1JW9

Structure of the Native MoeB-MoaD Protein Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Mechanism of ubiquitin activation revealed by the structure of a bacterial MoeB-MoaD complex.

Lake, M.W.Wuebbens, M.M.Rajagopalan, K.V.Schindelin, H.

(2001) Nature 414: 325-329

  • DOI: 10.1038/35104586
  • Primary Citation of Related Structures:  1JWA, 1JWB

  • PubMed Abstract: 
  • The activation of ubiquitin and related protein modifiers is catalysed by members of the E1 enzyme family that use ATP for the covalent self-attachment of the modifiers to a conserved cysteine. The Escherichia coli proteins MoeB and MoaD are involved ...

    The activation of ubiquitin and related protein modifiers is catalysed by members of the E1 enzyme family that use ATP for the covalent self-attachment of the modifiers to a conserved cysteine. The Escherichia coli proteins MoeB and MoaD are involved in molybdenum cofactor (Moco) biosynthesis, an evolutionarily conserved pathway. The MoeB- and E1-catalysed reactions are mechanistically similar, and despite a lack of sequence similarity, MoaD and ubiquitin display the same fold including a conserved carboxy-terminal Gly-Gly motif. Similar to the E1 enzymes, MoeB activates the C terminus of MoaD to form an acyl-adenylate. Subsequently, a sulphurtransferase converts the MoaD acyl-adenylate to a thiocarboxylate that acts as the sulphur donor during Moco biosynthesis. These findings suggest that ubiquitin and E1 are derived from two ancestral genes closely related to moaD and moeB. Here we present the crystal structures of the MoeB-MoaD complex in its apo, ATP-bound, and MoaD-adenylate forms, and highlight the functional similarities between the MoeB- and E1-substrate complexes. These structures provide a molecular framework for understanding the activation of ubiquitin, Rub, SUMO and the sulphur incorporation step during Moco and thiamine biosynthesis.


    Organizational Affiliation

    Department of Biochemistry and Center for Structural Biology, State University of New York at Stony Brook, Stony Brook, New York 11794-5115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MOLYBDOPTERIN BIOSYNTHESIS MOEB PROTEIN
B
249Escherichia coli (strain K12)Gene Names: moeB (chlN)
EC: 2.7.7.80
Find proteins for P12282 (Escherichia coli (strain K12))
Go to UniProtKB:  P12282
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
MOLYBDOPTERIN [MPT] CONVERTING FACTOR, SUBUNIT 1
D
81Escherichia coli (strain K12)Gene Names: moaD (chlA4, chlM)
Find proteins for P30748 (Escherichia coli (strain K12))
Go to UniProtKB:  P30748
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.175 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 77.832α = 90.00
b = 77.832β = 90.00
c = 102.139γ = 90.00
Software Package:
Software NamePurpose
SHARPphasing
DENZOdata reduction
REFMACrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-11-21
    Type: Initial release
  • Version 1.1: 2007-10-16
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance