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Nickel in PDB 4odq: Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide

Enzymatic activity of Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide

All present enzymatic activity of Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide:
5.2.1.8;

Protein crystallography data

The structure of Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide, PDB code: 4odq was solved by E.M.Quistgaard, C.Low, P.Nordlund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.20 / 2.00
Space group P 41 3 2
Cell size a, b, c (Å), α, β, γ (°) 93.560, 93.560, 93.560, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 21.3

Other elements in 4odq:

The structure of Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 4 atoms

Nickel Binding Sites:

The binding sites of Nickel atom in the Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide (pdb code 4odq). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total only one binding site of Nickel was determined in the Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide, PDB code: 4odq:

Nickel binding site 1 out of 1 in 4odq

Go back to Nickel Binding Sites List in 4odq
Nickel binding site 1 out of 1 in the Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni206

b:21.3
occ:1.00
 NE2 A:HIS101 2.1 18.8 1.0
NE2 A:HIS108 2.2 20.5 1.0
NE2 A:HIS110 2.2 21.0 1.0
NE2 A:HIS99 2.2 21.4 1.0
ND1 A:HIS97 2.3 20.3 1.0
CD2 A:HIS101 3.0 19.0 1.0
CE1 A:HIS97 3.1 23.1 1.0
CE1 A:HIS110 3.1 21.8 1.0
CD2 A:HIS108 3.1 22.9 1.0
CE1 A:HIS99 3.2 22.5 1.0
CE1 A:HIS101 3.2 19.2 1.0
CD2 A:HIS99 3.2 19.8 1.0
CE1 A:HIS108 3.2 22.0 1.0
CD2 A:HIS110 3.2 22.0 1.0
CG A:HIS97 3.4 21.6 1.0
CB A:HIS97 3.8 21.3 1.0
CG A:HIS101 4.2 18.5 1.0
ND1 A:HIS101 4.2 18.3 1.0
ND1 A:HIS110 4.2 23.1 1.0
ND1 A:HIS99 4.3 22.1 1.0
NE2 A:HIS97 4.3 23.8 1.0
CG A:HIS108 4.3 24.7 1.0
ND1 A:HIS108 4.3 22.7 1.0
CG A:HIS99 4.3 20.1 1.0
CG A:HIS110 4.3 26.2 1.0
CD2 A:HIS97 4.4 22.0 1.0

Reference:

E.M.Quistgaard, C.Low, P.Nordlund. Structure of Slyd Delta-if From Thermus Thermophilus in Complex with S3 Peptide To Be Published.
Page generated: Wed Oct 9 18:36:25 2024

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