Atomistry » Tungsten » PDB 4z3x-6rvg » 6ohm
Atomistry »
  Tungsten »
    PDB 4z3x-6rvg »
      6ohm »

Tungsten in PDB 6ohm: Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain

Enzymatic activity of Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain

All present enzymatic activity of Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain:
3.1.4.4;

Protein crystallography data

The structure of Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain, PDB code: 6ohm was solved by C.M.Metrick, J.V.Chodaparambil, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.55 / 1.90
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 92.515, 132.242, 107.089, 90.00, 111.45, 90.00
R / Rfree (%) 18.2 / 20.6

Tungsten Binding Sites:

The binding sites of Tungsten atom in the Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain (pdb code 6ohm). This binding sites where shown within 5.0 Angstroms radius around Tungsten atom.
In total 2 binding sites of Tungsten where determined in the Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain, PDB code: 6ohm:
Jump to Tungsten binding site number: 1; 2;

Tungsten binding site 1 out of 2 in 6ohm

Go back to Tungsten Binding Sites List in 6ohm
Tungsten binding site 1 out of 2 in the Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 1 of Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:W1001

b:35.3
occ:1.00
W A:WO41001 0.0 35.3 1.0
O2 A:WO41001 2.0 34.4 1.0
O4 A:WO41001 2.0 32.7 1.0
O3 A:WO41001 2.0 38.0 1.0
O1 A:WO41001 2.0 33.7 1.0
NE2 A:HIS442 2.5 15.9 1.0
O A:HOH1105 2.6 33.7 1.0
NE2 A:HIS756 3.4 17.5 1.0
CD2 A:HIS442 3.4 16.8 1.0
CE1 A:HIS442 3.5 16.5 1.0
OE1 A:GLN642 3.8 20.4 1.0
CE1 A:HIS756 3.9 17.8 1.0
O A:HOH1139 4.1 16.6 1.0
NZ A:LYS444 4.1 11.3 1.0
NZ A:LYS758 4.4 12.3 1.0
ND2 A:ASN773 4.5 15.7 1.0
CD2 A:HIS756 4.5 17.5 1.0
ND1 A:HIS442 4.6 16.4 1.0
CG A:HIS442 4.6 16.0 1.0
CE A:LYS444 4.6 11.6 1.0
CD A:GLN642 4.7 20.2 1.0
NE2 A:GLN642 4.7 21.0 1.0
CE A:LYS758 4.8 12.3 1.0

Tungsten binding site 2 out of 2 in 6ohm

Go back to Tungsten Binding Sites List in 6ohm
Tungsten binding site 2 out of 2 in the Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain


Mono view


Stereo pair view

A full contact list of Tungsten with other atoms in the W binding site number 2 of Structure of Tungstate Bound Human Phospholipase D2 Catalytic Domain within 5.0Å range:
probe atom residue distance (Å) B Occ
B:W1001

b:36.1
occ:1.00
W B:WO41001 0.0 36.1 1.0
O2 B:WO41001 2.0 35.9 1.0
O3 B:WO41001 2.0 35.8 1.0
O1 B:WO41001 2.0 36.1 1.0
O4 B:WO41001 2.1 37.8 1.0
NE2 B:HIS442 2.5 17.5 1.0
NE2 B:HIS756 3.3 18.1 1.0
CD2 B:HIS442 3.4 19.4 1.0
CE1 B:HIS442 3.5 17.8 1.0
CE1 B:HIS756 3.8 18.5 1.0
OE1 B:GLN642 3.8 21.3 1.0
O B:HOH1134 3.9 21.1 1.0
NZ B:LYS444 4.2 12.7 1.0
CD2 B:HIS756 4.4 18.0 1.0
NZ B:LYS758 4.5 11.6 1.0
ND2 B:ASN773 4.5 14.8 1.0
ND1 B:HIS442 4.6 18.5 1.0
CG B:HIS442 4.6 18.5 1.0
CE B:LYS444 4.7 13.6 1.0
CD B:GLN642 4.7 19.0 1.0
NE2 B:GLN642 4.7 18.9 1.0
O B:HOH1427 4.7 46.2 1.0
CE B:LYS758 4.8 11.6 1.0
O B:HOH1394 4.9 49.1 1.0

Reference:

C.M.Metrick, E.A.Peterson, J.C.Santoro, I.J.Enyedy, P.Murugan, T.Chen, K.Michelsen, M.Cullivan, K.A.Spilker, P.R.Kumar, T.L.May-Dracka, J.V.Chodaparambil. Human Pld Structures Enable Drug Design and Characterization of Isoenzyme Selectivity. Nat.Chem.Biol. 2020.
ISSN: ESSN 1552-4469
PubMed: 32042197
DOI: 10.1038/S41589-019-0458-4
Page generated: Wed Dec 16 02:35:37 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy