2YF2 | pdb_00002yf2

Crystal structure of the oligomerisation domain of C4b-binding protein from Gallus gallus

• PDB DOI: https://doi.org/10.2210/pdb2YF2/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Gallus gallus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2011-04-01 Released: 2012-04-18 
• Deposition Author(s): Caesar, J.J.E., Hill, F., Lea, S.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free: 
  0.236 (Depositor), 0.245 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Literature

Crystal Structure of the Oligomerisation Domain of C4B-Binding Protein from Gallus Gallus

Caesar, J.J.E., Hill, F., Lea, S.M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C7  (Explore in 3D)
Global Stoichiometry: Homo 7-mer - A7 

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

Macromolecule Content

• Total Structure Weight: 52.96 kDa 
• Atom Count: 3,073 
• Modelled Residue Count: 364 
• Deposited Residue Count: 455 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C4B BINDING PROTEIN	A, B, C, D, E, F, G	65	Gallus gallus	Mutation(s): 1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	CA [auth F], DA [auth F], EA [auth F], GA [auth G], H [auth A], HA [auth G], IA [auth G], J [auth B], JA [auth G], K [auth B], L [auth B], M [auth B], N [auth B], O [auth B], S [auth C], T [auth C], U [auth C], W [auth D], X [auth D]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACT	AA [auth E], BA [auth E], FA [auth F], I [auth A], KA [auth G], P [auth B], Q [auth B], R [auth B], V [auth C], Y [auth D], Z [auth D]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.24 Å
• R-Value Free:  0.236 (Depositor), 0.245 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.888	α = 90
b = 140.238	β = 90
c = 85.465	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
SCALA	data scaling
autoSHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-04-18 
Deposition Author(s): Caesar, J.J.E., Hill, F., Lea, S.M.

Revision History  

• Version 1.0: 2012-04-18
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary