Zinc in PDB 8slg: Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound)

Protein crystallography data

The structure of Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound), PDB code: 8slg was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.16 / 1.95
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 170.248, 87.108, 99.358, 90, 104.21, 90
R / Rfree (%) 17.4 / 20.1

Other elements in 8slg:

The structure of Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound) also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound) (pdb code 8slg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound), PDB code: 8slg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8slg

Go back to Zinc Binding Sites List in 8slg
Zinc binding site 1 out of 2 in the Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:150.2
occ:1.00
SG A:CYS90 2.3 122.2 1.0
SG A:CYS128 2.3 177.2 1.0
SG A:CYS125 2.3 152.2 1.0
SG A:CYS93 2.3 125.8 1.0
CB A:CYS90 3.1 127.1 1.0
CB A:CYS125 3.3 149.4 1.0
CB A:CYS128 3.4 166.8 1.0
N A:CYS128 3.7 166.0 1.0
CB A:CYS93 3.8 124.0 1.0
N A:CYS93 3.9 124.0 1.0
CA A:CYS128 4.1 168.3 1.0
CB A:ASP127 4.2 160.6 1.0
C A:ASP127 4.3 172.4 1.0
CA A:CYS93 4.4 120.7 1.0
CA A:CYS90 4.6 124.9 1.0
CA A:ASP127 4.6 164.4 1.0
CA A:CYS125 4.7 149.9 1.0
CB A:ASN92 4.7 113.3 1.0
N A:ASP127 4.7 160.7 1.0
C A:ASN92 4.9 123.7 1.0
N A:ASN92 4.9 131.3 1.0
C A:CYS128 4.9 165.7 1.0
C A:CYS93 5.0 122.7 1.0
CE1 A:HIS97 5.0 136.2 1.0
C A:CYS125 5.0 148.1 1.0

Zinc binding site 2 out of 2 in 8slg

Go back to Zinc Binding Sites List in 8slg
Zinc binding site 2 out of 2 in the Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn505

b:77.8
occ:1.00
SG B:CYS128 2.3 92.8 1.0
SG B:CYS93 2.3 75.4 1.0
SG B:CYS125 2.3 81.8 1.0
SG B:CYS90 2.3 72.7 1.0
CB B:CYS125 3.2 83.3 1.0
CB B:CYS90 3.2 75.0 1.0
CB B:CYS128 3.3 95.0 1.0
CB B:CYS93 3.4 85.0 1.0
N B:CYS128 3.7 101.8 1.0
N B:CYS93 3.9 78.5 1.0
CA B:CYS128 4.0 101.0 1.0
CA B:CYS93 4.2 79.4 1.0
CB B:ASP127 4.5 111.6 1.0
C B:ASP127 4.5 110.2 1.0
CA B:CYS125 4.6 89.7 1.0
N B:GLY129 4.7 106.3 1.0
C B:CYS128 4.7 100.7 1.0
CA B:CYS90 4.7 76.5 1.0
OG1 B:THR130 4.8 109.8 1.0
CB B:ASN92 4.9 98.7 1.0
CA B:ASP127 4.9 114.1 1.0
C B:CYS93 4.9 76.7 1.0
N B:ASP127 4.9 109.5 1.0
C B:ASN92 5.0 88.3 1.0

Reference:

L.Liu, S.Lovell, K.P.Battaile, S.Seibold. Crystal Structure of Glycine Trna Ligase From Mycobacterium Thermoresistibile (Glycyl Adenylate Bound) To Be Published.
Page generated: Fri Jul 28 07:32:30 2023

Last articles

Ca in 5XQO
Ca in 5XS6
Ca in 5XRY
Ca in 5XRV
Ca in 5XQK
Ca in 5XQ3
Ca in 5XNQ
Ca in 5XPX
Ca in 5XQA
Ca in 5XP3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy