Magnesium in PDB 7t20: E. Coli Dnab Bound to Ssdna and Amppnp

Enzymatic activity of E. Coli Dnab Bound to Ssdna and Amppnp

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

Magnesium Binding Sites:

The binding sites of Magnesium atom in the E. Coli Dnab Bound to Ssdna and Amppnp (pdb code 7t20). 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 Dnab Bound to Ssdna and Amppnp, PDB code: 7t20:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 7t20

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Magnesium binding site 1 out of 4 in the E. Coli Dnab Bound to Ssdna and Amppnp


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 Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg1002

b:41.0
occ:1.00
 O2G C:ANP1001 2.1 42.0 1.0
O2B C:ANP1001 2.1 42.0 1.0
OG1 C:THR238 2.1 192.0 1.0
NZ C:LYS237 2.6 198.9 1.0
CB C:THR238 3.1 192.0 1.0
PB C:ANP1001 3.1 42.0 1.0
PG C:ANP1001 3.2 42.0 1.0
N3B C:ANP1001 3.4 42.0 1.0
OE1 C:GLU262 3.5 242.4 1.0
O1B C:ANP1001 3.7 42.0 1.0
N C:THR238 3.8 192.0 1.0
CA C:THR238 3.9 192.0 1.0
CE C:LYS237 3.9 198.9 1.0
O3G C:ANP1001 3.9 42.0 1.0
OD1 C:ASP343 4.0 241.0 1.0
CE C:MET263 4.2 246.7 1.0
CG2 C:THR238 4.3 192.0 1.0
O2A C:ANP1001 4.3 42.0 1.0
CD C:GLU262 4.4 242.4 1.0
O1G C:ANP1001 4.4 42.0 1.0
O3A C:ANP1001 4.5 42.0 1.0
OE2 C:GLU262 4.5 242.4 1.0
CD1 C:LEU382 4.6 217.9 1.0
PA C:ANP1001 4.8 42.0 1.0
C C:LYS237 4.8 198.9 1.0
O C:ASP343 4.9 241.0 1.0
O1A C:ANP1001 4.9 42.0 1.0
CB C:LYS237 4.9 198.9 1.0
CD2 C:TYR344 4.9 234.1 1.0
CG C:LYS237 5.0 198.9 1.0
CG C:MET263 5.0 246.7 1.0

Magnesium binding site 2 out of 4 in 7t20

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Magnesium binding site 2 out of 4 in the E. Coli Dnab Bound to Ssdna and Amppnp


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 Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg1002

b:305.2
occ:1.00
 OG1 D:THR238 2.1 162.0 1.0
O2B D:ANP1001 2.1 294.3 1.0
O2G D:ANP1001 2.1 310.2 1.0
NZ D:LYS237 2.2 165.4 1.0
OE1 D:GLU262 2.4 225.1 1.0
CB D:THR238 3.1 162.0 1.0
PB D:ANP1001 3.1 287.0 1.0
PG D:ANP1001 3.3 329.9 1.0
CD D:GLU262 3.3 225.1 1.0
O1B D:ANP1001 3.3 272.8 1.0
OE2 D:GLU262 3.5 225.1 1.0
N3B D:ANP1001 3.6 305.9 1.0
CE D:LYS237 3.6 165.4 1.0
OD1 D:ASP343 3.7 223.7 1.0
N D:THR238 3.8 162.0 1.0
CA D:THR238 3.9 162.0 1.0
O1G D:ANP1001 4.0 306.2 1.0
CG2 D:THR238 4.2 162.0 1.0
CD1 D:LEU382 4.4 214.0 1.0
O3A D:ANP1001 4.5 269.7 1.0
O3G D:ANP1001 4.5 314.9 1.0
CD D:LYS237 4.6 165.4 1.0
SD D:MET263 4.7 222.8 1.0
CG D:LYS237 4.7 165.4 1.0
CG D:MET263 4.7 222.8 1.0
CG D:GLU262 4.7 225.1 1.0
CG D:ASP343 4.7 223.7 1.0
CB D:LYS237 4.8 165.4 1.0
OD2 D:ASP343 4.9 223.7 1.0
C D:LYS237 4.9 165.4 1.0
O1A D:ANP1001 4.9 262.6 1.0
O2A D:ANP1001 5.0 262.8 1.0
CB D:GLU262 5.0 225.1 1.0

Magnesium binding site 3 out of 4 in 7t20

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Magnesium binding site 3 out of 4 in the E. Coli Dnab Bound to Ssdna and Amppnp


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 Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg1002

b:0.0
occ:1.00
 OG1 E:THR238 2.1 135.3 1.0
O2G E:ANP1001 2.1 0.0 1.0
O2B E:ANP1001 2.1 0.0 1.0
OE1 E:GLU262 3.0 174.1 1.0
CB E:THR238 3.1 135.3 1.0
NZ E:LYS237 3.1 150.2 1.0
PB E:ANP1001 3.2 0.0 1.0
PG E:ANP1001 3.2 0.0 1.0
O1B E:ANP1001 3.5 0.0 1.0
OE2 E:GLU262 3.5 174.1 1.0
O3G E:ANP1001 3.5 0.0 1.0
N3B E:ANP1001 3.6 0.0 1.0
CD E:GLU262 3.6 174.1 1.0
N E:THR238 4.0 135.3 1.0
CG2 E:THR238 4.0 135.3 1.0
SD E:MET263 4.1 171.6 1.0
CA E:THR238 4.1 135.3 1.0
OD1 E:ASP343 4.2 174.0 1.0
CE E:LYS237 4.4 150.2 1.0
O1G E:ANP1001 4.5 0.0 1.0
O2A E:ANP1001 4.5 0.0 1.0
O3A E:ANP1001 4.5 0.0 1.0
CG E:MET263 4.7 171.6 1.0
CG E:GLU262 5.0 174.1 1.0

Magnesium binding site 4 out of 4 in 7t20

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Magnesium binding site 4 out of 4 in the E. Coli Dnab Bound to Ssdna and Amppnp


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 Amppnp within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg1002

b:392.3
occ:1.00
 O2G F:ANP1001 2.1 404.7 1.0
O2B F:ANP1001 2.1 367.4 1.0
OG1 F:THR238 2.1 175.5 1.0
NZ F:LYS237 2.6 187.1 1.0
OE1 F:GLU262 2.7 252.7 1.0
CB F:THR238 3.1 175.5 1.0
PB F:ANP1001 3.2 347.8 1.0
PG F:ANP1001 3.3 410.4 1.0
O1B F:ANP1001 3.5 320.6 1.0
CD F:GLU262 3.5 252.7 1.0
N3B F:ANP1001 3.6 375.8 1.0
OD1 F:ASP343 3.7 242.8 1.0
CE F:LYS237 3.7 187.1 1.0
OE2 F:GLU262 3.7 252.7 1.0
O1G F:ANP1001 3.8 410.6 1.0
N F:THR238 3.9 175.5 1.0
CA F:THR238 4.0 175.5 1.0
CG2 F:THR238 4.2 175.5 1.0
CE F:MET263 4.3 229.2 1.0
O3A F:ANP1001 4.5 351.1 1.0
O3G F:ANP1001 4.6 430.1 1.0
O1A F:ANP1001 4.6 375.9 1.0
CG F:ASP343 4.7 242.8 1.0
CD1 F:LEU382 4.8 256.7 1.0
CG F:GLU262 4.9 252.7 1.0
OD2 F:ASP343 5.0 242.8 1.0
CD F:LYS237 5.0 187.1 1.0
C F:LYS237 5.0 187.1 1.0
CB F:LYS237 5.0 187.1 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 Oct 3 08:59:42 2024

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