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Zinc in PDB 6dzd: Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih

Protein crystallography data

The structure of Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih, PDB code: 6dzd was solved by L.R.Almeida, M.P.Grejo, E.J.Mulinari, J.C.Santos, S.Camargo, A.Bernardes, J.R.C.Muniz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 54.94 / 2.66
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 42.567, 69.464, 179.589, 90.00, 90.00, 90.00
R / Rfree (%) 21.4 / 24.8

Other elements in 6dzd:

The structure of Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih also contains other interesting chemical elements:

Potassium (K) 1 atom
Chlorine (Cl) 1 atom
Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih (pdb code 6dzd). 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 Bacillus Licheniformis Hypothetical Protein Yfih, PDB code: 6dzd:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6dzd

Go back to Zinc Binding Sites List in 6dzd
Zinc binding site 1 out of 2 in the Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih


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 Bacillus Licheniformis Hypothetical Protein Yfih within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:23.4
occ:1.00
SG A:CYS190 2.2 19.9 1.0
SG A:CYS249 2.3 22.6 1.0
SG A:CYS189 2.3 19.7 1.0
SG A:CYS252 2.3 28.3 1.0
CB A:CYS249 3.2 22.4 1.0
CB A:CYS252 3.5 26.8 1.0
CB A:CYS189 3.6 19.6 1.0
CB A:CYS190 3.7 19.1 1.0
N A:CYS252 3.8 24.3 1.0
N A:CYS190 4.0 20.3 1.0
CA A:CYS252 4.1 26.2 1.0
CB A:SER251 4.3 23.4 1.0
C A:CYS189 4.4 19.0 1.0
N A:GLY187 4.4 19.9 1.0
CA A:CYS189 4.5 19.7 1.0
CA A:CYS190 4.5 19.4 1.0
CA A:GLY187 4.7 20.2 1.0
C A:SER251 4.7 24.0 1.0
CA A:CYS249 4.7 20.5 1.0
OG A:SER251 4.7 25.4 1.0
O A:GLY187 4.7 19.9 1.0
N A:CYS189 4.9 20.1 1.0
CA A:SER251 4.9 22.5 1.0
C A:GLY187 4.9 20.4 1.0

Zinc binding site 2 out of 2 in 6dzd

Go back to Zinc Binding Sites List in 6dzd
Zinc binding site 2 out of 2 in the Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih


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 Bacillus Licheniformis Hypothetical Protein Yfih within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn301

b:20.4
occ:1.00
SG B:CYS190 2.2 20.3 1.0
SG B:CYS252 2.3 19.7 1.0
SG B:CYS249 2.3 19.2 1.0
SG B:CYS189 2.3 19.0 1.0
CB B:CYS249 3.3 18.4 1.0
CB B:CYS252 3.4 18.9 1.0
CB B:CYS189 3.4 19.6 1.0
CB B:CYS190 3.6 20.0 1.0
N B:CYS252 3.7 18.4 1.0
N B:CYS190 3.9 19.6 1.0
CA B:CYS252 4.0 18.9 1.0
C B:CYS189 4.3 19.9 1.0
CB B:SER251 4.3 18.5 1.0
CA B:CYS189 4.4 19.6 1.0
CA B:CYS190 4.4 20.0 1.0
C B:SER251 4.6 18.5 1.0
OG B:SER251 4.6 19.6 1.0
N B:GLY187 4.7 18.8 1.0
CA B:CYS249 4.7 17.7 1.0
N B:CYS189 4.8 19.1 1.0
CA B:SER251 4.9 18.1 1.0
CA B:GLY187 5.0 18.7 1.0
O B:GLY187 5.0 19.5 1.0

Reference:

L.R.Almeida, M.P.Grejo, E.J.Mulinari, J.C.Santos, S.Camargo, A.Bernardes, J.R.C.Muniz. Crystal Structure of Bacillus Licheniformis Hypothetical Protein Yfih To Be Published.
Page generated: Wed Dec 16 11:41:39 2020

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