3WVL

Crystal structure of the football-shaped GroEL-GroES complex (GroEL: GroES2:ATP14) from Escherichia coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.79 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.213 

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Literature

Crystal structure of a symmetric football-shaped GroEL:GroES2-ATP14 complex determined at 3.8 angstrom reveals rearrangement between two GroEL rings.

Koike-Takeshita, A.Arakawa, T.Taguchi, H.Shimamura, T.

(2014) J Mol Biol 426: 3634-3641

  • DOI: 10.1016/j.jmb.2014.08.017
  • Primary Citation of Related Structures:  
    3WVL

  • PubMed Abstract: 
  • The chaperonin GroEL is an essential chaperone that assists in protein folding with the aid of GroES and ATP. GroEL forms a double-ring structure, and both rings can bind GroES in the presence of ATP. Recent progress on the GroEL mechanism has revealed the importance of a symmetric 1:2 GroEL:GroES2 complex (the "football"-shaped complex) as a critical intermediate during the functional GroEL cycle ...

    The chaperonin GroEL is an essential chaperone that assists in protein folding with the aid of GroES and ATP. GroEL forms a double-ring structure, and both rings can bind GroES in the presence of ATP. Recent progress on the GroEL mechanism has revealed the importance of a symmetric 1:2 GroEL:GroES2 complex (the "football"-shaped complex) as a critical intermediate during the functional GroEL cycle. We determined the crystal structure of the football GroEL:GroES2-ATP14 complex from Escherichia coli at 3.8Å, using a GroEL mutant that is extremely defective in ATP hydrolysis. The overall structure of the football complex resembled the GroES-bound GroEL ring of the asymmetric 1:1 GroEL:GroES complex (the "bullet" complex). However, the two GroES-bound GroEL rings form a modified interface by an ~7° rotation about the 7-fold axis. As a result, the inter-ring contacts between the two GroEL rings in the football complex differed from those in the bullet complex. The differences provide a structural basis for the apparently impaired inter-ring negative cooperativity observed in several biochemical analyses.


    Organizational Affiliation

    Department of Cell Biology, Graduate School of Medicine, Kyoto University, Yoshidakonoe-cho, Sakyo-Ku, Kyoto 606-8501, Japan; Membrane Protein Crystallography Project, Research Acceleration Program, Japan Science and Technology Agency, Yoshida-Konoe-cho, Sakyo-ku, Kyoto 606-8501, Japan. Electronic address: t.shimamura@mfour.med.kyoto-u.ac.jp.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
60 kDa chaperonin
A, B, C, D, E, F, G, H, I, J, K, L, M, N
A, B, C, D, E, F, G, H, I, J, K, L, M, N
548Escherichia coli K-12Mutation(s): 2 
Gene Names: groLgroELmopAb4143JW4103
EC: 3.6.4.9 (PDB Primary Data), 5.6.1.7 (UniProt)
UniProt
Find proteins for P0A6F5 (Escherichia coli (strain K12))
Explore P0A6F5 
Go to UniProtKB:  P0A6F5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A6F5
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
10 kDa chaperonin
O,
P,
Q,
R,
S,
97Escherichia coli K-12Mutation(s): 0 
Gene Names: groSgroESmopBb4142JW4102
EC: 3.6.4.9
UniProt
Find proteins for P0A6F9 (Escherichia coli (strain K12))
Explore P0A6F9 
Go to UniProtKB:  P0A6F9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A6F9
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download Ideal Coordinates CCD File 
AB [auth I],
CA [auth A],
DB [auth J],
FA [auth B],
GB [auth K],
AB [auth I],
CA [auth A],
DB [auth J],
FA [auth B],
GB [auth K],
IA [auth C],
JB [auth L],
LA [auth D],
MB [auth M],
OA [auth E],
PB [auth N],
RA [auth F],
UA [auth G],
XA [auth H]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
K
Query on K

Download Ideal Coordinates CCD File 
CB [auth I],
EA [auth A],
FB [auth J],
HA [auth B],
IB [auth K],
CB [auth I],
EA [auth A],
FB [auth J],
HA [auth B],
IB [auth K],
KA [auth C],
LB [auth L],
NA [auth D],
OB [auth M],
QA [auth E],
RB [auth N],
TA [auth F],
WA [auth G],
ZA [auth H]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
BB [auth I],
DA [auth A],
EB [auth J],
GA [auth B],
HB [auth K],
BB [auth I],
DA [auth A],
EB [auth J],
GA [auth B],
HB [auth K],
JA [auth C],
KB [auth L],
MA [auth D],
NB [auth M],
PA [auth E],
QB [auth N],
SA [auth F],
VA [auth G],
YA [auth H]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.79 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.213 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 160.28α = 90
b = 217.117β = 98.02
c = 198.481γ = 90
Software Package:
Software NamePurpose
BSSdata collection
PHASERphasing
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-17
    Type: Initial release
  • Version 1.1: 2022-08-24
    Changes: Database references, Derived calculations