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Zinc in PDB 3lkv: Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961

Protein crystallography data

The structure of Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961, PDB code: 3lkv was solved by B.Nocek, E.Duggan, J.Abdullah, A.Joachimiak, Midwest Center Forstructural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 2.20
Space group P 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 144.256, 144.256, 144.256, 90.00, 90.00, 90.00
R / Rfree (%) 17.8 / 20.3

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961 (pdb code 3lkv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961, PDB code: 3lkv:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 3lkv

Go back to Zinc Binding Sites List in 3lkv
Zinc binding site 1 out of 3 in the Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961


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 Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:31.3
occ:0.50
OD1 A:ASP66 1.9 25.3 1.0
OE2 A:GLU64 2.0 28.0 1.0
OD2 A:ASP66 2.2 28.7 1.0
CG A:ASP66 2.3 25.0 1.0
CD A:GLU64 2.9 24.8 1.0
CG A:GLU64 3.2 22.7 1.0
NZ A:LYS29 3.8 42.1 1.0
CB A:ASP66 3.8 24.0 1.0
OE1 A:GLU64 4.1 28.3 1.0
CA A:ASP66 4.6 23.7 1.0
CB A:GLU64 4.8 21.2 1.0
N A:ASP66 4.9 22.6 1.0

Zinc binding site 2 out of 3 in 3lkv

Go back to Zinc Binding Sites List in 3lkv
Zinc binding site 2 out of 3 in the Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961


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 Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:35.7
occ:1.00
OE2 A:GLU130 1.8 20.2 1.0
OD2 A:ASP286 2.0 17.9 1.0
CD A:GLU130 2.6 22.9 1.0
CG A:ASP286 2.7 16.7 1.0
OE1 A:GLU130 2.8 22.1 1.0
OD1 A:ASP286 2.8 14.8 1.0
CG A:GLU130 4.1 22.0 1.0
NE2 A:GLN131 4.1 17.8 1.0
CB A:ASP286 4.1 16.6 1.0
O A:HOH641 4.3 21.4 1.0
CG A:GLN131 4.6 19.8 1.0
CD A:GLN131 4.8 18.4 1.0

Zinc binding site 3 out of 3 in 3lkv

Go back to Zinc Binding Sites List in 3lkv
Zinc binding site 3 out of 3 in the Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn403

b:64.7
occ:0.50
O A:SER213 2.2 28.4 1.0
OG1 A:THR240 2.2 28.5 1.0
O A:ALA210 2.3 25.6 1.0
O A:HOH669 2.3 39.6 1.0
O A:HOH718 2.5 30.9 1.0
C A:SER213 3.3 27.3 1.0
CB A:THR240 3.3 26.1 1.0
C A:ALA210 3.5 25.6 1.0
CG2 A:THR240 3.5 23.9 1.0
CA A:GLU211 3.9 27.5 1.0
N A:SER213 3.9 27.4 1.0
C A:GLU211 4.1 28.9 1.0
O A:GLU211 4.1 30.3 1.0
CA A:SER213 4.1 27.5 1.0
N A:GLU211 4.1 25.5 1.0
OE1 A:GLU211 4.2 24.1 1.0
CA A:THR240 4.2 25.9 1.0
N A:ASP214 4.3 27.7 1.0
CA A:ASP214 4.4 28.6 1.0
O A:ALA238 4.5 29.6 1.0
CB A:SER213 4.6 27.1 1.0
CA A:ALA210 4.6 25.2 1.0
C A:ASP214 4.7 27.4 1.0
N A:LYS212 4.8 29.0 1.0
N A:THR240 4.8 26.6 1.0
O A:ASP214 4.9 28.4 1.0
C A:LYS212 5.0 28.4 1.0

Reference:

B.Nocek, E.Duggan, J.Abdullah, A.Joachimiak. Crystal Structure of Conserved Domain Protein From Vibrio Cholerae O1 Biovar Eltor Str. N16961 To Be Published.
Page generated: Wed Dec 16 04:32:31 2020

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