Atomistry » Magnesium » PDB 4z4h-4zi2 » 4zd6
Atomistry »
  Magnesium »
    PDB 4z4h-4zi2 »
      4zd6 »

Magnesium in PDB 4zd6: Halohydrin Hydrogen-Halide-Lyase, Hheb

Protein crystallography data

The structure of Halohydrin Hydrogen-Halide-Lyase, Hheb, PDB code: 4zd6 was solved by F.Watanabe, F.Yu, A.Ohtaki, Y.Yamanaka, K.Noguchi, M.Yohda, M.Odaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.31 / 1.60
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 121.484, 216.380, 104.517, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 20.7

Other elements in 4zd6:

The structure of Halohydrin Hydrogen-Halide-Lyase, Hheb also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Halohydrin Hydrogen-Halide-Lyase, Hheb (pdb code 4zd6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Halohydrin Hydrogen-Halide-Lyase, Hheb, PDB code: 4zd6:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 4zd6

Go back to Magnesium Binding Sites List in 4zd6
Magnesium binding site 1 out of 3 in the Halohydrin Hydrogen-Halide-Lyase, Hheb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Halohydrin Hydrogen-Halide-Lyase, Hheb within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg301

b:19.3
occ:1.00
O B:HOH498 2.2 36.2 1.0
OE2 B:GLU107 4.1 35.4 1.0
OE1 B:GLU107 4.4 32.6 1.0
CD B:GLU107 4.7 31.3 1.0

Magnesium binding site 2 out of 3 in 4zd6

Go back to Magnesium Binding Sites List in 4zd6
Magnesium binding site 2 out of 3 in the Halohydrin Hydrogen-Halide-Lyase, Hheb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Halohydrin Hydrogen-Halide-Lyase, Hheb within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg303

b:19.0
occ:1.00
O A:HOH434 2.0 24.5 1.0
O E:HOH427 2.0 19.1 1.0
O A:HOH554 2.1 27.3 1.0
O E:HOH519 2.1 24.5 1.0
O E:HOH607 2.2 25.9 1.0
O E:HOH489 2.3 25.4 1.0
O B:HOH417 4.0 26.9 1.0
OE1 E:GLU81 4.1 18.6 1.0
O E:HOH539 4.1 18.4 1.0
O B:HOH569 4.1 22.6 1.0
O E:HOH613 4.2 22.1 1.0
O F:HOH548 4.4 37.3 1.0
OE2 E:GLU81 4.4 20.3 1.0
OD2 A:ASP212 4.5 18.2 1.0
OD2 E:ASP79 4.6 20.5 1.0
O F:HOH537 4.6 18.3 1.0
CB E:ASP79 4.6 15.5 1.0
CD E:GLU81 4.7 17.8 1.0
CB A:ASP209 4.8 15.4 1.0
OD2 A:ASP209 4.9 24.5 1.0
NH2 B:ARG197 4.9 16.9 1.0
CG A:ASP209 5.0 20.6 1.0

Magnesium binding site 3 out of 3 in 4zd6

Go back to Magnesium Binding Sites List in 4zd6
Magnesium binding site 3 out of 3 in the Halohydrin Hydrogen-Halide-Lyase, Hheb


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Halohydrin Hydrogen-Halide-Lyase, Hheb within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg304

b:13.4
occ:0.65
O E:HOH543 2.2 20.1 1.0
O E:ARG54 2.3 16.0 1.0
O E:HOH452 2.4 20.9 1.0
O E:HOH476 2.5 20.7 0.5
C E:ARG54 3.4 16.5 1.0
CA E:ARG54 4.1 15.4 1.0
O E:HOH450 4.3 23.4 1.0
C E:ALA55 4.4 17.7 1.0
N E:ALA55 4.5 14.5 1.0
O E:ALA55 4.5 19.9 1.0
N E:GLY56 4.5 17.2 1.0
CG E:ARG54 4.6 23.0 1.0
CA E:ALA55 4.7 16.1 1.0
O E:GLU53 4.7 19.1 1.0
O E:HOH466 4.9 28.2 1.0
O E:HOH575 4.9 18.0 1.0
CB E:ARG54 5.0 18.4 1.0
CA E:GLY56 5.0 19.9 1.0

Reference:

F.Watanabe, F.Yu, A.Ohtaki, Y.Yamanaka, K.Noguchi, M.Yohda, M.Odaka. Crystal Structures of Halohydrin Hydrogen-Halide-Lyases From Corynebacterium Sp. N-1074 Proteins V. 83 2230 2015.
ISSN: ESSN 1097-0134
PubMed: 26422370
DOI: 10.1002/PROT.24938
Page generated: Sat Sep 28 23:58:27 2024

Last articles

Cl in 3SST
Cl in 3SSH
Cl in 3SSS
Cl in 3SSA
Cl in 3SRX
Cl in 3SS3
Cl in 3SRG
Cl in 3SQG
Cl in 3SPA
Cl in 3SPX
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy