Atomistry » Chlorine » PDB 8rj2-8rwz » 8rj4
Atomistry »
  Chlorine »
    PDB 8rj2-8rwz »
      8rj4 »

Chlorine in PDB 8rj4: E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis

Enzymatic activity of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis

All present enzymatic activity of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis:
2.7.4.3;

Protein crystallography data

The structure of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis, PDB code: 8rj4 was solved by S.Tischlik, P.Ronge, M.Wolf-Watz, A.E.Sauer-Eriksson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.71 / 2.11
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 73.385, 76.29, 93.391, 90, 110.76, 90
R / Rfree (%) 19.1 / 25.3

Other elements in 8rj4:

The structure of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis (pdb code 8rj4). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 2 binding sites of Chlorine where determined in the E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis, PDB code: 8rj4:
Jump to Chlorine binding site number: 1; 2;

Chlorine binding site 1 out of 2 in 8rj4

Go back to Chlorine Binding Sites List in 8rj4
Chlorine binding site 1 out of 2 in the E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl303

b:70.0
occ:1.00
NZ C:LYS47 3.3 65.7 1.0
N C:GLY46 3.3 51.2 1.0
CG C:GLN48 3.4 60.7 1.0
CB C:GLN48 3.6 56.2 1.0
N C:GLN48 3.6 48.1 1.0
OE1 C:GLN48 3.7 58.3 1.0
N C:LYS47 3.7 41.6 1.0
CG C:LYS47 3.8 56.3 1.0
CD C:GLN48 4.0 63.4 1.0
CA C:GLY46 4.0 47.9 1.0
C C:GLY46 4.1 46.7 1.0
O C:GLU44 4.2 63.4 1.0
CA C:LEU45 4.2 52.7 1.0
C C:LEU45 4.2 50.8 1.0
CA C:GLN48 4.3 53.6 1.0
CD1 C:LEU63 4.3 54.6 1.0
CE C:LYS47 4.4 59.8 1.0
C C:LYS47 4.5 51.6 1.0
CA C:LYS47 4.5 55.2 1.0
CD C:LYS47 4.5 64.6 1.0
CB C:LYS47 4.6 60.8 1.0
O C:GLY46 5.0 44.2 1.0
C C:GLU44 5.0 65.8 1.0

Chlorine binding site 2 out of 2 in 8rj4

Go back to Chlorine Binding Sites List in 8rj4
Chlorine binding site 2 out of 2 in the E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of E. Coli Adenylate Kinase in Complex with Two Adp Molecules and MG2+ As A Result of Enzymatic AP4A Hydrolysis within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl303

b:46.9
occ:1.00
O D:HOH443 2.6 48.1 1.0
NZ D:LYS47 3.2 50.6 1.0
NE2 D:GLN48 3.3 43.0 1.0
N D:GLY46 3.4 37.3 1.0
CG D:GLN48 3.5 40.3 1.0
CG D:LYS47 3.7 40.1 1.0
N D:LYS47 3.7 36.4 1.0
CD D:GLN48 3.9 45.6 1.0
N D:GLN48 4.0 35.8 1.0
CA D:GLY46 4.1 35.8 1.0
C D:GLY46 4.2 37.0 1.0
CB D:GLN48 4.2 41.9 1.0
CA D:LEU45 4.3 46.9 1.0
C D:LEU45 4.3 44.0 1.0
CE D:LYS47 4.4 46.7 1.0
O D:GLU44 4.4 44.0 1.0
CD1 D:LEU63 4.4 51.5 1.0
CA D:LYS47 4.6 37.2 1.0
CD D:LYS47 4.6 48.8 1.0
CB D:LYS47 4.7 40.2 1.0
CA D:GLN48 4.7 35.5 1.0
C D:LYS47 4.8 42.2 1.0

Reference:

A.T.Abdul Raafik, S.Tischlik, T.M.Nagy, C.Phoeurk, L.Schierholtz, J.Aden, P.Rogne, M.Drescher, K.Nam, A.E.Sauer-Eriksson, M.Wolf-Watz. Magnesium Induced Structural Preorganization in the Active Site of Adenylate Kinase. Sci Adv 2024.
ISSN: ESSN 2375-2548
Page generated: Sun Jul 13 13:56:43 2025

Last articles

Mg in 5GG8
Mg in 5GG7
Mg in 5GG6
Mg in 5GAD
Mg in 5GAG
Mg in 5GAF
Mg in 5GAE
Mg in 5G0R
Mg in 5G5V
Mg in 5G3T
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy