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Magnesium in PDB 2mis: uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions

Magnesium Binding Sites:

The binding sites of Magnesium atom in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions (pdb code 2mis). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions, PDB code: 2mis:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 2mis

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Magnesium binding site 1 out of 5 in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg101

b:0.0
occ:1.00
O A:HOH203 1.8 0.0 1.0
O A:HOH205 1.8 0.0 1.0
O A:HOH201 1.8 0.0 1.0
O A:HOH202 1.8 0.0 1.0
O A:HOH204 1.8 0.0 1.0
OP1 A:A15 2.3 0.0 1.0
P A:A15 3.0 0.0 1.0
O5' A:A15 3.1 0.0 1.0
OP2 A:A15 3.4 0.0 1.0
H5'' A:A15 3.4 0.0 1.0
C2 A:G13 3.6 0.0 1.0
N2 A:G13 3.6 0.0 1.0
H21 A:G13 3.8 0.0 1.0
C5' A:A15 3.8 0.0 1.0
N1 A:G13 3.8 0.0 1.0
OP2 A:A16 3.9 0.0 1.0
H22 A:G13 3.9 0.0 1.0
H1 A:G13 4.0 0.0 1.0
N3 A:G13 4.0 0.0 1.0
H3' A:A15 4.1 0.0 1.0
H5' A:A15 4.4 0.0 1.0
O3' A:A14 4.5 0.0 1.0
C6 A:G13 4.5 0.0 1.0
C4 A:G13 4.6 0.0 1.0
C5 A:G13 4.8 0.0 1.0
H2' A:G13 4.9 0.0 1.0
C3' A:A15 4.9 0.0 1.0
C4' A:A15 5.0 0.0 1.0

Magnesium binding site 2 out of 5 in 2mis

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Magnesium binding site 2 out of 5 in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg102

b:0.0
occ:1.00
O A:HOH210 1.8 0.0 1.0
O A:HOH211 1.8 0.0 1.0
O A:HOH208 1.8 0.0 1.0
O A:HOH206 1.8 0.0 1.0
O A:HOH209 1.8 0.0 1.0
O A:HOH207 1.8 0.0 1.0
H42 A:C10 3.0 0.0 1.0
H41 A:C10 3.4 0.0 1.0
N4 A:C10 3.5 0.0 1.0
H61 A:A11 3.6 0.0 1.0
H62 A:A11 3.7 0.0 1.0
O4 A:U18 3.7 0.0 1.0
N6 A:A11 3.9 0.0 1.0
O6 A:G19 4.5 0.0 1.0
C4 A:C10 4.6 0.0 1.0
C4 A:U18 4.7 0.0 1.0
O6 A:G17 4.7 0.0 1.0
H41 A:C12 5.0 0.0 1.0
H5 A:C10 5.0 0.0 1.0

Magnesium binding site 3 out of 5 in 2mis

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Magnesium binding site 3 out of 5 in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg103

b:0.0
occ:1.00
O A:HOH214 1.8 0.0 1.0
O A:HOH216 1.8 0.0 1.0
O A:HOH215 1.8 0.0 1.0
O A:HOH213 1.8 0.0 1.0
O A:HOH212 1.8 0.0 1.0
OP2 A:G9 2.3 0.0 1.0
H3' A:A8 3.6 0.0 1.0
P A:G9 3.8 0.0 1.0
H5'' A:A8 3.8 0.0 1.0
OP1 A:C7 4.1 0.0 1.0
O5' A:C7 4.2 0.0 1.0
O5' A:G9 4.3 0.0 1.0
OP2 A:A8 4.4 0.0 1.0
C3' A:A8 4.4 0.0 1.0
P A:C7 4.4 0.0 1.0
OP2 A:C7 4.5 0.0 1.0
H5'' A:C7 4.6 0.0 1.0
H3' A:C7 4.6 0.0 1.0
C5' A:A8 4.6 0.0 1.0
O3' A:A8 4.7 0.0 1.0
OP1 A:G9 4.7 0.0 1.0
O5' A:A8 4.8 0.0 1.0
O3' A:C7 4.9 0.0 1.0
C4' A:A8 5.0 0.0 1.0
C5' A:C7 5.0 0.0 1.0
H4' A:A8 5.0 0.0 1.0

Magnesium binding site 4 out of 5 in 2mis

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Magnesium binding site 4 out of 5 in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg104

b:0.0
occ:1.00
O A:HOH219 1.8 0.0 1.0
O A:HOH221 1.8 0.0 1.0
O A:HOH218 1.8 0.0 1.0
O A:HOH222 1.8 0.0 1.0
O A:HOH220 1.8 0.0 1.0
O A:HOH217 1.8 0.0 1.0
N7 A:G22 3.8 0.0 1.0
O6 A:G23 3.9 0.0 1.0
H41 A:C4 4.0 0.0 1.0
H2' A:C21 4.1 0.0 1.0
O6 A:G22 4.1 0.0 1.0
H42 A:C4 4.2 0.0 1.0
C4 A:C21 4.3 0.0 1.0
N3 A:C21 4.4 0.0 1.0
N4 A:C4 4.4 0.0 1.0
O A:HOH224 4.5 0.0 1.0
C5 A:C21 4.6 0.0 1.0
N4 A:C21 4.6 0.0 1.0
C2 A:C21 4.7 0.0 1.0
C5 A:G22 4.7 0.0 1.0
C6 A:G22 4.8 0.0 1.0
H41 A:C21 4.8 0.0 1.0
C8 A:G22 4.9 0.0 1.0
C6 A:G23 4.9 0.0 1.0
C6 A:C21 4.9 0.0 1.0
H1 A:G6 4.9 0.0 1.0
N1 A:C21 4.9 0.0 1.0
H42 A:C21 4.9 0.0 1.0
H8 A:G22 5.0 0.0 1.0
H5 A:C21 5.0 0.0 1.0

Magnesium binding site 5 out of 5 in 2mis

Go back to Magnesium Binding Sites List in 2mis
Magnesium binding site 5 out of 5 in the uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal Ion Interactions within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg105

b:0.0
occ:1.00
O A:HOH228 1.8 0.0 1.0
O A:HOH227 1.8 0.0 1.0
O A:HOH225 1.8 0.0 1.0
O A:HOH224 1.8 0.0 1.0
O A:HOH226 1.8 0.0 1.0
O A:HOH223 1.8 0.0 1.0
H62 A:A2 3.7 0.0 1.0
O A:HOH217 4.3 0.0 1.0
N6 A:A2 4.6 0.0 1.0
N7 A:G1 4.8 0.0 1.0
N7 A:A2 4.8 0.0 1.0
O6 A:G3 4.9 0.0 1.0

Reference:

E.Bonneau, P.Legault. uc(Nmr) Localization of Divalent Cations at the Active Site of the Neurospora Vs Ribozyme Provides Insights Into Rna-Metal-Ion Interactions. Biochemistry V. 53 579 2014.
ISSN: ISSN 0006-2960
PubMed: 24364590
DOI: 10.1021/BI401484A
Page generated: Mon Dec 14 07:30:34 2020

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