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Magnesium in PDB 5a2q: Structure of the Hcv Ires Bound to the Human Ribosome

Other elements in 5a2q:

The structure of Structure of the Hcv Ires Bound to the Human Ribosome also contains other interesting chemical elements:

Zinc (Zn) 3 atoms

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 - 98;

Binding sites:

The binding sites of Magnesium atom in the Structure of the Hcv Ires Bound to the Human Ribosome (pdb code 5a2q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 98 binding sites of Magnesium where determined in the Structure of the Hcv Ires Bound to the Human Ribosome, PDB code: 5a2q:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 98 in 5a2q

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Magnesium binding site 1 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1901

b:15.5
occ:1.00
O 2:HOH2026 2.2 15.5 1.0
O 2:HOH2076 2.2 15.5 1.0
O 2:HOH2071 2.2 15.5 1.0
O 2:HOH2126 2.2 15.5 1.0
O 2:HOH2114 2.2 15.5 1.0
O 2:HOH2067 2.2 15.5 1.0
O6 2:G431 4.4 16.7 1.0
O6 2:G432 4.5 16.4 1.0
N7 2:G431 4.7 16.7 1.0
O4 2:U97 4.8 16.1 1.0
N4 2:C430 4.8 16.9 1.0
C5 2:C430 4.9 16.9 1.0

Magnesium binding site 2 out of 98 in 5a2q

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Magnesium binding site 2 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1902

b:37.2
occ:1.00
O 2:HOH2004 2.2 37.2 1.0
O 2:HOH2008 2.2 37.2 1.0
O 2:HOH2033 2.2 37.2 1.0
O 2:HOH2096 2.2 37.2 1.0
O 2:HOH2113 2.2 37.2 1.0
O 2:HOH2073 2.2 37.2 1.0
N7 2:G1068 3.8 34.9 1.0
N7 2:G1048 3.8 33.6 1.0
OP2 2:G1048 3.9 30.8 1.0
OP2 2:C1047 4.2 34.5 1.0
O6 2:G1068 4.2 34.9 1.0
O5' 2:C1047 4.4 34.5 1.0
C8 2:G1048 4.6 33.6 1.0
C5 2:G1068 4.7 34.9 1.0
OP2 2:G1068 4.7 40.7 1.0
O6 2:G1048 4.8 33.6 1.0
C8 2:G1068 4.8 34.9 1.0
P 2:C1047 4.8 34.5 1.0
C6 2:G1068 4.8 34.9 1.0
C5 2:G1048 4.9 33.6 1.0

Magnesium binding site 3 out of 98 in 5a2q

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Magnesium binding site 3 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1903

b:33.9
occ:1.00
O 2:HOH2063 2.2 33.9 1.0
O 2:HOH2081 2.2 33.9 1.0
O C:HOH302 2.2 33.9 1.0
O 2:HOH2051 2.2 33.9 1.0
O 2:HOH2102 2.2 33.9 1.0
O 2:HOH2108 2.2 33.9 1.0
O4 2:U1359 4.2 27.9 1.0
O6 2:G1352 4.4 32.4 1.0
O6 2:G1351 4.4 36.2 1.0
N7 2:G1351 4.5 36.2 1.0
N7 2:G1352 4.9 32.4 1.0

Magnesium binding site 4 out of 98 in 5a2q

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Magnesium binding site 4 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1904

b:39.8
occ:1.00
O 2:HOH2029 2.2 39.8 1.0
O 2:HOH2036 2.2 39.8 1.0
O 2:HOH2080 2.2 39.8 1.0
O 2:HOH2092 2.2 39.8 1.0
O 2:HOH2061 2.2 39.8 1.0
O 2:HOH2075 2.2 39.8 1.0
OP2 2:A812 3.8 34.0 1.0
O3' 2:A811 4.3 45.2 1.0
O5' 2:A812 4.3 34.0 1.0
O4 2:U814 4.4 31.7 1.0
P 2:A812 4.5 34.0 1.0
N7 2:A812 4.6 27.1 1.0
C8 2:A812 4.7 27.1 1.0
N6 2:A813 4.7 27.1 1.0
OP1 2:A811 4.8 45.2 1.0
O2 2:C851 4.9 64.5 1.0
N7 2:A813 4.9 27.1 1.0

Magnesium binding site 5 out of 98 in 5a2q

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Magnesium binding site 5 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1905

b:26.8
occ:1.00
O 2:HOH2012 2.2 26.8 1.0
O 2:HOH2030 2.2 26.8 1.0
O 2:HOH2069 2.2 26.8 1.0
O 2:HOH2095 2.2 26.8 1.0
O 2:HOH2057 2.2 26.8 1.0
O 2:HOH2103 2.2 26.8 1.0
OP2 2:A1199 3.7 17.3 1.0
OP1 2:A1695 3.9 32.7 1.0
N7 2:A1199 4.7 18.4 1.0
N7 2:A1200 4.7 20.1 1.0
C8 2:A1199 4.8 18.4 1.0
N6 2:A1200 5.0 20.1 1.0

Magnesium binding site 6 out of 98 in 5a2q

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Magnesium binding site 6 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1906

b:77.8
occ:1.00
O 2:HOH2031 2.2 77.8 1.0
O 2:HOH2041 2.2 77.8 1.0
O 2:HOH2109 2.2 77.8 1.0
O 2:HOH2139 2.2 77.8 1.0
O 2:HOH2136 2.2 77.8 1.0
O 2:HOH2138 2.2 77.8 1.0
N7 2:G956 4.2 70.6 1.0
N3 2:U968 4.7 83.3 1.0
O4 2:U968 4.7 83.3 1.0
O6 2:G956 4.7 70.6 1.0

Magnesium binding site 7 out of 98 in 5a2q

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Magnesium binding site 7 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1907

b:25.9
occ:1.00
O 2:HOH2016 2.2 25.9 1.0
O 2:HOH2052 2.2 25.9 1.0
O 2:HOH2022 2.2 25.9 1.0
O 2:HOH2042 2.2 25.9 1.0
O 2:HOH2123 2.2 25.9 1.0
O 2:HOH2070 2.2 25.9 1.0
OP2 2:G1197 3.9 20.8 1.0
N7 2:G1197 4.0 18.8 1.0
OP2 2:A1196 4.0 25.5 1.0
O2 2:U8 4.0 20.0 1.0
O2' 2:U8 4.3 25.1 1.0
C8 2:G1197 4.6 18.8 1.0
C2 2:U8 4.8 20.0 1.0
C5 2:G1197 4.9 18.8 1.0
O5' 2:A1196 5.0 25.5 1.0

Magnesium binding site 8 out of 98 in 5a2q

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Magnesium binding site 8 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1908

b:38.9
occ:1.00
O 2:HOH2019 2.2 38.9 1.0
O 2:HOH2087 2.2 38.9 1.0
O 2:HOH2134 2.2 38.9 1.0
O 2:HOH2044 2.2 38.9 1.0
O 2:HOH2058 2.2 38.9 1.0
O 2:HOH2078 2.2 38.9 1.0
C5 2:U87 4.4 38.5 1.0
O4 2:U87 4.4 38.5 1.0
O6 2:G88 4.4 31.0 1.0
N4 2:C89 4.5 30.7 1.0
O4 2:U57 4.5 30.1 1.0
OP2 2:C86 4.7 43.0 1.0
O6 2:G56 4.8 28.7 1.0
C4 2:U87 4.8 38.5 1.0

Magnesium binding site 9 out of 98 in 5a2q

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Magnesium binding site 9 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1909

b:33.5
occ:1.00
O 2:HOH2054 2.2 33.5 1.0
O 2:HOH2003 2.2 33.5 1.0
O 2:HOH2111 2.2 33.5 1.0
O 2:HOH2079 2.2 33.5 1.0
O 2:HOH2131 2.2 33.5 1.0
O 2:HOH2072 2.2 33.5 1.0
OP2 2:U9 4.1 28.1 1.0
OP1 2:U8 4.1 25.1 1.0
OP2 2:A11 4.2 25.6 1.0
OP1 2:A11 4.5 25.6 1.0
C5 2:U9 4.6 25.5 1.0
OP2 2:G10 4.8 30.2 1.0
P 2:A11 4.9 25.6 1.0
C6 2:U9 5.0 25.5 1.0

Magnesium binding site 10 out of 98 in 5a2q

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Magnesium binding site 10 out of 98 in the Structure of the Hcv Ires Bound to the Human Ribosome


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Structure of the Hcv Ires Bound to the Human Ribosome within 5.0Å range:
probe atom residue distance (Å) B Occ
2:Mg1910

b:64.4
occ:1.00
O 2:HOH2091 2.2 64.4 1.0
O 2:HOH2023 2.2 64.4 1.0
O 2:HOH2127 2.2 64.4 1.0
O 2:HOH2093 2.2 64.4 1.0
O 2:HOH2130 2.2 64.4 1.0
O 2:HOH2107 2.2 64.4 1.0
O6 2:G976 4.3 64.7 1.0
O6 2:G975 4.5 62.9 1.0
N7 2:G975 4.7 62.9 1.0
N7 2:G976 4.8 64.7 1.0
N4 2:C977 4.9 64.8 1.0

Reference:

N.Quade, D.Boehringer, M.Leibundgut, J.Van Den Heuvel, N.Ban. Cryo-Em Structure of Hepatitis C Virus Ires Bound to the Human Ribosome at 3.9 Angstrom Resolution Nat.Commun. V. 6 7646 2015.
ISSN: ESSN 2041-1723
PubMed: 26155016
DOI: 10.1038/NCOMMS8646
Page generated: Mon Dec 14 19:59:12 2020

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