Magnesium in PDB 7z15: E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi

All present enzymatic activity of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi:
2.7.8.37; 4.7.1.1;

The structure of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Magnesium atom in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi (pdb code 7z15). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi, PDB code: 7z15:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi within 5.0Å range: probe atom residue distance (Å) B Occ I:Mg1002 b:17.2 occ:1.00 HG1 I:THR45 1.6 20.8 1.0 O3 I:PO41001 1.9 20.0 1.0 O3B I:ADP1000 1.9 23.2 1.0 O I:HOH1110 1.9 16.8 1.0 OG1 I:THR45 2.3 20.8 1.0 OE1 I:GLN90 2.3 19.8 1.0 O I:HOH1101 2.5 16.9 1.0 HE22 I:GLN90 3.1 19.8 1.0 HB I:THR45 3.1 20.8 1.0 CD I:GLN90 3.1 19.8 1.0 PB I:ADP1000 3.2 23.2 1.0 CB I:THR45 3.3 20.8 1.0 P I:PO41001 3.3 20.0 1.0 NE2 I:GLN90 3.4 19.8 1.0 H I:THR45 3.5 20.8 1.0 O2B I:ADP1000 3.6 23.2 1.0 O1 I:PO41001 3.6 20.0 1.0 OD1 I:ASP170 3.8 20.2 1.0 HB2 J:SER147 3.8 20.7 1.0 OD2 I:ASP170 3.9 20.2 1.0 O2A I:ADP1000 3.9 23.2 1.0 OE2 I:GLU171 4.0 20.0 1.0 H J:GLY148 4.0 20.2 1.0 N I:THR45 4.0 20.8 1.0 O2 I:PO41001 4.1 20.0 1.0 HB2 I:LYS44 4.2 21.1 1.0 O1B I:ADP1000 4.2 23.2 1.0 CA I:THR45 4.2 20.8 1.0 HG21 I:THR45 4.2 20.8 1.0 CG I:ASP170 4.2 20.2 1.0 HE21 I:GLN90 4.2 19.8 1.0 O3A I:ADP1000 4.3 23.2 1.0 O4 I:PO41001 4.3 20.0 1.0 CG2 I:THR45 4.4 20.8 1.0 HE2 I:LYS44 4.4 21.1 1.0 HB2 I:GLN90 4.4 19.8 1.0 HA I:THR45 4.4 20.8 1.0 O I:HOH1163 4.4 19.8 1.0 CG I:GLN90 4.4 19.8 1.0 PA I:ADP1000 4.6 23.2 1.0 HG11 I:VAL202 4.6 20.2 1.0 HG3 I:GLN90 4.6 19.8 1.0 HZ3 I:LYS44 4.7 21.1 1.0 HZ1 I:LYS44 4.7 21.1 1.0 N J:GLY148 4.8 20.2 1.0 CB J:SER147 4.8 20.7 1.0 CD I:GLU171 4.9 20.0 1.0 HG23 I:THR45 4.9 20.8 1.0 CB I:GLN90 4.9 19.8 1.0 HG3 I:GLU171 4.9 20.0 1.0

Magnesium binding site 2 out of 4 in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg1002 b:17.4 occ:1.00 HG1 J:THR45 1.6 20.9 1.0 O3 J:PO41001 1.9 19.9 1.0 O3B J:ADP1000 1.9 23.2 1.0 O J:HOH1106 2.0 17.0 1.0 OG1 J:THR45 2.3 20.9 1.0 OE1 J:GLN90 2.3 19.8 1.0 O J:HOH1101 2.6 17.3 1.0 HE22 J:GLN90 3.1 19.8 1.0 HB J:THR45 3.1 20.9 1.0 CD J:GLN90 3.1 19.8 1.0 PB J:ADP1000 3.2 23.2 1.0 CB J:THR45 3.3 20.9 1.0 P J:PO41001 3.3 19.9 1.0 NE2 J:GLN90 3.4 19.8 1.0 H J:THR45 3.5 20.9 1.0 O2B J:ADP1000 3.6 23.2 1.0 O1 J:PO41001 3.6 19.9 1.0 OD1 J:ASP170 3.8 20.2 1.0 HB2 I:SER147 3.8 20.7 1.0 OD2 J:ASP170 3.9 20.2 1.0 O2A J:ADP1000 3.9 23.2 1.0 OE2 J:GLU171 4.0 19.9 1.0 H I:GLY148 4.0 20.2 1.0 N J:THR45 4.0 20.9 1.0 O2 J:PO41001 4.1 19.9 1.0 HB2 J:LYS44 4.2 21.1 1.0 CA J:THR45 4.2 20.9 1.0 O1B J:ADP1000 4.2 23.2 1.0 HG21 J:THR45 4.2 20.9 1.0 CG J:ASP170 4.2 20.2 1.0 HE21 J:GLN90 4.2 19.8 1.0 O3A J:ADP1000 4.3 23.2 1.0 O4 J:PO41001 4.3 19.9 1.0 CG2 J:THR45 4.4 20.9 1.0 HE2 J:LYS44 4.4 21.1 1.0 HB2 J:GLN90 4.4 19.8 1.0 HA J:THR45 4.4 20.9 1.0 CG J:GLN90 4.4 19.8 1.0 O J:HOH1160 4.4 19.4 1.0 PA J:ADP1000 4.6 23.2 1.0 HG11 J:VAL202 4.6 20.2 1.0 HG3 J:GLN90 4.6 19.8 1.0 HZ3 J:LYS44 4.7 21.1 1.0 HZ1 J:LYS44 4.7 21.1 1.0 N I:GLY148 4.8 20.2 1.0 CB I:SER147 4.8 20.7 1.0 CD J:GLU171 4.8 19.9 1.0 HG23 J:THR45 4.9 20.9 1.0 CB J:GLN90 4.9 19.8 1.0 HG3 J:GLU171 4.9 19.9 1.0

Magnesium binding site 3 out of 4 in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi within 5.0Å range: probe atom residue distance (Å) B Occ K:Mg1001 b:33.9 occ:1.00 O1A K:ATP1000 2.0 41.3 1.0 O1G K:ATP1000 2.4 41.3 1.0 O3B K:ATP1000 2.5 41.3 1.0 PG K:ATP1000 2.8 41.3 1.0 HB2 K:SER48 2.9 38.5 1.0 PA K:ATP1000 3.2 41.3 1.0 O3G K:ATP1000 3.3 41.3 1.0 CB K:SER48 3.5 38.5 1.0 OG K:SER48 3.5 38.5 1.0 O3A K:ATP1000 3.5 41.3 1.0 PB K:ATP1000 3.6 41.3 1.0 HB3 K:SER48 3.8 38.5 1.0 O2A K:ATP1000 4.2 41.3 1.0 O1B K:ATP1000 4.2 41.3 1.0 O2G K:ATP1000 4.3 41.3 1.0 HG K:SER48 4.3 38.5 1.0 O5' K:ATP1000 4.3 41.3 1.0 H K:SER48 4.4 38.5 1.0 O2B K:ATP1000 4.9 41.3 1.0 CA K:SER48 4.9 38.5 1.0 H2' K:ATP1000 5.0 41.3 1.0

Magnesium binding site 4 out of 4 in the E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of E. Coli C-P Lyase Bound to A Phnk/Phnl Dual Abc Dimer and Adp + Pi within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg1001 b:33.5 occ:1.00 O1A L:ATP1000 2.0 41.1 1.0 O1G L:ATP1000 2.4 41.1 1.0 O3B L:ATP1000 2.5 41.1 1.0 PG L:ATP1000 2.8 41.1 1.0 HB2 L:SER48 2.9 38.3 1.0 PA L:ATP1000 3.2 41.1 1.0 O3G L:ATP1000 3.3 41.1 1.0 CB L:SER48 3.5 38.3 1.0 OG L:SER48 3.5 38.3 1.0 O3A L:ATP1000 3.5 41.1 1.0 PB L:ATP1000 3.6 41.1 1.0 HB3 L:SER48 3.8 38.3 1.0 O2A L:ATP1000 4.2 41.1 1.0 O1B L:ATP1000 4.2 41.1 1.0 O2G L:ATP1000 4.3 41.1 1.0 HG L:SER48 4.3 38.3 1.0 O5' L:ATP1000 4.3 41.1 1.0 H L:SER48 4.4 38.3 1.0 O2B L:ATP1000 4.9 41.1 1.0 CA L:SER48 4.9 38.3 1.0 H2' L:ATP1000 5.0 41.1 1.0

S.K.Amstrup, N.Sofos, J.L.Karlsen, R.B.Skjerning, T.Boesen, J.J.Enghild, B.Hove-Jensen, D.E.Brodersen. Structural Remodelling of the Carbon-Phosphorus Lyase Machinery By A Dual Abc Atpase Biorxiv 2022.
DOI: 10.1101/2022.06.09.495270