Manganese in PDB 7ww6: Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+

Enzymatic activity of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+

All present enzymatic activity of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+:
3.6.1.55;

Protein crystallography data

The structure of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+, PDB code: 7ww6 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) 40.66 / 1.36
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 38.04, 55.9, 59.24, 90, 90, 90
R / Rfree (%) 15 / 18.5

Other elements in 7ww6:

The structure of Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+ also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 5 Mm MN2+ (pdb code 7ww6). 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 20 Min in 5 Mm MN2+, PDB code: 7ww6:

Manganese binding site 1 out of 1 in 7ww6

Go back to Manganese Binding Sites List in 7ww6
Manganese binding site 1 out of 1 in the Crystal Structure of Mutt-8-Oxo-Dgtp Complex: Reaction For 20 Min in 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 20 Min in 5 Mm MN2+ within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn202

b:11.6
occ:0.60
 NA A:NA203 0.0 29.2 0.4
O A:GLY37 2.2 10.1 1.0
OE2 A:GLU57 2.2 13.4 1.0
O2B A:8DG201 2.2 15.0 1.0
O1A A:8DG201 2.3 14.2 1.0
O A:HOH342 2.3 12.5 1.0
O A:HOH413 2.3 17.0 1.0
CD A:GLU57 3.2 12.2 1.0
PA A:8DG201 3.4 13.0 1.0
C A:GLY37 3.4 8.6 1.0
PB A:8DG201 3.5 14.1 1.0
OE1 A:GLU57 3.5 12.0 1.0
O3A A:8DG201 3.7 12.7 1.0
O A:HOH307 3.8 18.9 1.0
N2 A:8DG201 3.9 10.2 1.0
O A:HOH320 3.9 22.0 1.0
CA A:GLY38 4.0 10.1 1.0
O2A A:8DG201 4.1 13.9 1.0
N A:GLY38 4.2 9.2 1.0
NH1 A:ARG23 4.3 11.8 1.0
O A:HOH334 4.3 19.4 1.0
N A:GLY37 4.3 9.1 1.0
O A:HOH335 4.4 28.6 1.0
OE1 A:GLU53 4.4 12.7 1.0
CA A:GLY37 4.5 8.6 1.0
O1B A:8DG201 4.5 13.5 1.0
CG A:GLU57 4.5 10.2 1.0
O3B A:8DG201 4.5 22.4 1.0
O2G A:8DG201 4.6 52.0 0.5
OE1 A:GLU34 4.6 11.7 1.0
O5' A:8DG201 4.7 13.3 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: Fri Apr 7 12:59:33 2023

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