1KP8

Structural Basis for GroEL-assisted Protein Folding from the Crystal Structure of (GroEL-KMgATP)14 at 2.0 A Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.243 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Structural Basis for GroEL-assisted Protein Folding from the Crystal Structure of (GroEL-KMgATP)14 at 2.0 A Resolution

Wang, J.Boisvert, D.C.

(2003) J.Mol.Biol. 327: 843-855

  • Also Cited By: 1SX3

  • PubMed Abstract: 
  • Nucleotide regulates the affinity of the bacterial chaperonin GroEL for protein substrates. GroEL binds protein substrates with high affinity in the absence of ATP and with low affinity in its presence. We report the crystal structure of (GroEL-KMgAT ...

    Nucleotide regulates the affinity of the bacterial chaperonin GroEL for protein substrates. GroEL binds protein substrates with high affinity in the absence of ATP and with low affinity in its presence. We report the crystal structure of (GroEL-KMgATP)(14) refined to 2.0 A resolution in which the ATP triphosphate moiety is directly coordinated by both K(+) and Mg(2+). Upon the binding of KMgATP, we observe previously unnoticed domain rotations and a 102 degrees rotation of the apical domain surface helix I. Two major consequences are a large lateral displacement of, and a dramatic reduction of hydrophobicity in, the apical domain surface. These results provide a basis for the nucleotide-dependent regulation of protein substrate binding and suggest a mechanism for GroEL-assisted protein folding by forced unfolding.


    Related Citations: 
    • 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 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
    • 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 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, Room 418, New Haven, CT 06520-8114, USA. wang@mail.csb.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
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
K
Query on K

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L, M, N
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, C, E, F, G, H, J, K, L, M, N
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L, M, N
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
AGS
Query on AGS

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, H, I, J, K, L, M, N
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
ATP-GAMMA-S; ADENOSINE 5'-(3-THIOTRIPHOSPHATE); ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE); ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE
C10 H16 N5 O12 P3 S
NLTUCYMLOPLUHL-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.243 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 135.571α = 90.00
b = 260.112β = 101.14
c = 150.200γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
CNSrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2001-12-30 
  • Released Date: 2003-03-25 
  • Deposition Author(s): Wang, J.
  • This entry supersedes: 1DER

Revision History 

  • Version 1.0: 2003-03-25
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2014-03-26
    Type: Non-polymer description, Version format compliance
  • Version 1.4: 2017-10-11
    Type: Refinement description