Magnesium in PDB 7t21: E. Coli Dnab Bound to Ssdna and Adp-ALF4

All present enzymatic activity of E. Coli Dnab Bound to Ssdna and Adp-ALF4:
3.6.4.12;

The structure of E. Coli Dnab Bound to Ssdna and Adp-ALF4 also contains other interesting chemical elements:

Aluminium	(Al)	5 atoms
Fluorine	(F)	20 atoms

The binding sites of Magnesium atom in the E. Coli Dnab Bound to Ssdna and Adp-ALF4 (pdb code 7t21). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the E. Coli Dnab Bound to Ssdna and Adp-ALF4, PDB code: 7t21:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the E. Coli Dnab Bound to Ssdna and Adp-ALF4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E. Coli Dnab Bound to Ssdna and Adp-ALF4 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1003 b:216.0 occ:1.00 F4 B:ALF1002 2.0 216.0 1.0 F1 B:ALF1002 2.0 215.9 1.0 OG1 B:THR238 2.0 153.2 1.0 O1B B:ADP1001 2.0 215.9 1.0 CB B:THR238 2.5 153.2 1.0 AL B:ALF1002 2.7 215.9 1.0 OE2 B:GLU262 3.1 181.3 1.0 PB B:ADP1001 3.1 215.9 1.0 CG2 B:THR238 3.3 153.2 1.0 O2B B:ADP1001 3.3 215.9 1.0 OE1 B:GLU262 3.4 181.3 1.0 CD B:GLU262 3.5 181.3 1.0 OD2 B:ASP343 3.8 184.3 1.0 CA B:THR238 3.8 153.2 1.0 N B:THR238 4.0 153.2 1.0 O2A B:ADP1001 4.1 215.9 1.0 O3B B:ADP1001 4.1 215.9 1.0 F3 B:ALF1002 4.2 215.9 1.0 F2 B:ALF1002 4.2 215.9 1.0 O3A B:ADP1001 4.2 215.9 1.0 O1A B:ADP1001 4.2 215.9 1.0 NH1 B:ARG271 4.3 157.9 1.0 OD1 B:ASP343 4.3 184.3 1.0 PA B:ADP1001 4.4 215.9 1.0 CG B:ASP343 4.4 184.3 1.0 SD B:MET263 4.6 153.8 1.0 C B:THR238 4.8 153.2 1.0 CG B:GLU262 4.9 181.3 1.0

Magnesium binding site 2 out of 5 in the E. Coli Dnab Bound to Ssdna and Adp-ALF4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of E. Coli Dnab Bound to Ssdna and Adp-ALF4 within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1003 b:215.9 occ:1.00 F4 C:ALF1002 2.0 215.8 1.0 F1 C:ALF1002 2.0 216.0 1.0 OG1 C:THR238 2.0 124.1 1.0 O3B C:ADP1001 2.1 215.9 1.0 AL C:ALF1002 2.7 215.9 1.0 CB C:THR238 2.8 124.1 1.0 PB C:ADP1001 3.2 215.9 1.0 O2B C:ADP1001 3.3 215.9 1.0 OE1 C:GLU262 3.4 156.5 1.0 O2A C:ADP1001 3.6 216.0 1.0 CG2 C:THR238 3.6 124.1 1.0 SD C:MET263 3.8 142.1 1.0 OD2 C:ASP343 3.8 164.6 1.0 CA C:THR238 4.0 124.1 1.0 N C:THR238 4.1 124.1 1.0 O3A C:ADP1001 4.2 215.9 1.0 CD C:GLU262 4.2 156.5 1.0 F2 C:ALF1002 4.2 215.9 1.0 F3 C:ALF1002 4.2 216.0 1.0 NH1 C:ARG271 4.3 137.0 1.0 O1B C:ADP1001 4.3 215.9 1.0 PA C:ADP1001 4.3 216.0 1.0 OD1 C:ASP343 4.6 164.6 1.0 CG C:ASP343 4.6 164.6 1.0 OE2 C:GLU262 4.6 156.5 1.0 CG C:MET263 4.7 142.1 1.0 O1A C:ADP1001 4.8 215.9 1.0

Magnesium binding site 3 out of 5 in the E. Coli Dnab Bound to Ssdna and Adp-ALF4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of E. Coli Dnab Bound to Ssdna and Adp-ALF4 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1003 b:215.9 occ:1.00 F4 D:ALF1002 2.0 215.9 1.0 F1 D:ALF1002 2.0 215.9 1.0 OG1 D:THR238 2.0 144.0 1.0 O3B D:ADP1001 2.1 215.9 1.0 CB D:THR238 2.5 144.0 1.0 AL D:ALF1002 2.8 215.9 1.0 PB D:ADP1001 3.1 215.9 1.0 O1A D:ADP1001 3.3 216.0 1.0 O2B D:ADP1001 3.3 215.9 1.0 CG2 D:THR238 3.4 144.0 1.0 OE1 D:GLU262 3.4 179.0 1.0 OE2 D:GLU262 3.5 179.0 1.0 O2A D:ADP1001 3.6 216.0 1.0 PA D:ADP1001 3.6 215.9 1.0 CA D:THR238 3.7 144.0 1.0 CD D:GLU262 3.7 179.0 1.0 N D:THR238 3.7 144.0 1.0 O3A D:ADP1001 3.8 216.0 1.0 NH1 D:ARG271 4.1 162.2 1.0 OD2 D:ASP343 4.2 180.7 1.0 F2 D:ALF1002 4.2 215.9 1.0 F3 D:ALF1002 4.2 215.9 1.0 SD D:MET263 4.4 169.0 1.0 O1B D:ADP1001 4.4 215.9 1.0 C D:THR238 4.7 144.0 1.0 OD1 D:ASP343 4.7 180.7 1.0 CG D:ASP343 4.8 180.7 1.0 CG D:GLU262 4.9 179.0 1.0 N D:THR239 4.9 156.9 1.0 C D:LYS237 5.0 157.3 1.0

Magnesium binding site 4 out of 5 in the E. Coli Dnab Bound to Ssdna and Adp-ALF4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of E. Coli Dnab Bound to Ssdna and Adp-ALF4 within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1003 b:215.9 occ:1.00 F4 E:ALF1002 2.0 215.9 1.0 F1 E:ALF1002 2.0 216.0 1.0 OG1 E:THR238 2.0 127.2 1.0 O3B E:ADP1001 2.1 215.9 1.0 CB E:THR238 2.6 127.2 1.0 AL E:ALF1002 2.7 215.9 1.0 PB E:ADP1001 3.2 215.9 1.0 OE2 E:GLU262 3.2 175.0 1.0 O2B E:ADP1001 3.3 215.9 1.0 O2A E:ADP1001 3.4 216.0 1.0 OE1 E:GLU262 3.4 175.0 1.0 CG2 E:THR238 3.4 127.2 1.0 CD E:GLU262 3.6 175.0 1.0 CA E:THR238 3.9 127.2 1.0 OD2 E:ASP343 3.9 163.3 1.0 N E:THR238 4.0 127.2 1.0 O3A E:ADP1001 4.1 215.9 1.0 PA E:ADP1001 4.2 216.0 1.0 F2 E:ALF1002 4.2 215.9 1.0 F3 E:ALF1002 4.2 216.0 1.0 NH1 E:ARG271 4.3 157.8 1.0 SD E:MET263 4.3 155.5 1.0 O1B E:ADP1001 4.3 215.9 1.0 OD1 E:ASP343 4.6 163.3 1.0 O1A E:ADP1001 4.6 216.0 1.0 CG E:ASP343 4.7 163.3 1.0 CG E:GLU262 4.9 175.0 1.0

Magnesium binding site 5 out of 5 in the E. Coli Dnab Bound to Ssdna and Adp-ALF4


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of E. Coli Dnab Bound to Ssdna and Adp-ALF4 within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg1003 b:216.0 occ:1.00 F1 F:ALF1002 2.0 215.9 1.0 F4 F:ALF1002 2.0 215.9 1.0 OG1 F:THR238 2.0 105.1 1.0 O2B F:ADP1001 2.1 215.8 1.0 AL F:ALF1002 2.7 215.9 1.0 PB F:ADP1001 2.8 215.9 1.0 CB F:THR238 2.9 105.1 1.0 O3B F:ADP1001 3.2 216.0 1.0 O1B F:ADP1001 3.3 216.0 1.0 OE2 F:GLU262 3.4 125.1 1.0 OE1 F:GLU262 3.4 125.1 1.0 CG2 F:THR238 3.7 105.1 1.0 CD F:GLU262 3.7 125.1 1.0 OD2 F:ASP343 3.8 127.5 1.0 SD F:MET263 4.0 112.1 1.0 NH1 F:ARG271 4.1 119.5 1.0 CA F:THR238 4.1 105.1 1.0 N F:THR238 4.2 105.1 1.0 F3 F:ALF1002 4.2 216.0 1.0 F2 F:ALF1002 4.2 215.9 1.0 O3A F:ADP1001 4.3 215.9 1.0 OD1 F:ASP343 4.6 127.5 1.0 CG F:ASP343 4.6 127.5 1.0 O2A F:ADP1001 4.6 216.0 1.0 CG F:MET263 4.8 112.1 1.0 CZ F:ARG271 4.9 119.5 1.0 NH2 F:ARG271 4.9 119.5 1.0

A.J.Oakley, Z.Q.Xu. Sequence of Conformation Changes of Dnab Helicase During Dna Unwinding and Priming in Escherichia Coli To Be Published.