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Platinum in PDB 3az5: Crystal Structure of Pt/O-Hewl

Enzymatic activity of Crystal Structure of Pt/O-Hewl

All present enzymatic activity of Crystal Structure of Pt/O-Hewl:
3.2.1.17;

Protein crystallography data

The structure of Crystal Structure of Pt/O-Hewl, PDB code: 3az5 was solved by S.Abe, M.Tsujimoto, K.Yoneda, M.Ohba, T.Hikage, M.Takano, S.Kitagawa, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.50 / 2.34
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 30.144, 55.006, 71.230, 90.00, 90.00, 90.00
R / Rfree (%) 22.9 / 30.3

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of Pt/O-Hewl (pdb code 3az5). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total 5 binding sites of Platinum where determined in the Crystal Structure of Pt/O-Hewl, PDB code: 3az5:
Jump to Platinum binding site number: 1; 2; 3; 4; 5;

Platinum binding site 1 out of 5 in 3az5

Go back to Platinum Binding Sites List in 3az5
Platinum binding site 1 out of 5 in the Crystal Structure of Pt/O-Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Crystal Structure of Pt/O-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt130

b:0.3
occ:0.80
NE2 A:HIS15 2.5 48.8 1.0
NH1 A:ARG14 3.1 65.9 1.0
CE1 A:HIS15 3.4 52.5 1.0
CD2 A:HIS15 3.5 49.7 1.0
OD2 A:ASP87 4.0 47.5 1.0
CZ A:ARG14 4.3 65.9 1.0
CG A:ASP87 4.4 41.8 1.0
OD1 A:ASP87 4.4 46.2 1.0
ND1 A:HIS15 4.6 52.8 1.0
OG1 A:THR89 4.6 31.9 1.0
CG A:HIS15 4.6 50.6 1.0
CB A:ALA11 5.0 44.2 1.0
NH2 A:ARG14 5.0 64.4 1.0

Platinum binding site 2 out of 5 in 3az5

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Platinum binding site 2 out of 5 in the Crystal Structure of Pt/O-Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 2 of Crystal Structure of Pt/O-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt131

b:0.8
occ:0.30
ND1 A:HIS15 2.8 52.8 1.0
CB A:HIS15 3.3 52.1 1.0
O A:HIS15 3.4 52.6 1.0
CA A:HIS15 3.4 52.4 1.0
CG A:HIS15 3.5 50.6 1.0
ND2 A:ASN93 3.7 38.0 1.0
C A:HIS15 3.8 51.9 1.0
CE1 A:HIS15 4.0 52.5 1.0
CG2 A:THR89 4.5 32.2 1.0
CG A:ASN93 4.5 38.5 1.0
NZ A:LYS96 4.6 53.7 1.0
OD1 A:ASN93 4.6 43.3 1.0
N A:HIS15 4.7 54.1 1.0
CD2 A:HIS15 4.7 49.7 1.0
CG1 A:VAL92 4.8 30.2 1.0
O A:ARG14 4.9 54.2 1.0
NE2 A:HIS15 4.9 48.8 1.0

Platinum binding site 3 out of 5 in 3az5

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Platinum binding site 3 out of 5 in the Crystal Structure of Pt/O-Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 3 of Crystal Structure of Pt/O-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt132

b:0.6
occ:0.60
O A:HOH135 2.7 37.0 1.0
OD2 A:ASP119 3.3 60.7 1.0
CB A:ASP119 3.8 60.4 1.0
NH2 A:ARG125 3.9 65.7 1.0
CG A:ASP119 4.0 61.2 1.0
CB A:ALA122 4.9 52.2 1.0

Platinum binding site 4 out of 5 in 3az5

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Platinum binding site 4 out of 5 in the Crystal Structure of Pt/O-Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 4 of Crystal Structure of Pt/O-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt133

b:0.9
occ:0.60
SG A:CYS6 2.9 59.0 1.0
O A:GLY126 3.1 67.8 1.0
CB A:CYS6 3.3 55.0 1.0
CA A:CYS127 4.1 67.8 1.0
C A:GLY126 4.2 66.9 1.0
SG A:CYS127 4.4 64.0 1.0
O A:HOH141 4.5 45.6 1.0
CB A:CYS127 4.5 67.3 1.0
N A:CYS127 4.7 67.2 1.0
CA A:CYS6 4.7 54.3 1.0

Platinum binding site 5 out of 5 in 3az5

Go back to Platinum Binding Sites List in 3az5
Platinum binding site 5 out of 5 in the Crystal Structure of Pt/O-Hewl


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 5 of Crystal Structure of Pt/O-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt134

b:89.0
occ:0.30
N A:LYS1 2.4 55.7 1.0
OG A:SER86 3.2 46.2 1.0
CA A:LYS1 3.5 55.7 1.0
CB A:LYS1 4.1 55.8 1.0
CG A:GLN41 4.3 39.9 1.0
NE2 A:GLN41 4.4 43.1 1.0
OG1 A:THR40 4.5 35.4 1.0
CB A:SER86 4.6 42.6 1.0
CD A:GLN41 4.6 41.5 1.0
C A:LYS1 4.8 55.1 1.0

Reference:

S.Abe, M.Tsujimoto, K.Yoneda, M.Ohba, T.Hikage, M.Takano, S.Kitagawa, T.Ueno. Porous Protein Crystals As Reaction Vessels For Controlling Magnetic Properties of Nanoparticles Small V. 8 1314 2012.
ISSN: ISSN 1613-6810
PubMed: 22383363
DOI: 10.1002/SMLL.201101866
Page generated: Wed Dec 16 02:04:07 2020

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