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Mercury in PDB 5oon: Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca

Enzymatic activity of Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca

All present enzymatic activity of Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca:
3.6.1.27;

Protein crystallography data

The structure of Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca, PDB code: 5oon was solved by C.-Y.Huang, V.Olieric, R.Warshamanage, M.Wang, N.Howe, M.E.I.Ghachi, D.Weichert, F.Kerff, P.Stansfeld, T.Touze, M.Caffrey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.46 / 2.60
Space group C 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 113.260, 145.000, 40.490, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 24.4

Mercury Binding Sites:

The binding sites of Mercury atom in the Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca (pdb code 5oon). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 2 binding sites of Mercury where determined in the Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca, PDB code: 5oon:
Jump to Mercury binding site number: 1; 2;

Mercury binding site 1 out of 2 in 5oon

Go back to Mercury Binding Sites List in 5oon
Mercury binding site 1 out of 2 in the Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg301

b:45.1
occ:0.89
SG A:CYS165 2.5 40.6 1.0
SG A:CYS162 2.7 48.7 1.0
O A:CYS162 2.8 40.5 1.0
CA A:CYS162 3.2 35.8 1.0
CB A:CYS165 3.3 35.3 1.0
C A:CYS162 3.3 38.4 1.0
CB A:CYS162 3.4 39.9 1.0
CB A:PRO101 3.7 36.7 1.0
N A:CYS165 4.4 41.5 1.0
CA A:CYS165 4.5 38.7 1.0
N A:CYS162 4.5 33.3 1.0
O A:GLY161 4.6 40.4 1.0
N A:PHE163 4.6 33.1 1.0
CG A:PRO101 4.7 40.4 1.0
CA A:PRO101 4.8 40.0 1.0
C A:PRO101 4.8 38.7 1.0
CD1 A:LEU105 4.9 53.1 1.0

Mercury binding site 2 out of 2 in 5oon

Go back to Mercury Binding Sites List in 5oon
Mercury binding site 2 out of 2 in the Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Structure of Undecaprenyl-Pyrophosphate Phosphatase, Baca within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg302

b:0.6
occ:0.42
SG A:CYS138 3.0 55.7 1.0
CB A:CYS138 3.4 44.1 1.0
O23 A:OLC305 3.8 72.1 1.0
CA A:CYS138 4.2 35.1 1.0
O20 A:OLC305 4.3 67.7 1.0
O A:CYS138 4.7 41.6 1.0
C2 A:OLC305 4.8 61.8 1.0
C A:CYS138 4.9 41.6 1.0

Reference:

M.El Ghachi, N.Howe, C.Y.Huang, V.Olieric, R.Warshamanage, T.Touze, D.Weichert, P.J.Stansfeld, M.Wang, F.Kerff, M.Caffrey. Crystal Structure of Undecaprenyl-Pyrophosphate Phosphatase and Its Role in Peptidoglycan Biosynthesis. Nat Commun V. 9 1078 2018.
ISSN: ESSN 2041-1723
PubMed: 29540682
DOI: 10.1038/S41467-018-03477-5
Page generated: Sun Dec 13 19:13:05 2020

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