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Xenon in PDB 2dki: Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm)

Enzymatic activity of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm)

All present enzymatic activity of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm):
1.14.13.23;

Protein crystallography data

The structure of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm), PDB code: 2dki was solved by T.Hiromoto, S.Fujiwara, K.Hosokawa, H.Yamaguchi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.00 / 2.50
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 73.680, 73.680, 224.810, 90.00, 90.00, 120.00
R / Rfree (%) 17.7 / 23.6

Xenon Binding Sites:

The binding sites of Xenon atom in the Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm) (pdb code 2dki). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 3 binding sites of Xenon where determined in the Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm), PDB code: 2dki:
Jump to Xenon binding site number: 1; 2; 3;

Xenon binding site 1 out of 3 in 2dki

Go back to Xenon Binding Sites List in 2dki
Xenon binding site 1 out of 3 in the Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm)


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe644

b:48.1
occ:0.33
O A:HOH1021 3.3 38.7 1.0
CZ2 A:TRP230 3.8 42.5 1.0
CD2 A:LEU258 3.8 38.1 1.0
CE2 A:TRP230 3.9 44.6 1.0
CB A:PRO356 3.9 58.6 1.0
CH2 A:TRP230 4.0 44.2 1.0
CD2 A:TRP230 4.0 42.7 1.0
CZ3 A:TRP230 4.1 45.0 1.0
O A:PRO356 4.1 63.2 1.0
CD2 A:TYR271 4.2 35.6 1.0
C A:PRO356 4.2 57.8 1.0
CE3 A:TRP230 4.2 41.1 1.0
CG A:TYR271 4.4 32.3 1.0
NE1 A:TRP230 4.4 50.2 1.0
N A:LYS357 4.5 59.4 1.0
CB A:TYR271 4.6 26.4 1.0
CA A:PRO356 4.6 58.0 1.0
CE2 A:TYR271 4.7 36.1 1.0
CG A:TRP230 4.7 49.3 1.0
CA A:LYS357 4.8 60.1 1.0
CD1 A:TRP230 4.9 50.4 1.0
CG A:LYS357 4.9 69.5 1.0
CB A:LEU258 5.0 34.9 1.0

Xenon binding site 2 out of 3 in 2dki

Go back to Xenon Binding Sites List in 2dki
Xenon binding site 2 out of 3 in the Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm)


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe645

b:43.9
occ:0.28
CG A:PRO531 3.3 32.9 1.0
CD1 A:PHE546 3.3 21.0 1.0
CD1 A:LEU501 3.4 20.5 1.0
CG A:PHE546 3.4 26.1 1.0
CE1 A:PHE546 3.6 22.8 1.0
CD2 A:PHE546 3.7 17.8 1.0
CD2 A:LEU524 3.8 18.7 1.0
CZ A:PHE546 3.8 17.4 1.0
N A:LEU532 3.8 29.8 1.0
CB A:PRO531 3.9 31.2 1.0
CE2 A:PHE546 3.9 19.1 1.0
CB A:PHE546 4.0 17.3 1.0
CB A:LEU532 4.2 34.0 1.0
CA A:LEU532 4.3 32.5 1.0
C A:PRO531 4.4 27.7 1.0
CD A:PRO531 4.5 30.4 1.0
CE1 A:PHE633 4.6 14.9 1.0
CG A:LEU501 4.6 22.5 1.0
CA A:PRO531 4.6 30.4 1.0
CD2 A:LEU629 4.7 17.5 1.0
CD1 A:PHE633 4.8 14.7 1.0
CD2 A:LEU501 4.9 24.0 1.0
CD1 A:LEU524 4.9 21.6 1.0
CG A:LEU524 4.9 30.3 1.0
CG A:LEU629 4.9 17.2 1.0
CD1 A:LEU629 5.0 10.3 1.0
N A:PRO531 5.0 30.5 1.0

Xenon binding site 3 out of 3 in 2dki

Go back to Xenon Binding Sites List in 2dki
Xenon binding site 3 out of 3 in the Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm)


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 3 of Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni, Under Pressure of Xenon Gas (12 Atm) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe646

b:45.3
occ:0.29
O A:HOH750 3.5 27.4 1.0
CB A:SER635 3.8 13.3 1.0
O A:ALA631 3.8 26.1 1.0
O A:HOH724 3.9 28.7 1.0
OG A:SER635 4.2 21.6 1.0
C A:ALA631 4.3 25.4 1.0
CA A:TYR632 4.5 24.2 1.0
N A:TYR632 4.6 29.3 1.0
CB A:ALA631 4.7 15.9 1.0
O A:TYR632 5.0 23.6 1.0

Reference:

T.Hiromoto, S.Fujiwara, K.Hosokawa, H.Yamaguchi. Crystal Structure of 3-Hydroxybenzoate Hydroxylase From Comamonas Testosteroni Has A Large Tunnel For Substrate and Oxygen Access to the Active Site J.Mol.Biol. V. 364 878 2006.
ISSN: ISSN 0022-2836
PubMed: 17045293
DOI: 10.1016/J.JMB.2006.09.031
Page generated: Wed Dec 16 02:39:36 2020

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