Platinum in PDB 6zrw: Crystal Structure of the Fungal Lectin CML1
Protein crystallography data
The structure of Crystal Structure of the Fungal Lectin CML1, PDB code: 6zrw
was solved by
S.Bleuler-Martinez,
V.Olieric,
M.Sharpe,
G.Capitani,
M.Aebi,
M.Kuenzler,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
61.17 /
1.35
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
44.497,
73.626,
111.956,
90,
101.03,
90
|
R / Rfree (%)
|
14.6 /
17.6
|
Other elements in 6zrw:
The structure of Crystal Structure of the Fungal Lectin CML1 also contains other interesting chemical elements:
Platinum Binding Sites:
The binding sites of Platinum atom in the Crystal Structure of the Fungal Lectin CML1
(pdb code 6zrw). This binding sites where shown within
5.0 Angstroms radius around Platinum atom.
In total 8 binding sites of Platinum where determined in the
Crystal Structure of the Fungal Lectin CML1, PDB code: 6zrw:
Jump to Platinum binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Platinum binding site 1 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 1 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_01.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 1 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Pt204
b:222.5
occ:1.00
|
PT
|
A:P3C204
|
0.0
|
222.5
|
1.0
|
CL1
|
A:P3C204
|
2.4
|
98.1
|
1.0
|
O
|
A:HOH339
|
3.9
|
31.9
|
1.0
|
CE1
|
A:HIS5
|
4.2
|
24.8
|
1.0
|
NE1
|
A:TRP94
|
4.4
|
22.9
|
1.0
|
NE2
|
A:HIS5
|
4.5
|
25.0
|
1.0
|
O
|
B:HOH401
|
4.6
|
45.9
|
1.0
|
|
Platinum binding site 2 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 2 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_02.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 2 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Pt205
b:195.4
occ:1.00
|
PT
|
A:P3C205
|
0.0
|
195.4
|
1.0
|
CL2
|
A:P3C205
|
2.4
|
160.4
|
1.0
|
CL1
|
A:P3C205
|
2.4
|
130.0
|
1.0
|
CL3
|
A:P3C205
|
2.4
|
135.7
|
1.0
|
CE
|
A:LYS116
|
3.1
|
26.1
|
1.0
|
NZ
|
A:LYS116
|
3.7
|
28.9
|
1.0
|
CD
|
A:LYS116
|
3.9
|
22.2
|
1.0
|
CG
|
A:LYS116
|
4.2
|
18.7
|
1.0
|
CE
|
A:LYS19
|
4.3
|
33.1
|
1.0
|
CG
|
A:PRO39
|
4.4
|
18.1
|
1.0
|
NZ
|
A:LYS19
|
4.5
|
35.1
|
1.0
|
CD
|
A:PRO39
|
4.8
|
16.4
|
1.0
|
|
Platinum binding site 3 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 3 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_03.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_03_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 3 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Pt203
b:175.3
occ:1.00
|
PT
|
B:PC4203
|
0.0
|
175.3
|
1.0
|
CL3
|
B:PC4203
|
2.4
|
175.4
|
1.0
|
CL4
|
B:PC4203
|
2.4
|
175.3
|
1.0
|
CL2
|
B:PC4203
|
2.4
|
175.6
|
1.0
|
CL1
|
B:PC4203
|
2.4
|
175.5
|
1.0
|
NE1
|
B:TRP94
|
3.8
|
20.1
|
1.0
|
O
|
B:HOH323
|
3.9
|
29.6
|
1.0
|
CD1
|
B:TRP94
|
4.6
|
19.1
|
1.0
|
CE2
|
B:TRP94
|
4.8
|
18.6
|
1.0
|
|
Platinum binding site 4 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 4 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_04.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_04_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 4 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Pt204
b:287.1
occ:1.00
|
PT
|
C:P3C204
|
0.0
|
287.1
|
1.0
|
CL2
|
C:P3C204
|
2.4
|
162.9
|
1.0
|
CL3
|
C:P3C204
|
2.4
|
80.5
|
1.0
|
CL1
|
C:P3C204
|
2.4
|
130.4
|
1.0
|
NE1
|
C:TRP94
|
3.5
|
23.1
|
1.0
|
CH3
|
C:ACT208
|
4.3
|
51.3
|
1.0
|
CD1
|
C:TRP94
|
4.4
|
23.4
|
1.0
|
CE2
|
C:TRP94
|
4.5
|
21.5
|
1.0
|
O
|
C:HOH323
|
4.6
|
36.6
|
1.0
|
CZ2
|
C:TRP94
|
4.7
|
20.9
|
1.0
|
NE
|
D:ARG114
|
5.0
|
28.6
|
1.0
|
NH2
|
D:ARG114
|
5.0
|
32.9
|
1.0
|
|
Platinum binding site 5 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 5 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_05.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_05_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 5 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Pt204
b:123.9
occ:1.00
|
PT
|
D:PC4204
|
0.0
|
123.9
|
1.0
|
CL3
|
D:PC4204
|
2.4
|
126.6
|
1.0
|
CL2
|
D:PC4204
|
2.4
|
125.9
|
1.0
|
CL4
|
D:PC4204
|
2.4
|
126.3
|
1.0
|
CL1
|
D:PC4204
|
2.4
|
125.8
|
1.0
|
O
|
D:HOH325
|
3.3
|
19.8
|
1.0
|
O
|
D:HOH423
|
4.1
|
32.9
|
1.0
|
CG
|
D:GLN66
|
4.6
|
19.4
|
1.0
|
NE2
|
D:GLN66
|
4.7
|
24.2
|
1.0
|
CA
|
D:GLY65
|
4.7
|
14.7
|
1.0
|
N
|
D:GLN66
|
4.8
|
13.9
|
1.0
|
O
|
D:PRO17
|
4.9
|
13.2
|
1.0
|
|
Platinum binding site 6 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 6 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_06.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_06_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 6 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Pt205
b:145.5
occ:1.00
|
PT
|
D:PC4205
|
0.0
|
145.5
|
1.0
|
CL3
|
D:PC4205
|
2.4
|
146.0
|
1.0
|
CL4
|
D:PC4205
|
2.4
|
145.7
|
1.0
|
CL2
|
D:PC4205
|
2.4
|
145.3
|
1.0
|
CL1
|
D:PC4205
|
2.4
|
145.4
|
1.0
|
OG
|
D:SER85
|
3.6
|
15.4
|
0.3
|
O
|
D:HOH410
|
4.3
|
21.3
|
1.0
|
OG
|
D:SER87
|
4.4
|
16.3
|
1.0
|
CB
|
D:SER85
|
4.7
|
14.4
|
0.3
|
CB
|
D:SER85
|
4.7
|
14.2
|
0.7
|
O
|
D:HOH324
|
4.8
|
43.9
|
1.0
|
OG
|
D:SER85
|
5.0
|
14.6
|
0.7
|
|
Platinum binding site 7 out
of 8 in 6zrw
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Platinum Binding Sites List in 6zrw
Platinum binding site 7 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_07.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_07_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 7 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Pt204
b:199.2
occ:1.00
|
PT
|
E:P3C204
|
0.0
|
199.2
|
1.0
|
CL3
|
E:P3C204
|
2.4
|
168.6
|
1.0
|
CL2
|
E:P3C204
|
2.4
|
141.6
|
1.0
|
CL1
|
E:P3C204
|
2.4
|
76.4
|
1.0
|
O
|
E:HOH362
|
3.4
|
26.4
|
1.0
|
CE1
|
E:HIS5
|
4.1
|
17.0
|
1.0
|
NE2
|
E:HIS5
|
4.3
|
17.4
|
1.0
|
NE1
|
E:TRP94
|
4.4
|
16.3
|
1.0
|
|
Platinum binding site 8 out
of 8 in 6zrw
Go back to
Platinum Binding Sites List in 6zrw
Platinum binding site 8 out
of 8 in the Crystal Structure of the Fungal Lectin CML1
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_08.jpg) Mono view
![](/pictures/PT/pdb/zr/6zrw-PT-sphere_08_stereo.jpg) Stereo pair view
|
A full contact list of Platinum with other atoms in the Pt binding
site number 8 of Crystal Structure of the Fungal Lectin CML1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Pt203
b:211.0
occ:1.00
|
PT
|
F:PC4203
|
0.0
|
211.0
|
1.0
|
CL2
|
F:PC4203
|
2.4
|
143.3
|
1.0
|
CL3
|
F:PC4203
|
2.4
|
67.1
|
1.0
|
CL1
|
F:PC4203
|
2.4
|
127.6
|
1.0
|
CL4
|
F:PC4203
|
2.4
|
141.6
|
1.0
|
O
|
F:HOH316
|
3.9
|
27.3
|
1.0
|
CE1
|
F:HIS5
|
4.3
|
16.6
|
1.0
|
NE1
|
F:TRP94
|
4.5
|
16.6
|
1.0
|
NE2
|
F:HIS5
|
4.6
|
16.3
|
1.0
|
O
|
E:HOH450
|
4.8
|
49.6
|
1.0
|
|
Reference:
S.Bleuler-Martinez,
A.Varrot,
V.Olieric,
M.Schubert,
T.Wohlschlager,
D.Plaza,
M.Waelti,
Y.Duport,
G.Capitani,
M.Aebi,
M.Kuenzler.
Structure and Function of A Novel Fucose-Binding Protein From the Mushroom Coprinopsis Cinerea To Be Published.
Page generated: Sat Aug 21 17:32:14 2021
|