Atomistry » Sodium » PDB 7mz6-7nkf » 7nea
Atomistry »
  Sodium »
    PDB 7mz6-7nkf »
      7nea »

Sodium in PDB 7nea: Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).

Enzymatic activity of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).

All present enzymatic activity of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).:
2.6.1.42;

Protein crystallography data

The structure of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant)., PDB code: 7nea was solved by K.M.Boyko, T.Petrova, A.Y.Nikolaeva, Y.S.Zeifman, T.V.Rakitina, D.A.Suplatov, V.O.Popov, E.Y.Bezsudnova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 95.13 / 2.00
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 146.497, 146.497, 143.776, 90, 90, 120
R / Rfree (%) 16.1 / 20.1

Other elements in 7nea:

The structure of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). (pdb code 7nea). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant)., PDB code: 7nea:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 7nea

Go back to Sodium Binding Sites List in 7nea
Sodium binding site 1 out of 3 in the Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na405

b:33.8
occ:1.00
 O A:HIS15 2.3 27.2 1.0
O A:HOH721 2.3 34.6 1.0
O A:HOH564 2.3 41.5 1.0
O A:HOH717 2.3 41.8 1.0
O A:HOH645 2.4 29.6 1.0
C A:HIS15 3.2 26.9 1.0
CA A:HIS15 4.0 25.9 1.0
N A:ARG16 4.2 25.6 1.0
O A:HOH522 4.2 33.1 1.0
CB A:HIS15 4.2 28.5 1.0
NE1 A:TRP12 4.3 23.5 1.0
O A:HOH643 4.4 29.6 1.0
CA A:ARG16 4.4 29.0 1.0
OE1 A:GLU82 4.6 33.0 1.0
O A:HOH740 5.0 51.1 1.0

Sodium binding site 2 out of 3 in 7nea

Go back to Sodium Binding Sites List in 7nea
Sodium binding site 2 out of 3 in the Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na406

b:38.6
occ:1.00
 O A:HOH642 2.3 44.0 1.0
O A:HOH716 2.3 39.1 1.0
O A:HOH725 2.3 37.6 1.0
O A:HOH589 2.4 40.4 1.0
O A:ARG303 2.4 32.1 1.0
O A:LEU306 2.5 31.6 1.0
C A:ARG303 3.4 31.8 1.0
C A:LEU306 3.6 28.4 1.0
CA A:ASN304 3.9 34.5 1.0
N A:LEU306 4.0 27.7 1.0
N A:ASN304 4.1 31.8 1.0
O A:HOH668 4.2 42.6 1.0
C A:ASN304 4.2 32.6 1.0
CA A:LEU306 4.2 27.4 1.0
O A:ASN304 4.3 29.6 1.0
CB A:LEU306 4.3 29.2 1.0
O A:HOH741 4.4 50.3 1.0
CD A:PRO308 4.4 30.4 1.0
CA A:ARG303 4.5 32.7 1.0
OD1 A:ASN304 4.6 49.7 1.0
CB A:ARG303 4.7 36.3 1.0
N A:THR307 4.7 26.8 1.0
O A:HOH749 4.7 49.5 1.0
N A:TRP305 4.8 30.4 1.0
CA A:THR307 5.0 26.8 1.0

Sodium binding site 3 out of 3 in 7nea

Go back to Sodium Binding Sites List in 7nea
Sodium binding site 3 out of 3 in the Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant).


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na407

b:36.2
occ:1.00
 O A:HOH715 2.3 40.4 1.0
O A:HOH758 2.3 40.4 1.0
O A:HOH639 2.3 33.8 1.0
O A:ARG272 2.3 34.9 1.0
O A:HOH695 2.4 39.5 1.0
O A:HOH656 3.5 37.8 1.0
C A:ARG272 3.6 32.3 1.0
N A:HIS273 4.3 29.0 1.0
CA A:HIS273 4.3 29.3 1.0
CB A:ARG272 4.5 33.1 1.0
ND1 A:HIS273 4.6 29.7 1.0
CA A:ARG272 4.6 30.9 1.0
O A:HOH752 4.7 45.9 1.0
O A:HOH728 4.7 25.6 1.0

Reference:

E.Y.Bezsudnova, K.M.Boyko, T.Petrova, A.Y.Nikolaeva, Y.S.Zeifman, T.V.Rakitina, D.A.Suplatov, V.O.Popov. Crystal Structure of Branched-Chain Amino Acid Aminotransferase From Thermobaculum Terrenum (M3 Mutant). To Be Published.
Page generated: Mon Aug 18 11:06:00 2025

Last articles

Mn in 9LJU
Mn in 9LJW
Mn in 9LJS
Mn in 9LJR
Mn in 9LJT
Mn in 9LJV
Mg in 9UA2
Mg in 9R96
Mg in 9VM1
Mg in 9P01
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy