1OK9

DECAY ACCELERATING FACTOR (CD55): THE STRUCTURE OF AN INTACT HUMAN COMPLEMENT REGULATOR.

Structural Biology Knowledgebase: 1OK9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Observed: 0.238

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1OK9

Classification: REGULATOR OF COMPLEMENT PATHWAY

Total Structure Weight: 57494.08

Macromolecule Entities
Molecule Chains Length Organism Details
COMPLEMENT DECAY-ACCELERATING FACTOR A, B 254 Homo sapiens Fragment: FOUR EXTRACELLULAR SCR DOMAINS, RESIDUES 35-285
Mutation: T48I
Details: SOAKED IN 2MM K2PTCL4 FOR 6 DAYS 2 PT(II) BINDING SITES GLYCEROLS, ACETATES AND SULPHATES FROM CRYSTALLISATION BUFFER
Gene Name(s): CD55 Gene View CR DAF

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PT
Query on PT

A, B PLATINUM (II) ION
Pt
HRGDZIGMBDGFTC-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Observed: 0.238
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.13 α = 87.19
b = 54.60 β = 85.61
c = 62.77 γ = 65.74

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-21
  • Released Date: 2004-01-07
  • Deposition author(s): Lukacik, P., Roversi, P., White, J., Esser, D., Smith, G.P., Billington, J., Williams, P.A., Rudd, P.M., Wormald, M.R., Crispin, M.D.M., Radcliffe, C.M., Dwek, R.A., Evans, D.J., Morgan, B.P., Smith, R.A.G., Lea, S.M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4