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Structure of the receptor-binding domain of the bacteriophage T4 short tail fibre


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.152 
  • R-Value Work: 0.143 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The Structure of the Receptor-Binding Domain of the Bacteriophage T4 Short Tail Fibre Reveals a Knitted Trimeric Metal-Binding Fold

Thomassen, E.Gielen, G.Schuetz, M.Schoehn, G.Abrahams, J.P.Miller, S.van Raaij, M.J.

(2003) J.Mol.Biol. 331: 361-373


  • PubMed Abstract: 
  • Adsorption of T4 bacteriophage to the Escherichia coli host cell is mediated by six long and six short tail fibres. After at least three long tail fibres have bound, short tail fibres extend and bind irreversibly to the core region of the host cell l ...

    Adsorption of T4 bacteriophage to the Escherichia coli host cell is mediated by six long and six short tail fibres. After at least three long tail fibres have bound, short tail fibres extend and bind irreversibly to the core region of the host cell lipo-polysaccharide (LPS), serving as inextensible stays during penetration of the cell envelope by the tail tube. The short tail fibres consist of a parallel, in-register, trimer of gene product 12 (gp12).X-ray crystallography at 1.5A resolution of a protease-stable fragment of gp12 generated in the presence of zinc chloride reveals the structure of the C-terminal receptor-binding domain. It has a novel "knitted" fold, consisting of three extensively intertwined monomers. It reveals a metal-binding site, containing a zinc ion coordinated by six histidine residues in an octahedral conformation. We also suggest an LPS-binding region.


    Related Citations: 
    • Crystal Structure of a Heat- and Protease-Stable Part of the Bacteriophage T4 Short Tail Fibre
      van Raaij, M.J.,Schoehn, G.,Burda, M.R.,Miller, S.
      (2001) J.Mol.Biol. 314: 1137
    • Stability of Bacteriophage T4 Short Tail Fiber
      Burda, M.R.,Hindennach, I.,Miller, S.
      (2000) Biol.Chem. 381: 255
    • Identification and Crystallisation of a Heat- and Protease-Stable Fragment of the Bacteriophage T4 Short Tail Fibre
      van Raaij, M.J.,Schoehn, G.,Jaquinod, M.,Ashman, K.,Burda, M.R.,Miller, S.
      (2001) Biol.Chem. 382: 1049
    • Folding of Coliphage T4 Short Tail Fiber in Vitro. Analysing the Role of a Bacteriophage-Encoded Chaperone
      Burda, M.R.,Miller, S.
      (1999) Eur.J.Biochem. 265: 771


    Organizational Affiliation

    Biophysical Structural Chemistry, Leiden Institute of Chemistry, Leiden University, Einsteinweg 55, NL-2333 CC, Leiden, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
BACTERIOPHAGE T4 SHORT TAIL FIBRE
A
198Enterobacteria phage T4Mutation(s): 0 
Gene Names: 12
Find proteins for P10930 (Enterobacteria phage T4)
Go to UniProtKB:  P10930
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CIT
Query on CIT

Download SDF File 
Download CCD File 
A
CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.152 
  • R-Value Work: 0.143 
  • Space Group: P 3 2 1
Unit Cell:
Length (Å)Angle (°)
a = 50.782α = 90.00
b = 50.782β = 90.00
c = 435.647γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
SCALAdata scaling
MOSFLMdata reduction
SOLVE/RESOLVEphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-07-24
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2018-02-07
    Type: Database references, Structure summary