Magnesium in PDB 3cc2: The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Protein crystallography data
The structure of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins, PDB code: 3cc2
was solved by
G.Gurel,
G.Blaha,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.95 /
2.40
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
211.646,
299.672,
573.773,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.9 /
23.1
|
Other elements in 3cc2:
The structure of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins 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 -
116;
Binding sites:
The binding sites of Magnesium atom in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
(pdb code 3cc2). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 116 binding sites of Magnesium where determined in the
The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins, PDB code: 3cc2:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 1 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8001
b:24.3
occ:1.00
|
OP2
|
0:C2534
|
1.9
|
27.3
|
1.0
|
O
|
0:HOH7340
|
2.1
|
19.1
|
1.0
|
O
|
0:HOH8701
|
2.1
|
29.5
|
1.0
|
OP2
|
0:C2533
|
2.1
|
31.3
|
1.0
|
O
|
0:HOH3169
|
2.1
|
19.6
|
1.0
|
OP2
|
0:A2483
|
2.2
|
27.9
|
1.0
|
P
|
0:A2483
|
3.3
|
26.8
|
1.0
|
O3'
|
0:G2482
|
3.3
|
28.4
|
1.0
|
P
|
0:C2534
|
3.4
|
27.7
|
1.0
|
P
|
0:C2533
|
3.5
|
28.8
|
1.0
|
O3'
|
0:A2532
|
3.9
|
27.5
|
1.0
|
O2'
|
0:A2532
|
4.0
|
26.8
|
1.0
|
O
|
0:HOH9175
|
4.0
|
37.7
|
1.0
|
OP1
|
0:A2483
|
4.1
|
29.1
|
1.0
|
O3'
|
0:C2533
|
4.2
|
25.8
|
1.0
|
O
|
0:HOH3887
|
4.2
|
28.4
|
1.0
|
OP2
|
0:U2484
|
4.2
|
31.8
|
1.0
|
O5'
|
0:C2533
|
4.2
|
30.6
|
1.0
|
O2'
|
0:G2482
|
4.2
|
23.6
|
1.0
|
OP1
|
0:C2534
|
4.2
|
27.9
|
1.0
|
O5'
|
0:C2534
|
4.3
|
25.2
|
1.0
|
C3'
|
0:C2533
|
4.4
|
25.1
|
1.0
|
O
|
0:HOH7048
|
4.4
|
32.8
|
1.0
|
O5'
|
0:A2483
|
4.5
|
29.0
|
1.0
|
O
|
0:HOH5942
|
4.5
|
47.9
|
1.0
|
OP1
|
0:C2533
|
4.6
|
29.1
|
1.0
|
C3'
|
0:G2482
|
4.6
|
26.5
|
1.0
|
C5'
|
0:A2483
|
4.7
|
25.6
|
1.0
|
C5
|
0:C2534
|
4.8
|
28.2
|
1.0
|
MG
|
0:MG8002
|
4.9
|
25.7
|
1.0
|
C2'
|
0:G2482
|
4.9
|
24.4
|
1.0
|
C3'
|
0:A2532
|
4.9
|
26.3
|
1.0
|
C2'
|
0:A2532
|
5.0
|
27.4
|
1.0
|
C5'
|
0:C2533
|
5.0
|
26.8
|
1.0
|
|
Magnesium binding site 2 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 2 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8002
b:25.7
occ:1.00
|
OP1
|
0:A2483
|
1.9
|
29.1
|
1.0
|
O
|
0:HOH3887
|
1.9
|
28.4
|
1.0
|
O6
|
0:G627
|
2.0
|
24.9
|
1.0
|
O
|
0:HOH7318
|
2.1
|
21.8
|
1.0
|
OP1
|
0:C2534
|
2.1
|
27.9
|
1.0
|
O
|
0:HOH7319
|
2.2
|
24.6
|
1.0
|
P
|
0:A2483
|
3.1
|
26.8
|
1.0
|
C6
|
0:G627
|
3.2
|
25.1
|
1.0
|
P
|
0:C2534
|
3.4
|
27.7
|
1.0
|
OP2
|
0:A2483
|
3.6
|
27.9
|
1.0
|
N1
|
0:G627
|
3.8
|
24.9
|
1.0
|
O
|
0:HOH6670
|
3.8
|
43.8
|
1.0
|
OP2
|
0:C2534
|
3.9
|
27.3
|
1.0
|
O4
|
0:U626
|
3.9
|
26.8
|
1.0
|
O5'
|
0:A2483
|
4.0
|
29.0
|
1.0
|
O
|
0:HOH8789
|
4.1
|
22.6
|
1.0
|
O3'
|
0:C2533
|
4.2
|
25.8
|
1.0
|
O
|
0:HOH5446
|
4.2
|
31.1
|
1.0
|
O3'
|
0:G2482
|
4.3
|
28.4
|
1.0
|
OP2
|
0:U2535
|
4.3
|
25.0
|
1.0
|
O2'
|
0:U625
|
4.3
|
20.1
|
1.0
|
C5
|
0:G627
|
4.4
|
24.7
|
1.0
|
O5'
|
0:C2534
|
4.5
|
25.2
|
1.0
|
C4
|
0:U626
|
4.5
|
26.5
|
1.0
|
C5
|
0:U626
|
4.5
|
27.1
|
1.0
|
O
|
0:HOH3079
|
4.6
|
44.6
|
1.0
|
C3'
|
0:G2482
|
4.7
|
26.5
|
1.0
|
MG
|
0:MG8001
|
4.9
|
24.3
|
1.0
|
C5'
|
0:C2534
|
4.9
|
24.7
|
1.0
|
N7
|
0:G627
|
4.9
|
25.3
|
1.0
|
|
Magnesium binding site 3 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 3 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8003
b:21.8
occ:1.00
|
OP1
|
0:A2624
|
2.0
|
18.9
|
1.0
|
O
|
A:HOH8512
|
2.1
|
14.2
|
1.0
|
OP2
|
0:G877
|
2.1
|
18.9
|
1.0
|
OP2
|
0:A876
|
2.1
|
21.8
|
1.0
|
O
|
0:HOH3219
|
2.2
|
19.2
|
1.0
|
O
|
A:HOH8532
|
2.3
|
18.5
|
1.0
|
P
|
0:G877
|
3.4
|
19.3
|
1.0
|
P
|
0:A2624
|
3.4
|
21.0
|
1.0
|
P
|
0:A876
|
3.5
|
23.9
|
1.0
|
OP1
|
0:G877
|
3.8
|
19.9
|
1.0
|
OD1
|
A:ASN195
|
4.0
|
18.1
|
1.0
|
O3'
|
0:G2623
|
4.0
|
18.0
|
1.0
|
O5'
|
0:A876
|
4.0
|
20.7
|
1.0
|
O3'
|
0:A875
|
4.1
|
20.6
|
1.0
|
O
|
0:HOH5846
|
4.1
|
28.7
|
1.0
|
O
|
0:HOH6732
|
4.3
|
42.5
|
1.0
|
O3'
|
0:A876
|
4.3
|
19.4
|
1.0
|
OP2
|
0:A2624
|
4.3
|
21.1
|
1.0
|
O
|
A:ALA193
|
4.3
|
21.2
|
1.0
|
C5'
|
0:A876
|
4.3
|
18.7
|
1.0
|
O
|
0:HOH8542
|
4.3
|
19.1
|
1.0
|
O
|
A:HOH8615
|
4.4
|
31.6
|
1.0
|
O5'
|
0:A2624
|
4.5
|
22.5
|
1.0
|
O
|
A:HOH8560
|
4.5
|
27.0
|
1.0
|
O5'
|
0:G877
|
4.6
|
20.3
|
1.0
|
C5'
|
0:A2624
|
4.7
|
22.2
|
1.0
|
OP1
|
0:A876
|
4.7
|
22.9
|
1.0
|
C3'
|
0:A876
|
4.7
|
21.6
|
1.0
|
O
|
A:HOH8541
|
4.7
|
35.8
|
1.0
|
CG
|
A:ASN195
|
4.8
|
17.2
|
1.0
|
O
|
A:HOH8621
|
5.0
|
13.1
|
1.0
|
|
Magnesium binding site 4 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 4 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8004
b:19.5
occ:1.00
|
OP1
|
0:A459
|
1.9
|
20.1
|
1.0
|
O
|
0:HOH8568
|
1.9
|
15.8
|
1.0
|
O
|
0:HOH3336
|
2.0
|
14.4
|
1.0
|
O6
|
0:G456
|
2.0
|
21.2
|
1.0
|
O
|
0:HOH9317
|
2.1
|
11.4
|
1.0
|
O
|
0:HOH7325
|
2.2
|
21.5
|
1.0
|
C6
|
0:G456
|
3.2
|
23.5
|
1.0
|
P
|
0:A459
|
3.2
|
22.8
|
1.0
|
O5'
|
0:A459
|
3.8
|
22.6
|
1.0
|
C5
|
0:G456
|
3.9
|
23.9
|
1.0
|
OP2
|
0:A459
|
4.0
|
21.9
|
1.0
|
N7
|
0:G456
|
4.0
|
21.2
|
1.0
|
C5'
|
0:A459
|
4.1
|
23.5
|
1.0
|
CE
|
C:LYS85
|
4.2
|
19.1
|
1.0
|
O
|
0:HOH8865
|
4.2
|
19.9
|
1.0
|
N1
|
0:G456
|
4.3
|
24.6
|
1.0
|
O
|
0:HOH5529
|
4.3
|
48.5
|
1.0
|
NZ
|
C:LYS85
|
4.3
|
19.4
|
1.0
|
O
|
0:HOH3256
|
4.3
|
30.1
|
1.0
|
O3'
|
0:G458
|
4.4
|
24.1
|
1.0
|
OP2
|
0:A455
|
4.4
|
21.1
|
1.0
|
OP1
|
0:A460
|
4.4
|
23.6
|
1.0
|
O
|
0:HOH3065
|
4.5
|
31.9
|
1.0
|
N7
|
0:A455
|
4.5
|
24.9
|
1.0
|
OP1
|
0:A477
|
4.6
|
24.0
|
1.0
|
O
|
0:HOH4973
|
4.6
|
28.8
|
1.0
|
CD
|
C:LYS85
|
4.8
|
19.9
|
1.0
|
OP2
|
0:A477
|
4.9
|
19.8
|
1.0
|
O
|
0:HOH7326
|
5.0
|
17.9
|
1.0
|
|
Magnesium binding site 5 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 5 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8005
b:25.3
occ:1.00
|
O
|
0:HOH7342
|
2.0
|
23.1
|
1.0
|
OP1
|
0:U1838
|
2.0
|
23.0
|
1.0
|
O
|
0:HOH7341
|
2.0
|
12.4
|
1.0
|
O
|
0:HOH3165
|
2.0
|
12.4
|
1.0
|
OP1
|
0:A1836
|
2.1
|
20.8
|
1.0
|
OP2
|
0:A1839
|
2.1
|
19.8
|
1.0
|
P
|
0:U1838
|
3.4
|
20.1
|
1.0
|
P
|
0:A1836
|
3.5
|
21.1
|
1.0
|
P
|
0:A1839
|
3.5
|
20.8
|
1.0
|
O
|
0:HOH5128
|
4.0
|
26.5
|
1.0
|
O
|
0:HOH8529
|
4.0
|
16.3
|
1.0
|
O
|
0:HOH5070
|
4.1
|
33.7
|
1.0
|
O3'
|
0:U1838
|
4.2
|
22.0
|
1.0
|
O5'
|
0:U1838
|
4.2
|
20.9
|
1.0
|
O5'
|
0:A1836
|
4.2
|
25.7
|
1.0
|
OP2
|
0:U1838
|
4.2
|
20.6
|
1.0
|
C3'
|
0:G1837
|
4.3
|
23.8
|
1.0
|
O5'
|
0:A1839
|
4.3
|
21.6
|
1.0
|
O
|
0:HOH9172
|
4.3
|
22.2
|
1.0
|
OP2
|
0:A1836
|
4.3
|
22.4
|
1.0
|
O3'
|
0:G1837
|
4.4
|
21.4
|
1.0
|
O
|
0:HOH7416
|
4.4
|
25.2
|
1.0
|
OP2
|
0:G1837
|
4.4
|
21.3
|
1.0
|
O
|
0:HOH9047
|
4.4
|
27.1
|
1.0
|
C2'
|
0:U1835
|
4.4
|
22.6
|
1.0
|
C5'
|
0:U1838
|
4.4
|
18.2
|
1.0
|
C3'
|
0:U1838
|
4.5
|
19.1
|
1.0
|
O3'
|
0:U1835
|
4.5
|
21.9
|
1.0
|
OP1
|
0:A1839
|
4.6
|
26.0
|
1.0
|
C3'
|
0:U1835
|
4.6
|
21.3
|
1.0
|
N7
|
0:A1839
|
4.7
|
21.0
|
1.0
|
O2'
|
0:U1835
|
4.8
|
26.1
|
1.0
|
C8
|
0:A1839
|
4.8
|
20.5
|
1.0
|
|
Magnesium binding site 6 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 6 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8006
b:30.0
occ:1.00
|
OP2
|
0:C822
|
1.9
|
30.2
|
1.0
|
OP2
|
0:U821
|
2.0
|
25.6
|
1.0
|
OP1
|
0:G854
|
2.0
|
27.2
|
1.0
|
O
|
0:HOH9350
|
2.0
|
24.8
|
1.0
|
O
|
0:HOH3171
|
2.1
|
25.9
|
1.0
|
O
|
0:HOH3307
|
2.4
|
33.6
|
1.0
|
P
|
0:G854
|
3.2
|
28.4
|
1.0
|
P
|
0:C822
|
3.3
|
30.7
|
1.0
|
P
|
0:U821
|
3.4
|
25.3
|
1.0
|
OP2
|
0:G854
|
3.8
|
26.8
|
1.0
|
O5'
|
0:G854
|
3.8
|
25.2
|
1.0
|
O5'
|
0:U821
|
3.9
|
31.0
|
1.0
|
NA
|
0:NA8327
|
3.9
|
36.8
|
1.0
|
O
|
0:HOH9749
|
3.9
|
33.5
|
1.0
|
OP1
|
0:G856
|
4.0
|
28.2
|
1.0
|
O3'
|
0:U821
|
4.0
|
30.0
|
1.0
|
C3'
|
0:U821
|
4.1
|
29.3
|
1.0
|
OP1
|
0:C822
|
4.1
|
29.8
|
1.0
|
OP1
|
0:U855
|
4.2
|
28.1
|
1.0
|
O3'
|
0:G820
|
4.2
|
27.2
|
1.0
|
C5'
|
0:G854
|
4.2
|
24.6
|
1.0
|
O5'
|
0:C822
|
4.4
|
30.7
|
1.0
|
OP1
|
0:U821
|
4.4
|
24.8
|
1.0
|
O3'
|
0:C853
|
4.4
|
27.3
|
1.0
|
O
|
0:HOH4558
|
4.5
|
29.5
|
1.0
|
O
|
0:HOH9268
|
4.9
|
42.8
|
1.0
|
C5'
|
0:U821
|
5.0
|
30.0
|
1.0
|
|
Magnesium binding site 7 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 7 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8007
b:21.9
occ:1.00
|
OP2
|
0:U832
|
2.0
|
24.0
|
1.0
|
OP1
|
0:A1839
|
2.0
|
26.0
|
1.0
|
O
|
0:HOH7330
|
2.1
|
12.1
|
1.0
|
O
|
0:HOH9903
|
2.1
|
25.8
|
1.0
|
OP2
|
0:A1840
|
2.2
|
17.7
|
1.0
|
O
|
0:HOH8529
|
2.3
|
16.3
|
1.0
|
P
|
0:A1839
|
3.3
|
20.8
|
1.0
|
P
|
0:U832
|
3.4
|
24.2
|
1.0
|
P
|
0:A1840
|
3.4
|
21.4
|
1.0
|
O
|
0:HOH5920
|
3.7
|
50.1
|
1.0
|
OP1
|
0:A1840
|
3.8
|
18.3
|
1.0
|
OP2
|
0:A1839
|
3.8
|
19.8
|
1.0
|
O
|
0:HOH8623
|
3.9
|
20.2
|
1.0
|
O5'
|
0:U832
|
4.0
|
24.0
|
1.0
|
O
|
0:HOH9172
|
4.0
|
22.2
|
1.0
|
OP1
|
0:U832
|
4.2
|
22.6
|
1.0
|
O3'
|
0:U1838
|
4.2
|
22.0
|
1.0
|
O3'
|
0:A1839
|
4.2
|
21.2
|
1.0
|
O5'
|
0:A1839
|
4.4
|
21.6
|
1.0
|
O3'
|
0:U831
|
4.4
|
23.0
|
1.0
|
O
|
0:HOH7448
|
4.5
|
36.9
|
1.0
|
O
|
0:HOH7416
|
4.5
|
25.2
|
1.0
|
C3'
|
0:A1839
|
4.6
|
20.6
|
1.0
|
O5'
|
0:A1840
|
4.6
|
19.7
|
1.0
|
C5'
|
0:A1839
|
4.7
|
20.9
|
1.0
|
C5'
|
0:U832
|
4.7
|
25.5
|
1.0
|
OP2
|
0:G833
|
4.8
|
23.6
|
1.0
|
C3'
|
0:U831
|
4.9
|
23.6
|
1.0
|
|
Magnesium binding site 8 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 8 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8008
b:26.6
occ:1.00
|
O
|
0:HOH7417
|
2.0
|
29.3
|
1.0
|
O
|
0:HOH7334
|
2.0
|
18.2
|
1.0
|
OP1
|
0:C2464
|
2.0
|
22.7
|
1.0
|
OP1
|
0:A2465
|
2.1
|
25.1
|
1.0
|
OP1
|
0:U919
|
2.1
|
20.2
|
1.0
|
O
|
0:HOH3183
|
2.1
|
24.7
|
1.0
|
P
|
0:U919
|
3.2
|
21.9
|
1.0
|
P
|
0:C2464
|
3.4
|
22.7
|
1.0
|
P
|
0:A2465
|
3.4
|
25.0
|
1.0
|
OP2
|
0:U919
|
3.6
|
22.3
|
1.0
|
O5'
|
0:U919
|
3.8
|
22.4
|
1.0
|
O5'
|
0:C2464
|
3.9
|
25.4
|
1.0
|
C5'
|
0:C2464
|
4.0
|
25.8
|
1.0
|
OP2
|
0:A2465
|
4.0
|
26.4
|
1.0
|
O5'
|
0:A2465
|
4.0
|
26.8
|
1.0
|
O
|
0:HOH9894
|
4.1
|
21.2
|
1.0
|
OP2
|
0:C2464
|
4.1
|
27.8
|
1.0
|
O
|
0:HOH8983
|
4.2
|
27.2
|
1.0
|
O
|
0:HOH5457
|
4.3
|
36.5
|
1.0
|
O
|
0:HOH9082
|
4.3
|
27.0
|
1.0
|
C5'
|
0:U919
|
4.3
|
21.6
|
1.0
|
O3'
|
0:A2463
|
4.5
|
27.0
|
1.0
|
O3'
|
0:G918
|
4.5
|
21.0
|
1.0
|
O3'
|
0:C2464
|
4.6
|
25.0
|
1.0
|
C3'
|
0:A2465
|
4.6
|
23.9
|
1.0
|
OP1
|
0:G2466
|
4.6
|
25.7
|
1.0
|
O
|
0:HOH9465
|
4.8
|
38.2
|
1.0
|
C5'
|
0:A2465
|
4.8
|
23.8
|
1.0
|
C2'
|
0:A2465
|
4.9
|
24.5
|
1.0
|
C3'
|
0:C2464
|
4.9
|
24.9
|
1.0
|
C4'
|
0:C2464
|
5.0
|
26.2
|
1.0
|
|
Magnesium binding site 9 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 9 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8009
b:25.2
occ:1.00
|
O
|
0:HOH7336
|
2.0
|
20.8
|
1.0
|
OP1
|
0:A2612
|
2.0
|
21.2
|
1.0
|
OP1
|
0:G2611
|
2.0
|
22.4
|
1.0
|
O
|
0:HOH3292
|
2.1
|
21.1
|
1.0
|
O
|
0:HOH7000
|
2.1
|
23.5
|
1.0
|
O
|
0:HOH7335
|
2.3
|
20.7
|
1.0
|
P
|
0:G2611
|
3.2
|
23.0
|
1.0
|
P
|
0:A2612
|
3.4
|
22.9
|
1.0
|
O3'
|
0:U2610
|
3.4
|
24.8
|
1.0
|
NA
|
0:NA8358
|
3.5
|
73.7
|
1.0
|
O
|
0:HOH8866
|
3.8
|
22.8
|
1.0
|
OP2
|
0:G2093
|
3.9
|
23.8
|
1.0
|
OP2
|
0:G2094
|
4.0
|
18.6
|
1.0
|
C5'
|
0:G2611
|
4.1
|
21.1
|
1.0
|
O5'
|
0:G2611
|
4.1
|
23.4
|
1.0
|
OP2
|
0:A2612
|
4.1
|
24.1
|
1.0
|
O
|
0:HOH9001
|
4.2
|
33.2
|
1.0
|
OP1
|
0:G2094
|
4.2
|
18.8
|
1.0
|
O3'
|
0:G2611
|
4.3
|
22.1
|
1.0
|
O
|
0:HOH8837
|
4.4
|
19.3
|
1.0
|
O5'
|
0:A2612
|
4.4
|
25.3
|
1.0
|
OP2
|
0:G2611
|
4.4
|
23.5
|
1.0
|
C3'
|
0:G2611
|
4.5
|
20.0
|
1.0
|
P
|
0:G2094
|
4.6
|
19.1
|
1.0
|
C3'
|
0:U2610
|
4.7
|
24.2
|
1.0
|
C4'
|
0:G2611
|
4.9
|
21.0
|
1.0
|
C4'
|
0:U2610
|
4.9
|
25.1
|
1.0
|
O
|
0:HOH7351
|
4.9
|
30.2
|
1.0
|
|
Magnesium binding site 10 out
of 116 in 3cc2
Go back to
Magnesium Binding Sites List in 3cc2
Magnesium binding site 10 out
of 116 in the The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of The Refined Crystal Structure of the Haloarcula Marismortui Large Ribosomal Subunit at 2.4 Angstrom Resolution with Rrna Sequence For the 23S Rrna and Genome-Derived Sequences For R-Proteins within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
0:Mg8010
b:24.4
occ:1.00
|
OP1
|
0:G836
|
1.9
|
20.7
|
1.0
|
O
|
0:HOH3393
|
2.0
|
25.9
|
1.0
|
OP1
|
0:U2615
|
2.1
|
19.1
|
1.0
|
O
|
B:HOH8524
|
2.1
|
17.7
|
1.0
|
OE1
|
B:GLN230
|
2.2
|
24.2
|
1.0
|
O
|
0:HOH8894
|
2.2
|
19.2
|
1.0
|
CD
|
B:GLN230
|
3.3
|
23.9
|
1.0
|
P
|
0:G836
|
3.4
|
24.2
|
1.0
|
P
|
0:U2615
|
3.5
|
18.9
|
1.0
|
CG
|
B:GLN230
|
4.0
|
21.8
|
1.0
|
O
|
0:HOH4604
|
4.0
|
33.3
|
1.0
|
CB
|
B:GLN230
|
4.0
|
22.5
|
1.0
|
C5'
|
0:G836
|
4.1
|
24.6
|
1.0
|
O5'
|
0:G836
|
4.2
|
25.3
|
1.0
|
OP2
|
0:G836
|
4.2
|
23.1
|
1.0
|
O3'
|
0:U835
|
4.3
|
22.5
|
1.0
|
OP2
|
0:U2615
|
4.3
|
21.9
|
1.0
|
C3'
|
0:U835
|
4.3
|
22.1
|
1.0
|
O
|
0:HOH8731
|
4.4
|
19.7
|
1.0
|
O5'
|
0:U2615
|
4.4
|
20.2
|
1.0
|
O3'
|
0:C2614
|
4.4
|
19.4
|
1.0
|
O
|
0:HOH6398
|
4.4
|
42.3
|
1.0
|
NE2
|
B:GLN230
|
4.5
|
20.8
|
1.0
|
O
|
0:HOH3547
|
4.5
|
34.9
|
1.0
|
CA
|
B:GLN230
|
4.5
|
22.7
|
1.0
|
OP2
|
0:G2616
|
4.6
|
23.6
|
1.0
|
O
|
B:GLN230
|
4.7
|
22.5
|
1.0
|
N2
|
0:G2616
|
4.7
|
25.0
|
1.0
|
C5'
|
0:U835
|
4.7
|
23.1
|
1.0
|
C5'
|
0:U2615
|
4.8
|
18.1
|
1.0
|
O
|
0:HOH9084
|
4.9
|
35.2
|
1.0
|
|
Reference:
G.Blaha,
G.Gurel,
S.J.Schroeder,
P.B.Moore,
T.A.Steitz.
Mutations Outside the Anisomycin-Binding Site Can Make Ribosomes Drug-Resistant. J.Mol.Biol. V. 379 505 2008.
ISSN: ISSN 0022-2836
PubMed: 18455733
DOI: 10.1016/J.JMB.2008.03.075
Page generated: Wed Aug 14 09:35:24 2024
|