5ODB

Crystal structure of the RA-associated mAb D10 (chimeric Fab fragment)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.188 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural analysis of a monoclonal ACPA in protection of mice from collagen antibody-induced arthritis

Ge, C.Liang, B.Dobritzsch, D.Kutty Selva, N.Xu, B.Lundqvist, C.Urbonaviciute, V.Lonnblom, E.Tong, D.Ayoglu, B.Nilsson, P.Skogh, T.Kastbom, A.Toes, R.E.M.Ekwall, O.Holmdahl, R.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
D10 Fab fragment - heavy chain
A
223N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
D10 Fab fragment - light chain
B
213N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.188 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 47.368α = 90.00
b = 66.714β = 93.85
c = 72.764γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
REFMACrefinement
xia2data reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Knut and Alice Wallenberg FoundationSwedenKAW 2010.0148
Swedish Research CouncilSwedenK2011-52X-07931-25-5

Revision History 

  • Version 1.0: 2018-07-04
    Type: Initial release