Rhodium in PDB 2o1i: Rh(Bpy)2CHRYSI Complexed to Mismatched Dna
Protein crystallography data
The structure of Rh(Bpy)2CHRYSI Complexed to Mismatched Dna, PDB code: 2o1i
was solved by
V.C.Pierre,
J.T.Kaiser,
J.K.Barton,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
N/A /
1.10
|
Space group
|
P 43 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
38.740,
38.740,
57.560,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
n/a /
20.4
|
Rhodium Binding Sites:
The binding sites of Rhodium atom in the Rh(Bpy)2CHRYSI Complexed to Mismatched Dna
(pdb code 2o1i). This binding sites where shown within
5.0 Angstroms radius around Rhodium atom.
In total 3 binding sites of Rhodium where determined in the
Rh(Bpy)2CHRYSI Complexed to Mismatched Dna, PDB code: 2o1i:
Jump to Rhodium binding site number:
1;
2;
3;
Rhodium binding site 1 out
of 3 in 2o1i
Go back to
Rhodium Binding Sites List in 2o1i
Rhodium binding site 1 out
of 3 in the Rh(Bpy)2CHRYSI Complexed to Mismatched Dna
Mono view
Stereo pair view
|
A full contact list of Rhodium with other atoms in the Rh binding
site number 1 of Rh(Bpy)2CHRYSI Complexed to Mismatched Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Rh1001
b:13.5
occ:0.24
|
RH
|
A:R1C1001
|
0.0
|
13.5
|
0.2
|
RH
|
A:R1C2011
|
0.5
|
15.4
|
0.3
|
N2
|
A:R1C2011
|
1.6
|
21.3
|
0.3
|
N3
|
A:R1C2011
|
1.6
|
13.0
|
0.3
|
N4
|
A:R1C2011
|
1.8
|
13.4
|
0.3
|
N6
|
A:R1C1001
|
1.8
|
16.6
|
0.2
|
N5
|
A:R1C1001
|
1.8
|
15.0
|
0.2
|
N4
|
A:R1C1001
|
1.8
|
16.8
|
0.2
|
N3
|
A:R1C1001
|
1.8
|
20.7
|
0.2
|
N2
|
A:R1C1001
|
1.8
|
11.5
|
0.2
|
N1
|
A:R1C1001
|
1.8
|
11.5
|
0.2
|
N1
|
A:R1C2011
|
2.0
|
17.5
|
0.3
|
N5
|
A:R1C2011
|
2.1
|
12.2
|
0.3
|
N6
|
A:R1C2011
|
2.2
|
12.3
|
0.3
|
C15
|
A:R1C2011
|
2.5
|
11.8
|
0.3
|
C10
|
A:R1C2011
|
2.5
|
22.4
|
0.3
|
C6
|
A:R1C2011
|
2.5
|
18.9
|
0.3
|
C16
|
A:R1C2011
|
2.6
|
9.6
|
0.3
|
C16
|
A:R1C1001
|
2.7
|
17.2
|
0.2
|
C15
|
A:R1C1001
|
2.7
|
19.6
|
0.2
|
C11
|
A:R1C2011
|
2.7
|
13.8
|
0.3
|
C5
|
A:R1C1001
|
2.7
|
10.8
|
0.2
|
C22
|
A:R1C1001
|
2.7
|
13.4
|
0.2
|
C5
|
A:R1C2011
|
2.7
|
15.5
|
0.3
|
C6
|
A:R1C1001
|
2.7
|
13.2
|
0.2
|
C21
|
A:R1C1001
|
2.7
|
13.4
|
0.2
|
C11
|
A:R1C1001
|
2.9
|
23.8
|
0.2
|
C10
|
A:R1C1001
|
2.9
|
11.4
|
0.2
|
C20
|
A:R1C1001
|
2.9
|
16.1
|
0.2
|
C1
|
A:R1C1001
|
2.9
|
10.9
|
0.2
|
C20
|
A:R1C2011
|
2.9
|
11.3
|
0.3
|
C1
|
A:R1C2011
|
3.2
|
15.0
|
0.3
|
C21
|
A:R1C2011
|
3.2
|
11.8
|
0.3
|
C22
|
A:R1C2011
|
3.2
|
12.0
|
0.3
|
C9
|
A:R1C2011
|
3.8
|
22.7
|
0.3
|
C7
|
A:R1C2011
|
3.8
|
19.5
|
0.3
|
C14
|
A:R1C2011
|
3.8
|
12.7
|
0.3
|
C17
|
A:R1C2011
|
3.9
|
11.8
|
0.3
|
C12
|
A:R1C2011
|
4.0
|
12.9
|
0.3
|
C14
|
A:R1C1001
|
4.0
|
21.2
|
0.2
|
C17
|
A:R1C1001
|
4.0
|
15.5
|
0.2
|
C7
|
A:R1C1001
|
4.0
|
14.9
|
0.2
|
C4
|
A:R1C1001
|
4.1
|
10.6
|
0.2
|
C4
|
A:R1C2011
|
4.1
|
15.5
|
0.3
|
C38
|
A:R1C1001
|
4.1
|
15.9
|
0.2
|
C19
|
A:R1C2011
|
4.1
|
13.3
|
0.3
|
C9
|
A:R1C1001
|
4.1
|
11.0
|
0.2
|
C12
|
A:R1C1001
|
4.2
|
23.2
|
0.2
|
C23
|
A:R1C1001
|
4.2
|
14.1
|
0.2
|
C19
|
A:R1C1001
|
4.2
|
14.5
|
0.2
|
C2
|
A:R1C1001
|
4.2
|
12.5
|
0.2
|
C8
|
A:R1C2011
|
4.4
|
20.3
|
0.3
|
C2
|
A:R1C2011
|
4.4
|
14.8
|
0.3
|
C13
|
A:R1C2011
|
4.5
|
12.9
|
0.3
|
C38
|
A:R1C2011
|
4.5
|
12.4
|
0.3
|
C18
|
A:R1C2011
|
4.6
|
11.9
|
0.3
|
C3
|
A:R1C1001
|
4.6
|
11.1
|
0.2
|
C23
|
A:R1C2011
|
4.6
|
14.7
|
0.3
|
C13
|
A:R1C1001
|
4.6
|
21.0
|
0.2
|
C18
|
A:R1C1001
|
4.6
|
15.3
|
0.2
|
C8
|
A:R1C1001
|
4.7
|
13.2
|
0.2
|
C25
|
A:R1C1001
|
4.7
|
16.8
|
0.2
|
C3
|
A:R1C2011
|
4.8
|
14.2
|
0.3
|
C37
|
A:R1C1001
|
4.8
|
15.7
|
0.2
|
C24
|
A:R1C1001
|
4.9
|
15.5
|
0.2
|
C25
|
A:R1C2011
|
5.0
|
15.9
|
0.3
|
O
|
A:HOH2017
|
5.0
|
30.7
|
1.0
|
|
Rhodium binding site 2 out
of 3 in 2o1i
Go back to
Rhodium Binding Sites List in 2o1i
Rhodium binding site 2 out
of 3 in the Rh(Bpy)2CHRYSI Complexed to Mismatched Dna
Mono view
Stereo pair view
|
A full contact list of Rhodium with other atoms in the Rh binding
site number 2 of Rh(Bpy)2CHRYSI Complexed to Mismatched Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Rh2011
b:15.4
occ:0.26
|
RH
|
A:R1C2011
|
0.0
|
15.4
|
0.3
|
RH
|
A:R1C1001
|
0.5
|
13.5
|
0.2
|
N5
|
A:R1C1001
|
1.5
|
15.0
|
0.2
|
N6
|
A:R1C1001
|
1.6
|
16.6
|
0.2
|
N6
|
A:R1C2011
|
1.8
|
12.3
|
0.3
|
N2
|
A:R1C2011
|
1.8
|
21.3
|
0.3
|
N5
|
A:R1C2011
|
1.8
|
12.2
|
0.3
|
N4
|
A:R1C1001
|
1.8
|
16.8
|
0.2
|
N1
|
A:R1C2011
|
1.8
|
17.5
|
0.3
|
N4
|
A:R1C2011
|
1.8
|
13.4
|
0.3
|
N3
|
A:R1C2011
|
1.8
|
13.0
|
0.3
|
N1
|
A:R1C1001
|
2.0
|
11.5
|
0.2
|
N2
|
A:R1C1001
|
2.2
|
11.5
|
0.2
|
N3
|
A:R1C1001
|
2.2
|
20.7
|
0.2
|
C21
|
A:R1C1001
|
2.3
|
13.4
|
0.2
|
C22
|
A:R1C1001
|
2.3
|
13.4
|
0.2
|
C5
|
A:R1C2011
|
2.7
|
15.5
|
0.3
|
C22
|
A:R1C2011
|
2.7
|
12.0
|
0.3
|
C16
|
A:R1C2011
|
2.7
|
9.6
|
0.3
|
C6
|
A:R1C2011
|
2.7
|
18.9
|
0.3
|
C15
|
A:R1C2011
|
2.7
|
11.8
|
0.3
|
C20
|
A:R1C1001
|
2.7
|
16.1
|
0.2
|
C21
|
A:R1C2011
|
2.8
|
11.8
|
0.3
|
C16
|
A:R1C1001
|
2.8
|
17.2
|
0.2
|
C10
|
A:R1C2011
|
2.8
|
22.4
|
0.3
|
C11
|
A:R1C2011
|
2.9
|
13.8
|
0.3
|
C20
|
A:R1C2011
|
2.9
|
11.3
|
0.3
|
C1
|
A:R1C2011
|
2.9
|
15.0
|
0.3
|
C5
|
A:R1C1001
|
2.9
|
10.8
|
0.2
|
C15
|
A:R1C1001
|
3.0
|
19.6
|
0.2
|
C6
|
A:R1C1001
|
3.0
|
13.2
|
0.2
|
C1
|
A:R1C1001
|
3.0
|
10.9
|
0.2
|
C10
|
A:R1C1001
|
3.1
|
11.4
|
0.2
|
C11
|
A:R1C1001
|
3.3
|
23.8
|
0.2
|
C38
|
A:R1C1001
|
3.6
|
15.9
|
0.2
|
C23
|
A:R1C1001
|
3.7
|
14.1
|
0.2
|
C19
|
A:R1C1001
|
4.0
|
14.5
|
0.2
|
C14
|
A:R1C2011
|
4.0
|
12.7
|
0.3
|
C7
|
A:R1C2011
|
4.0
|
19.5
|
0.3
|
C4
|
A:R1C2011
|
4.1
|
15.5
|
0.3
|
C17
|
A:R1C2011
|
4.1
|
11.8
|
0.3
|
C17
|
A:R1C1001
|
4.1
|
15.5
|
0.2
|
C38
|
A:R1C2011
|
4.1
|
12.4
|
0.3
|
C9
|
A:R1C2011
|
4.1
|
22.7
|
0.3
|
C12
|
A:R1C2011
|
4.2
|
12.9
|
0.3
|
C23
|
A:R1C2011
|
4.2
|
14.7
|
0.3
|
C2
|
A:R1C2011
|
4.2
|
14.8
|
0.3
|
C19
|
A:R1C2011
|
4.2
|
13.3
|
0.3
|
C4
|
A:R1C1001
|
4.3
|
10.6
|
0.2
|
C7
|
A:R1C1001
|
4.3
|
14.9
|
0.2
|
C14
|
A:R1C1001
|
4.3
|
21.2
|
0.2
|
C2
|
A:R1C1001
|
4.3
|
12.5
|
0.2
|
C9
|
A:R1C1001
|
4.4
|
11.0
|
0.2
|
C37
|
A:R1C1001
|
4.4
|
15.7
|
0.2
|
C25
|
A:R1C1001
|
4.5
|
16.8
|
0.2
|
C12
|
A:R1C1001
|
4.5
|
23.2
|
0.2
|
C25
|
A:R1C2011
|
4.6
|
15.9
|
0.3
|
C24
|
A:R1C1001
|
4.6
|
15.5
|
0.2
|
C18
|
A:R1C1001
|
4.6
|
15.3
|
0.2
|
C33
|
A:R1C1001
|
4.6
|
15.8
|
0.2
|
C8
|
A:R1C2011
|
4.6
|
20.3
|
0.3
|
C32
|
A:R1C1001
|
4.7
|
16.3
|
0.2
|
C13
|
A:R1C2011
|
4.7
|
12.9
|
0.3
|
C18
|
A:R1C2011
|
4.7
|
11.9
|
0.3
|
C3
|
A:R1C2011
|
4.7
|
14.2
|
0.3
|
C3
|
A:R1C1001
|
4.8
|
11.1
|
0.2
|
C37
|
A:R1C2011
|
4.8
|
14.5
|
0.3
|
O
|
A:HOH2017
|
4.8
|
30.7
|
1.0
|
C24
|
A:R1C2011
|
4.9
|
12.1
|
0.3
|
C8
|
A:R1C1001
|
4.9
|
13.2
|
0.2
|
C13
|
A:R1C1001
|
5.0
|
21.0
|
0.2
|
N6
|
A:DA6
|
5.0
|
20.4
|
1.0
|
|
Rhodium binding site 3 out
of 3 in 2o1i
Go back to
Rhodium Binding Sites List in 2o1i
Rhodium binding site 3 out
of 3 in the Rh(Bpy)2CHRYSI Complexed to Mismatched Dna
Mono view
Stereo pair view
|
A full contact list of Rhodium with other atoms in the Rh binding
site number 3 of Rh(Bpy)2CHRYSI Complexed to Mismatched Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Rh1002
b:15.4
occ:1.00
|
RH
|
A:R1C1002
|
0.0
|
15.4
|
1.0
|
N3
|
A:R1C1002
|
1.9
|
16.9
|
1.0
|
N6
|
A:R1C1002
|
1.9
|
14.3
|
1.0
|
N4
|
A:R1C1002
|
1.9
|
17.1
|
1.0
|
N5
|
A:R1C1002
|
1.9
|
14.6
|
1.0
|
N1
|
A:R1C1002
|
1.9
|
14.0
|
1.0
|
N2
|
A:R1C1002
|
2.0
|
17.0
|
1.0
|
C22
|
A:R1C1002
|
2.8
|
14.0
|
1.0
|
C15
|
A:R1C1002
|
2.8
|
16.7
|
1.0
|
C21
|
A:R1C1002
|
2.8
|
13.8
|
1.0
|
C16
|
A:R1C1002
|
2.8
|
17.4
|
1.0
|
C6
|
A:R1C1002
|
2.9
|
15.6
|
1.0
|
C5
|
A:R1C1002
|
2.9
|
13.9
|
1.0
|
C20
|
A:R1C1002
|
2.9
|
18.1
|
1.0
|
C1
|
A:R1C1002
|
2.9
|
14.4
|
1.0
|
C11
|
A:R1C1002
|
3.0
|
17.0
|
1.0
|
C10
|
A:R1C1002
|
3.0
|
17.6
|
1.0
|
C14
|
A:R1C1002
|
4.1
|
19.9
|
1.0
|
C17
|
A:R1C1002
|
4.2
|
21.7
|
1.0
|
C7
|
A:R1C1002
|
4.2
|
17.1
|
1.0
|
C4
|
A:R1C1002
|
4.2
|
13.9
|
1.0
|
C23
|
A:R1C1002
|
4.2
|
14.4
|
1.0
|
C38
|
A:R1C1002
|
4.2
|
14.1
|
1.0
|
C19
|
A:R1C1002
|
4.2
|
20.1
|
1.0
|
C2
|
A:R1C1002
|
4.3
|
14.2
|
1.0
|
C12
|
A:R1C1002
|
4.3
|
19.5
|
1.0
|
C9
|
A:R1C1002
|
4.3
|
18.5
|
1.0
|
O2
|
A:DT8
|
4.6
|
19.3
|
1.0
|
C25
|
A:R1C1002
|
4.7
|
16.3
|
1.0
|
C13
|
A:R1C1002
|
4.7
|
21.8
|
1.0
|
O
|
A:HOH2018
|
4.8
|
24.8
|
1.0
|
O
|
A:HOH2063
|
4.8
|
42.4
|
1.0
|
C3
|
A:R1C1002
|
4.8
|
14.1
|
1.0
|
C18
|
A:R1C1002
|
4.8
|
22.4
|
1.0
|
C8
|
A:R1C1002
|
4.8
|
19.0
|
1.0
|
O
|
A:HOH2037
|
4.9
|
35.5
|
1.0
|
C37
|
A:R1C1002
|
4.9
|
14.4
|
1.0
|
C24
|
A:R1C1002
|
5.0
|
14.8
|
1.0
|
|
Reference:
V.C.Pierre,
J.T.Kaiser,
J.K.Barton.
Insights Into Finding A Mismatch Through the Structure of A Mispaired Dna Bound By A Rhodium Intercalator. Proc.Natl.Acad.Sci.Usa V. 104 429 2007.
ISSN: ISSN 0027-8424
PubMed: 17194756
DOI: 10.1073/PNAS.0610170104
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