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Zinc in PDB 5vwm: Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor

Enzymatic activity of Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor

All present enzymatic activity of Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor:
3.5.1.108;

Protein crystallography data

The structure of Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor, PDB code: 5vwm was solved by Seattle Structural 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) 42.30 / 1.80
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 35.850, 47.590, 48.410, 111.30, 109.00, 98.39
R / Rfree (%) 13.8 / 17.9

Other elements in 5vwm:

The structure of Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor (pdb code 5vwm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor, PDB code: 5vwm:

Zinc binding site 1 out of 1 in 5vwm

Go back to Zinc Binding Sites List in 5vwm
Zinc binding site 1 out of 1 in the Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor


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 Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir- 090 Inhibitor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:7.0
occ:1.00
 NE2 A:HIS78 2.0 8.8 1.0
OD1 A:ASP241 2.0 6.0 1.0
O22 A:C90401 2.1 10.1 1.0
NE2 A:HIS237 2.1 4.5 1.0
O24 A:C90401 2.1 12.2 1.0
CG A:ASP241 2.7 3.5 1.0
OD2 A:ASP241 2.8 7.9 1.0
C22 A:C90401 2.8 11.7 1.0
N23 A:C90401 2.9 16.1 1.0
CE1 A:HIS78 2.9 11.9 1.0
CD2 A:HIS78 3.0 7.9 1.0
CE1 A:HIS237 3.0 4.2 1.0
CD2 A:HIS237 3.1 3.1 1.0
OG1 A:THR190 4.0 6.4 1.0
ND1 A:HIS78 4.1 13.7 1.0
CG A:HIS78 4.1 9.3 1.0
ND1 A:HIS237 4.1 4.1 1.0
CB A:ASP241 4.2 3.3 1.0
CG A:HIS237 4.2 3.4 1.0
C18 A:C90401 4.3 11.0 1.0
CG A:GLU77 4.3 7.0 1.0
CB A:THR190 4.3 4.7 1.0
OE2 A:GLU77 4.4 11.3 1.0
C21 A:C90401 4.7 14.1 1.0
O20 A:C90401 4.7 16.9 1.0
C19 A:C90401 4.8 14.2 1.0
CA A:ASP241 4.8 4.6 1.0
O A:HIS237 4.9 4.7 1.0
CD A:GLU77 4.9 12.0 1.0
CA A:THR190 4.9 5.9 1.0
CE1 A:HIS264 4.9 7.8 1.0
N17 A:C90401 4.9 16.0 1.0

Reference:

S.L.Delker, S.J.Mayclin, J.N.Phan, J.Abendroth, D.Lorimer, T.E.Edwards. Crystal Structure of Udp-3-O-[3-Hydroxymyristoyl] N-Acetylglucosamine Deacetylase (Lpxc) From Pseudomonas Aeruginosa in Complex with Chir-090 Inhibitor To Be Published.
Page generated: Mon Oct 28 13:31:54 2024

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