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Zinc in PDB 6d6j: Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1

Protein crystallography data

The structure of Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1, PDB code: 6d6j 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) 46.75 / 1.35
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 55.510, 56.480, 83.300, 90.00, 90.00, 90.00
R / Rfree (%) 12.6 / 14

Other elements in 6d6j:

The structure of Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1 also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1 (pdb code 6d6j). 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 Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1, PDB code: 6d6j:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6d6j

Go back to Zinc Binding Sites List in 6d6j
Zinc binding site 1 out of 2 in the Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1


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 Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn200

b:9.0
occ:0.90
ND1 A:HIS97 2.1 7.0 1.0
ND1 A:HIS45 2.1 8.6 1.0
SG A:CYS6 2.3 11.2 1.0
SG A:CYS3 2.3 9.8 1.0
CE1 A:HIS45 2.9 9.3 1.0
CE1 A:HIS97 3.0 7.4 1.0
CG A:HIS97 3.1 5.9 1.0
CB A:CYS3 3.2 11.9 1.0
CG A:HIS45 3.2 8.2 1.0
CB A:CYS6 3.3 10.1 1.0
N A:CYS6 3.4 8.4 1.0
CB A:HIS97 3.5 6.3 1.0
CB A:HIS45 3.6 8.4 1.0
CA A:CYS6 3.8 9.6 1.0
NE2 A:HIS45 4.1 9.6 1.0
NE2 A:HIS97 4.1 6.9 1.0
CA A:HIS45 4.2 8.4 1.0
CD2 A:HIS97 4.2 6.8 1.0
CD2 A:HIS45 4.2 9.1 1.0
C A:PHE5 4.4 8.4 1.0
CA A:CYS3 4.6 14.9 1.0
CA A:HIS97 4.6 5.6 1.0
CB A:PHE5 4.7 9.0 1.0
CA A:PHE5 4.9 8.6 1.0
C A:CYS3 4.9 12.9 1.0
N A:PHE5 4.9 9.5 1.0
O A:CYS3 4.9 12.7 1.0
O A:TYR96 5.0 6.9 1.0

Zinc binding site 2 out of 2 in 6d6j

Go back to Zinc Binding Sites List in 6d6j
Zinc binding site 2 out of 2 in the Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1


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 Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn200

b:7.2
occ:0.93
ND1 B:HIS45 2.1 6.6 1.0
ND1 B:HIS97 2.1 5.5 1.0
SG B:CYS6 2.3 7.7 1.0
SG B:CYS3 2.3 8.0 1.0
CE1 B:HIS45 2.9 7.1 1.0
CE1 B:HIS97 3.0 5.7 1.0
CG B:HIS97 3.1 5.7 1.0
CG B:HIS45 3.2 6.2 1.0
CB B:CYS3 3.2 9.2 1.0
CB B:CYS6 3.4 8.2 1.0
N B:CYS6 3.5 7.2 1.0
CB B:HIS97 3.5 6.0 1.0
CB B:HIS45 3.6 6.5 1.0
CA B:CYS6 3.9 7.9 1.0
NE2 B:HIS45 4.1 7.7 1.0
CA B:HIS45 4.1 5.8 1.0
NE2 B:HIS97 4.2 5.8 1.0
CD2 B:HIS97 4.2 6.3 1.0
CD2 B:HIS45 4.2 7.6 1.0
O B:HOH468 4.3 28.3 1.0
C B:PHE5 4.4 7.4 1.0
CA B:CYS3 4.6 12.2 1.0
CA B:HIS97 4.7 5.3 1.0
CB B:PHE5 4.7 7.6 1.0
CA B:PHE5 4.9 7.6 1.0
C B:CYS3 4.9 9.7 1.0
O B:HOH400 4.9 43.5 1.0
N B:PHE5 4.9 7.5 1.0
O B:CYS3 4.9 9.6 1.0
O B:TYR96 5.0 7.0 1.0

Reference:

J.Abendroth, P.S.Horanyi, D.D.Lorimer, T.E.Edwards. Crystal Structure of Hit Family Hydrolase From Legionella Pneumophila Philadelphia 1 To Be Published.
Page generated: Wed Dec 16 11:39:12 2020

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