Magnesium in PDB 8rn3: Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement)

Enzymatic activity of Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement)

All present enzymatic activity of Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement):
2.7.7.48;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement) (pdb code 8rn3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement), PDB code: 8rn3:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 8rn3

Go back to Magnesium Binding Sites List in 8rn3
Magnesium binding site 1 out of 3 in the Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg801

b:57.7
occ:1.00
 OD1 A:ASP109 1.9 71.3 1.0
CG A:ASP109 3.0 68.5 1.0
OE2 A:GLU120 3.5 68.5 1.0
OD2 A:ASP109 3.6 68.2 1.0
HE1 A:HIS41 3.6 74.9 1.0
OE1 A:GLU120 3.7 69.8 1.0
OE2 A:GLU81 3.7 66.3 1.0
CD A:GLU120 4.0 68.8 1.0
O A:LEU107 4.0 51.1 1.0
CE1 A:HIS41 4.0 72.6 1.0
HG2 A:GLU81 4.1 66.8 1.0
HG3 A:GLU81 4.1 66.9 1.0
CB A:ASP109 4.3 64.5 1.0
HE2 A:HIS41 4.3 75.5 1.0
HB3 A:ASP109 4.4 66.3 1.0
NE2 A:HIS41 4.4 76.1 1.0
CG A:GLU81 4.5 68.0 1.0
HA A:ASP109 4.5 65.3 1.0
CD A:GLU81 4.5 68.5 1.0
N A:ASP109 4.6 66.9 1.0
CA A:ASP109 4.7 64.0 1.0
H A:ASP109 4.7 65.2 1.0
ND1 A:HIS41 4.9 72.1 1.0
C A:ALA108 4.9 57.9 1.0

Magnesium binding site 2 out of 3 in 8rn3

Go back to Magnesium Binding Sites List in 8rn3
Magnesium binding site 2 out of 3 in the Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg801

b:49.4
occ:1.00
 HA B:PHE491 3.0 34.3 1.0
HB3 B:ASP445 3.1 36.7 1.0
H B:THR492 3.2 35.9 1.0
O B:GLU490 3.5 33.6 1.0
O B:GLY304 3.5 34.8 1.0
H B:PHE446 3.6 33.9 1.0
HG23 B:THR303 3.6 28.7 1.0
O B:PHE446 3.8 41.3 1.0
HD1 B:PHE491 3.8 35.3 1.0
HG22 B:THR303 3.8 28.2 1.0
N B:THR492 3.9 35.9 1.0
CA B:PHE491 4.0 27.7 1.0
CB B:ASP445 4.0 39.0 1.0
OE2 B:GLU490 4.0 38.8 1.0
N B:PHE446 4.1 34.9 1.0
H B:GLY304 4.2 26.4 1.0
CG2 B:THR303 4.2 30.5 1.0
C B:GLU490 4.2 33.1 1.0
HA B:ASP445 4.3 35.3 1.0
HB2 B:ASP445 4.3 36.6 1.0
N B:PHE491 4.4 38.1 1.0
C B:PHE446 4.4 28.6 1.0
C B:PHE491 4.5 29.4 1.0
CD B:GLU490 4.5 39.8 1.0
CD1 B:PHE491 4.5 28.6 1.0
CA B:ASP445 4.6 35.7 1.0
HG21 B:THR303 4.6 27.6 1.0
HB3 B:GLU490 4.6 32.8 1.0
N B:GLY304 4.6 22.9 1.0
C B:GLY304 4.6 29.9 1.0
H B:SER493 4.7 33.3 1.0
C B:ASP445 4.7 36.7 1.0
HG2 B:GLU490 4.7 32.9 1.0
HA B:THR492 4.8 35.0 1.0
HA B:THR303 4.8 28.0 1.0
OD2 B:ASP445 4.8 40.5 1.0
CA B:PHE446 4.9 25.3 1.0
CG B:ASP445 5.0 42.3 1.0
OE1 B:GLU490 5.0 39.7 1.0
CA B:THR492 5.0 32.4 1.0

Magnesium binding site 3 out of 3 in 8rn3

Go back to Magnesium Binding Sites List in 8rn3
Magnesium binding site 3 out of 3 in the Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Pseudo-Symmetrical Influenza B Polymerase Apo-Dimer, Encapsidase Moiety (From "Influenza B Polymerase Pseudo-Symmetrical Dimer" | Local Refinement) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg802

b:49.8
occ:1.00
 OD1 B:ASP445 2.1 42.4 1.0
OD1 B:ASP444 2.9 45.0 1.0
O B:SER442 3.1 39.1 1.0
CG B:ASP445 3.3 42.3 1.0
HG B:SER442 3.3 39.2 1.0
HG B:SER443 3.6 35.5 1.0
H B:ASP444 3.7 35.6 1.0
OG B:SER443 3.8 42.9 1.0
H B:ASP445 3.9 35.8 1.0
OD2 B:ASP445 3.9 40.5 1.0
HG22 B:THR492 3.9 34.9 1.0
OG B:SER442 4.0 42.4 1.0
CG B:ASP444 4.0 38.6 1.0
HB3 B:SER442 4.1 38.2 1.0
HB2 B:ASP445 4.2 36.6 1.0
HB3 B:SER443 4.2 35.9 1.0
C B:SER442 4.3 35.6 1.0
CB B:ASP445 4.4 39.0 1.0
OD2 B:ASP444 4.5 38.6 1.0
HD13 B:LEU271 4.5 55.4 1.0
N B:ASP445 4.5 36.4 1.0
CB B:SER443 4.6 38.4 1.0
N B:ASP444 4.6 37.8 1.0
CB B:SER442 4.6 42.0 1.0
CG2 B:THR492 4.9 36.2 1.0
HG21 B:THR492 5.0 35.9 1.0

Reference:

B.Arragain, T.Krischuns, M.Pelosse, P.Drncova, M.Blackledge, N.Naffakh, S.Cusack. Structures of Influenza A and B Replication Complexes Give Insight Into Avian to Human Host Adaptation and Reveal A Role of ANP32 As An Electrostatic Chaperone For the Apo-Polymerase. Nat Commun V. 15 6910 2024.
ISSN: ESSN 2041-1723
PubMed: 39160148
DOI: 10.1038/S41467-024-51007-3
Page generated: Fri Oct 4 17:42:36 2024

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