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Sodium in PDB 6nvu: Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid

Enzymatic activity of Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid

All present enzymatic activity of Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid:
3.5.2.6;

Protein crystallography data

The structure of Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid, PDB code: 6nvu was solved by E.Rudino-Pinera, V.H.Cifuentes-Castro, C.Rodriguez-Almazan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.18 / 2.50
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 98.640, 98.640, 100.400, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 26.6

Other elements in 6nvu:

The structure of Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid (pdb code 6nvu). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid, PDB code: 6nvu:

Sodium binding site 1 out of 1 in 6nvu

Go back to Sodium Binding Sites List in 6nvu
Sodium binding site 1 out of 1 in the Crystal Structure of Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid


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 Tla-1 Extended Spectrum Beta-Lactamase in Complex with Clavulanic Acid within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na309

b:47.0
occ:1.00
 O1 A:L4A308 2.3 50.4 1.0
C1 A:L4A308 2.3 45.4 1.0
OG A:SER130 2.5 39.0 1.0
C7 A:L4A308 2.7 43.3 1.0
CB A:SER70 2.9 34.6 1.0
C3 A:L4A308 2.9 53.8 1.0
N1 A:L4A308 3.0 58.2 1.0
OG A:SER70 3.1 38.8 1.0
O8 A:TEM305 3.2 40.2 1.0
O A:THR235 3.3 30.6 1.0
C2 A:L4A308 3.4 56.1 1.0
NZ A:LYS234 3.4 30.3 1.0
CB A:SER130 3.4 30.5 1.0
OG1 A:THR235 3.6 34.6 1.0
C7 A:TEM305 3.6 45.4 1.0
C A:THR235 3.7 30.7 1.0
CA A:GLY236 3.8 32.5 1.0
C4 A:L4A308 3.9 48.2 1.0
N A:GLY236 4.0 28.2 1.0
C8 A:L4A308 4.2 51.4 1.0
CA A:SER70 4.3 31.6 1.0
N A:SER237 4.5 36.0 1.0
CB A:THR235 4.5 32.0 1.0
C A:GLY236 4.5 32.0 1.0
O2 A:L4A308 4.6 53.5 1.0
C6 A:L4A308 4.6 58.2 1.0
CE A:LYS234 4.7 25.5 1.0
CA A:THR235 4.7 30.3 1.0
CA A:SER130 4.8 29.2 1.0
OG A:SER237 4.8 41.7 1.0
C A:SER70 4.8 27.3 1.0
O6 A:L4A308 4.9 55.3 1.0
NZ A:LYS73 4.9 37.5 1.0
N A:SER70 4.9 35.4 1.0
C5 A:L4A308 5.0 55.8 1.0
O A:HOH429 5.0 32.6 1.0

Reference:

V.Cifuentes-Castro, C.Rodriguez-Almazan, J.Silva-Sanchez, E.Rudino-Pinera. The Crystal Structure of Esbl Tla-1 in Complex with Clavulanic Acid Reveals A Second Acylation Site. Biochem.Biophys.Res.Commun. 2019.
ISSN: ESSN 1090-2104
PubMed: 31780261
DOI: 10.1016/J.BBRC.2019.11.138
Page generated: Mon Aug 18 06:20:12 2025

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