6NB1

Crystal structure of Escherichia coli ClpP protease complexed with small molecule activator, ACP1-06


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

ClpP protease activation results from the reorganization of the electrostatic interaction networks at the entrance pores.

Mabanglo, M.F.Leung, E.Vahidi, S.Seraphim, T.V.Eger, B.T.Bryson, S.Bhandari, V.Zhou, J.L.Mao, Y.Q.Rizzolo, K.Barghash, M.M.Goodreid, J.D.Phanse, S.Babu, M.Barbosa, L.R.S.Ramos, C.H.I.Batey, R.A.Kay, L.E.Pai, E.F.Houry, W.A.

(2019) Commun Biol 2: 410-410


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP-dependent Clp protease proteolytic subunit
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
207Escherichia coli K-12Mutation(s): 0 
Gene Names: clpPlopPb0437JW0427
EC: 3.4.21.92
UniProt
Find proteins for P0A6G7 (Escherichia coli (strain K12))
Explore P0A6G7 
Go to UniProtKB:  P0A6G7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0A6G7
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
KHS
Query on KHS

Download Ideal Coordinates CCD File 
AA [auth G],
CA [auth H],
EA [auth I],
GA [auth J],
IA [auth K],
AA [auth G],
CA [auth H],
EA [auth I],
GA [auth J],
IA [auth K],
KA [auth L],
MA [auth M],
O [auth A],
OA [auth N],
Q [auth B],
S [auth C],
U [auth D],
W [auth E],
Y [auth F]
N-{2-[(2-chlorophenyl)sulfanyl]ethyl}-2-methyl-2-{[5-(trifluoromethyl)pyridin-2-yl]sulfonyl}propanamide
C18 H18 Cl F3 N2 O3 S2
OUZIIFOEMPAZKX-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
BA [auth G],
DA [auth H],
FA [auth I],
HA [auth J],
JA [auth K],
BA [auth G],
DA [auth H],
FA [auth I],
HA [auth J],
JA [auth K],
LA [auth L],
NA [auth M],
P [auth A],
PA [auth N],
R [auth B],
T [auth C],
V [auth D],
X [auth E],
Z [auth F]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 190.985α = 90
b = 101.094β = 98.29
c = 155.194γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
MOSFLMdata reduction
SCALAdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)CanadaXNE-86945
Canadian Institutes of Health Research (CIHR)CanadaPJT-148564

Revision History  (Full details and data files)

  • Version 1.0: 2019-11-13
    Type: Initial release
  • Version 1.1: 2020-01-08
    Changes: Author supporting evidence
  • Version 1.2: 2020-01-29
    Changes: Database references