1UJW

Structure of the complex between BtuB and Colicin E3 Receptor binding domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.244 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure of BtuB with bound colicin E3 R-domain implies a translocon

Kurisu, G.Zakharov, S.D.Zhalnina, M.V.Bano, S.Eroukova, V.Y.Rokitskaya, T.I.Antonenko, Y.N.Wiener, M.C.Cramer, W.A.

(2003) Nat.Struct.Mol.Biol. 10: 948-954

  • DOI: 10.1038/nsb997

  • PubMed Abstract: 
  • Cellular import of colicin E3 is initiated by the Escherichia coli outer membrane cobalamin transporter, BtuB. The 135-residue 100-A coiled-coil receptor-binding domain (R135) of colicin E3 forms a 1:1 complex with BtuB whose structure at a resolutio ...

    Cellular import of colicin E3 is initiated by the Escherichia coli outer membrane cobalamin transporter, BtuB. The 135-residue 100-A coiled-coil receptor-binding domain (R135) of colicin E3 forms a 1:1 complex with BtuB whose structure at a resolution of 2.75 A is reported. Binding of R135 to the BtuB extracellular surface (DeltaG(o) = -12 kcal mol(-1)) is mediated by 27 residues of R135 near the coiled-coil apex. Formation of the R135-BtuB complex results in unfolding of R135 N- and C-terminal ends, inferred to be important for unfolding of the colicin T-domain. Small conformational changes occur in the BtuB cork and barrel domains but are insufficient to form a translocation channel. The absence of a channel and the peripheral binding of R135 imply that BtuB serves to bind the colicin, and that the coiled-coil delivers the colicin to a neighboring outer membrane protein for translocation, thus forming a colicin translocon. The translocator was concluded to be OmpF from the occlusion of OmpF channels by colicin E3.


    Organizational Affiliation

    Department of Biological Sciences, Purdue University, Lilly Hall of Life Sciences, 915 W. State St., West Lafayette, Indiana 47907-1392, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Vitamin B12 receptor
A
594Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: btuB (bfe, cer, dcrC)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Beta-Barrel Membrane Proteins: Monomeric/Dimeric
Protein: 
apo BtuB cobalamin transporter
Find proteins for P06129 (Escherichia coli (strain K12))
Go to UniProtKB:  P06129
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Colicin E3
B
135Escherichia coliMutation(s): 0 
Gene Names: ceaC
EC: 3.1.-.-
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: BETA-BARREL
Sub Group: 
Beta-Barrel Membrane Proteins: Monomeric/Dimeric
Protein: 
apo BtuB cobalamin transporter
Find proteins for P00646 (Escherichia coli)
Go to UniProtKB:  P00646
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

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Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
LDA
Query on LDA

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Download CCD File 
A
LAURYL DIMETHYLAMINE-N-OXIDE
C14 H31 N O
SYELZBGXAIXKHU-UHFFFAOYSA-N
 Ligand Interaction
AAE
Query on AAE

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Download CCD File 
A
ACETOACETIC ACID
C4 H6 O3
WDJHALXBUFZDSR-UHFFFAOYSA-N
 Ligand Interaction
GP1
Query on GP1

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Download CCD File 
A
GLUCOSAMINE 1-PHOSPHATE
C6 H14 N O8 P
YMJBYRVFGYXULK-QZABAPFNSA-N
 Ligand Interaction
LIM
Query on LIM

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Download CCD File 
A
3-OXO-PENTADECANOIC ACID
C15 H28 O3
CJTNJZWHYGHVCD-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.293 
  • R-Value Work: 0.244 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 76.933α = 90.00
b = 80.098β = 90.00
c = 233.595γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
HKL-2000data scaling
REFMACrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-11-25
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Version format compliance