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Nickel in PDB 2idf: P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer

Protein crystallography data

The structure of P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer, PDB code: 2idf was solved by O.Einsle, T.E.De Jongh, M.Hoffmann, D.Cavazzini, G.L.Rossi, M.Ubbink, G.W.Canters, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.25
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 48.004, 48.004, 283.399, 90.00, 90.00, 120.00
R / Rfree (%) 21.9 / 26.1

Other elements in 2idf:

The structure of P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Nickel Binding Sites:

The binding sites of Nickel atom in the P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer (pdb code 2idf). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer, PDB code: 2idf:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in 2idf

Go back to Nickel Binding Sites List in 2idf
Nickel binding site 1 out of 2 in the P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni301

b:52.2
occ:1.00
O A:HOH342 1.9 43.3 1.0
O A:ALA1 2.2 51.4 1.0
O4 A:144203 2.3 49.0 1.0
C1 A:144203 2.4 47.6 1.0
N A:ALA1 2.5 52.6 1.0
C4 A:144203 2.7 46.8 1.0
C A:ALA1 3.0 51.4 1.0
N A:144203 3.0 50.8 1.0
CA A:ALA1 3.1 51.9 1.0
C2 A:144203 3.6 40.4 1.0
CB A:ALA1 3.7 49.1 1.0
OG A:SER25 3.9 40.6 1.0
SG A:CYS3 4.2 43.0 1.0
N A:GLU2 4.3 51.3 1.0
O2 A:144203 4.3 48.5 1.0
C3 A:144203 4.4 43.8 1.0
O A:HOH325 4.5 41.8 1.0
O A:HOH322 4.7 55.1 1.0
CA A:GLU2 5.0 50.8 1.0

Nickel binding site 2 out of 2 in 2idf

Go back to Nickel Binding Sites List in 2idf
Nickel binding site 2 out of 2 in the P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of P. Aeruginosa Azurin N42C/M64E Double Mutant, Bmme-Linked Dimer within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni302

b:51.0
occ:1.00
O B:HOH345 2.0 45.9 1.0
O B:ALA1 2.1 52.4 1.0
O4 B:144204 2.2 49.8 1.0
N B:ALA1 2.4 53.0 1.0
C1 B:144204 2.4 43.5 1.0
C4 B:144204 2.6 46.4 1.0
C B:ALA1 2.9 52.5 1.0
N B:144204 3.0 49.1 1.0
CA B:ALA1 3.1 52.7 1.0
C2 B:144204 3.6 40.5 1.0
CB B:ALA1 3.7 50.0 1.0
OG B:SER25 3.8 36.8 1.0
N B:GLU2 4.2 53.2 1.0
SG B:CYS3 4.2 45.9 1.0
C3 B:144204 4.3 41.0 1.0
O2 B:144204 4.5 56.3 1.0
O B:HOH327 4.5 41.8 1.0
O B:HOH324 4.6 55.9 1.0
CA B:GLU2 4.9 52.7 1.0
SG B:CYS26 5.0 43.3 1.0

Reference:

T.E.De Jongh, M.Hoffmann, O.Einsle, D.Cavazzini, G.L.Rossi, M.Ubbink, G.W.Canters. Electron Transfer in A Crosslinked Protein Dimer Mediated By A Hydrogen-Bonded Network Across the Dimer Interface To Be Published.
Page generated: Wed Dec 16 01:18:47 2020

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