3HSH

Crystal structure of human collagen XVIII trimerization domain (Tetragonal crystal form)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of human collagen XVIII trimerization domain: A novel collagen trimerization Fold.

Boudko, S.P.Sasaki, T.Engel, J.Lerch, T.F.Nix, J.Chapman, M.S.Bachinger, H.P.

(2009) J.Mol.Biol. 392: 787-802

  • DOI: 10.1016/j.jmb.2009.07.057
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Collagens contain a unique triple-helical structure with a repeating sequence -G-X-Y-, where proline and hydroxyproline are major constituents in X and Y positions, respectively. Folding of the collagen triple helix requires trimerization domains. On ...

    Collagens contain a unique triple-helical structure with a repeating sequence -G-X-Y-, where proline and hydroxyproline are major constituents in X and Y positions, respectively. Folding of the collagen triple helix requires trimerization domains. Once trimerized, collagen chains are correctly aligned and the folding of the triple helix proceeds in a zipper-like fashion. Here we report the isolation, characterization, and crystal structure of the trimerization domain of human type XVIII collagen, a member of the multiplexin family. This domain differs from all other known trimerization domains in other collagens and exhibits a high trimerization potential at picomolar concentrations. Strong chain association and high specificity of binding are needed for multiplexins, which are present at very low levels.


    Organizational Affiliation

    Research Department of Shriners Hospital for Children, Portland, OR 97239, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Collagen alpha-1(XVIII) chain
A, B, C, D, E, F
56Homo sapiensMutation(s): 1 
Gene Names: COL18A1
Find proteins for P39060 (Homo sapiens)
Go to Gene View: COL18A1
Go to UniProtKB:  P39060
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, C, D, F
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B, C, D
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: 1.8 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.175 
  • Space Group: P 4 21 2
Unit Cell:
Length (Å)Angle (°)
a = 71.745α = 90.00
b = 71.745β = 90.00
c = 134.723γ = 90.00
Software Package:
Software NamePurpose
PHENIXmodel building
MOSFLMdata reduction
Blu-Icedata collection
SCALAdata scaling
PHENIXrefinement
JBluIce-EPICSdata collection
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-08-11
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Non-polymer description, Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description