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Fluorine in PDB 6yao: Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea

Enzymatic activity of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea

All present enzymatic activity of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea:
1.5.99.12;

Protein crystallography data

The structure of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea, PDB code: 6yao was solved by D.Kopecny, P.Briozzo, S.Morera, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.28 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.713, 79.713, 203.671, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 22.3

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea (pdb code 6yao). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea, PDB code: 6yao:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 6yao

Go back to Fluorine Binding Sites List in 6yao
Fluorine binding site 1 out of 3 in the Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F602

b:64.3
occ:1.00
FAC A:OJ2602 0.0 64.3 1.0
CAX A:OJ2602 1.3 63.0 1.0
FAE A:OJ2602 2.2 63.2 1.0
FAD A:OJ2602 2.2 67.1 1.0
OAR A:OJ2602 2.3 55.9 1.0
CAU A:OJ2602 2.8 48.8 1.0
CAM A:OJ2602 3.1 43.2 1.0
C7M A:FAD601 3.5 36.2 1.0
CG1 A:VAL370 3.6 43.5 1.0
CH2 A:TRP389 3.9 40.0 1.0
CZ3 A:TRP383 3.9 48.8 1.0
CAJ A:OJ2602 4.0 45.4 1.0
CH2 A:TRP383 4.1 49.3 1.0
CZ2 A:TRP389 4.3 41.1 1.0
CAT A:OJ2602 4.3 41.4 1.0
OAA A:OJ2602 4.6 44.7 1.0
C7 A:FAD601 4.6 33.3 1.0
C6 A:FAD601 4.7 31.9 1.0
CZ A:PHE57 4.8 40.5 1.0

Fluorine binding site 2 out of 3 in 6yao

Go back to Fluorine Binding Sites List in 6yao
Fluorine binding site 2 out of 3 in the Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F602

b:67.1
occ:1.00
FAD A:OJ2602 0.0 67.1 1.0
CAX A:OJ2602 1.3 63.0 1.0
FAE A:OJ2602 2.2 63.2 1.0
OAR A:OJ2602 2.2 55.9 1.0
FAC A:OJ2602 2.2 64.3 1.0
CAU A:OJ2602 2.8 48.8 1.0
CAJ A:OJ2602 3.2 45.4 1.0
CG1 A:VAL370 3.6 43.5 1.0
CB A:ALA373 3.9 51.6 1.0
CAM A:OJ2602 3.9 43.2 1.0
CD1 A:LEU377 3.9 58.8 1.0
CZ3 A:TRP383 4.2 48.8 1.0
O A:VAL370 4.3 44.9 1.0
CAH A:OJ2602 4.5 42.8 1.0
N A:GLU374 4.5 48.4 1.0
C A:ALA373 4.6 54.3 1.0
CA A:ALA373 4.9 50.7 1.0
CB A:VAL370 4.9 44.0 1.0
CH2 A:TRP383 4.9 49.3 1.0
CAT A:OJ2602 4.9 41.4 1.0
CA A:GLU374 5.0 47.5 1.0

Fluorine binding site 3 out of 3 in 6yao

Go back to Fluorine Binding Sites List in 6yao
Fluorine binding site 3 out of 3 in the Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Crystal Structure of ZMCKO4A in Complex with Inhibitor 1-[2-(2- Hydroxy-Ethyl)-Phenyl]-3-(3-Trifluoromethoxy-Phenyl)-Urea within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F602

b:63.2
occ:1.00
FAE A:OJ2602 0.0 63.2 1.0
CAX A:OJ2602 1.3 63.0 1.0
FAC A:OJ2602 2.2 64.3 1.0
FAD A:OJ2602 2.2 67.1 1.0
OAR A:OJ2602 2.2 55.9 1.0
CAU A:OJ2602 3.5 48.8 1.0
CD1 A:LEU377 3.6 58.8 1.0
CZ3 A:TRP383 3.7 48.8 1.0
CZ2 A:TRP389 4.2 41.1 1.0
O A:HOH751 4.2 55.4 1.0
CAM A:OJ2602 4.3 43.2 1.0
CE3 A:TRP383 4.4 47.7 1.0
CAJ A:OJ2602 4.4 45.4 1.0
CH2 A:TRP389 4.5 40.0 1.0
CH2 A:TRP383 4.6 49.3 1.0
CZ A:PHE57 4.8 40.5 1.0

Reference:

J.Nisler, D.Kopecny, Z.Pekna, R.Koncitikova, R.Koprna, N.Murvanidze, S.P.O.Werbrouck, L.Havlicek, N.De Diego, M.Kopecna, Z.Wimmer, P.Briozzo, S.Morera, D.Zalabak, L.Spichal, M.Strnad. Diphenylurea-Derived Cytokinin Oxidase/Dehydrogenase Inhibitors For Biotechnology and Agriculture. J.Exp.Bot. 2020.
ISSN: ESSN 1460-2431
PubMed: 32945834
DOI: 10.1093/JXB/ERAA437
Page generated: Fri Aug 2 04:27:52 2024

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