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Platinum in PDB 3wua: Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec

Enzymatic activity of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec

All present enzymatic activity of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec:
3.2.1.17;

Protein crystallography data

The structure of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec, PDB code: 3wua was solved by R.Mizutani, R.Saiga, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.00
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 79.334, 79.334, 37.763, 90.00, 90.00, 90.00
R / Rfree (%) 18 / 21.7

Platinum Binding Sites:

The binding sites of Platinum atom in the Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec (pdb code 3wua). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 3 binding sites of Platinum where determined in the Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec, PDB code: 3wua:
Jump to Platinum binding site number: 1; 2; 3;

Platinum binding site 1 out of 3 in 3wua

Go back to Platinum Binding Sites List in 3wua
Platinum binding site 1 out of 3 in the Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt201

b:36.7
occ:0.10
O A:ALA10 4.1 18.1 1.0
CB A:ALA10 4.4 18.6 1.0
CA A:ALA10 4.6 18.0 1.0
CD A:LYS13 4.7 32.5 1.0
C A:ALA10 4.8 17.7 1.0
OXT A:LEU129 4.8 68.7 1.0
CA A:LEU129 5.0 59.4 1.0

Platinum binding site 2 out of 3 in 3wua

Go back to Platinum Binding Sites List in 3wua
Platinum binding site 2 out of 3 in the Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt202

b:37.3
occ:0.15
O A:HOH312 2.7 16.6 1.0
OD1 A:ASN65 2.7 24.8 1.0
O A:HOH339 3.0 31.8 1.0
O A:THR69 3.5 24.3 1.0
CB A:SER72 3.6 35.8 1.0
CG A:ASN65 3.9 22.9 1.0
OG A:SER72 4.0 35.9 1.0
N A:GLY67 4.0 17.1 1.0
N A:THR69 4.1 18.5 1.0
C A:THR69 4.2 23.4 1.0
CA A:GLY67 4.3 18.9 1.0
N A:ASP66 4.5 13.7 1.0
N A:ARG68 4.5 18.9 1.0
CA A:THR69 4.6 20.8 1.0
C A:GLY67 4.6 20.0 1.0
CB A:THR69 4.7 18.8 1.0
CA A:SER72 4.7 36.6 1.0
CA A:ASN65 4.7 17.4 1.0
N A:SER72 4.7 38.6 1.0
OD1 A:ASP66 4.7 14.7 1.0
CB A:ASN65 4.7 19.0 1.0
ND2 A:ASN65 4.9 25.7 1.0

Platinum binding site 3 out of 3 in 3wua

Go back to Platinum Binding Sites List in 3wua
Platinum binding site 3 out of 3 in the Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Spatiotemporal Development of Soaked Protein Crystal; Derivative 3610 Sec within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt203

b:37.3
occ:0.26
CE1 A:HIS15 2.4 29.3 1.0
O A:HOH333 2.6 26.3 1.0
NH1 A:ARG14 2.8 54.2 1.0
ND1 A:HIS15 3.2 30.2 1.0
NE2 A:HIS15 3.4 32.6 1.0
CZ A:ARG14 3.9 50.2 1.0
OD1 A:ASP87 4.3 31.3 1.0
CG A:HIS15 4.5 27.6 1.0
CG1 A:ILE88 4.5 19.6 1.0
CD2 A:HIS15 4.5 29.5 1.0
OG1 A:THR89 4.5 22.1 1.0
NH2 A:ARG14 4.6 50.8 1.0
CB A:ALA11 4.7 19.3 1.0
NE A:ARG14 4.8 46.5 1.0
CD A:ARG14 4.9 39.9 1.0
N A:ILE88 4.9 20.4 1.0

Reference:

R.Mizutani, Y.Shimizu, R.Saiga, G.Ueno, Y.Nakamura, A.Takeuchi, K.Uesugi, Y.Suzuki. Spatiotemporal Development of Soaked Protein Crystal Sci Rep V. 4 5731 2014.
ISSN: ESSN 2045-2322
PubMed: 25043871
DOI: 10.1038/SREP05731
Page generated: Wed Dec 16 02:04:41 2020

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