6TN2

Rapid optimisation of fragments and hits to lead compounds from screening of crude reaction mixtures


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.171 

wwPDB Validation 3D Report Full Report



Literature

Rapid optimisation of fragments and hits to lead compounds from screening of crude reaction mixtures

Baker, L.M.Aimon, A.Murray, J.B.Surgenor, A.E.Matassova, N.Roughley, S.D.Collins, P.M.Krojer, T.von Delft, F.Hubbard, R.E.

(2020) Commun Chem 


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrialAAA394Homo sapiensMutation(s): 0 
Gene Names: PDK2PDHK2
EC: 2.7.11.2
Find proteins for Q15119 (Homo sapiens)
Explore Q15119 
Go to UniProtKB:  Q15119
NIH Common Fund Data Resources
PHAROS  Q15119
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TF3
Query on TF3

Download CCD File 
AAA
N-(2-AMINOETHYL)-2-{3-CHLORO-4-[(4-ISOPROPYLBENZYL)OXY]PHENYL} ACETAMIDE
C20 H25 Cl N2 O2
DFXJYVQAAFOZDP-UHFFFAOYSA-N
 Ligand Interaction
NL8
Query on NL8

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AAA
~{N}-(4-aminocarbonylphenyl)-~{N}-methyl-2,4-bis(oxidanyl)benzamide
C15 H14 N2 O4
BCONCFRKDGKCRJ-UHFFFAOYSA-N
 Ligand Interaction
DMS
Query on DMS

Download CCD File 
AAA
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download CCD File 
AAA
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.171 
  • Space Group: P 64
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 108.516α = 90
b = 108.516β = 90
c = 83.676γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
xia2data reduction
Aimlessdata scaling
REFMACphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-10-14
    Type: Initial release