6IW7

structural insights into Mycobacterium tuberculosis ClpP1P2 inhibition by Cediranib: implications for developing antimicrobial agents targeting Clp protease


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 

wwPDB Validation 3D Report Full Report



Literature

structural insights into Mycobacterium tuberculosis ClpP1P2 inhibition by Cediranib: implications for developing antimicrobial agents targeting Clp protease

Bao, R.Luo, Y.F.Zhu, Y.B.Yang, Y.Yang, T.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATP-dependent Clp protease proteolytic subunit 2A, C, E, F, H, J, L202Mycobacterium tuberculosis CDC1551Mutation(s): 0 
Gene Names: clpP2MT2535
EC: 3.4.21.92
Find proteins for P9WPC2 (Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh))
Explore P9WPC2 
Go to UniProtKB:  P9WPC2
Protein Feature View
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  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ATP-dependent Clp protease proteolytic subunit 1B, D, G, I, K, M, N194Mycobacterium tuberculosis CDC1551Mutation(s): 0 
Gene Names: clpP1clpPMT2536
EC: 3.4.21.92
Find proteins for P9WPC4 (Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh))
Explore P9WPC4 
Go to UniProtKB:  P9WPC4
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by: Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
BEZ-LEU-LEUO, P, Q, R, T, U, V, W, X, Z, a, b, d, e3synthetic constructMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
AV3
Query on AV3

Download CCD File 
B, D, G, I, K, N
4-[(4-fluoro-2-methyl-3H-indol-5-yl)oxy]-6-methoxy-7-[3-(pyrrolidin-1-yl)propoxy]quinazoline
C25 H27 F N4 O3
ZOVVOYNGCNKFNN-UHFFFAOYSA-N
 Ligand Interaction
Biologically Interesting Molecules 1 Unique
IDChainsNameType/Class2D Diagram3D Interactions
PRD_002200
Query on PRD_002200
O, P, Q, R, T, U, V, W, X, Z, a, b, d, eInhibitor BEZ-LEU-LEUP /  Enzyme inhibitor

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 210.634α = 90
b = 180.78β = 95.716
c = 95.926γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81473253

Revision History 

  • Version 1.0: 2020-01-01
    Type: Initial release
  • Version 2.0: 2020-04-29
    Type: Coordinate replacement
    Reason: Ligand geometry
    Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary