Atomistry » Sodium » PDB 4zm0-5ac7 » 5a25
Atomistry »
  Sodium »
    PDB 4zm0-5ac7 »
      5a25 »

Sodium in PDB 5a25: Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst

Enzymatic activity of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst

All present enzymatic activity of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst:
4.2.1.1;

Protein crystallography data

The structure of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst, PDB code: 5a25 was solved by A.Warden, J.Newman, T.S.Peat, S.Seabrook, M.Williams, G.Dojchinov, V.Haritos, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 58.84 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 59.331, 79.440, 61.521, 90.00, 106.98, 90.00
R / Rfree (%) 15.308 / 19.689

Other elements in 5a25:

The structure of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst (pdb code 5a25). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst, PDB code: 5a25:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 5a25

Go back to Sodium Binding Sites List in 5a25
Sodium binding site 1 out of 4 in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1262

b:28.8
occ:1.00
 O A:HOH2152 2.4 31.4 1.0
OG A:SER172 2.5 12.8 1.0
O3 A:GOL1261 2.5 31.0 1.0
O A:HOH2151 2.7 20.1 1.0
O A:SER172 2.7 11.4 1.0
C A:SER172 3.3 12.4 1.0
CB A:SER172 3.6 11.9 1.0
C3 A:GOL1261 3.7 34.5 1.0
CA A:SER172 3.8 11.5 1.0
N A:SER172 3.8 11.5 1.0
O A:HOH2153 4.0 24.2 1.0
O2 A:GOL1261 4.1 35.4 1.0
O A:HOH2150 4.1 17.9 1.0
O A:HOH2145 4.1 27.2 1.0
N A:THR173 4.2 11.3 1.0
O A:HOH2065 4.2 20.2 1.0
CA A:THR173 4.5 12.0 1.0
C2 A:GOL1261 4.6 38.6 1.0
O A:HOH2155 4.7 33.1 1.0

Sodium binding site 2 out of 4 in 5a25

Go back to Sodium Binding Sites List in 5a25
Sodium binding site 2 out of 4 in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1263

b:38.7
occ:1.00
 O A:HOH2202 2.3 30.8 1.0
OE2 A:GLU69 2.6 19.4 1.0
OD2 B:ASP72 2.9 18.2 1.0
O A:HOH2066 3.1 19.8 1.0
OD1 B:ASP72 3.1 18.8 1.0
O A:HOH2201 3.2 23.4 1.0
CG B:ASP72 3.3 17.9 1.0
CD A:GLU69 3.6 19.4 1.0
O A:HOH2077 3.9 30.6 1.0
O A:HOH2083 3.9 17.9 1.0
C4 B:BOG1263 3.9 17.8 1.0
O A:HOH2079 3.9 17.0 1.0
NH1 A:ARG58 3.9 18.1 1.0
OE1 A:GLU69 4.0 20.4 1.0
O A:HOH2078 4.2 34.5 1.0
C6 B:BOG1263 4.2 17.0 1.0
O4 B:BOG1263 4.3 16.7 1.0
O A:HOH2081 4.5 26.0 1.0
C5 B:BOG1263 4.5 17.8 1.0
CB B:ASP72 4.8 16.6 1.0
O B:HOH2061 4.8 21.2 1.0
CG2 B:VAL91 4.8 15.7 1.0
O5 B:BOG1263 4.9 17.9 1.0
CG A:GLU69 4.9 17.3 1.0
O3 B:BOG1263 4.9 19.0 1.0
C3 B:BOG1263 4.9 19.1 1.0

Sodium binding site 3 out of 4 in 5a25

Go back to Sodium Binding Sites List in 5a25
Sodium binding site 3 out of 4 in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1261

b:29.5
occ:1.00
 O B:HOH2123 2.4 30.9 1.0
O B:SER172 2.5 16.1 1.0
O B:SER165 2.5 18.0 1.0
O B:HOH2126 2.5 22.4 1.0
C B:SER172 3.6 15.5 1.0
C B:SER165 3.7 18.4 1.0
O B:HOH2122 3.8 24.3 1.0
CB B:THR173 3.9 17.4 1.0
NA B:NA1262 4.0 36.6 1.0
CB B:SER165 4.1 19.2 1.0
CA B:THR173 4.1 16.9 1.0
CA B:SER165 4.3 17.7 1.0
OG1 B:THR173 4.3 18.9 1.0
N B:THR173 4.3 15.2 1.0
N B:SER172 4.4 14.4 1.0
O B:HOH2118 4.5 36.1 1.0
CA B:SER172 4.7 14.8 1.0
CG2 B:ILE166 4.8 16.6 1.0
N B:ILE166 4.8 16.4 1.0
O B:HOH2124 4.9 27.7 1.0

Sodium binding site 4 out of 4 in 5a25

Go back to Sodium Binding Sites List in 5a25
Sodium binding site 4 out of 4 in the Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1262

b:36.6
occ:1.00
 O B:SER172 2.7 16.1 1.0
O B:HOH2122 2.7 24.3 1.0
O B:HOH2123 2.7 30.9 1.0
OG B:SER172 2.7 15.5 1.0
O B:HOH2180 2.8 20.7 1.0
C B:SER172 3.4 15.5 1.0
CB B:SER172 3.9 16.0 1.0
N B:SER172 3.9 14.4 1.0
CA B:SER172 3.9 14.8 1.0
NA B:NA1261 4.0 29.5 1.0
N B:THR173 4.2 15.2 1.0
O A:HOH2085 4.4 21.0 1.0
CA B:THR173 4.5 16.9 1.0
O A:HOH2121 4.6 28.2 1.0
O B:HOH2126 4.9 22.4 1.0
O B:HOH2124 4.9 27.7 1.0

Reference:

A.Warden, J.Newman, T.S.Peat, S.Seabrook, M.Williams, G.Dojchinov, V.Haritos. Rational Engineering of A Mesophilic Carbonic Anhydrase to An Extreme Halotolerant Biocatalyst To Be Published.
Page generated: Mon Oct 7 19:48:26 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy