Atomistry » Strontium » PDB 2hdf-3i5a » 3cce
Atomistry »
  Strontium »
    PDB 2hdf-3i5a »
      3cce »

Strontium in PDB 3cce: Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A

Protein crystallography data

The structure of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A, PDB code: 3cce was solved by G.Blaha, G.Gurel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.33 / 2.75
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 212.832, 299.896, 576.013, 90.00, 90.00, 90.00
R / Rfree (%) 18.3 / 23.2

Other elements in 3cce:

The structure of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A also contains other interesting chemical elements:

Magnesium (Mg) 93 atoms
Potassium (K) 2 atoms
Cadmium (Cd) 5 atoms
Chlorine (Cl) 22 atoms
Sodium (Na) 75 atoms

Strontium 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 - 108;

Binding sites:

The binding sites of Strontium atom in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A (pdb code 3cce). This binding sites where shown within 5.0 Angstroms radius around Strontium atom.
In total 108 binding sites of Strontium where determined in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A, PDB code: 3cce:
Jump to Strontium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Strontium binding site 1 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 1 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 1 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8901

b:78.4
occ:1.00
 N7 0:G854 2.4 27.2 1.0
N7 0:G824 2.6 32.2 1.0
O 0:HOH4454 2.6 32.0 1.0
O 0:HOH4563 2.6 54.1 1.0
O 0:HOH4314 2.7 25.1 1.0
C8 0:G854 3.0 26.2 1.0
OP2 0:G854 3.4 29.8 1.0
C8 0:G824 3.4 32.7 1.0
C5 0:G824 3.6 32.0 1.0
C5 0:G854 3.6 27.5 1.0
O6 0:G824 3.8 34.5 1.0
OP2 0:U823 4.0 32.1 1.0
O 0:HOH3986 4.0 64.7 1.0
C6 0:G824 4.1 32.9 1.0
O6 0:G854 4.3 29.2 1.0
N9 0:G854 4.3 26.7 1.0
C6 0:G854 4.4 28.3 1.0
O5' 0:G854 4.4 28.7 1.0
O 0:HOH9830 4.4 41.5 1.0
P 0:G854 4.5 30.1 1.0
OP2 0:C853 4.5 35.4 1.0
OP2 0:G824 4.6 35.9 1.0
N9 0:G824 4.6 32.6 1.0
C4 0:G854 4.6 27.8 1.0
C4 0:G824 4.7 31.8 1.0
O 0:HOH9321 4.8 41.3 1.0
C5 0:U823 4.9 36.2 1.0

Strontium binding site 2 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 2 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 2 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8902

b:54.1
occ:1.00
 OP1 0:G836 2.4 28.2 1.0
OP1 0:U2615 2.4 33.7 1.0
O B:HOH8992 2.5 52.6 1.0
O 0:HOH3862 2.7 35.5 1.0
OE1 B:GLN230 2.7 30.8 1.0
O 0:HOH9375 2.9 34.2 1.0
CD B:GLN230 3.7 29.9 1.0
P 0:U2615 3.8 31.0 1.0
P 0:G836 3.8 30.0 1.0
O 0:HOH4019 4.0 44.1 1.0
O 0:HOH9566 4.0 42.3 1.0
O 0:HOH5076 4.0 55.6 1.0
CB B:GLN230 4.1 31.1 1.0
O 0:HOH6866 4.1 33.2 1.0
CG B:GLN230 4.2 30.4 1.0
O 0:HOH9217 4.4 26.4 1.0
C5' 0:G836 4.4 26.6 1.0
OP2 0:U2615 4.4 31.7 1.0
O3' 0:C2614 4.5 30.5 1.0
OP2 0:G836 4.5 28.6 1.0
O5' 0:G836 4.5 27.1 1.0
C3' 0:U835 4.7 26.7 1.0
O B:GLN230 4.7 32.6 1.0
CA B:GLN230 4.7 31.4 1.0
O3' 0:U835 4.7 28.3 1.0
N2 0:G2616 4.7 24.2 1.0
O5' 0:U2615 4.8 29.2 1.0
OP2 0:G2616 4.9 27.4 1.0
NE2 B:GLN230 4.9 29.7 1.0
O 0:HOH9069 5.0 21.4 1.0

Strontium binding site 3 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 3 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 3 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8903

b:53.7
occ:1.00
 O6 0:G1491 2.4 37.6 1.0
OP2 0:G1489 2.6 35.9 1.0
O 0:HOH3984 2.7 58.7 1.0
O 0:HOH6211 2.7 27.1 1.0
O 0:HOH3654 2.7 40.2 1.0
O 0:HOH9407 2.8 30.4 1.0
C6 0:G1491 3.6 36.3 1.0
P 0:G1489 3.8 37.0 1.0
OP1 0:G1489 4.1 38.9 1.0
OP2 0:A1487 4.2 28.4 1.0
O 0:HOH9171 4.4 36.3 1.0
O 0:HOH6330 4.4 21.0 1.0
C5 0:G1491 4.5 36.5 1.0
N7 0:G1491 4.6 37.8 1.0
N7 0:G1490 4.6 29.2 1.0
N1 0:G1491 4.7 32.9 1.0
O5' 0:G1489 4.7 33.5 1.0
OP1 0:G1453 4.7 38.0 1.0
OP2 0:G1490 4.8 32.0 1.0
O3' 0:U1488 4.9 37.2 1.0
O 0:HOH3078 5.0 48.8 1.0

Strontium binding site 4 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 4 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 4 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8904

b:49.6
occ:1.00
 OP1 0:G1354 2.5 27.5 1.0
O 0:HOH9444 2.7 17.7 1.0
OP2 0:A643 2.8 27.5 1.0
O 0:HOH6623 2.9 20.1 1.0
O 0:HOH7609 3.1 59.8 1.0
OP1 0:C1353 3.7 36.9 1.0
P 0:A643 3.7 26.1 1.0
OP1 0:A643 3.7 28.5 1.0
P 0:G1354 3.7 26.3 1.0
O5' 0:C1353 3.8 35.5 1.0
O3' 0:C1353 3.9 28.4 1.0
C5' 0:C1353 4.3 31.6 1.0
OP1 0:G642 4.4 31.3 1.0
P 0:C1353 4.4 40.2 1.0
O4 0:U904 4.5 30.9 1.0
O5' 0:A643 4.5 24.6 1.0
N3 0:U904 4.6 28.7 1.0
OP2 0:G1354 4.6 26.2 1.0
OP2 0:G642 4.6 31.2 1.0
C3' 0:C1353 4.7 29.1 1.0
N1 0:A1355 4.7 27.5 1.0
P 0:G642 4.8 29.5 1.0
O5' 0:G642 4.9 30.7 1.0
O5' 0:G1354 4.9 25.4 1.0
N6 0:A1355 4.9 24.5 1.0
O 0:HOH3282 5.0 35.4 1.0
O2' 0:A1352 5.0 42.1 1.0

Strontium binding site 5 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 5 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 5 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8905

b:55.7
occ:1.00
 O 0:HOH7627 2.7 34.1 1.0
OP1 0:A1755 2.8 33.2 1.0
O 0:HOH6632 3.3 81.3 1.0
O 0:HOH7205 3.3 24.4 1.0
O3' 0:A1754 3.7 28.9 1.0
P 0:A1755 3.9 31.6 1.0
OP2 0:C1738 4.5 39.1 1.0
OP1 0:C1738 4.6 34.6 1.0
N2 0:G834 4.7 34.5 1.0
O 0:HOH3172 4.8 24.0 1.0
O2' 0:G834 4.8 26.5 1.0
C5' 0:A1755 4.9 33.1 1.0
O5' 0:A1755 4.9 32.1 1.0
OP2 0:A1755 4.9 31.6 1.0
N3 0:G834 5.0 31.4 1.0
C3' 0:A1754 5.0 25.7 1.0

Strontium binding site 6 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 6 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 6 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8906

b:51.3
occ:1.00
 O C:HOH8545 2.6 43.0 1.0
O2 0:C893 2.7 33.6 1.0
O2' 0:C893 2.7 30.3 1.0
O 0:HOH5665 2.7 30.2 1.0
O 0:HOH6426 3.3 47.9 1.0
O 0:HOH6313 3.5 44.1 1.0
C2 0:C893 3.8 28.8 1.0
C2' 0:C893 3.9 26.7 1.0
C1' 0:C893 3.9 25.7 1.0
N7 0:G892 4.3 18.4 1.0
O3' 0:C893 4.3 26.5 1.0
N1 0:C893 4.3 25.6 1.0
O C:HOH8513 4.4 26.4 1.0
O 0:HOH3914 4.6 44.4 1.0
O 0:HOH4435 4.6 52.2 1.0
O 0:HOH5270 4.7 40.3 1.0
C3' 0:C893 4.7 25.5 1.0
OP2 0:G892 4.7 24.2 1.0
N3 0:C893 4.8 32.0 1.0
NZ 1:LYS53 4.8 31.8 1.0
C8 0:G892 4.8 16.7 1.0
OP2 0:A895 4.9 30.8 1.0

Strontium binding site 7 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 7 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 7 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8907

b:58.9
occ:1.00
 O H:ASP13 2.5 57.1 1.0
O 0:HOH9589 2.7 41.9 1.0
O 0:HOH6375 2.8 58.8 1.0
O6 0:G1055 2.8 49.6 1.0
O 0:HOH3850 2.9 61.0 1.0
O 0:HOH4866 3.1 56.0 1.0
O H:HOH196 3.2 48.4 1.0
C H:ASP13 3.7 57.3 1.0
C6 0:G1055 3.9 47.9 1.0
N7 0:G1055 4.3 47.9 1.0
CB H:ASP13 4.3 57.1 1.0
CG H:LYS14 4.4 58.0 1.0
N7 0:G1054 4.4 52.2 1.0
OP2 0:G1054 4.4 45.5 1.0
C5 0:G1055 4.5 48.1 1.0
CA H:ASP13 4.6 57.5 1.0
N H:LYS14 4.7 56.6 1.0
CA H:LYS14 4.7 56.6 1.0
CG H:ASP13 4.8 56.6 1.0
OP2 0:G1053 4.9 43.4 1.0
OD1 H:ASP13 4.9 56.7 1.0

Strontium binding site 8 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 8 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 8 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8908

b:87.3
occ:1.00
 OD2 M:ASP157 2.8 43.1 1.0
OP1 0:G147 2.9 32.6 1.0
OP1 0:A183 3.1 38.4 1.0
O3' 0:U146 3.4 29.1 1.0
CG M:ASP157 3.5 40.4 1.0
OD1 M:ASP157 3.6 41.2 1.0
O3' 0:G182 3.7 36.8 1.0
P 0:G147 3.8 28.2 1.0
O 0:HOH7640 4.1 69.0 1.0
P 0:A183 4.1 37.2 1.0
O M:HOH8918 4.2 24.9 1.0
C5' 0:G147 4.4 29.6 1.0
O5' 0:G147 4.6 30.9 1.0
O2' 0:U146 4.6 31.4 1.0
C3' 0:U146 4.7 32.8 1.0
C5' 0:A183 4.8 33.0 1.0
CB M:ASP157 4.8 38.1 1.0
C5' 0:G182 4.9 37.5 1.0
C4' 0:U146 4.9 33.7 1.0
C3' 0:G182 4.9 37.3 1.0
O 0:HOH3131 4.9 46.1 1.0
O5' 0:A183 5.0 35.0 1.0

Strontium binding site 9 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 9 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 9 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8909

b:88.0
occ:1.00
 O 0:HOH5547 2.6 52.9 1.0
O 0:HOH3790 2.7 68.6 1.0
O 0:HOH6194 2.8 84.2 1.0
O 0:HOH7877 2.8 64.5 1.0
O 0:HOH6636 2.9 78.0 1.0
O 0:HOH6937 3.1 54.9 1.0
O 0:HOH7878 3.7 68.4 1.0
O 0:HOH4274 4.1 62.9 1.0
O 0:HOH4078 4.3 40.6 1.0
OP2 0:C2077 4.4 36.4 1.0
O 0:HOH6217 4.5 54.4 1.0
O6 0:G2080 4.6 41.0 1.0
N6 0:A536 4.6 40.9 1.0
O 0:HOH3704 4.6 40.1 1.0
N7 0:G2079 4.8 35.2 1.0

Strontium binding site 10 out of 108 in 3cce

Go back to Strontium Binding Sites List in 3cce
Strontium binding site 10 out of 108 in the Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A


Mono view


Stereo pair view

A full contact list of Strontium with other atoms in the Sr binding site number 10 of Structure of Anisomycin Resistant 50S Ribosomal Subunit: 23S Rrna Mutation U2535A within 5.0Å range:
probe atom residue distance (Å) B Occ
0:Sr8910

b:88.0
occ:1.00
 OP2 0:U1748 2.4 36.3 1.0
OP1 0:G2585 2.4 39.6 1.0
O4 0:U1749 2.5 42.8 1.0
O 0:HOH3839 2.6 44.7 1.0
OP2 0:A1747 2.6 31.1 1.0
O 0:HOH9697 3.0 27.5 1.0
C4 0:U1749 3.2 39.1 1.0
P 0:G2585 3.4 37.5 1.0
C5 0:U1749 3.4 38.4 1.0
P 0:U1748 3.5 32.5 1.0
OP2 0:G2585 3.5 38.8 1.0
O 0:HOH9801 3.7 39.3 1.0
OP1 0:U1748 3.8 31.5 1.0
P 0:A1747 4.0 29.4 1.0
OP2 0:U2586 4.3 35.9 1.0
O 0:HOH4970 4.3 29.3 1.0
C5' 0:A1747 4.3 30.1 1.0
O5' 0:A1747 4.3 30.0 1.0
SR 0:SR8982 4.4 0.5 1.0
O3' 0:G2584 4.4 36.4 1.0
O5' 0:U1748 4.5 32.9 1.0
N3 0:U1749 4.5 38.9 1.0
O5' 0:G2585 4.6 37.3 1.0
O3' 0:A1747 4.6 33.1 1.0
C5 0:U1748 4.7 33.4 1.0
C6 0:U1749 4.7 38.1 1.0
O3' 0:A1746 4.8 26.8 1.0
OP1 0:G1751 4.9 26.6 1.0
C5' 0:G2585 5.0 34.9 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 Dec 16 02:16:39 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy