Magnesium in PDB 1m1k: Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Protein crystallography data
The structure of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui, PDB code: 1m1k
was solved by
J.L.Hansen,
J.A.Ippolito,
N.Ban,
P.Nissen,
P.B.Moore,
T.A.Steitz,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
20.00 /
3.20
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
213.751,
301.566,
574.436,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
21.4 /
25
|
Other elements in 1m1k:
The structure of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui also contains other interesting chemical elements:
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
30;
Page 4, Binding sites: 31 -
40;
Page 5, Binding sites: 41 -
50;
Page 6, Binding sites: 51 -
60;
Page 7, Binding sites: 61 -
70;
Page 8, Binding sites: 71 -
80;
Page 9, Binding sites: 81 -
90;
Page 10, Binding sites: 91 -
100;
Page 11, Binding sites: 101 -
110;
Page 12, Binding sites: 111 -
117;
Binding sites:
The binding sites of Magnesium atom in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
(pdb code 1m1k). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 117 binding sites of Magnesium where determined in the
Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui, PDB code: 1m1k:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 1 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8001
b:41.6
occ:1.00
|
O
|
A:HOH8771
|
1.6
|
56.8
|
1.0
|
O
|
A:HOH7366
|
1.8
|
29.2
|
1.0
|
O
|
A:HOH3211
|
2.2
|
31.9
|
1.0
|
OP2
|
A:C2533
|
2.2
|
32.7
|
1.0
|
OP2
|
A:C2534
|
2.3
|
37.7
|
1.0
|
OP2
|
A:A2483
|
2.4
|
43.1
|
1.0
|
O3'
|
A:G2482
|
3.3
|
42.1
|
1.0
|
P
|
A:A2483
|
3.4
|
43.6
|
1.0
|
O
|
A:HOH9234
|
3.5
|
55.5
|
1.0
|
P
|
A:C2533
|
3.5
|
35.1
|
1.0
|
P
|
A:C2534
|
3.8
|
38.6
|
1.0
|
O2'
|
A:A2532
|
3.8
|
42.7
|
1.0
|
O3'
|
A:A2532
|
3.9
|
37.1
|
1.0
|
OP2
|
A:U2484
|
4.0
|
47.6
|
1.0
|
O2'
|
A:G2482
|
4.1
|
45.3
|
1.0
|
OP1
|
A:A2483
|
4.2
|
44.7
|
1.0
|
O
|
A:HOH5972
|
4.4
|
59.3
|
1.0
|
O5'
|
A:C2533
|
4.4
|
32.7
|
1.0
|
O
|
A:HOH3922
|
4.5
|
63.1
|
1.0
|
OP1
|
A:C2534
|
4.5
|
36.2
|
1.0
|
O5'
|
A:A2483
|
4.6
|
43.7
|
1.0
|
C3'
|
A:G2482
|
4.6
|
43.2
|
1.0
|
O3'
|
A:C2533
|
4.6
|
35.5
|
1.0
|
OP1
|
A:C2533
|
4.6
|
37.1
|
1.0
|
O
|
A:HOH7074
|
4.6
|
31.9
|
1.0
|
O5'
|
A:C2534
|
4.7
|
36.0
|
1.0
|
C3'
|
A:C2533
|
4.8
|
34.8
|
1.0
|
C2'
|
A:G2482
|
4.8
|
42.9
|
1.0
|
C5'
|
A:A2483
|
4.8
|
43.4
|
1.0
|
C2'
|
A:A2532
|
4.8
|
41.4
|
1.0
|
C3'
|
A:A2532
|
4.9
|
39.9
|
1.0
|
C1'
|
A:G2482
|
4.9
|
42.8
|
1.0
|
C5
|
A:C2534
|
4.9
|
49.8
|
1.0
|
|
Magnesium binding site 2 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 2 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8002
b:43.6
occ:1.00
|
O
|
A:HOH3922
|
1.9
|
63.1
|
1.0
|
O
|
A:HOH7344
|
1.9
|
16.5
|
1.0
|
OP1
|
A:A2483
|
2.0
|
44.7
|
1.0
|
O6
|
A:G627
|
2.0
|
36.2
|
1.0
|
O
|
A:HOH7345
|
2.1
|
52.4
|
1.0
|
OP1
|
A:C2534
|
2.1
|
36.2
|
1.0
|
P
|
A:A2483
|
3.2
|
43.6
|
1.0
|
C6
|
A:G627
|
3.2
|
36.6
|
1.0
|
P
|
A:C2534
|
3.4
|
38.6
|
1.0
|
OP2
|
A:A2483
|
3.7
|
43.1
|
1.0
|
O4
|
A:U626
|
3.8
|
45.9
|
1.0
|
N1
|
A:G627
|
3.9
|
37.0
|
1.0
|
OP2
|
A:C2534
|
3.9
|
37.7
|
1.0
|
O5'
|
A:A2483
|
4.1
|
43.7
|
1.0
|
O
|
A:HOH5476
|
4.1
|
56.3
|
1.0
|
O
|
A:HOH6694
|
4.1
|
66.4
|
1.0
|
O3'
|
A:C2533
|
4.1
|
35.5
|
1.0
|
O
|
A:HOH8852
|
4.2
|
18.2
|
1.0
|
O2'
|
A:U625
|
4.3
|
31.9
|
1.0
|
O3'
|
A:G2482
|
4.4
|
42.1
|
1.0
|
OP2
|
A:U2535
|
4.4
|
46.0
|
1.0
|
C5
|
A:G627
|
4.4
|
37.5
|
1.0
|
C4
|
A:U626
|
4.4
|
43.1
|
1.0
|
C5
|
A:U626
|
4.5
|
42.1
|
1.0
|
O5'
|
A:C2534
|
4.6
|
36.0
|
1.0
|
O
|
A:HOH3125
|
4.6
|
55.5
|
1.0
|
C3'
|
A:G2482
|
4.8
|
43.2
|
1.0
|
N7
|
A:G627
|
4.9
|
37.9
|
1.0
|
|
Magnesium binding site 3 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 3 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8003
b:26.2
occ:1.00
|
OP1
|
A:A2624
|
1.8
|
38.3
|
1.0
|
O
|
A:HOH3260
|
2.0
|
37.5
|
1.0
|
OP2
|
A:G877
|
2.1
|
33.1
|
1.0
|
OP2
|
A:A876
|
2.1
|
34.5
|
1.0
|
O
|
C:HOH8512
|
2.3
|
39.5
|
1.0
|
O
|
C:HOH8537
|
2.6
|
34.1
|
1.0
|
P
|
A:A2624
|
3.2
|
41.0
|
1.0
|
P
|
A:G877
|
3.3
|
34.5
|
1.0
|
P
|
A:A876
|
3.5
|
37.3
|
1.0
|
O3'
|
A:G2623
|
3.7
|
40.5
|
1.0
|
OP1
|
A:G877
|
3.8
|
31.5
|
1.0
|
O5'
|
A:A876
|
4.0
|
36.2
|
1.0
|
O
|
A:HOH5874
|
4.0
|
87.6
|
1.0
|
O3'
|
A:A876
|
4.1
|
32.4
|
1.0
|
OP2
|
A:A2624
|
4.1
|
40.9
|
1.0
|
O3'
|
A:A875
|
4.1
|
34.9
|
1.0
|
O
|
A:HOH6754
|
4.2
|
71.8
|
1.0
|
O5'
|
A:A2624
|
4.2
|
40.5
|
1.0
|
C5'
|
A:A876
|
4.2
|
34.1
|
1.0
|
OD1
|
C:ASN195
|
4.4
|
46.8
|
1.0
|
C5'
|
A:A2624
|
4.4
|
42.6
|
1.0
|
O
|
A:HOH4075
|
4.5
|
36.4
|
1.0
|
O5'
|
A:G877
|
4.5
|
33.1
|
1.0
|
O
|
A:HOH8617
|
4.5
|
61.0
|
1.0
|
O
|
C:HOH8627
|
4.5
|
52.6
|
1.0
|
C3'
|
A:A876
|
4.6
|
32.5
|
1.0
|
O
|
C:ALA193
|
4.6
|
38.5
|
1.0
|
OP1
|
A:A876
|
4.6
|
35.2
|
1.0
|
O
|
C:HOH8547
|
4.8
|
63.4
|
1.0
|
C4'
|
A:A876
|
4.9
|
33.1
|
1.0
|
|
Magnesium binding site 4 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 4 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8004
b:60.8
occ:1.00
|
OP1
|
A:A459
|
1.6
|
38.5
|
1.0
|
O
|
A:HOH8643
|
1.7
|
41.6
|
1.0
|
O
|
A:HOH9375
|
1.8
|
38.9
|
1.0
|
O6
|
A:G456
|
2.1
|
41.0
|
1.0
|
O
|
A:HOH3377
|
2.2
|
23.3
|
1.0
|
O
|
A:HOH7351
|
2.5
|
40.4
|
1.0
|
P
|
A:A459
|
3.0
|
39.9
|
1.0
|
C6
|
A:G456
|
3.3
|
40.8
|
1.0
|
O5'
|
A:A459
|
3.7
|
39.6
|
1.0
|
OP2
|
A:A459
|
3.9
|
40.0
|
1.0
|
C5'
|
A:A459
|
3.9
|
39.2
|
1.0
|
O3'
|
A:G458
|
4.0
|
40.7
|
1.0
|
C5
|
A:G456
|
4.1
|
39.0
|
1.0
|
N7
|
A:G456
|
4.1
|
38.1
|
1.0
|
O
|
A:HOH8925
|
4.2
|
45.8
|
1.0
|
O
|
A:HOH5561
|
4.2
|
57.7
|
1.0
|
OP1
|
A:A460
|
4.3
|
42.7
|
1.0
|
CE
|
E:LYS85
|
4.3
|
34.8
|
1.0
|
N1
|
A:G456
|
4.4
|
40.9
|
1.0
|
OP2
|
A:A455
|
4.4
|
35.6
|
1.0
|
OP1
|
A:A477
|
4.5
|
39.8
|
1.0
|
NZ
|
E:LYS85
|
4.5
|
34.6
|
1.0
|
O
|
A:HOH3298
|
4.6
|
25.9
|
1.0
|
O
|
A:HOH3111
|
4.6
|
41.9
|
1.0
|
CD
|
E:LYS85
|
4.8
|
36.6
|
1.0
|
OP2
|
A:A477
|
4.8
|
40.7
|
1.0
|
N7
|
A:A455
|
4.8
|
41.7
|
1.0
|
O
|
A:HOH5001
|
4.8
|
29.2
|
1.0
|
O
|
A:HOH7352
|
4.9
|
22.8
|
1.0
|
|
Magnesium binding site 5 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 5 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8005
b:60.2
occ:1.00
|
O
|
A:HOH7367
|
1.8
|
17.9
|
1.0
|
OP2
|
A:A1839
|
1.9
|
28.2
|
1.0
|
O
|
A:HOH3207
|
2.0
|
32.7
|
1.0
|
OP1
|
A:U1838
|
2.0
|
39.2
|
1.0
|
O
|
A:HOH7368
|
2.0
|
53.4
|
1.0
|
OP1
|
A:A1836
|
2.1
|
35.9
|
1.0
|
P
|
A:A1839
|
3.3
|
32.1
|
1.0
|
P
|
A:U1838
|
3.4
|
40.8
|
1.0
|
P
|
A:A1836
|
3.5
|
37.7
|
1.0
|
O
|
A:HOH5155
|
3.7
|
64.9
|
1.0
|
O
|
A:HOH8606
|
3.9
|
47.1
|
1.0
|
OP2
|
A:U1838
|
4.0
|
39.7
|
1.0
|
O
|
A:HOH5096
|
4.1
|
35.7
|
1.0
|
O
|
A:HOH9230
|
4.1
|
55.4
|
1.0
|
O5'
|
A:A1839
|
4.1
|
30.7
|
1.0
|
O3'
|
A:U1838
|
4.1
|
33.2
|
1.0
|
OP1
|
A:A1839
|
4.2
|
31.5
|
1.0
|
O5'
|
A:U1838
|
4.3
|
34.9
|
1.0
|
C2'
|
A:U1835
|
4.3
|
37.7
|
1.0
|
O5'
|
A:A1836
|
4.3
|
38.0
|
1.0
|
O
|
A:HOH9104
|
4.3
|
42.9
|
1.0
|
O3'
|
A:U1835
|
4.3
|
37.0
|
1.0
|
C3'
|
A:G1837
|
4.4
|
46.1
|
1.0
|
O3'
|
A:G1837
|
4.4
|
40.6
|
1.0
|
OP2
|
A:A1836
|
4.4
|
37.0
|
1.0
|
C3'
|
A:U1835
|
4.4
|
37.5
|
1.0
|
C3'
|
A:U1838
|
4.5
|
30.4
|
1.0
|
N7
|
A:A1839
|
4.5
|
34.4
|
1.0
|
O
|
A:HOH7444
|
4.6
|
43.8
|
1.0
|
C8
|
A:A1839
|
4.6
|
33.6
|
1.0
|
C5'
|
A:U1838
|
4.6
|
30.7
|
1.0
|
OP2
|
A:G1837
|
4.7
|
42.9
|
1.0
|
O2'
|
A:U1835
|
4.8
|
41.0
|
1.0
|
|
Magnesium binding site 6 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 6 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8006
b:55.0
occ:1.00
|
OP2
|
A:C822
|
1.7
|
49.2
|
1.0
|
O
|
A:HOH9409
|
1.8
|
53.9
|
1.0
|
O
|
A:HOH3349
|
2.0
|
59.5
|
1.0
|
OP2
|
A:U821
|
2.1
|
47.9
|
1.0
|
OP1
|
A:G854
|
2.1
|
38.3
|
1.0
|
O
|
A:HOH3213
|
2.3
|
46.9
|
1.0
|
P
|
A:C822
|
3.2
|
49.5
|
1.0
|
P
|
A:G854
|
3.4
|
40.2
|
1.0
|
P
|
A:U821
|
3.4
|
48.8
|
1.0
|
OP1
|
A:G856
|
3.8
|
52.5
|
1.0
|
O5'
|
A:U821
|
3.8
|
49.4
|
1.0
|
O3'
|
A:U821
|
3.8
|
49.6
|
1.0
|
C3'
|
A:U821
|
3.9
|
49.1
|
1.0
|
O
|
A:HOH9804
|
4.0
|
47.4
|
1.0
|
OP2
|
A:G854
|
4.0
|
39.5
|
1.0
|
OP1
|
A:C822
|
4.0
|
49.0
|
1.0
|
O5'
|
A:G854
|
4.0
|
38.9
|
1.0
|
O5'
|
A:C822
|
4.2
|
47.0
|
1.0
|
NA
|
A:NA8327
|
4.3
|
44.4
|
1.0
|
O3'
|
A:G820
|
4.3
|
47.2
|
1.0
|
O
|
A:HOH4593
|
4.3
|
51.1
|
1.0
|
OP1
|
A:U855
|
4.3
|
48.3
|
1.0
|
C5'
|
A:G854
|
4.4
|
41.3
|
1.0
|
OP1
|
A:U821
|
4.5
|
48.0
|
1.0
|
O3'
|
A:C853
|
4.6
|
38.7
|
1.0
|
C5
|
A:C822
|
4.8
|
46.6
|
1.0
|
C2'
|
A:U821
|
4.9
|
48.5
|
1.0
|
C4'
|
A:U821
|
4.9
|
50.1
|
1.0
|
C5'
|
A:U821
|
4.9
|
50.9
|
1.0
|
O
|
A:HOH9326
|
4.9
|
67.5
|
1.0
|
|
Magnesium binding site 7 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 7 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8007
b:42.6
occ:1.00
|
O
|
A:HOH9956
|
1.8
|
22.3
|
1.0
|
O
|
A:HOH7356
|
1.8
|
37.0
|
1.0
|
OP1
|
A:A1839
|
2.0
|
31.5
|
1.0
|
OP2
|
A:U832
|
2.1
|
39.9
|
1.0
|
OP2
|
A:A1840
|
2.3
|
35.8
|
1.0
|
O
|
A:HOH8606
|
2.9
|
47.1
|
1.0
|
P
|
A:A1839
|
3.4
|
32.1
|
1.0
|
P
|
A:A1840
|
3.5
|
37.9
|
1.0
|
P
|
A:U832
|
3.5
|
41.0
|
1.0
|
O
|
A:HOH5949
|
3.6
|
65.2
|
1.0
|
O
|
A:HOH8697
|
3.7
|
39.8
|
1.0
|
O
|
A:HOH9230
|
3.8
|
55.4
|
1.0
|
OP1
|
A:A1840
|
3.8
|
37.5
|
1.0
|
O5'
|
A:U832
|
4.1
|
39.3
|
1.0
|
OP2
|
A:A1839
|
4.1
|
28.2
|
1.0
|
O3'
|
A:U1838
|
4.2
|
33.2
|
1.0
|
O3'
|
A:A1839
|
4.3
|
33.1
|
1.0
|
O
|
A:HOH7474
|
4.3
|
45.7
|
1.0
|
OP1
|
A:U832
|
4.3
|
40.6
|
1.0
|
O5'
|
A:A1839
|
4.4
|
30.7
|
1.0
|
OP2
|
A:G833
|
4.4
|
45.0
|
1.0
|
O
|
A:HOH7444
|
4.5
|
43.8
|
1.0
|
O3'
|
A:U831
|
4.5
|
39.5
|
1.0
|
C5'
|
A:A1839
|
4.5
|
30.4
|
1.0
|
C3'
|
A:A1839
|
4.6
|
31.8
|
1.0
|
O5'
|
A:A1840
|
4.7
|
36.6
|
1.0
|
C5'
|
A:U832
|
4.7
|
40.8
|
1.0
|
O
|
A:HOH7367
|
5.0
|
17.9
|
1.0
|
|
Magnesium binding site 8 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 8 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8008
b:61.9
occ:1.00
|
O
|
A:HOH7360
|
1.6
|
23.4
|
1.0
|
OP1
|
A:C2464
|
1.9
|
36.1
|
1.0
|
O
|
A:HOH3224
|
1.9
|
27.4
|
1.0
|
O
|
A:HOH7445
|
2.1
|
48.3
|
1.0
|
OP1
|
A:U919
|
2.2
|
33.9
|
1.0
|
OP1
|
A:A2465
|
2.3
|
38.8
|
1.0
|
P
|
A:U919
|
3.3
|
34.3
|
1.0
|
P
|
A:C2464
|
3.3
|
38.5
|
1.0
|
P
|
A:A2465
|
3.7
|
41.8
|
1.0
|
OP2
|
A:U919
|
3.8
|
35.7
|
1.0
|
O5'
|
A:U919
|
3.8
|
31.7
|
1.0
|
O
|
A:HOH9947
|
3.8
|
35.9
|
1.0
|
O
|
A:HOH9042
|
3.8
|
31.9
|
1.0
|
C5'
|
A:C2464
|
4.0
|
40.8
|
1.0
|
O5'
|
A:C2464
|
4.0
|
40.8
|
1.0
|
OP1
|
A:G2466
|
4.1
|
43.4
|
1.0
|
O5'
|
A:A2465
|
4.1
|
39.8
|
1.0
|
C5'
|
A:U919
|
4.2
|
31.6
|
1.0
|
OP2
|
A:C2464
|
4.2
|
38.3
|
1.0
|
O3'
|
A:A2463
|
4.3
|
39.7
|
1.0
|
O
|
A:HOH5488
|
4.3
|
76.3
|
1.0
|
OP2
|
A:A2465
|
4.6
|
40.8
|
1.0
|
O
|
A:HOH9520
|
4.6
|
65.1
|
1.0
|
O3'
|
A:G918
|
4.6
|
32.0
|
1.0
|
C3'
|
A:A2465
|
4.6
|
39.2
|
1.0
|
O3'
|
A:C2464
|
4.7
|
41.0
|
1.0
|
C5'
|
A:G2466
|
4.9
|
40.3
|
1.0
|
C5'
|
A:A2465
|
4.9
|
39.9
|
1.0
|
O
|
A:HOH9139
|
5.0
|
44.9
|
1.0
|
|
Magnesium binding site 9 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 9 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8009
b:46.4
occ:1.00
|
O
|
A:HOH7023
|
1.7
|
40.7
|
1.0
|
O
|
A:HOH7362
|
1.7
|
51.3
|
1.0
|
OP1
|
A:A2612
|
1.9
|
32.8
|
1.0
|
OP1
|
A:G2611
|
2.1
|
37.8
|
1.0
|
O
|
A:HOH3336
|
2.1
|
34.0
|
1.0
|
O
|
A:HOH7361
|
2.5
|
38.3
|
1.0
|
NA
|
A:NA8358
|
3.1
|
0.3
|
1.0
|
P
|
A:A2612
|
3.2
|
36.2
|
1.0
|
O
|
A:HOH8926
|
3.3
|
36.6
|
1.0
|
P
|
A:G2611
|
3.4
|
38.0
|
1.0
|
O3'
|
A:U2610
|
3.7
|
35.9
|
1.0
|
OP2
|
A:A2612
|
3.8
|
36.2
|
1.0
|
OP2
|
A:G2093
|
4.1
|
38.9
|
1.0
|
OP2
|
A:G2094
|
4.1
|
31.8
|
1.0
|
O
|
A:HOH8895
|
4.2
|
51.3
|
1.0
|
C5'
|
A:G2611
|
4.2
|
35.3
|
1.0
|
O5'
|
A:G2611
|
4.2
|
33.8
|
1.0
|
OP1
|
A:G2094
|
4.2
|
33.6
|
1.0
|
O5'
|
A:A2612
|
4.2
|
34.8
|
1.0
|
O3'
|
A:G2611
|
4.3
|
36.1
|
1.0
|
O
|
A:HOH9062
|
4.5
|
49.0
|
1.0
|
OP2
|
A:G2611
|
4.5
|
36.2
|
1.0
|
C3'
|
A:G2611
|
4.5
|
35.4
|
1.0
|
P
|
A:G2094
|
4.6
|
33.7
|
1.0
|
O
|
A:HOH7378
|
4.8
|
51.8
|
1.0
|
O
|
A:HOH9789
|
4.9
|
50.0
|
1.0
|
O
|
A:HOH3465
|
4.9
|
45.2
|
1.0
|
C4'
|
A:G2611
|
4.9
|
35.2
|
1.0
|
|
Magnesium binding site 10 out
of 117 in 1m1k
Go back to
Magnesium Binding Sites List in 1m1k
Magnesium binding site 10 out
of 117 in the Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Co-Crystal Structure of Azithromycin Bound to the 50S Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg8010
b:43.1
occ:1.00
|
OP1
|
A:G836
|
1.6
|
38.8
|
1.0
|
O
|
D:HOH8527
|
1.6
|
48.9
|
1.0
|
OE1
|
D:GLN230
|
1.8
|
35.1
|
1.0
|
O
|
A:HOH3434
|
2.4
|
29.3
|
1.0
|
O
|
A:HOH8953
|
2.5
|
57.9
|
1.0
|
OP1
|
A:U2615
|
2.5
|
32.9
|
1.0
|
CD
|
D:GLN230
|
3.0
|
33.5
|
1.0
|
P
|
A:G836
|
3.0
|
42.1
|
1.0
|
C5'
|
A:G836
|
3.5
|
36.9
|
1.0
|
O5'
|
A:G836
|
3.7
|
38.7
|
1.0
|
CG
|
D:GLN230
|
3.8
|
35.1
|
1.0
|
OP2
|
A:G836
|
3.9
|
42.3
|
1.0
|
NE2
|
D:GLN230
|
4.0
|
31.1
|
1.0
|
P
|
A:U2615
|
4.0
|
36.4
|
1.0
|
CB
|
D:GLN230
|
4.0
|
37.9
|
1.0
|
O3'
|
A:U835
|
4.1
|
40.6
|
1.0
|
C3'
|
A:U835
|
4.3
|
40.5
|
1.0
|
CA
|
D:GLN230
|
4.3
|
42.0
|
1.0
|
O
|
A:HOH4639
|
4.3
|
79.1
|
1.0
|
O
|
A:HOH6422
|
4.5
|
48.0
|
1.0
|
O
|
A:HOH3587
|
4.5
|
42.9
|
1.0
|
O
|
D:GLN230
|
4.6
|
42.8
|
1.0
|
C5'
|
A:U835
|
4.6
|
39.5
|
1.0
|
OP2
|
A:U2615
|
4.7
|
37.3
|
1.0
|
O
|
A:HOH8799
|
4.7
|
70.0
|
1.0
|
O3'
|
A:C2614
|
4.8
|
34.7
|
1.0
|
O5'
|
A:U2615
|
4.9
|
35.6
|
1.0
|
OP2
|
A:G2616
|
4.9
|
32.3
|
1.0
|
C4'
|
A:G836
|
4.9
|
34.1
|
1.0
|
C
|
D:GLN230
|
5.0
|
42.9
|
1.0
|
|
Reference:
J.L.Hansen,
J.A.Ippolito,
N.Ban,
P.Nissen,
P.B.Moore,
T.A.Steitz.
The Structures of Four Macrolide Antibiotics Bound to the Large Ribosomal Subunit. Mol.Cell V. 10 117 2002.
ISSN: ISSN 1097-2765
PubMed: 12150912
DOI: 10.1016/S1097-2765(02)00570-1
Page generated: Tue Aug 13 08:36:38 2024
|