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Zinc in PDB 3ay2: Crystal Structure of Neisserial Azurin

Protein crystallography data

The structure of Crystal Structure of Neisserial Azurin, PDB code: 3ay2 was solved by A.Ochiai, W.Hashimoto, T.Yamada, A.M.Chakrabarty, K.Murata, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.64 / 1.90
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 77.513, 77.513, 94.577, 90.00, 90.00, 120.00
R / Rfree (%) 19.1 / 22.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Neisserial Azurin (pdb code 3ay2). 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 Neisserial Azurin, PDB code: 3ay2:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3ay2

Go back to Zinc Binding Sites List in 3ay2
Zinc binding site 1 out of 2 in the Crystal Structure of Neisserial Azurin


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 Neisserial Azurin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:20.7
occ:1.00
ND1 A:HIS102 1.9 16.6 1.0
ND1 A:HIS171 2.1 22.7 1.0
O A:GLY101 2.2 17.8 1.0
SG A:CYS166 2.3 18.2 1.0
CE1 A:HIS102 2.8 18.6 1.0
CE1 A:HIS171 3.0 23.9 1.0
CG A:HIS102 3.1 17.3 1.0
CG A:HIS171 3.2 24.6 1.0
CA A:HIS102 3.2 16.7 1.0
C A:GLY101 3.2 17.8 1.0
CB A:CYS166 3.4 18.2 1.0
SD A:MET175 3.5 25.8 1.0
CB A:HIS171 3.5 25.4 1.0
CB A:HIS102 3.5 16.6 1.0
N A:HIS102 3.6 17.5 1.0
CB A:PHE168 3.7 20.4 1.0
NE2 A:HIS102 4.0 16.8 1.0
CD2 A:HIS102 4.1 18.0 1.0
NE2 A:HIS171 4.2 23.1 1.0
CE A:MET175 4.2 25.5 1.0
CD2 A:HIS171 4.3 23.8 1.0
CG A:PHE168 4.3 20.3 1.0
C A:HIS102 4.5 16.6 1.0
CA A:GLY101 4.6 18.8 1.0
N A:ASN103 4.6 16.0 1.0
CD2 A:PHE168 4.8 20.9 1.0
O A:MET100 4.8 21.3 1.0
N A:GLY101 4.8 19.9 1.0
CA A:CYS166 4.8 18.1 1.0
CA A:PHE168 4.9 20.9 1.0
C A:MET100 4.9 20.9 1.0
N A:PHE168 4.9 20.1 1.0

Zinc binding site 2 out of 2 in 3ay2

Go back to Zinc Binding Sites List in 3ay2
Zinc binding site 2 out of 2 in the Crystal Structure of Neisserial Azurin


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 Neisserial Azurin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1001

b:19.7
occ:1.00
ND1 B:HIS102 1.9 16.0 1.0
ND1 B:HIS171 2.2 23.4 1.0
O B:GLY101 2.3 18.1 1.0
SG B:CYS166 2.3 17.8 1.0
CE1 B:HIS102 2.8 18.8 1.0
CG B:HIS102 3.0 16.7 1.0
CE1 B:HIS171 3.1 23.9 1.0
CA B:HIS102 3.2 17.2 1.0
CG B:HIS171 3.2 23.6 1.0
C B:GLY101 3.3 18.8 1.0
CB B:CYS166 3.4 19.1 1.0
CB B:HIS102 3.5 17.4 1.0
SD B:MET175 3.6 23.9 1.0
CB B:HIS171 3.6 24.3 1.0
N B:HIS102 3.6 18.0 1.0
CB B:PHE168 3.7 19.6 1.0
NE2 B:HIS102 4.0 16.8 1.0
CD2 B:HIS102 4.1 17.1 1.0
NE2 B:HIS171 4.2 22.2 1.0
CE B:MET175 4.3 24.6 1.0
CD2 B:HIS171 4.3 22.7 1.0
CG B:PHE168 4.4 20.2 1.0
C B:HIS102 4.4 16.9 1.0
N B:ASN103 4.6 17.0 1.0
CA B:GLY101 4.6 19.4 1.0
O B:MET100 4.8 22.3 1.0
CA B:CYS166 4.8 18.7 1.0
N B:GLY101 4.8 20.7 1.0
CD2 B:PHE168 4.8 21.3 1.0
C B:MET100 4.9 21.8 1.0
N B:PHE168 4.9 18.7 1.0
CA B:PHE168 4.9 20.0 1.0

Reference:

W.Hashimoto, A.Ochiai, T.Yamada, A.M.Chakrabarty, K.Murata. Crystal Structure of Neisserial Azurin To Be Published.
Page generated: Wed Dec 16 04:07:58 2020

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