Atomistry » Sodium » PDB 7m6k-7mq3 » 7mcb
Atomistry »
  Sodium »
    PDB 7m6k-7mq3 »
      7mcb »

Sodium in PDB 7mcb: Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme

Enzymatic activity of Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme

All present enzymatic activity of Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme:
2.5.1.48; 4.4.1.1; 4.4.1.8;

Protein crystallography data

The structure of Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme, PDB code: 7mcb was solved by A.Nuthanakanti, A.Serganov, A.Kaushik, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.39 / 2.14
Space group I 41 2 2
Cell size a, b, c (Å), α, β, γ (°) 105.133, 105.133, 288.148, 90, 90, 90
R / Rfree (%) 16.2 / 18.4

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme (pdb code 7mcb). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme, PDB code: 7mcb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 7mcb

Go back to Sodium Binding Sites List in 7mcb
Sodium binding site 1 out of 2 in the Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme


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 Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Na402

b:62.4
occ:1.00
O H:HOH741 2.5 60.8 1.0
O H:HOH503 2.6 48.1 1.0
O H:HOH525 2.6 40.1 1.0
O H:HOH733 2.8 49.4 1.0
O H:HOH746 2.9 66.8 1.0
O H:HOH747 3.3 65.2 1.0
O H:HOH586 4.0 53.1 1.0
O H:GLY186 4.1 40.7 1.0
O H:HOH579 4.2 50.9 1.0
O H:HOH569 4.3 35.4 1.0
O H:HOH687 4.3 59.4 1.0
O H:ILE187 4.3 37.8 1.0
C H:GLY186 4.4 39.1 1.0
CA H:GLY186 4.4 37.5 1.0
O H:HOH715 4.5 64.2 1.0
OD1 H:ASP188 4.8 41.3 1.0
O H:LEU183 4.8 41.9 1.0
C H:ILE187 5.0 35.9 1.0

Sodium binding site 2 out of 2 in 7mcb

Go back to Sodium Binding Sites List in 7mcb
Sodium binding site 2 out of 2 in the Crystal Structure of Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme


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 Staphylococcus Aureus Cystathionine Gamma Lyase Holoenzyme within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Na403

b:62.7
occ:1.00
O H:HIS9 2.4 44.3 1.0
O H:HOH624 2.5 48.4 1.0
O H:GLY11 2.5 43.4 1.0
O H:HOH653 2.5 63.8 1.0
O H:HOH594 2.7 45.6 1.0
O H:HOH674 2.8 57.6 1.0
C H:HIS9 3.2 41.1 1.0
C H:GLY11 3.7 47.5 1.0
CA H:HIS9 3.8 45.1 1.0
O H:HOH662 3.9 57.0 1.0
C H:GLY10 4.0 42.8 1.0
N H:GLY10 4.1 39.0 1.0
O H:GLY10 4.2 46.0 1.0
N H:GLY11 4.3 45.2 1.0
CA H:GLY10 4.4 41.9 1.0
OG1 H:THR13 4.5 42.5 1.0
N H:THR13 4.5 41.9 1.0
CA H:HIS12 4.5 45.9 1.0
N H:HIS12 4.5 43.7 1.0
CB H:HIS9 4.6 38.6 1.0
CA H:GLY11 4.6 43.5 1.0
O H:ILE8 4.6 40.2 1.0
N H:HIS9 5.0 38.8 1.0

Reference:

K.Shatalin, A.Nuthanakanti, A.Kaushik, D.Shishov, A.Peselis, I.Shamovsky, B.Pani, M.Lechpammer, N.Vasilyev, E.Shatalina, D.Rebatchouk, A.Mironov, P.Fedichev, A.Serganov, E.Nudler. Inhibitors of Bacterial H 2 S Biogenesis Targeting Antibiotic Resistance and Tolerance. Science V. 372 1169 2021.
ISSN: ESSN 1095-9203
PubMed: 34112687
DOI: 10.1126/SCIENCE.ABD8377
Page generated: Tue Oct 8 17:55:13 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