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Platinum in PDB 3az7: Crystal Structure of Pt/T-Hewl

Enzymatic activity of Crystal Structure of Pt/T-Hewl

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

Protein crystallography data

The structure of Crystal Structure of Pt/T-Hewl, PDB code: 3az7 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) 25.31 / 2.10
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 78.412, 78.412, 36.558, 90.00, 90.00, 90.00
R / Rfree (%) 21.9 / 30.3

Other elements in 3az7:

The structure of Crystal Structure of Pt/T-Hewl also contains other interesting chemical elements:

Sodium (Na) 1 atom

Platinum Binding Sites:

The binding sites of Platinum atom in the Crystal Structure of Pt/T-Hewl (pdb code 3az7). 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/T-Hewl, PDB code: 3az7:
Jump to Platinum binding site number: 1; 2; 3; 4; 5;

Platinum binding site 1 out of 5 in 3az7

Go back to Platinum Binding Sites List in 3az7
Platinum binding site 1 out of 5 in the Crystal Structure of Pt/T-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/T-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt130

b:0.7
occ:0.80
ND1 A:HIS15 2.7 53.6 1.0
O A:HOH150 3.0 56.5 1.0
CB A:HIS15 3.4 52.8 1.0
CG A:HIS15 3.4 53.1 1.0
CA A:HIS15 3.5 52.9 1.0
O A:HIS15 3.7 53.6 1.0
CE1 A:HIS15 3.8 53.7 1.0
C A:HIS15 4.0 52.9 1.0
OD1 A:ASN93 4.1 54.3 1.0
NZ A:LYS96 4.5 56.4 1.0
CG2 A:THR89 4.5 47.9 1.0
CD2 A:HIS15 4.6 53.1 1.0
N A:HIS15 4.7 53.5 1.0
NE2 A:HIS15 4.8 53.9 1.0
OG1 A:THR89 4.9 48.5 1.0
CG A:ASN93 4.9 51.6 1.0
O A:ARG14 4.9 52.9 1.0
CG1 A:VAL92 4.9 42.1 1.0

Platinum binding site 2 out of 5 in 3az7

Go back to Platinum Binding Sites List in 3az7
Platinum binding site 2 out of 5 in the Crystal Structure of Pt/T-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/T-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt131

b:0.5
occ:0.70
NE2 A:HIS15 2.6 53.9 1.0
O A:HOH151 2.8 49.1 1.0
O A:HOH152 3.3 66.5 1.0
NE A:ARG14 3.3 44.3 0.5
CE1 A:HIS15 3.4 53.7 1.0
CD2 A:HIS15 3.7 53.1 1.0
CD A:ARG14 3.9 47.1 0.5
OD1 A:ASP87 4.2 55.9 1.0
CZ A:ARG14 4.2 45.8 0.5
NH1 A:ARG14 4.3 47.0 0.5
ND1 A:HIS15 4.6 53.6 1.0
CB A:ALA11 4.6 47.3 1.0
CG A:HIS15 4.7 53.1 1.0
N A:ILE88 4.9 47.4 1.0
OG1 A:THR89 5.0 48.5 1.0
CG A:ASP87 5.0 53.6 1.0

Platinum binding site 3 out of 5 in 3az7

Go back to Platinum Binding Sites List in 3az7
Platinum binding site 3 out of 5 in the Crystal Structure of Pt/T-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/T-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt132

b:0.9
occ:0.50
ND2 A:ASN65 2.9 42.4 1.0
O A:HOH155 3.3 47.4 1.0
OG A:SER72 3.3 54.5 1.0
O A:THR69 3.4 50.0 1.0
N A:GLY67 3.6 43.5 1.0
N A:THR69 3.6 45.7 1.0
CA A:GLY67 3.8 44.3 1.0
N A:ARG68 4.0 46.0 1.0
C A:THR69 4.1 50.0 1.0
C A:GLY67 4.1 45.7 1.0
CA A:THR69 4.2 47.8 1.0
CG A:ASN65 4.2 41.5 1.0
NA A:NA135 4.3 52.9 1.0
CB A:THR69 4.4 47.1 1.0
OD1 A:ASP66 4.4 37.8 1.0
CB A:SER72 4.6 55.7 1.0
N A:ASP66 4.6 39.9 1.0
C A:ARG68 4.7 45.7 1.0
C A:ASP66 4.7 41.6 1.0
O A:HOH164 4.8 47.5 0.5
CA A:ARG68 4.8 44.8 0.5
O A:GLY67 5.0 47.0 1.0
OD1 A:ASN65 5.0 46.0 1.0
OG1 A:THR69 5.0 47.0 1.0

Platinum binding site 4 out of 5 in 3az7

Go back to Platinum Binding Sites List in 3az7
Platinum binding site 4 out of 5 in the Crystal Structure of Pt/T-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/T-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt133

b:92.1
occ:0.50
O A:HOH165 2.5 49.1 1.0
SG A:CYS6 2.8 54.9 1.0
CB A:CYS6 3.3 49.4 1.0
O A:GLY126 3.4 64.4 1.0
C A:GLY126 4.0 64.5 1.0
CA A:CYS127 4.0 66.0 1.0
N A:CYS127 4.3 65.3 1.0
SG A:CYS127 4.4 60.8 1.0
NH2 A:ARG5 4.4 63.0 1.0
CB A:CYS127 4.6 65.3 1.0
CA A:CYS6 4.8 48.6 1.0

Platinum binding site 5 out of 5 in 3az7

Go back to Platinum Binding Sites List in 3az7
Platinum binding site 5 out of 5 in the Crystal Structure of Pt/T-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/T-Hewl within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt134

b:89.1
occ:0.30
O A:HOH159 2.4 50.9 1.0
O A:HOH156 2.9 44.4 1.0
OG A:SER24 3.6 44.8 1.0
CB A:SER24 3.9 43.3 1.0
ND2 A:ASN27 4.6 35.7 1.0
CG2 A:VAL120 4.6 50.4 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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