2BP7

New crystal form of the Pseudomonas putida branched-chain dehydrogenase (E1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.227 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Molecular Origins of Specificity in the Assembly of a Multienzyme Complex.

Frank, R.A.W.Pratap, J.V.Pei, X.Y.Perham, R.N.Luisi, B.F.

(2005) Structure 13: 1119

  • DOI: 10.1016/j.str.2005.04.021

  • PubMed Abstract: 
  • The pyruvate dehydrogenase (PDH) multienzyme complex is central to oxidative metabolism. We present the first crystal structure of a complex between pyruvate decarboxylase (E1) and the peripheral subunit binding domain (PSBD) of the dihydrolipoyl ace ...

    The pyruvate dehydrogenase (PDH) multienzyme complex is central to oxidative metabolism. We present the first crystal structure of a complex between pyruvate decarboxylase (E1) and the peripheral subunit binding domain (PSBD) of the dihydrolipoyl acetyltransferase (E2). The interface is dominated by a "charge zipper" of networked salt bridges. Remarkably, the PSBD uses essentially the same zipper to alternately recognize the dihydrolipoyl dehydrogenase (E3) component of the PDH assembly. The PSBD achieves this dual recognition largely through the addition of a network of interfacial water molecules unique to the E1-PSBD complex. These structural comparisons illuminate our observations that the formation of this water-rich E1-E2 interface is largely enthalpy driven, whereas that of the E3-PSBD complex (from which water is excluded) is entropy driven. Interfacial water molecules thus diversify surface complementarity and contribute to avidity, enthalpically. Additionally, the E1-PSBD structure provides insight into the organization and active site coupling within the approximately 9 MDa PDH complex.


    Organizational Affiliation

    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
2-OXOISOVALERATE DEHYDROGENASE ALPHA SUBUNIT
A, C, E, G
410Pseudomonas putidaMutation(s): 0 
Gene Names: bkdA1
EC: 1.2.4.4
Find proteins for P09060 (Pseudomonas putida)
Go to UniProtKB:  P09060
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
2-OXOISOVALERATE DEHYDROGENASE BETA SUBUNIT
B, D, F, H
339Pseudomonas putidaMutation(s): 0 
Gene Names: bkdA2
EC: 1.2.4.4
Find proteins for P09061 (Pseudomonas putida)
Go to UniProtKB:  P09061
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.227 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 156.866α = 90.00
b = 156.866β = 90.00
c = 619.605γ = 120.00
Software Package:
Software NamePurpose
AMoREphasing
SCALEPACKdata scaling
DENZOdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-08-10
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance