD40 ligand in complex with the Fab fragment of a neutralizing humanized antibody.

Karpusas, M., Lucci, J., Ferrant, J., Benjamin, C., Taylor, F.R., Strauch, K., Garber, E., Hsu, Y.M.

(2001) Structure 9: 321-329

• PubMed: 11525169 
• DOI: 10.1016/s0969-2126(01)00590-1
• Primary Citation of Related Structures:  
  1I9R


• PubMed Abstract: 
  

CD40 ligand (CD40L or CD154), a member of the tumor necrosis factor (TNF) family, plays a critical role in both humoral and cellular immune responses and has been implicated in biological pathways involving epithelial cells, fibroblasts, and platelets. Such a pathway is T cell-mediated B cell activation, a process that occurs through the interaction of CD40L with CD40 receptor expressed on B cells. It results in various B cell responses, including immunoglobulin isotype switching and B cell differentiation and proliferation. These responses can be inhibited by the monoclonal antibody 5c8, which binds with high affinity to CD40L.

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Organizational Affiliation: 

Biogen, Inc, Cambridge, Massachusetts 02142, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CD40 LIGAND	A, B, C	146	Homo sapiens	Mutation(s): 0  Gene Names: CD40LG, CD40L, TNFSF5, TRAP
UniProt & NIH Common Fund Data Resources
Find proteins for P29965 (Homo sapiens) Explore P29965  Go to UniProtKB:  P29965
PHAROS:  P29965 GTEx:  ENSG00000102245

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
IMMUNOGLOBULIN H	D [auth H], F [auth K], H [auth X]	219	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
IMMUNOGLOBULIN L	E [auth L], G [auth M], I [auth Y]	218	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	J [auth H], K, L [auth X]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 0.285 
• R-Value Work: 0.233 
• R-Value Observed: 0.233 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 224.48	α = 90
b = 129.91	β = 109.6
c = 96.49	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-03-20 
• Released Date: 2002-03-20 
Deposition Author(s): Karpusas, M., Lucci, J., Ferrant, J., Benjamin, C., Hsu, Y.-M.

Revision History  

• Version 1.0: 2002-03-20
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance