Magnesium in PDB 8bf5: Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue

All present enzymatic activity of Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue:
2.7.7.48;

The binding sites of Magnesium atom in the Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue (pdb code 8bf5). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue, PDB code: 8bf5:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg801 b:97.6 occ:1.00 OE2 A:GLU81 2.6 109.8 1.0 OD1 A:ASP109 3.5 118.4 1.0 CD A:GLU81 3.8 109.9 1.0 OE2 A:GLU120 4.1 124.2 1.0 O A:LEU107 4.3 97.0 1.0 HG2 A:GLU81 4.5 110.5 1.0 CG A:ASP109 4.6 119.6 1.0 OE1 A:GLU81 4.7 110.5 1.0 OE1 A:GLU120 4.7 123.8 1.0 CG A:GLU81 4.7 109.1 1.0 HG3 A:GLU81 4.8 110.0 1.0 CD A:GLU120 4.8 124.3 1.0 HE1 A:HIS41 4.9 130.3 1.0 HE2 A:HIS41 4.9 130.3 1.0 OD2 A:ASP109 5.0 121.4 1.0

Magnesium binding site 2 out of 3 in the Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg802 b:24.0 occ:1.00 OD1 B:ASP445 1.9 23.1 1.0 OD1 B:ASP305 1.9 28.9 1.0 CG B:ASP445 2.3 24.1 1.0 OD2 B:ASP445 2.3 24.7 1.0 CG B:ASP305 3.1 25.4 1.0 OE1 B:GLU490 3.4 31.3 1.0 O B:GLY304 3.6 27.2 1.0 H B:THR492 3.6 19.1 1.0 CB B:ASP445 3.7 15.2 1.0 OD2 B:ASP305 3.7 25.2 1.0 HG23 B:THR303 3.8 20.1 1.0 HB2 B:ASP445 3.9 19.9 1.0 H B:PHE446 3.9 20.1 1.0 OE2 B:GLU490 3.9 21.1 1.0 HA B:PHE491 3.9 20.5 1.0 HA B:ASP445 4.0 19.5 1.0 CD B:GLU490 4.0 27.1 1.0 HA B:ASP305 4.1 19.7 1.0 C B:GLY304 4.1 16.6 1.0 O B:GLU490 4.2 20.0 1.0 CB B:ASP305 4.3 23.8 1.0 HB3 B:ASP445 4.3 18.6 1.0 HG22 B:THR303 4.3 20.0 1.0 CA B:ASP445 4.4 16.0 1.0 N B:ASP305 4.4 13.2 1.0 N B:THR492 4.4 13.2 1.0 CA B:ASP305 4.5 13.7 1.0 CG2 B:THR303 4.5 22.5 1.0 N B:PHE446 4.5 23.8 1.0 O B:PHE446 4.5 25.5 1.0 HB3 B:ASP305 4.6 21.7 1.0 H B:GLY304 4.6 19.4 1.0 H B:SER493 4.8 21.8 1.0 N B:GLY304 4.8 17.2 1.0 CA B:PHE491 4.8 20.1 1.0 HG21 B:THR303 4.8 20.9 1.0 C B:ASP445 4.9 19.9 1.0 HA B:THR492 4.9 19.9 1.0 HH12 A:ARG660 4.9 19.9 1.0 C B:GLU490 5.0 17.9 1.0 H B:ASP305 5.0 19.9 1.0

Magnesium binding site 3 out of 3 in the Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Early Transcription Elongation State of Influenza A/H7N9 Polymerase Stalled with Incoming Gtp Analogue within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg803 b:33.1 occ:1.00 O1A B:G2P801 2.7 25.6 1.0 O1B B:G2P801 2.8 32.6 1.0 HZ3 B:LYS480 3.1 22.6 1.0 HZ2 B:LYS480 3.5 22.9 1.0 NZ B:LYS480 3.7 29.2 1.0 HH22 A:ARG660 4.0 20.5 1.0 PA B:G2P801 4.1 26.0 1.0 HD3 B:LYS480 4.2 22.0 1.0 PB B:G2P801 4.2 42.2 1.0 HZ1 B:LYS480 4.2 22.8 1.0 HH12 A:ARG660 4.7 19.9 1.0 O3B B:G2P801 4.7 22.3 1.0 HB3 B:ASP305 4.7 21.7 1.0 NH2 A:ARG660 4.7 27.4 1.0 C3A B:G2P801 4.7 19.1 1.0 HD2 B:LYS480 4.7 21.7 1.0 CD B:LYS480 4.8 22.6 1.0 CE B:LYS480 4.8 27.2 1.0 O2A B:G2P801 4.9 34.9 1.0 OD2 B:ASP305 5.0 25.2 1.0

T.Kouba, S.Cusack. Direct Observation of Backtracking By Influenza A and B Polymerases Upon Consecutive Incorporation of Nucleoside Analogue T1106 Cell Rep 2022.
ISSN: ESSN 2211-1247
DOI: 10.1016/J.CELREP.2022.111901