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Manganese in PDB 7x9j: Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+

Enzymatic activity of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+

All present enzymatic activity of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+:
3.6.1.55;

Protein crystallography data

The structure of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+, PDB code: 7x9j was solved by T.Nakamura, Y.Yamagata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.17 / 1.98
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.13, 55.98, 59.198, 90, 90, 90
R / Rfree (%) 15.2 / 21.2

Other elements in 7x9j:

The structure of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+ also contains other interesting chemical elements:

Sodium (Na) 1 atom

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+ (pdb code 7x9j). 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 Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+, PDB code: 7x9j:

Manganese binding site 1 out of 1 in 7x9j

Go back to Manganese Binding Sites List in 7x9j
Manganese binding site 1 out of 1 in the Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 24 Hr Using 5 Mm MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn203

b:26.3
occ:0.70
 O A:HOH316 2.2 30.0 1.0
O A:GLY37 2.3 9.0 1.0
OP2 A:8OG201 2.4 22.2 1.0
O A:HOH309 2.4 23.2 1.0
OE2 A:GLU57 2.5 19.8 1.0
O A:HOH398 2.5 34.6 1.0
NA A:NA204 3.3 28.0 1.0
CD A:GLU57 3.3 20.0 1.0
C A:GLY37 3.5 14.8 1.0
P A:8OG201 3.5 22.1 1.0
OE1 A:GLU57 3.6 13.3 1.0
O A:HOH311 3.7 36.8 1.0
OP1 A:8OG201 3.8 27.4 1.0
N2 A:8OG201 3.9 7.6 1.0
CA A:GLY38 4.0 10.1 1.0
N A:GLY38 4.2 9.2 1.0
OP3 A:8OG201 4.2 18.9 1.0
O A:HOH313 4.3 24.9 1.0
N A:GLY37 4.4 8.2 1.0
NH1 A:ARG23 4.5 10.8 1.0
OE1 A:GLU53 4.5 16.0 1.0
O A:HOH346 4.5 23.5 1.0
CA A:GLY37 4.5 6.3 1.0
OE1 A:GLU34 4.5 9.8 1.0
CG A:GLU57 4.6 12.3 1.0
O5' A:8OG201 4.8 15.2 1.0
O A:HOH301 4.8 16.9 1.0
OE2 A:GLU34 4.9 15.6 1.0

Reference:

T.Nakamura, Y.Yamagata. Visualization of Mutagenic Nucleotide Processing By Escherichia Coli Mutt, A Nudix Hydrolase. Proc.Natl.Acad.Sci.Usa V. 119 18119 2022.
ISSN: ESSN 1091-6490
PubMed: 35594391
DOI: 10.1073/PNAS.2203118119
Page generated: Sat Aug 16 23:59:03 2025

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