2XRB | pdb_00002xrb

Structure of the N-terminal four domains of the complement regulator Rat Crry

• PDB DOI: https://doi.org/10.2210/pdb2XRB/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2010-09-13 Released: 2011-06-22 
• Deposition Author(s): Leath, K.J., Roversi, P., Johnson, S., Morgan, B.P., Lea, S.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.237 (Depositor), 0.254 (DCC) 
• R-Value Work: 
  0.185 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.187 (Depositor) 

Starting Models: experimental

Literature

Structures of the Rat Complement Regulator Crry.

Roversi, P., Johnson, S., Caesar, J.J.E., Mclean, F., Leath, K.J., Tsiftsoglou, S.A., Morgan, B.P., Harris, C.L., Sim, R.B., Lea, S.M.

(2011) Acta Crystallogr Sect F Struct Biol Cryst Commun 67: 739

• PubMed: 21795784 
• DOI: https://doi.org/10.1107/S1744309111016551
• Primary Citation Related Structures: 
  2XRB, 2XRD


• PubMed Abstract: 
  

  Complement receptor 1-related protein Y (CrrY) is an important cell-surface regulator of complement that is unique to rodent species. The structure of rat CrrY domains 1-4 has been determined in two distinct crystal forms and reveals a 70° bend between domains 3 and 4. Comparisons of this structure with those of other complement regulators suggests that rearrangement of this interface may occur on forming the regulatory complex with C3b.

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Organizational Affiliation: 
• Sir William Dunn School of Pathology, Oxford University, South Parks Road, Oxford OX4 3RE, England.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 33.02 kDa 
• Atom Count: 2,158 
• Modeled Residue Count: 254 
• Deposited Residue Count: 290 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COMPLEMENT REGULATORY PROTEIN CRRY	A	290	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for Q63135 (Rattus norvegicus) Explore Q63135  Go to UniProtKB:  Q63135

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth A], Q [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.237 (Depositor), 0.254 (DCC) 
• R-Value Work:  0.185 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.187 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 21.77	α = 90
b = 105.339	β = 90
c = 152.281	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
xia2	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-22 
Deposition Author(s): Leath, K.J., Roversi, P., Johnson, S., Morgan, B.P., Lea, S.M.

Revision History  

• Version 1.0: 2011-06-22
  Type: Initial release
  
• Version 1.1: 2012-12-19
  Changes: Database references, Refinement description, Version format compliance
• Version 1.2: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.3: 2024-10-16
  Changes: Structure summary