Atomistry » Sodium » PDB 8byj-8cpr » 8c9e
Atomistry »
  Sodium »
    PDB 8byj-8cpr »
      8c9e »

Sodium in PDB 8c9e: Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue

Enzymatic activity of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue

All present enzymatic activity of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue:
6.1.1.5;

Protein crystallography data

The structure of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue, PDB code: 8c9e was solved by A.Brkic, M.Leibundgut, J.Jablonska, V.Zanki, Z.Car, V.Petrovic Perokovic, N.Ban, I.Gruic-Sovulj, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.77 / 2.90
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 127.09, 127.09, 163.22, 90, 90, 120
R / Rfree (%) 24.2 / 26.9

Other elements in 8c9e:

The structure of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms
Zinc (Zn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue (pdb code 8c9e). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue, PDB code: 8c9e:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 8c9e

Go back to Sodium Binding Sites List in 8c9e
Sodium binding site 1 out of 3 in the Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1016

b:119.1
occ:1.00
 OE1 A:GLU520 3.0 124.1 1.0
OE2 A:GLU520 3.2 101.4 1.0
CD A:GLU520 3.4 102.4 1.0
OG1 A:THR521 4.2 133.5 1.0
NZ A:LYS179 4.5 118.5 1.0
N A:THR521 4.6 123.3 1.0
OH A:TYR466 4.7 114.1 1.0
OD2 A:ASP522 4.7 95.5 1.0
CG A:GLU520 4.8 102.3 1.0
CA A:GLU520 4.9 98.5 1.0
CE2 A:TYR466 4.9 115.7 1.0

Sodium binding site 2 out of 3 in 8c9e

Go back to Sodium Binding Sites List in 8c9e
Sodium binding site 2 out of 3 in the Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1017

b:146.2
occ:1.00
 OE1 A:GLU115 2.8 189.2 1.0
CD A:GLU115 4.0 185.5 1.0
CB A:GLU115 4.2 149.6 1.0
N A:ASN112 4.7 142.8 1.0
CG A:GLU115 4.8 172.8 1.0
CE A:MET116 4.8 142.1 1.0
OE2 A:GLU115 4.9 183.6 1.0

Sodium binding site 3 out of 3 in 8c9e

Go back to Sodium Binding Sites List in 8c9e
Sodium binding site 3 out of 3 in the Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Priestia Megaterium Mupirocin-Sensitive Isoleucyl-Trna Synthetase 1 Complexed with An Isoleucyl-Adenylate Analogue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1018

b:125.1
occ:1.00
 OG1 A:THR521 3.5 133.5 1.0
CB A:THR521 3.9 115.3 1.0
OD1 A:ASP522 4.3 89.5 1.0
O A:THR521 4.6 109.1 1.0
C A:THR521 4.7 107.9 1.0
CG2 A:THR521 4.8 131.7 1.0
CA A:THR521 5.0 116.8 1.0

Reference:

A.Brkic, M.Leibundgut, J.Jablonska, V.Zanki, Z.Car, V.Petrovic Perokovic, N.Ban, I.Gruic-Sovulj. Antibiotic Hyper-Resistance in A Class I Aminoacyl-Trna Synthetase with Altered Active Site Signature Motif To Be Published.
Page generated: Wed Oct 9 10:52:19 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy