1MNF

Domain motions in GroEL upon binding of an oligopeptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.236 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Domain Motions in GroEL upon Binding of an Oligopeptide.

Wang, J.Chen, L.

(2003) J.Mol.Biol. 334: 489-499


  • PubMed Abstract: 
  • GroEL assists protein folding by preventing the interaction of partially folded molecules with other non-native proteins. It binds them, sequesters them, and then releases them so that they can fold in an ATP-driven cycle. Previous studies have also ...

    GroEL assists protein folding by preventing the interaction of partially folded molecules with other non-native proteins. It binds them, sequesters them, and then releases them so that they can fold in an ATP-driven cycle. Previous studies have also shown that protein substrates, GroES, and oligopeptides bind to partially overlapped sites on the apical domain surfaces of GroEL. In this study, we have determined the crystal structure at 3.0A resolution of a symmetric (GroEL-peptide)(14) complex. The binding of each of these small 12 amino acid residue peptides to GroEL involves interactions between three adjacent apical domains of GroEL. Each peptide interacts primarily with a single GroEL subunit. Residues R231 and R268 from adjacent subunits isolate each substrate-binding pocket, and prevent bound substrates from sliding into adjacent binding pockets. As a consequence of peptide binding, domains rotate and inter-domain interactions are greatly enhanced. The direction of rotation of the apical domain of each GroEL subunit is opposite to that of its intermediate domain. Viewed from outside, the apical domains rotate clockwise within one GroEL ring, while the ATP-induced apical domain rotation is counter-clockwise.


    Related Citations: 
    • Conformational Variability in the Refined Structure of the Chaperonin Groel at 2.8 A Resolution
      Braig, K.,Adams, P.D.,Brunger, A.T.
      (1995) Nat.Struct.Mol.Biol. 2: 1083
    • The Crystal Structure of the Asymmetric Groel-Groes-(Adp)7 Chaperonin Complex
      Xu, Z.,Horwich, A.L.,Sigler, P.B.
      (1997) Nature 388: 741
    • The Crystal Structure of a Groel/Peptide Complex: Plasticity as a Basis for Substrate Diversity
      Chen, L.,Sigler, P.B.
      (1999) Cell 99: 757
    • The 2.4 A Crystal Structure of the Bacterial Chaperonin Groel Complexed with ATP Gamma S
      Boisvert, D.C.,Wang, J.,Otwinowski, Z.,Horwich, A.L.,Sigler, P.B.
      (1996) Nat.Struct.Mol.Biol. 3: 170
    • The Crystal Structure of the Bacterial Chaperonin Groel at 2.8 A
      Braig, K.,Otwinowski, Z.,Hegde, R.,Boisvert, D.C.,Joachimiak, A.,Horwich, A.L.,Sigler, P.B.
      (1994) Nature 371: 578


    Organizational Affiliation

    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, Bass Center, Rm 418, New Haven, CT 06520-8114, USA. wang@mail.yale.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
groEL protein
A, B, C, D, E, F, G, H, I, J, K, L, M, N
547Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: groL (groEL, mopA)
Find proteins for P0A6F5 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A6F5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
12-residue peptide substrate
O, P, Q, R, S, T, U, V, W, X, Y, Z, 1, 2
12N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.236 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 135.415α = 90.00
b = 260.694β = 100.94
c = 148.691γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
CNSphasing
HKL-2000data collection
CNSrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2002-09-05 
  • Released Date: 2003-10-07 
  • Deposition Author(s): Wang, J., Chen, L.

Revision History 

  • Version 1.0: 2003-10-07
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance