4B53

Crystal structure of the isolated IgG4 CH3 domain

Structural Biology Knowledgebase: 4B53 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.183

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B53

Classification: IMMUNE SYSTEM

Total Structure Weight: 25045.01

Macromolecule Entities
Molecule Chains Length Organism Details
IG GAMMA-4 CHAIN C REGION A, B 106 Homo sapiens Fragment: CH3 DOMAIN, RESIDUES 222-327
Details: N TERMINAL GLUTAMINE 342 IS MODIFIED TO PYROGLUTAMATE
Gene Name(s): IGHG4

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
TRS
Query on TRS

A 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER (Synonym)
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

A, B DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
PCA
Query on PCA
A, B L-PEPTIDE LINKING C5 H7 N O3 GLU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.183
  • Space Group: P 43 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 57.09 α = 90.00
b = 57.09 β = 90.00
c = 138.44 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-08-02
  • Released Date: 2012-12-05
  • Deposition author(s): Davies, A.M., Rispens, T., den Bleker, T.H., McDonnell, J.M., Gould, H.J., Aalberse, R.C., Sutton, B.J.

Revision History

  • 2013-09-04
    Type: Binding sites and description | Details: REMARK 800
  • 2013-09-04
    Type: Non-polymer description | Details: HET
  • 2013-09-04
    Type: Atom nomenclature | Details: HETATM
  • 2013-07-31
    Type: Other | Details: MODRES, REMARK 610
  • 2013-07-31
    Type: Biological assembly | Details: REMARK 350