Atomistry » Lead » PDB 3fhh-8gbm » 5tao
Atomistry »
  Lead »
    PDB 3fhh-8gbm »
      5tao »

Lead in PDB 5tao: Haloferax Volcanii Malate Synthase Lead(II) Complex

Enzymatic activity of Haloferax Volcanii Malate Synthase Lead(II) Complex

All present enzymatic activity of Haloferax Volcanii Malate Synthase Lead(II) Complex:
2.3.3.9;

Protein crystallography data

The structure of Haloferax Volcanii Malate Synthase Lead(II) Complex, PDB code: 5tao was solved by B.R.Howard, M.J.Adams, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 96.81 / 2.10
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 155.353, 155.353, 139.412, 90.00, 90.00, 120.00
R / Rfree (%) 18.3 / 21.7

Other elements in 5tao:

The structure of Haloferax Volcanii Malate Synthase Lead(II) Complex also contains other interesting chemical elements:

Potassium (K) 3 atoms
Chlorine (Cl) 4 atoms
Sodium (Na) 1 atom

Lead Binding Sites:

The binding sites of Lead atom in the Haloferax Volcanii Malate Synthase Lead(II) Complex (pdb code 5tao). This binding sites where shown within 5.0 Angstroms radius around Lead atom.
In total 4 binding sites of Lead where determined in the Haloferax Volcanii Malate Synthase Lead(II) Complex, PDB code: 5tao:
Jump to Lead binding site number: 1; 2; 3; 4;

Lead binding site 1 out of 4 in 5tao

Go back to Lead Binding Sites List in 5tao
Lead binding site 1 out of 4 in the Haloferax Volcanii Malate Synthase Lead(II) Complex


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 1 of Haloferax Volcanii Malate Synthase Lead(II) Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pb505

b:44.2
occ:1.00
OD1 A:ASP196 2.6 31.0 1.0
O2 A:GLV503 2.6 44.0 1.0
OE1 A:GLU161 2.7 33.9 1.0
O3 A:GLV503 2.7 67.2 1.0
OE2 A:GLU161 2.7 59.5 1.0
O A:HOH779 2.8 28.8 0.5
C2 A:GLV503 2.9 57.5 1.0
CD A:GLU161 3.0 40.4 1.0
OD2 A:ASP196 3.0 38.9 1.0
CG A:ASP196 3.1 34.4 1.0
O A:HOH648 3.5 42.9 1.0
C1 A:GLV503 4.0 77.7 1.0
CG A:GLU161 4.5 42.7 1.0
O A:ASP196 4.6 30.3 1.0
NH2 A:ARG89 4.6 34.6 1.0
CB A:ASP196 4.6 32.6 1.0
O1 A:GLV503 4.6 88.4 1.0
NE A:ARG89 4.7 33.5 1.0
CB A:SER159 4.8 31.5 1.0
O A:HOH789 4.9 39.6 0.5
N A:GLY160 4.9 27.4 1.0
PB A:PB507 4.9 89.8 1.0
O A:HOH740 4.9 76.8 1.0
O A:HOH788 5.0 54.7 1.0

Lead binding site 2 out of 4 in 5tao

Go back to Lead Binding Sites List in 5tao
Lead binding site 2 out of 4 in the Haloferax Volcanii Malate Synthase Lead(II) Complex


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 2 of Haloferax Volcanii Malate Synthase Lead(II) Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pb506

b:50.4
occ:1.00
O3 A:GLV504 2.0 22.9 1.0
OD2 A:ASP192 2.2 42.4 1.0
OE1 A:GLU123 2.6 34.6 1.0
OD2 A:ASP52 2.8 32.8 1.0
O3 A:GLV502 2.9 62.3 1.0
C2 A:GLV504 2.9 52.2 1.0
OE2 A:GLU51 3.0 38.1 1.0
OE1 A:GLU158 3.0 38.4 1.0
OE2 A:GLU158 3.0 32.2 1.0
CD A:GLU158 3.3 36.1 1.0
O2 A:GLV504 3.3 55.4 1.0
CG A:ASP192 3.4 39.2 1.0
OE1 A:GLU51 3.4 36.7 1.0
CD A:GLU123 3.5 40.4 1.0
CG A:ASP52 3.5 44.1 1.0
OD1 A:ASP52 3.6 44.3 1.0
CG A:GLU123 3.6 34.4 1.0
CD A:GLU51 3.6 36.2 1.0
C2 A:GLV502 4.0 64.0 1.0
CB A:ASP192 4.1 34.9 1.0
C1 A:GLV504 4.2 66.8 1.0
OD1 A:ASP192 4.3 45.9 1.0
CB A:PRO122 4.4 32.8 1.0
NH1 A:ARG84 4.5 42.4 1.0
O A:HOH665 4.5 44.6 1.0
O1 A:GLV502 4.6 47.0 1.0
O1 A:GLV504 4.6 80.0 1.0
OE2 A:GLU123 4.6 32.7 1.0
CG A:GLU158 4.7 40.9 1.0
C1 A:GLV502 4.8 60.9 1.0
O2 A:GLV502 4.9 60.2 1.0
CB A:ASP52 5.0 38.7 1.0

Lead binding site 3 out of 4 in 5tao

Go back to Lead Binding Sites List in 5tao
Lead binding site 3 out of 4 in the Haloferax Volcanii Malate Synthase Lead(II) Complex


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 3 of Haloferax Volcanii Malate Synthase Lead(II) Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pb507

b:89.8
occ:1.00
OD1 A:ASP90 2.7 44.3 1.0
OD2 A:ASP90 3.1 56.6 1.0
O2 A:GLV503 3.1 44.0 1.0
O A:HOH838 3.1 48.6 1.0
O A:HOH648 3.2 42.9 1.0
CG A:ASP90 3.2 44.0 1.0
C2 A:GLV503 3.3 57.5 1.0
O3 A:GLV503 3.3 67.2 1.0
O A:HOH833 3.3 71.6 1.0
OE2 A:GLU161 3.4 59.5 1.0
C1 A:GLV503 4.2 77.7 1.0
NE A:ARG89 4.3 33.5 1.0
CG A:ARG89 4.3 30.5 1.0
CD A:ARG89 4.3 30.7 1.0
O A:HOH740 4.4 76.8 1.0
CL A:CL515 4.4 40.0 1.0
CD A:GLU161 4.6 40.4 1.0
O A:HOH745 4.6 38.0 0.5
CB A:ASP90 4.7 37.8 1.0
PB A:PB505 4.9 44.2 1.0
O A:HOH800 4.9 41.0 0.5
O A:HOH847 5.0 69.7 1.0
O1 A:GLV503 5.0 88.4 1.0

Lead binding site 4 out of 4 in 5tao

Go back to Lead Binding Sites List in 5tao
Lead binding site 4 out of 4 in the Haloferax Volcanii Malate Synthase Lead(II) Complex


Mono view


Stereo pair view

A full contact list of Lead with other atoms in the Pb binding site number 4 of Haloferax Volcanii Malate Synthase Lead(II) Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pb508

b:0.9
occ:1.00
O A:HOH752 2.6 81.0 1.0
OD2 A:ASP348 3.0 66.6 1.0
OD1 A:ASP348 3.0 67.5 1.0
OD2 A:ASP344 3.0 94.4 1.0
OD1 A:ASP344 3.0 64.3 1.0
CG A:ASP344 3.3 74.9 1.0
CG A:ASP348 3.3 68.9 1.0
O A:HOH784 3.5 71.9 1.0
NH2 A:ARG427 3.6 74.8 1.0
O A:HOH716 3.6 56.9 1.0
O A:HOH668 3.8 65.4 1.0
CZ A:ARG427 4.5 72.5 1.0
CB A:ASP344 4.7 69.5 1.0
CB A:ASP348 4.8 67.3 1.0
O A:ASP344 4.8 52.7 1.0
NH1 A:ARG427 4.9 78.3 1.0

Reference:

M.J.Adams, B.R.Howard. X-Ray Analysis of Lead(II) Binding to Haloferax Volcanii Malate Synthase The Journal of the Utah V. 93 77 2016ACADEMY.
ISSN: ISSN 0083-4823
Page generated: Wed Dec 16 02:02:17 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy