Magnesium in PDB 7t23: E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4

Enzymatic activity of E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4

All present enzymatic activity of E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4:
2.7.7.101; 3.6.4.12;

Other elements in 7t23:

The structure of E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 also contains other interesting chemical elements:

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 (pdb code 7t23). 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4, PDB code: 7t23:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 7t23

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Magnesium binding site 1 out of 5 in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1003

b:119.3
occ:1.00
 F4 B:ALF1002 2.0 119.3 1.0
F1 B:ALF1002 2.0 119.3 1.0
OG1 B:THR238 2.0 127.9 1.0
O3B B:ADP1001 2.1 128.6 1.0
AL B:ALF1002 2.8 119.3 1.0
CB B:THR238 2.9 127.9 1.0
O2A B:ADP1001 3.0 128.6 1.0
OE1 B:GLU262 3.0 130.9 1.0
PB B:ADP1001 3.1 128.6 1.0
OE2 B:GLU262 3.2 130.9 1.0
O2B B:ADP1001 3.4 128.6 1.0
CD B:GLU262 3.4 130.9 1.0
PA B:ADP1001 3.5 128.6 1.0
O1A B:ADP1001 3.6 128.6 1.0
O3A B:ADP1001 3.7 128.6 1.0
N B:THR238 3.7 127.9 1.0
CA B:THR238 3.9 127.9 1.0
CG2 B:THR238 4.0 127.9 1.0
F3 B:ALF1002 4.2 119.3 1.0
F2 B:ALF1002 4.2 119.3 1.0
NH1 B:ARG271 4.3 136.2 1.0
O1B B:ADP1001 4.5 128.6 1.0
CG B:GLU262 4.8 130.9 1.0
C B:LYS237 4.9 131.7 1.0
SD B:MET263 4.9 134.0 1.0
OD1 B:ASP343 5.0 133.9 1.0

Magnesium binding site 2 out of 5 in 7t23

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Magnesium binding site 2 out of 5 in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1003

b:107.6
occ:1.00
 F4 C:ALF1002 2.0 107.6 1.0
F1 C:ALF1002 2.0 107.6 1.0
OG1 C:THR238 2.0 120.6 1.0
O3B C:ADP1001 2.1 119.5 1.0
AL C:ALF1002 2.8 107.6 1.0
CB C:THR238 2.9 120.6 1.0
OE1 C:GLU262 2.9 110.4 1.0
PB C:ADP1001 3.0 119.5 1.0
O3A C:ADP1001 3.2 119.5 1.0
OE2 C:GLU262 3.3 110.4 1.0
O2B C:ADP1001 3.3 119.5 1.0
O2A C:ADP1001 3.4 119.5 1.0
CD C:GLU262 3.5 110.4 1.0
O1A C:ADP1001 3.5 119.5 1.0
PA C:ADP1001 3.5 119.5 1.0
N C:THR238 3.7 120.6 1.0
CA C:THR238 3.9 120.6 1.0
CG2 C:THR238 4.0 120.6 1.0
F2 C:ALF1002 4.2 107.6 1.0
F3 C:ALF1002 4.2 107.6 1.0
NH1 C:ARG271 4.3 126.8 1.0
O1B C:ADP1001 4.4 119.5 1.0
OD1 C:ASP343 4.6 118.7 1.0
C C:LYS237 4.9 121.2 1.0
CG C:GLU262 4.9 110.4 1.0
SD C:MET263 4.9 122.0 1.0
C C:THR238 5.0 120.6 1.0

Magnesium binding site 3 out of 5 in 7t23

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Magnesium binding site 3 out of 5 in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1003

b:114.2
occ:1.00
 F1 D:ALF1002 2.0 114.2 1.0
F4 D:ALF1002 2.0 114.2 1.0
OG1 D:THR238 2.0 117.7 1.0
O3B D:ADP1001 2.1 124.8 1.0
AL D:ALF1002 2.8 114.2 1.0
CB D:THR238 2.9 117.7 1.0
O1A D:ADP1001 3.0 124.8 1.0
OE1 D:GLU262 3.0 111.2 1.0
PB D:ADP1001 3.1 124.8 1.0
OE2 D:GLU262 3.3 111.2 1.0
O2B D:ADP1001 3.3 124.8 1.0
CD D:GLU262 3.4 111.2 1.0
O3A D:ADP1001 3.8 124.8 1.0
PA D:ADP1001 3.8 124.8 1.0
N D:THR238 3.9 117.7 1.0
CG2 D:THR238 3.9 117.7 1.0
CA D:THR238 4.0 117.7 1.0
F3 D:ALF1002 4.2 114.2 1.0
F2 D:ALF1002 4.2 114.2 1.0
NH1 D:ARG271 4.3 121.6 1.0
O2A D:ADP1001 4.4 124.8 1.0
O1B D:ADP1001 4.5 124.8 1.0
SD D:MET263 4.5 120.7 1.0
OD2 D:ASP343 4.6 114.8 1.0
CG D:GLU262 4.7 111.2 1.0
OD1 D:ASP343 4.8 114.8 1.0

Magnesium binding site 4 out of 5 in 7t23

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Magnesium binding site 4 out of 5 in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1003

b:127.6
occ:1.00
 F1 E:ALF1002 2.0 127.6 1.0
F4 E:ALF1002 2.0 127.6 1.0
OG1 E:THR238 2.0 119.0 1.0
O1B E:ADP1001 2.1 127.6 1.0
AL E:ALF1002 2.8 127.6 1.0
CB E:THR238 2.9 119.0 1.0
OE1 E:GLU262 3.0 119.5 1.0
PB E:ADP1001 3.1 127.6 1.0
O1A E:ADP1001 3.2 127.6 1.0
O2B E:ADP1001 3.3 127.6 1.0
O2A E:ADP1001 3.6 127.6 1.0
PA E:ADP1001 3.7 127.6 1.0
CD E:GLU262 3.7 119.5 1.0
OE2 E:GLU262 3.8 119.5 1.0
N E:THR238 3.9 119.0 1.0
O3A E:ADP1001 3.9 127.6 1.0
CG2 E:THR238 3.9 119.0 1.0
CA E:THR238 4.0 119.0 1.0
NH1 E:ARG271 4.2 131.7 1.0
F2 E:ALF1002 4.2 127.6 1.0
F3 E:ALF1002 4.2 127.6 1.0
O3B E:ADP1001 4.5 127.6 1.0
OD2 E:ASP343 4.6 118.0 1.0
OD1 E:ASP343 4.8 118.0 1.0
SD E:MET263 4.9 137.5 1.0
CG E:GLU262 4.9 119.5 1.0

Magnesium binding site 5 out of 5 in 7t23

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Magnesium binding site 5 out of 5 in the E. Coli Dnab Bound to Three Dnag C-Terminal Domains, Ssdna, Adp and 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 Three Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg1003

b:133.4
occ:1.00
 F1 F:ALF1002 2.0 133.4 1.0
F4 F:ALF1002 2.0 133.4 1.0
OG1 F:THR238 2.0 146.4 1.0
O3B F:ADP1001 2.0 144.0 1.0
AL F:ALF1002 2.8 133.4 1.0
CB F:THR238 2.9 146.4 1.0
PB F:ADP1001 3.0 144.0 1.0
O2A F:ADP1001 3.0 144.0 1.0
O3A F:ADP1001 3.2 144.0 1.0
O2B F:ADP1001 3.3 144.0 1.0
PA F:ADP1001 3.6 144.0 1.0
N F:THR238 3.8 146.4 1.0
CA F:THR238 3.9 146.4 1.0
CG2 F:THR238 3.9 146.4 1.0
OE1 F:GLU262 4.0 156.3 1.0
O1A F:ADP1001 4.2 144.0 1.0
F3 F:ALF1002 4.2 133.4 1.0
F2 F:ALF1002 4.2 133.4 1.0
O1B F:ADP1001 4.4 144.0 1.0
OD1 F:ASP343 4.4 155.8 1.0
SD F:MET263 4.6 151.8 1.0
NH1 F:ARG271 4.7 150.1 1.0
CD F:GLU262 4.7 156.3 1.0
OE2 F:GLU262 4.8 156.3 1.0
OD2 F:ASP343 4.9 155.8 1.0

Reference:

A.J.Oakley, Z.Q.Xu. Sequence of Conformation Changes of Dnab Helicase During Dna Unwinding and Priming in Escherichia Coli To Be Published.
Page generated: Thu Apr 6 22:27:18 2023

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