5OCX

Crystal structure of ACPA E4 in complex with CII-C-13-CIT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structural Basis of Cross-Reactivity of Anti-Citrullinated Protein Antibodies.

Ge, C.Xu, B.Liang, B.Lonnblom, E.Lundstrom, S.L.Zubarev, R.A.Ayoglu, B.Nilsson, P.Skogh, T.Kastbom, A.Malmstrom, V.Klareskog, L.Toes, R.E.M.Rispens, T.Dobritzsch, D.Holmdahl, R.

(2019) Arthritis Rheumatol 71: 210-221

  • DOI: 10.1002/art.40698
  • Primary Citation of Related Structures:  
    5ODB, 5OCY, 5OCX, 5OD8, 5OCK, 5OD0

  • PubMed Abstract: 
  • Anti-citrullinated protein antibodies (ACPAs) develop many years before the clinical onset of rheumatoid arthritis (RA). This study was undertaken to address the molecular basis of the specificity and cross-reactivity of ACPAs from patients with RA.


    Organizational Affiliation

    Karolinska Institutet, Stockholm, Sweden, and Southern Medical University, Guangzhou, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Fab fragment anti-citrullinated protein antibody E4 - light chainA [auth L]217Homo sapiensMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Fab fragment of anti-citrullinated protein antibody E4 - heavy chainB [auth H]221Homo sapiensMutation(s): 0 
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
CII-C-13-CITC [auth A]18Homo sapiensMutation(s): 0 
Gene Names: COL2A1
UniProt & NIH Common Fund Data Resources
Find proteins for P02458 (Homo sapiens)
Explore P02458 
Go to UniProtKB:  P02458
PHAROS:  P02458
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EDO
Query on EDO

Download Ideal Coordinates CCD File 
D [auth H]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
PCA
Query on PCA
A [auth L]L-PEPTIDE LINKINGC5 H7 N O3GLN
CIR
Query on CIR
C [auth A]L-PEPTIDE LINKINGC6 H13 N3 O3ARG
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 38.716α = 90
b = 99.602β = 101.88
c = 51.877γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Knut and Alice Wallenberg FoundationSwedenKAW 2010.0148

Revision History  (Full details and data files)

  • Version 1.0: 2018-07-04
    Type: Initial release
  • Version 1.1: 2019-08-07
    Changes: Data collection, Database references
  • Version 2.0: 2020-03-11
    Changes: Database references, Polymer sequence