Manganese in PDB 7yb9: Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER)

Enzymatic activity of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER)

All present enzymatic activity of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER):
1.14.11.16; 3.4.21.6;

Protein crystallography data

The structure of Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER), PDB code: 7yb9 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) 73.63 / 1.54
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.672, 91.895, 123.073, 90, 90, 90
R / Rfree (%) 18.5 / 21.5

Manganese Binding Sites:

The binding sites of Manganese atom in the Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER) (pdb code 7yb9). 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 L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER), PDB code: 7yb9:

Manganese binding site 1 out of 1 in 7yb9

Go back to Manganese Binding Sites List in 7yb9
Manganese binding site 1 out of 1 in the Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER)


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 L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn801

b:29.7
occ:1.00
 O A:HOH997 1.9 32.2 1.0
O3 A:S2G802 2.1 40.0 1.0
NE2 A:HIS725 2.1 29.5 1.0
O2 A:S2G802 2.2 32.0 1.0
NE2 A:HIS679 2.2 30.7 1.0
HO3 A:S2G802 2.2 48.0 1.0
C1 A:S2G802 3.0 45.7 1.0
C2 A:S2G802 3.0 45.3 1.0
CE1 A:HIS679 3.0 26.0 1.0
CD2 A:HIS725 3.1 28.4 1.0
CE1 A:HIS725 3.1 30.9 1.0
HE1 A:HIS679 3.1 31.2 1.0
CD2 A:HIS679 3.2 32.2 1.0
HD2 A:HIS725 3.3 34.1 1.0
HE1 A:HIS725 3.3 37.1 1.0
OD2 B:ASP103 3.4 59.6 1.0
H2 A:S2G802 3.5 54.4 1.0
HD2 A:HIS679 3.5 38.6 1.0
HH11 A:ARG688 3.6 39.9 1.0
HB3 B:ASP103 3.8 38.5 1.0
HB2 A:ASP721 3.8 36.3 1.0
HH12 A:ARG688 3.9 39.9 1.0
CG B:ASP103 4.0 57.7 1.0
O B:ASP103 4.0 31.7 1.0
NH1 A:ARG688 4.1 33.2 1.0
ND1 A:HIS679 4.2 31.5 1.0
O1 A:S2G802 4.2 33.8 1.0
ND1 A:HIS725 4.2 31.6 1.0
OD2 A:ASP721 4.2 33.6 1.0
CG A:HIS725 4.3 29.8 1.0
CG A:HIS679 4.3 28.1 1.0
C3 A:S2G802 4.3 40.3 1.0
CB B:ASP103 4.3 32.1 1.0
H3A A:S2G802 4.4 48.4 1.0
HA B:ASP103 4.5 34.5 1.0
HZ A:PHE719 4.5 36.3 1.0
HE1 A:PHE719 4.6 39.0 1.0
HD13 A:LEU619 4.6 34.2 1.0
H3 A:S2G802 4.7 48.4 1.0
CB A:ASP721 4.7 30.2 1.0
OD1 B:ASP103 4.7 38.0 1.0
CA B:ASP103 4.8 28.7 1.0
HH2 A:TRP625 4.8 38.7 1.0
C B:ASP103 4.8 31.9 1.0
HD1 A:HIS679 4.9 37.9 1.0
O B:HOH204 4.9 50.5 1.0
HD2 A:ARG688 5.0 38.6 1.0
HB3 A:ASP721 5.0 36.3 1.0

Reference:

Y.Nakashima, L.Brewitz, C.J.Schofield. Aspartyl/Asparaginyl Beta-Hydroxylase (Asph) Oxygenase and Tpr Domains in Complex with L-2-Hydroxyglutarate and Factor X-Derived Peptide (39MER-4SER) To Be Published.
Page generated: Fri Jul 28 02:09:56 2023

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