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Manganese in PDB 7yba: Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate

Enzymatic activity of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate

All present enzymatic activity of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate:
1.14.11.16;

Protein crystallography data

The structure of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate, PDB code: 7yba was solved by Y.Nakashima, L.Brewitz, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 86.22 / 1.86
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 48.7, 70.202, 172.449, 90, 90, 90
R / Rfree (%) 18.1 / 20.2

Manganese Binding Sites:

The binding sites of Manganese atom in the Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate (pdb code 7yba). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate, PDB code: 7yba:

Manganese binding site 1 out of 1 in 7yba

Go back to Manganese Binding Sites List in 7yba
Manganese binding site 1 out of 1 in the Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn801

b:23.5
occ:1.00
 NE2 A:HIS725 1.9 25.7 1.0
O A:HOH929 2.0 23.8 1.0
O06 A:IO9802 2.0 27.4 1.0
O A:HOH1012 2.1 28.3 1.0
O04 A:IO9802 2.1 27.9 1.0
NE2 A:HIS679 2.2 26.8 1.0
C02 A:IO9802 2.8 29.1 1.0
C05 A:IO9802 2.8 36.4 1.0
CE1 A:HIS725 2.9 28.0 1.0
CD2 A:HIS725 2.9 28.4 1.0
CE1 A:HIS679 3.0 24.1 1.0
HE1 A:HIS679 3.1 28.9 1.0
HE1 A:HIS725 3.1 33.6 1.0
HD2 A:HIS725 3.1 34.1 1.0
CD2 A:HIS679 3.3 33.5 1.0
HD2 A:HIS679 3.6 40.2 1.0
HH11 A:ARG688 3.7 38.4 1.0
O A:HOH994 3.8 52.3 1.0
O A:HOH1095 3.9 59.1 1.0
ND1 A:HIS725 4.0 23.1 1.0
CG A:HIS725 4.0 23.0 1.0
HB2 A:ASP721 4.1 29.1 1.0
ND1 A:HIS679 4.2 26.1 1.0
O03 A:IO9802 4.2 28.7 1.0
HH12 A:ARG688 4.2 38.4 1.0
NH1 A:ARG688 4.2 32.0 1.0
C04 A:IO9802 4.3 30.2 1.0
OD2 A:ASP721 4.3 32.4 1.0
CG A:HIS679 4.4 23.4 1.0
H06 A:IO9802 4.5 36.2 1.0
HD13 A:LEU619 4.7 46.6 1.0
H05 A:IO9802 4.8 36.2 1.0
HD1 A:HIS725 4.8 27.7 1.0
HZ A:PHE719 4.8 31.9 1.0
HD1 A:HIS679 4.9 31.3 1.0
HD2 A:ARG688 4.9 48.0 1.0
HE2 A:PHE719 4.9 41.3 1.0
HD3 A:ARG688 5.0 48.0 1.0

Reference:

Y.Nakashima, L.Brewitz, C.J.Schofield. Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with D-4-Hydroxy-2-Oxoglutarate To Be Published.
Page generated: Sun Aug 17 00:01:24 2025

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