Iridium in PDB 9bun: Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Protein crystallography data
The structure of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine, PDB code: 9bun
was solved by
R.T.Batey,
S.H.Siwik,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
44.24 /
2.10
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
102.424,
174.242,
87.791,
90,
90,
90
|
R / Rfree (%)
|
21.6 /
24.1
|
Iridium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
15;
Binding sites:
The binding sites of Iridium atom in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
(pdb code 9bun). This binding sites where shown within
5.0 Angstroms radius around Iridium atom.
In total 15 binding sites of Iridium where determined in the
Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine, PDB code: 9bun:
Jump to Iridium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Iridium binding site 1 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 1 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 1 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ir101
b:48.5
occ:1.00
|
IR
|
A:IRI101
|
0.0
|
48.5
|
1.0
|
N3
|
A:IRI101
|
2.2
|
40.0
|
1.0
|
N1
|
A:IRI101
|
2.2
|
37.8
|
1.0
|
N5
|
A:IRI101
|
2.2
|
47.7
|
1.0
|
N4
|
A:IRI101
|
2.3
|
42.6
|
1.0
|
N6
|
A:IRI101
|
2.3
|
38.4
|
1.0
|
N2
|
A:IRI101
|
2.3
|
44.1
|
1.0
|
HN31
|
A:IRI101
|
2.7
|
47.9
|
1.0
|
HN33
|
A:IRI101
|
2.7
|
47.9
|
1.0
|
HN32
|
A:IRI101
|
2.7
|
47.9
|
1.0
|
HN12
|
A:IRI101
|
2.7
|
45.2
|
1.0
|
HN11
|
A:IRI101
|
2.7
|
45.2
|
1.0
|
HN13
|
A:IRI101
|
2.7
|
45.2
|
1.0
|
HN53
|
A:IRI101
|
2.7
|
57.1
|
1.0
|
HN51
|
A:IRI101
|
2.7
|
57.1
|
1.0
|
HN52
|
A:IRI101
|
2.7
|
57.1
|
1.0
|
HN42
|
A:IRI101
|
2.7
|
51.0
|
1.0
|
HN43
|
A:IRI101
|
2.7
|
51.0
|
1.0
|
HN41
|
A:IRI101
|
2.7
|
51.0
|
1.0
|
HN63
|
A:IRI101
|
2.7
|
46.0
|
1.0
|
HN62
|
A:IRI101
|
2.7
|
46.0
|
1.0
|
HN61
|
A:IRI101
|
2.7
|
46.0
|
1.0
|
HN23
|
A:IRI101
|
2.7
|
52.8
|
1.0
|
HN22
|
A:IRI101
|
2.7
|
52.8
|
1.0
|
HN21
|
A:IRI101
|
2.7
|
52.8
|
1.0
|
O
|
A:HOH235
|
3.8
|
51.6
|
1.0
|
O
|
A:HOH281
|
3.9
|
45.8
|
1.0
|
O
|
A:HOH286
|
3.9
|
44.3
|
1.0
|
O
|
A:HOH252
|
3.9
|
46.4
|
1.0
|
OP2
|
A:A20
|
4.0
|
50.2
|
1.0
|
O6
|
A:G23
|
4.1
|
43.6
|
1.0
|
N7
|
A:G23
|
4.3
|
53.6
|
1.0
|
O6
|
A:G24
|
4.3
|
44.8
|
1.0
|
O
|
A:HOH247
|
4.4
|
50.2
|
1.0
|
O
|
A:HOH270
|
4.4
|
45.6
|
1.0
|
O
|
A:HOH254
|
4.5
|
44.4
|
1.0
|
O
|
A:HOH295
|
4.5
|
53.2
|
1.0
|
O
|
A:HOH283
|
4.5
|
41.5
|
1.0
|
O6
|
A:G38
|
4.7
|
38.3
|
1.0
|
C6
|
A:G23
|
4.9
|
43.5
|
1.0
|
P
|
A:A20
|
4.9
|
43.9
|
1.0
|
C5
|
A:G23
|
4.9
|
48.2
|
1.0
|
N4
|
A:C39
|
4.9
|
34.6
|
1.0
|
OP1
|
A:A20
|
4.9
|
49.0
|
1.0
|
|
Iridium binding site 2 out
of 15 in 9bun
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Iridium Binding Sites List in 9bun
Iridium binding site 2 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 2 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ir102
b:109.9
occ:1.00
|
IR
|
A:IRI102
|
0.0
|
109.9
|
1.0
|
N6
|
A:IRI102
|
2.3
|
67.2
|
1.0
|
N4
|
A:IRI102
|
2.3
|
75.2
|
1.0
|
N2
|
A:IRI102
|
2.3
|
73.0
|
1.0
|
N5
|
A:IRI102
|
2.3
|
88.9
|
1.0
|
N3
|
A:IRI102
|
2.3
|
93.7
|
1.0
|
N1
|
A:IRI102
|
2.3
|
64.3
|
1.0
|
HN43
|
A:IRI102
|
2.7
|
90.2
|
1.0
|
HN41
|
A:IRI102
|
2.7
|
90.2
|
1.0
|
HN62
|
A:IRI102
|
2.7
|
80.6
|
1.0
|
HN63
|
A:IRI102
|
2.7
|
80.6
|
1.0
|
HN61
|
A:IRI102
|
2.7
|
80.6
|
1.0
|
HN21
|
A:IRI102
|
2.7
|
87.5
|
1.0
|
HN42
|
A:IRI102
|
2.7
|
90.2
|
1.0
|
HN22
|
A:IRI102
|
2.7
|
87.5
|
1.0
|
HN23
|
A:IRI102
|
2.7
|
87.5
|
1.0
|
HN52
|
A:IRI102
|
2.7
|
106.6
|
1.0
|
HN33
|
A:IRI102
|
2.7
|
112.3
|
1.0
|
HN31
|
A:IRI102
|
2.7
|
112.3
|
1.0
|
HN53
|
A:IRI102
|
2.7
|
106.6
|
1.0
|
HN32
|
A:IRI102
|
2.7
|
112.3
|
1.0
|
HN51
|
A:IRI102
|
2.7
|
106.6
|
1.0
|
HN11
|
A:IRI102
|
2.7
|
77.0
|
1.0
|
HN12
|
A:IRI102
|
2.7
|
77.0
|
1.0
|
HN13
|
A:IRI102
|
2.7
|
77.0
|
1.0
|
O6
|
A:G8
|
4.2
|
52.2
|
1.0
|
N7
|
A:G8
|
4.2
|
46.0
|
1.0
|
O
|
A:HOH276
|
4.3
|
61.3
|
1.0
|
O
|
A:HOH203
|
4.3
|
65.9
|
1.0
|
O
|
A:HOH248
|
4.4
|
61.8
|
1.0
|
OP1
|
A:A10
|
4.6
|
66.5
|
1.0
|
O6
|
A:G7
|
4.8
|
44.2
|
1.0
|
C6
|
A:G8
|
4.9
|
47.8
|
1.0
|
C5
|
A:G8
|
4.9
|
36.2
|
1.0
|
|
Iridium binding site 3 out
of 15 in 9bun
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Iridium Binding Sites List in 9bun
Iridium binding site 3 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 3 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ir103
b:245.7
occ:1.00
|
IR
|
A:IRI103
|
0.0
|
245.7
|
1.0
|
N4
|
A:IRI103
|
2.3
|
127.5
|
1.0
|
N3
|
A:IRI103
|
2.3
|
112.3
|
1.0
|
N1
|
A:IRI103
|
2.3
|
145.7
|
1.0
|
N5
|
A:IRI103
|
2.3
|
147.5
|
1.0
|
N2
|
A:IRI103
|
2.3
|
147.9
|
1.0
|
N6
|
A:IRI103
|
2.3
|
112.2
|
1.0
|
HN42
|
A:IRI103
|
2.7
|
152.9
|
1.0
|
HN43
|
A:IRI103
|
2.7
|
152.9
|
1.0
|
HN41
|
A:IRI103
|
2.7
|
152.9
|
1.0
|
HN52
|
A:IRI103
|
2.7
|
176.9
|
1.0
|
HN53
|
A:IRI103
|
2.7
|
176.9
|
1.0
|
HN51
|
A:IRI103
|
2.7
|
176.9
|
1.0
|
HN63
|
A:IRI103
|
2.7
|
134.6
|
1.0
|
HN13
|
A:IRI103
|
2.7
|
174.8
|
1.0
|
HN32
|
A:IRI103
|
2.7
|
134.7
|
1.0
|
HN11
|
A:IRI103
|
2.7
|
174.8
|
1.0
|
HN62
|
A:IRI103
|
2.7
|
134.6
|
1.0
|
HN23
|
A:IRI103
|
2.7
|
177.4
|
1.0
|
HN31
|
A:IRI103
|
2.7
|
134.7
|
1.0
|
HN22
|
A:IRI103
|
2.7
|
177.4
|
1.0
|
HN33
|
A:IRI103
|
2.7
|
134.7
|
1.0
|
HN21
|
A:IRI103
|
2.7
|
177.4
|
1.0
|
HN12
|
A:IRI103
|
2.7
|
174.8
|
1.0
|
HN61
|
A:IRI103
|
2.7
|
134.6
|
1.0
|
O6
|
A:G2
|
4.3
|
72.1
|
1.0
|
N7
|
A:G1
|
4.7
|
99.4
|
1.0
|
O6
|
A:G1
|
4.8
|
83.8
|
1.0
|
O4
|
A:U45
|
4.9
|
76.7
|
1.0
|
|
Iridium binding site 4 out
of 15 in 9bun
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Iridium Binding Sites List in 9bun
Iridium binding site 4 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 4 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ir101
b:89.1
occ:1.00
|
IR
|
B:IRI101
|
0.0
|
89.1
|
1.0
|
N3
|
B:IRI101
|
2.2
|
69.3
|
1.0
|
N1
|
B:IRI101
|
2.2
|
78.7
|
1.0
|
N6
|
B:IRI101
|
2.3
|
100.5
|
1.0
|
N4
|
B:IRI101
|
2.3
|
97.0
|
1.0
|
N2
|
B:IRI101
|
2.3
|
84.9
|
1.0
|
N5
|
B:IRI101
|
2.3
|
86.5
|
1.0
|
HN32
|
B:IRI101
|
2.7
|
83.1
|
1.0
|
HN31
|
B:IRI101
|
2.7
|
83.1
|
1.0
|
HN33
|
B:IRI101
|
2.7
|
83.1
|
1.0
|
HN11
|
B:IRI101
|
2.7
|
94.3
|
1.0
|
HN13
|
B:IRI101
|
2.7
|
94.3
|
1.0
|
HN12
|
B:IRI101
|
2.7
|
94.3
|
1.0
|
HN63
|
B:IRI101
|
2.7
|
120.6
|
1.0
|
HN62
|
B:IRI101
|
2.7
|
120.6
|
1.0
|
HN41
|
B:IRI101
|
2.7
|
116.4
|
1.0
|
HN42
|
B:IRI101
|
2.7
|
116.4
|
1.0
|
HN61
|
B:IRI101
|
2.7
|
120.6
|
1.0
|
HN43
|
B:IRI101
|
2.7
|
116.4
|
1.0
|
HN23
|
B:IRI101
|
2.7
|
101.8
|
1.0
|
HN21
|
B:IRI101
|
2.7
|
101.8
|
1.0
|
HN22
|
B:IRI101
|
2.7
|
101.8
|
1.0
|
HN52
|
B:IRI101
|
2.7
|
103.7
|
1.0
|
HN51
|
B:IRI101
|
2.7
|
103.7
|
1.0
|
HN53
|
B:IRI101
|
2.7
|
103.7
|
1.0
|
O
|
B:HOH239
|
3.8
|
88.7
|
1.0
|
O6
|
B:G24
|
4.0
|
96.8
|
1.0
|
O6
|
B:G23
|
4.0
|
100.9
|
1.0
|
HN63
|
B:IRI104
|
4.1
|
123.5
|
1.0
|
O
|
B:HOH250
|
4.1
|
77.2
|
1.0
|
OP2
|
B:A20
|
4.3
|
60.4
|
1.0
|
N7
|
B:G23
|
4.5
|
96.1
|
1.0
|
HN61
|
B:IRI104
|
4.6
|
123.5
|
1.0
|
O6
|
B:G38
|
4.6
|
85.5
|
1.0
|
N6
|
B:IRI104
|
4.7
|
103.0
|
1.0
|
C6
|
B:G23
|
4.8
|
100.3
|
1.0
|
N4
|
B:C39
|
4.8
|
99.1
|
1.0
|
O
|
B:HOH209
|
4.8
|
99.0
|
1.0
|
HN62
|
B:IRI104
|
4.8
|
123.5
|
1.0
|
OP1
|
B:A20
|
5.0
|
70.0
|
1.0
|
C5
|
B:G23
|
5.0
|
99.3
|
1.0
|
|
Iridium binding site 5 out
of 15 in 9bun
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Iridium Binding Sites List in 9bun
Iridium binding site 5 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 5 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ir102
b:74.8
occ:1.00
|
IR
|
B:IRI102
|
0.0
|
74.8
|
1.0
|
N2
|
B:IRI102
|
2.2
|
29.8
|
1.0
|
N4
|
B:IRI102
|
2.2
|
69.3
|
1.0
|
N3
|
B:IRI102
|
2.3
|
56.9
|
1.0
|
N5
|
B:IRI102
|
2.3
|
60.5
|
1.0
|
N1
|
B:IRI102
|
2.3
|
42.3
|
1.0
|
N6
|
B:IRI102
|
2.3
|
58.6
|
1.0
|
HN21
|
B:IRI102
|
2.7
|
35.7
|
1.0
|
HN22
|
B:IRI102
|
2.7
|
35.7
|
1.0
|
HN23
|
B:IRI102
|
2.7
|
35.7
|
1.0
|
HN42
|
B:IRI102
|
2.7
|
83.1
|
1.0
|
HN41
|
B:IRI102
|
2.7
|
83.1
|
1.0
|
HN43
|
B:IRI102
|
2.7
|
83.1
|
1.0
|
HN33
|
B:IRI102
|
2.7
|
68.2
|
1.0
|
HN31
|
B:IRI102
|
2.7
|
68.2
|
1.0
|
HN32
|
B:IRI102
|
2.7
|
68.2
|
1.0
|
HN53
|
B:IRI102
|
2.7
|
72.6
|
1.0
|
HN51
|
B:IRI102
|
2.7
|
72.6
|
1.0
|
HN52
|
B:IRI102
|
2.7
|
72.6
|
1.0
|
HN11
|
B:IRI102
|
2.7
|
50.7
|
1.0
|
HN12
|
B:IRI102
|
2.7
|
50.7
|
1.0
|
HN13
|
B:IRI102
|
2.7
|
50.7
|
1.0
|
HN63
|
B:IRI102
|
2.7
|
70.2
|
1.0
|
HN61
|
B:IRI102
|
2.7
|
70.2
|
1.0
|
HN62
|
B:IRI102
|
2.7
|
70.2
|
1.0
|
O6
|
B:G18
|
3.6
|
37.6
|
1.0
|
O
|
B:HOH247
|
3.7
|
53.7
|
1.0
|
OP2
|
B:G15
|
3.7
|
47.3
|
1.0
|
O
|
B:HOH234
|
3.9
|
50.8
|
1.0
|
O
|
B:HOH203
|
4.2
|
42.1
|
1.0
|
O
|
B:HOH236
|
4.3
|
59.2
|
1.0
|
C6
|
B:G18
|
4.8
|
39.8
|
1.0
|
O
|
B:HOH231
|
5.0
|
55.5
|
1.0
|
|
Iridium binding site 6 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 6 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 6 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ir103
b:101.8
occ:1.00
|
IR
|
B:IRI103
|
0.0
|
101.8
|
1.0
|
N6
|
B:IRI103
|
2.3
|
86.0
|
1.0
|
N1
|
B:IRI103
|
2.3
|
86.2
|
1.0
|
N2
|
B:IRI103
|
2.3
|
72.5
|
1.0
|
N4
|
B:IRI103
|
2.3
|
43.5
|
1.0
|
N3
|
B:IRI103
|
2.3
|
71.7
|
1.0
|
N5
|
B:IRI103
|
2.3
|
55.6
|
1.0
|
HN62
|
B:IRI103
|
2.7
|
103.2
|
1.0
|
HN61
|
B:IRI103
|
2.7
|
103.2
|
1.0
|
HN63
|
B:IRI103
|
2.7
|
103.2
|
1.0
|
HN11
|
B:IRI103
|
2.7
|
103.3
|
1.0
|
HN42
|
B:IRI103
|
2.7
|
52.1
|
1.0
|
HN13
|
B:IRI103
|
2.7
|
103.3
|
1.0
|
HN12
|
B:IRI103
|
2.7
|
103.3
|
1.0
|
HN41
|
B:IRI103
|
2.7
|
52.1
|
1.0
|
HN22
|
B:IRI103
|
2.7
|
86.9
|
1.0
|
HN23
|
B:IRI103
|
2.7
|
86.9
|
1.0
|
HN43
|
B:IRI103
|
2.7
|
52.1
|
1.0
|
HN21
|
B:IRI103
|
2.7
|
86.9
|
1.0
|
HN52
|
B:IRI103
|
2.7
|
66.7
|
1.0
|
HN53
|
B:IRI103
|
2.7
|
66.7
|
1.0
|
HN33
|
B:IRI103
|
2.7
|
86.0
|
1.0
|
HN51
|
B:IRI103
|
2.7
|
66.7
|
1.0
|
HN31
|
B:IRI103
|
2.7
|
86.0
|
1.0
|
HN32
|
B:IRI103
|
2.7
|
86.0
|
1.0
|
O
|
B:HOH212
|
3.5
|
65.3
|
1.0
|
O
|
B:HOH208
|
3.7
|
83.1
|
1.0
|
O
|
B:HOH222
|
3.8
|
56.4
|
1.0
|
O
|
B:HOH223
|
3.8
|
58.8
|
1.0
|
N7
|
B:G8
|
3.9
|
44.5
|
1.0
|
OP1
|
B:A10
|
4.2
|
44.5
|
1.0
|
O
|
B:HOH206
|
4.5
|
69.5
|
1.0
|
OP2
|
B:A10
|
4.6
|
43.3
|
1.0
|
C8
|
B:G8
|
4.7
|
39.3
|
1.0
|
O6
|
B:G8
|
4.7
|
38.5
|
1.0
|
O
|
B:HOH207
|
4.7
|
52.9
|
1.0
|
O
|
B:HOH227
|
4.7
|
58.2
|
1.0
|
C5
|
B:G8
|
4.8
|
40.2
|
1.0
|
P
|
B:A10
|
4.9
|
42.0
|
1.0
|
|
Iridium binding site 7 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 7 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 7 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ir104
b:208.1
occ:1.00
|
IR
|
B:IRI104
|
0.0
|
208.1
|
1.0
|
N5
|
B:IRI104
|
2.3
|
110.7
|
1.0
|
N2
|
B:IRI104
|
2.3
|
93.8
|
1.0
|
N1
|
B:IRI104
|
2.3
|
110.4
|
1.0
|
N4
|
B:IRI104
|
2.3
|
120.1
|
1.0
|
N6
|
B:IRI104
|
2.3
|
103.0
|
1.0
|
N3
|
B:IRI104
|
2.3
|
100.2
|
1.0
|
HN12
|
B:IRI104
|
2.7
|
132.4
|
1.0
|
HN52
|
B:IRI104
|
2.7
|
132.7
|
1.0
|
HN22
|
B:IRI104
|
2.7
|
112.4
|
1.0
|
HN23
|
B:IRI104
|
2.7
|
112.4
|
1.0
|
HN21
|
B:IRI104
|
2.7
|
112.4
|
1.0
|
HN51
|
B:IRI104
|
2.7
|
132.7
|
1.0
|
HN13
|
B:IRI104
|
2.7
|
132.4
|
1.0
|
HN53
|
B:IRI104
|
2.7
|
132.7
|
1.0
|
HN43
|
B:IRI104
|
2.7
|
144.1
|
1.0
|
HN41
|
B:IRI104
|
2.7
|
144.1
|
1.0
|
HN11
|
B:IRI104
|
2.7
|
132.4
|
1.0
|
HN42
|
B:IRI104
|
2.7
|
144.1
|
1.0
|
HN62
|
B:IRI104
|
2.7
|
123.5
|
1.0
|
HN63
|
B:IRI104
|
2.7
|
123.5
|
1.0
|
HN61
|
B:IRI104
|
2.7
|
123.5
|
1.0
|
HN33
|
B:IRI104
|
2.7
|
120.1
|
1.0
|
HN31
|
B:IRI104
|
2.7
|
120.1
|
1.0
|
HN32
|
B:IRI104
|
2.7
|
120.1
|
1.0
|
OP1
|
B:A20
|
4.0
|
70.0
|
1.0
|
OP2
|
B:G23
|
4.0
|
100.0
|
1.0
|
OP1
|
B:A22
|
4.0
|
85.3
|
1.0
|
HN52
|
B:IRI101
|
4.2
|
103.7
|
1.0
|
OP2
|
B:G19
|
4.4
|
61.5
|
1.0
|
OP1
|
B:G19
|
4.4
|
56.2
|
1.0
|
OP2
|
B:A22
|
4.5
|
73.0
|
1.0
|
P
|
B:A22
|
4.7
|
70.2
|
1.0
|
O
|
B:HOH209
|
4.8
|
99.0
|
1.0
|
HN51
|
B:IRI101
|
4.8
|
103.7
|
1.0
|
P
|
B:G19
|
4.8
|
57.0
|
1.0
|
N5
|
B:IRI101
|
4.9
|
86.5
|
1.0
|
|
Iridium binding site 8 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 8 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 8 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ir101
b:191.2
occ:1.00
|
IR
|
C:IRI101
|
0.0
|
191.2
|
1.0
|
N2
|
C:IRI101
|
2.3
|
85.4
|
1.0
|
N1
|
C:IRI101
|
2.3
|
99.9
|
1.0
|
N6
|
C:IRI101
|
2.3
|
101.6
|
1.0
|
N4
|
C:IRI101
|
2.3
|
127.3
|
1.0
|
N3
|
C:IRI101
|
2.3
|
128.4
|
1.0
|
N5
|
C:IRI101
|
2.3
|
114.5
|
1.0
|
HN23
|
C:IRI101
|
2.7
|
102.4
|
1.0
|
HN22
|
C:IRI101
|
2.7
|
102.4
|
1.0
|
HN62
|
C:IRI101
|
2.7
|
121.8
|
1.0
|
HN21
|
C:IRI101
|
2.7
|
102.4
|
1.0
|
HN63
|
C:IRI101
|
2.7
|
121.8
|
1.0
|
HN32
|
C:IRI101
|
2.7
|
154.0
|
1.0
|
HN12
|
C:IRI101
|
2.7
|
119.8
|
1.0
|
HN33
|
C:IRI101
|
2.7
|
154.0
|
1.0
|
HN11
|
C:IRI101
|
2.7
|
119.8
|
1.0
|
HN61
|
C:IRI101
|
2.7
|
121.8
|
1.0
|
HN13
|
C:IRI101
|
2.7
|
119.8
|
1.0
|
HN31
|
C:IRI101
|
2.7
|
154.0
|
1.0
|
HN42
|
C:IRI101
|
2.7
|
152.7
|
1.0
|
HN41
|
C:IRI101
|
2.7
|
152.7
|
1.0
|
HN43
|
C:IRI101
|
2.7
|
152.7
|
1.0
|
HN52
|
C:IRI101
|
2.7
|
137.3
|
1.0
|
HN51
|
C:IRI101
|
2.7
|
137.3
|
1.0
|
HN53
|
C:IRI101
|
2.7
|
137.3
|
1.0
|
O6
|
C:G44
|
4.1
|
60.0
|
1.0
|
O4
|
C:U45
|
4.3
|
58.2
|
1.0
|
O
|
C:HOH245
|
4.6
|
96.7
|
1.0
|
N7
|
C:G44
|
4.7
|
50.6
|
1.0
|
N6
|
C:A3
|
4.9
|
65.8
|
1.0
|
C6
|
C:G44
|
4.9
|
55.8
|
1.0
|
|
Iridium binding site 9 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 9 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 9 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ir102
b:61.5
occ:1.00
|
IR
|
C:IRI102
|
0.0
|
61.5
|
1.0
|
N5
|
C:IRI102
|
2.2
|
55.3
|
1.0
|
N6
|
C:IRI102
|
2.2
|
58.7
|
1.0
|
N1
|
C:IRI102
|
2.2
|
50.4
|
1.0
|
N2
|
C:IRI102
|
2.3
|
45.6
|
1.0
|
N4
|
C:IRI102
|
2.3
|
50.7
|
1.0
|
N3
|
C:IRI102
|
2.3
|
57.7
|
1.0
|
HN63
|
C:IRI102
|
2.7
|
70.4
|
1.0
|
HN52
|
C:IRI102
|
2.7
|
66.3
|
1.0
|
HN51
|
C:IRI102
|
2.7
|
66.3
|
1.0
|
HN61
|
C:IRI102
|
2.7
|
70.4
|
1.0
|
HN62
|
C:IRI102
|
2.7
|
70.4
|
1.0
|
HN53
|
C:IRI102
|
2.7
|
66.3
|
1.0
|
HN12
|
C:IRI102
|
2.7
|
60.4
|
1.0
|
HN13
|
C:IRI102
|
2.7
|
60.4
|
1.0
|
HN11
|
C:IRI102
|
2.7
|
60.4
|
1.0
|
HN21
|
C:IRI102
|
2.7
|
54.6
|
1.0
|
HN23
|
C:IRI102
|
2.7
|
54.6
|
1.0
|
HN22
|
C:IRI102
|
2.7
|
54.6
|
1.0
|
HN42
|
C:IRI102
|
2.7
|
60.8
|
1.0
|
HN43
|
C:IRI102
|
2.7
|
60.8
|
1.0
|
HN41
|
C:IRI102
|
2.7
|
60.8
|
1.0
|
HN33
|
C:IRI102
|
2.7
|
69.2
|
1.0
|
HN31
|
C:IRI102
|
2.7
|
69.2
|
1.0
|
HN32
|
C:IRI102
|
2.7
|
69.2
|
1.0
|
O
|
C:HOH224
|
3.6
|
62.5
|
1.0
|
O
|
C:HOH242
|
3.6
|
57.5
|
1.0
|
O
|
C:HOH294
|
4.0
|
49.1
|
1.0
|
OP2
|
C:A20
|
4.1
|
41.9
|
1.0
|
O6
|
C:G23
|
4.1
|
59.1
|
1.0
|
N7
|
C:G23
|
4.1
|
58.1
|
1.0
|
O
|
C:HOH240
|
4.3
|
55.6
|
1.0
|
O6
|
C:G24
|
4.3
|
68.2
|
1.0
|
C6
|
C:G23
|
4.8
|
58.0
|
1.0
|
C5
|
C:G23
|
4.9
|
55.4
|
1.0
|
O6
|
C:G38
|
4.9
|
57.0
|
1.0
|
N4
|
C:C39
|
5.0
|
61.4
|
1.0
|
|
Iridium binding site 10 out
of 15 in 9bun
Go back to
Iridium Binding Sites List in 9bun
Iridium binding site 10 out
of 15 in the Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine
Mono view
Stereo pair view
|
A full contact list of Iridium with other atoms in the Ir binding
site number 10 of Rhobast Aptamer Rna in Complex with 5(6)-Carboxytetramethylrhodamine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ir103
b:134.3
occ:1.00
|
IR
|
C:IRI103
|
0.0
|
134.3
|
1.0
|
N5
|
C:IRI103
|
2.2
|
73.7
|
1.0
|
N6
|
C:IRI103
|
2.2
|
89.2
|
1.0
|
N1
|
C:IRI103
|
2.3
|
104.0
|
1.0
|
N2
|
C:IRI103
|
2.3
|
87.7
|
1.0
|
N3
|
C:IRI103
|
2.3
|
58.0
|
1.0
|
N4
|
C:IRI103
|
2.3
|
71.7
|
1.0
|
HN53
|
C:IRI103
|
2.7
|
88.3
|
1.0
|
HN52
|
C:IRI103
|
2.7
|
88.3
|
1.0
|
HN51
|
C:IRI103
|
2.7
|
88.3
|
1.0
|
HN61
|
C:IRI103
|
2.7
|
107.0
|
1.0
|
HN63
|
C:IRI103
|
2.7
|
107.0
|
1.0
|
HN62
|
C:IRI103
|
2.7
|
107.0
|
1.0
|
HN13
|
C:IRI103
|
2.7
|
124.7
|
1.0
|
HN23
|
C:IRI103
|
2.7
|
105.2
|
1.0
|
HN12
|
C:IRI103
|
2.7
|
124.7
|
1.0
|
HN21
|
C:IRI103
|
2.7
|
105.2
|
1.0
|
HN32
|
C:IRI103
|
2.7
|
69.5
|
1.0
|
HN22
|
C:IRI103
|
2.7
|
105.2
|
1.0
|
HN31
|
C:IRI103
|
2.7
|
69.5
|
1.0
|
HN33
|
C:IRI103
|
2.7
|
69.5
|
1.0
|
HN11
|
C:IRI103
|
2.7
|
124.7
|
1.0
|
HN43
|
C:IRI103
|
2.7
|
86.0
|
1.0
|
HN41
|
C:IRI103
|
2.7
|
86.0
|
1.0
|
HN42
|
C:IRI103
|
2.7
|
86.0
|
1.0
|
O6
|
C:G18
|
3.7
|
37.0
|
1.0
|
OP2
|
C:G15
|
3.8
|
45.7
|
1.0
|
O
|
C:HOH227
|
4.3
|
51.7
|
1.0
|
O
|
C:HOH215
|
4.4
|
39.3
|
1.0
|
O
|
C:HOH212
|
4.6
|
62.4
|
1.0
|
C6
|
C:G18
|
4.7
|
33.9
|
1.0
|
O
|
C:HOH311
|
4.8
|
71.1
|
1.0
|
O
|
C:HOH250
|
4.9
|
79.8
|
1.0
|
N7
|
C:G15
|
5.0
|
34.3
|
1.0
|
|
Reference:
R.T.Batey,
S.H.Siwik.
Structure of Rhobast Rna Aptamer in Complex with 5(6)-Carboxytetramethylrhodamine (Tamra) To Be Published.
Page generated: Mon Aug 12 03:55:53 2024
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