Magnesium in PDB 8ptg: Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs

The structure of Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs also contains other interesting chemical elements:

Fluorine

(F)

18 atoms

The binding sites of Magnesium atom in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs (pdb code 8ptg). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs, PDB code: 8ptg:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1001 b:41.6 occ:1.00 O1B A:ADP1000 2.0 68.2 1.0 OG1 A:THR185 2.1 55.9 1.0 F3 A:BEF1002 3.0 73.8 1.0 PB A:ADP1000 3.1 60.4 1.0 O3B A:ADP1000 3.4 71.8 1.0 OE1 A:GLU211 3.4 78.2 1.0 CB A:THR185 3.5 48.6 1.0 NH1 A:ARG212 3.8 62.5 1.0 OE1 A:GLU215 3.8 77.5 1.0 O2A A:ADP1000 3.9 66.0 1.0 O2B A:ADP1000 3.9 61.3 1.0 BE A:BEF1002 4.0 70.0 1.0 OE2 A:GLU215 4.1 74.5 1.0 OD2 A:ASP265 4.1 79.5 1.0 CG2 A:THR185 4.1 52.5 1.0 F1 A:BEF1002 4.2 68.1 1.0 N A:THR185 4.3 52.4 1.0 O3A A:ADP1000 4.3 45.8 1.0 CD A:GLU211 4.4 77.9 1.0 CD A:GLU215 4.4 73.6 1.0 CA A:THR185 4.4 37.8 1.0 OD1 A:ASP265 4.4 77.2 1.0 PA A:ADP1000 4.6 52.1 1.0 CG A:ASP265 4.7 75.2 1.0 NH1 B:ARG366 4.7 71.8 1.0 OE2 A:GLU211 4.8 77.3 1.0 OG A:SER266 4.8 84.1 1.0 CZ A:ARG212 5.0 60.8 1.0

Magnesium binding site 2 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg502 b:60.6 occ:1.00 OG1 B:THR185 2.0 66.3 1.0 O3B B:ADP501 2.2 78.0 1.0 F3 B:BEF503 2.8 90.1 1.0 CB B:THR185 3.2 66.5 1.0 OE2 B:GLU215 3.3 94.5 1.0 PB B:ADP501 3.4 68.2 1.0 NH1 B:ARG212 3.5 79.0 1.0 O2A B:ADP501 3.5 81.0 1.0 OE1 B:GLU215 3.5 94.9 1.0 OE1 B:GLU211 3.6 97.0 1.0 O2B B:ADP501 3.7 84.5 1.0 CD B:GLU215 3.8 91.9 1.0 BE B:BEF503 3.9 87.7 1.0 CG2 B:THR185 4.1 72.6 1.0 N B:THR185 4.2 67.3 1.0 NH1 C:ARG366 4.3 60.2 1.0 CA B:THR185 4.3 58.7 1.0 PA B:ADP501 4.3 57.5 1.0 O3A B:ADP501 4.4 59.6 1.0 O1B B:ADP501 4.5 78.3 1.0 CD B:GLU211 4.5 97.6 1.0 CZ B:ARG212 4.5 79.8 1.0 OD1 B:ASP265 4.6 97.3 1.0 OD2 B:ASP265 4.6 100.8 1.0 O1A B:ADP501 4.7 73.4 1.0 NH2 B:ARG212 4.8 80.0 1.0 F1 B:BEF503 4.9 90.3 1.0 F2 B:BEF503 4.9 94.5 1.0

Magnesium binding site 3 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1001 b:64.7 occ:1.00 OG1 C:THR185 2.0 64.8 1.0 O2B C:ADP1000 2.1 72.7 1.0 F3 C:BEF1002 2.6 85.3 1.0 CB C:THR185 3.4 63.2 1.0 PB C:ADP1000 3.4 61.8 1.0 OE1 C:GLU211 3.5 88.2 1.0 BE C:BEF1002 3.6 83.4 1.0 OE2 C:GLU215 3.8 88.3 1.0 O3B C:ADP1000 3.8 75.5 1.0 NH1 C:ARG212 3.8 77.5 1.0 OD2 C:ASP265 3.9 89.4 1.0 OE1 C:GLU215 3.9 85.8 1.0 N C:THR185 4.1 63.8 1.0 CD C:GLU211 4.1 86.7 1.0 OD1 C:ASP265 4.1 86.7 1.0 O2A C:ADP1000 4.2 73.6 1.0 CA C:THR185 4.2 56.2 1.0 CD C:GLU215 4.3 85.8 1.0 F1 C:BEF1002 4.3 88.7 1.0 CG2 C:THR185 4.3 67.0 1.0 OE2 C:GLU211 4.3 85.1 1.0 O1B C:ADP1000 4.4 69.9 1.0 CG C:ASP265 4.4 86.7 1.0 O3A C:ADP1000 4.4 69.8 1.0 PA C:ADP1000 4.8 64.2 1.0 F2 C:BEF1002 4.8 87.7 1.0 NH1 D:ARG366 4.9 75.1 1.0 CZ C:ARG212 5.0 74.7 1.0 CB C:LYS184 5.0 56.4 1.0

Magnesium binding site 4 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1001 b:77.3 occ:1.00 OG1 D:THR185 2.0 77.2 1.0 O2B D:ADP1000 2.1 81.3 1.0 F3 D:BEF1002 3.1 99.3 1.0 CB D:THR185 3.4 72.2 1.0 PB D:ADP1000 3.5 74.8 1.0 NH1 D:ARG212 3.8 88.9 1.0 OE1 D:GLU215 3.9 98.6 1.0 BE D:BEF1002 3.9 98.0 1.0 OE2 D:GLU215 3.9 99.3 1.0 OD1 D:ASP265 4.1 109.5 1.0 O1B D:ADP1000 4.1 90.4 1.0 CG2 D:THR185 4.2 72.4 1.0 O1A D:ADP1000 4.3 82.8 1.0 O3B D:ADP1000 4.3 84.5 1.0 N D:THR185 4.3 71.9 1.0 OE1 D:GLU211 4.3 94.8 1.0 OE2 D:GLU211 4.3 102.7 1.0 CD D:GLU215 4.3 97.9 1.0 CA D:THR185 4.4 66.5 1.0 CD D:GLU211 4.4 99.4 1.0 O3A D:ADP1000 4.5 83.7 1.0 NH1 E:ARG366 4.7 57.0 1.0 PA D:ADP1000 4.8 77.8 1.0 CG D:ASP265 4.9 107.7 1.0 CZ D:ARG212 4.9 85.6 1.0 F2 D:BEF1002 4.9 104.8 1.0 OD2 D:ASP265 5.0 108.0 1.0

Magnesium binding site 5 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1001 b:78.2 occ:1.00 O2B E:ADP1000 2.0 96.4 1.0 OG1 E:THR185 2.1 71.3 1.0 O1B E:ADP1000 2.6 92.5 1.0 PB E:ADP1000 2.7 94.3 1.0 CB E:THR185 3.4 68.3 1.0 O3A E:ADP1000 3.6 87.5 1.0 OE2 E:GLU211 3.7 89.9 1.0 F3 E:BEF1002 3.9 85.3 1.0 O3B E:ADP1000 4.0 92.4 1.0 OE2 E:GLU215 4.1 90.9 1.0 N E:THR185 4.2 72.2 1.0 CG2 E:THR185 4.2 74.2 1.0 O1A E:ADP1000 4.3 93.9 1.0 CA E:THR185 4.4 62.2 1.0 BE E:BEF1002 4.4 93.4 1.0 OE1 E:GLU215 4.5 87.8 1.0 NH2 E:ARG212 4.5 82.6 1.0 CD E:GLU215 4.6 87.5 1.0 PA E:ADP1000 4.6 94.9 1.0 OD1 E:ASP265 4.7 96.2 1.0 CD E:GLU211 4.8 94.7 1.0 NH1 F:ARG366 4.8 75.8 1.0

Magnesium binding site 6 out of 6 in the Structure of the Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs


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 Transcription Termination Factor Rho Bound to Rna at the Pbs and Sbs within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg1001 b:57.3 occ:1.00 OG1 F:THR185 2.0 74.5 1.0 O2B F:ADP1000 2.2 65.7 1.0 F3 F:BEF1002 2.4 67.6 1.0 CB F:THR185 3.5 69.8 1.0 PB F:ADP1000 3.5 66.9 1.0 O3A F:ADP1000 3.6 63.5 1.0 OE1 F:GLU211 3.7 93.9 1.0 BE F:BEF1002 3.9 71.6 1.0 OD1 F:ASP265 3.9 95.8 1.0 OE2 F:GLU215 4.1 93.7 1.0 N F:THR185 4.1 66.2 1.0 OD2 F:ASP265 4.1 98.6 1.0 O1A F:ADP1000 4.2 72.4 1.0 CG2 F:THR185 4.2 72.4 1.0 O3B F:ADP1000 4.2 66.2 1.0 CA F:THR185 4.3 60.8 1.0 NH1 F:ARG212 4.3 84.9 1.0 CD F:GLU211 4.4 98.0 1.0 PA F:ADP1000 4.4 60.5 1.0 CG F:ASP265 4.4 93.9 1.0 OE1 F:GLU215 4.5 92.4 1.0 F2 F:BEF1002 4.6 75.4 1.0 CD F:GLU215 4.6 91.0 1.0 OE2 F:GLU211 4.7 98.4 1.0 O1B F:ADP1000 4.7 61.2 1.0 NH1 A:ARG366 4.7 55.6 1.0 F1 F:BEF1002 4.8 76.1 1.0 O2A F:ADP1000 4.8 55.9 1.0 CB F:LYS184 4.9 61.9 1.0

N.Said, T.Hilal, M.C.Wahl. Structure of the Transcription Termination Factor Rho in Complex with Rof Nat Commun 2024.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-024-47439-6