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

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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