Magnesium in PDB 7t22: E. Coli Dnab Bound to Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4
Enzymatic activity of E. Coli Dnab Bound to Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4
All present enzymatic activity of E. Coli Dnab Bound to Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4:
2.7.7.101;
3.6.4.12;
Other elements in 7t22:
The structure of E. Coli Dnab Bound to Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the E. Coli Dnab Bound to Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4
(pdb code 7t22). 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4, PDB code: 7t22:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
Magnesium binding site 1 out
of 5 in 7t22
Go back to
Magnesium Binding Sites List in 7t22
Magnesium binding site 1 out
of 5 in the E. Coli Dnab Bound to Two 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg1003
b:157.7
occ:1.00
|
F4
|
B:ALF1002
|
2.0
|
157.7
|
1.0
|
F1
|
B:ALF1002
|
2.0
|
157.7
|
1.0
|
OG1
|
B:THR238
|
2.0
|
159.2
|
1.0
|
O3B
|
B:ADP1001
|
2.1
|
171.1
|
1.0
|
AL
|
B:ALF1002
|
2.8
|
157.7
|
1.0
|
CB
|
B:THR238
|
2.9
|
159.2
|
1.0
|
OE1
|
B:GLU262
|
3.0
|
170.5
|
1.0
|
OE2
|
B:GLU262
|
3.0
|
170.5
|
1.0
|
PB
|
B:ADP1001
|
3.2
|
171.1
|
1.0
|
O2A
|
B:ADP1001
|
3.3
|
171.1
|
1.0
|
CD
|
B:GLU262
|
3.3
|
170.5
|
1.0
|
O2B
|
B:ADP1001
|
3.3
|
171.1
|
1.0
|
N
|
B:THR238
|
3.8
|
159.2
|
1.0
|
PA
|
B:ADP1001
|
3.9
|
171.1
|
1.0
|
CG2
|
B:THR238
|
3.9
|
159.2
|
1.0
|
NH1
|
B:ARG271
|
3.9
|
172.4
|
1.0
|
CA
|
B:THR238
|
4.0
|
159.2
|
1.0
|
O1A
|
B:ADP1001
|
4.0
|
171.1
|
1.0
|
O3A
|
B:ADP1001
|
4.0
|
171.1
|
1.0
|
F2
|
B:ALF1002
|
4.2
|
157.7
|
1.0
|
F3
|
B:ALF1002
|
4.2
|
157.7
|
1.0
|
O1B
|
B:ADP1001
|
4.4
|
171.1
|
1.0
|
SD
|
B:MET263
|
4.5
|
171.7
|
1.0
|
CG
|
B:GLU262
|
4.7
|
170.5
|
1.0
|
NH2
|
B:ARG271
|
4.8
|
172.4
|
1.0
|
CZ
|
B:ARG271
|
4.8
|
172.4
|
1.0
|
|
Magnesium binding site 2 out
of 5 in 7t22
Go back to
Magnesium Binding Sites List in 7t22
Magnesium binding site 2 out
of 5 in the E. Coli Dnab Bound to Two 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg1003
b:129.2
occ:1.00
|
F1
|
C:ALF1002
|
2.0
|
129.2
|
1.0
|
F4
|
C:ALF1002
|
2.0
|
129.2
|
1.0
|
OG1
|
C:THR238
|
2.1
|
140.2
|
1.0
|
O3B
|
C:ADP1001
|
2.1
|
147.2
|
1.0
|
AL
|
C:ALF1002
|
2.8
|
129.2
|
1.0
|
CB
|
C:THR238
|
2.9
|
140.2
|
1.0
|
OE1
|
C:GLU262
|
3.0
|
129.2
|
1.0
|
OE2
|
C:GLU262
|
3.1
|
129.2
|
1.0
|
PB
|
C:ADP1001
|
3.2
|
147.2
|
1.0
|
O1A
|
C:ADP1001
|
3.2
|
147.2
|
1.0
|
CD
|
C:GLU262
|
3.3
|
129.2
|
1.0
|
O2B
|
C:ADP1001
|
3.3
|
147.2
|
1.0
|
PA
|
C:ADP1001
|
3.8
|
147.2
|
1.0
|
N
|
C:THR238
|
3.8
|
140.2
|
1.0
|
O2A
|
C:ADP1001
|
3.9
|
147.2
|
1.0
|
CG2
|
C:THR238
|
3.9
|
140.2
|
1.0
|
CA
|
C:THR238
|
4.0
|
140.2
|
1.0
|
O3A
|
C:ADP1001
|
4.0
|
147.2
|
1.0
|
NH1
|
C:ARG271
|
4.2
|
153.1
|
1.0
|
F3
|
C:ALF1002
|
4.2
|
129.2
|
1.0
|
F2
|
C:ALF1002
|
4.2
|
129.2
|
1.0
|
O1B
|
C:ADP1001
|
4.4
|
147.2
|
1.0
|
CG
|
C:GLU262
|
4.7
|
129.2
|
1.0
|
SD
|
C:MET263
|
4.7
|
141.3
|
1.0
|
OD2
|
C:ASP343
|
4.9
|
145.5
|
1.0
|
|
Magnesium binding site 3 out
of 5 in 7t22
Go back to
Magnesium Binding Sites List in 7t22
Magnesium binding site 3 out
of 5 in the E. Coli Dnab Bound to Two 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg1003
b:139.9
occ:1.00
|
F4
|
D:ALF1002
|
2.0
|
139.9
|
1.0
|
F1
|
D:ALF1002
|
2.0
|
139.9
|
1.0
|
OG1
|
D:THR238
|
2.0
|
135.2
|
1.0
|
O3B
|
D:ADP1001
|
2.1
|
139.2
|
1.0
|
AL
|
D:ALF1002
|
2.8
|
139.9
|
1.0
|
CB
|
D:THR238
|
2.9
|
135.2
|
1.0
|
OE1
|
D:GLU262
|
3.0
|
131.3
|
1.0
|
OE2
|
D:GLU262
|
3.1
|
131.3
|
1.0
|
O1A
|
D:ADP1001
|
3.1
|
139.2
|
1.0
|
PB
|
D:ADP1001
|
3.2
|
139.2
|
1.0
|
O2B
|
D:ADP1001
|
3.3
|
139.2
|
1.0
|
CD
|
D:GLU262
|
3.4
|
131.3
|
1.0
|
CG2
|
D:THR238
|
3.9
|
135.2
|
1.0
|
N
|
D:THR238
|
3.9
|
135.2
|
1.0
|
PA
|
D:ADP1001
|
4.0
|
139.2
|
1.0
|
CA
|
D:THR238
|
4.0
|
135.2
|
1.0
|
O3A
|
D:ADP1001
|
4.0
|
139.2
|
1.0
|
NH1
|
D:ARG271
|
4.2
|
140.7
|
1.0
|
F2
|
D:ALF1002
|
4.2
|
139.9
|
1.0
|
F3
|
D:ALF1002
|
4.2
|
139.9
|
1.0
|
O2A
|
D:ADP1001
|
4.3
|
139.2
|
1.0
|
O1B
|
D:ADP1001
|
4.4
|
139.2
|
1.0
|
SD
|
D:MET263
|
4.5
|
136.6
|
1.0
|
CG
|
D:GLU262
|
4.8
|
131.3
|
1.0
|
OD1
|
D:ASP343
|
4.9
|
140.4
|
1.0
|
NH2
|
D:ARG271
|
5.0
|
140.7
|
1.0
|
|
Magnesium binding site 4 out
of 5 in 7t22
Go back to
Magnesium Binding Sites List in 7t22
Magnesium binding site 4 out
of 5 in the E. Coli Dnab Bound to Two 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg1003
b:157.4
occ:1.00
|
F4
|
E:ALF1002
|
2.0
|
157.4
|
1.0
|
F1
|
E:ALF1002
|
2.0
|
157.4
|
1.0
|
OG1
|
E:THR238
|
2.1
|
142.0
|
1.0
|
O1B
|
E:ADP1001
|
2.1
|
152.6
|
1.0
|
AL
|
E:ALF1002
|
2.8
|
157.4
|
1.0
|
CB
|
E:THR238
|
2.9
|
142.0
|
1.0
|
O1A
|
E:ADP1001
|
3.1
|
152.6
|
1.0
|
OE1
|
E:GLU262
|
3.2
|
141.6
|
1.0
|
PB
|
E:ADP1001
|
3.2
|
152.6
|
1.0
|
O2B
|
E:ADP1001
|
3.3
|
152.6
|
1.0
|
CD
|
E:GLU262
|
3.7
|
141.6
|
1.0
|
OE2
|
E:GLU262
|
3.8
|
141.6
|
1.0
|
CG2
|
E:THR238
|
3.9
|
142.0
|
1.0
|
PA
|
E:ADP1001
|
3.9
|
152.6
|
1.0
|
N
|
E:THR238
|
3.9
|
142.0
|
1.0
|
CA
|
E:THR238
|
4.0
|
142.0
|
1.0
|
O3A
|
E:ADP1001
|
4.0
|
152.6
|
1.0
|
O2A
|
E:ADP1001
|
4.1
|
152.6
|
1.0
|
F2
|
E:ALF1002
|
4.2
|
157.4
|
1.0
|
F3
|
E:ALF1002
|
4.2
|
157.4
|
1.0
|
NH1
|
E:ARG271
|
4.3
|
146.0
|
1.0
|
SD
|
E:MET263
|
4.4
|
156.4
|
1.0
|
O3B
|
E:ADP1001
|
4.4
|
152.6
|
1.0
|
OD2
|
E:ASP343
|
4.6
|
139.0
|
1.0
|
NH2
|
E:ARG271
|
4.9
|
146.0
|
1.0
|
OD1
|
E:ASP343
|
4.9
|
139.0
|
1.0
|
CG
|
E:GLU262
|
5.0
|
141.6
|
1.0
|
|
Magnesium binding site 5 out
of 5 in 7t22
Go back to
Magnesium Binding Sites List in 7t22
Magnesium binding site 5 out
of 5 in the E. Coli Dnab Bound to Two 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 Two Dnag C-Terminal Domains, Ssdna, Adp and ALF4 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg1003
b:168.3
occ:1.00
|
F4
|
F:ALF1002
|
2.0
|
168.3
|
1.0
|
F1
|
F:ALF1002
|
2.0
|
168.3
|
1.0
|
OG1
|
F:THR238
|
2.0
|
181.6
|
1.0
|
O2B
|
F:ADP1001
|
2.1
|
175.8
|
1.0
|
AL
|
F:ALF1002
|
2.8
|
168.3
|
1.0
|
CB
|
F:THR238
|
2.9
|
181.6
|
1.0
|
PB
|
F:ADP1001
|
3.2
|
175.8
|
1.0
|
O2A
|
F:ADP1001
|
3.2
|
175.8
|
1.0
|
O1B
|
F:ADP1001
|
3.3
|
175.8
|
1.0
|
OE2
|
F:GLU262
|
3.3
|
178.3
|
1.0
|
OE1
|
F:GLU262
|
3.5
|
178.3
|
1.0
|
CD
|
F:GLU262
|
3.7
|
178.3
|
1.0
|
N
|
F:THR238
|
3.9
|
181.6
|
1.0
|
PA
|
F:ADP1001
|
3.9
|
175.8
|
1.0
|
CG2
|
F:THR238
|
3.9
|
181.6
|
1.0
|
O3A
|
F:ADP1001
|
4.0
|
175.8
|
1.0
|
CA
|
F:THR238
|
4.0
|
181.6
|
1.0
|
NH1
|
F:ARG271
|
4.1
|
184.6
|
1.0
|
O1A
|
F:ADP1001
|
4.1
|
175.8
|
1.0
|
F2
|
F:ALF1002
|
4.2
|
168.3
|
1.0
|
F3
|
F:ALF1002
|
4.2
|
168.3
|
1.0
|
SD
|
F:MET263
|
4.4
|
172.7
|
1.0
|
O3B
|
F:ADP1001
|
4.4
|
175.8
|
1.0
|
OD2
|
F:ASP343
|
4.6
|
184.6
|
1.0
|
CE
|
F:LYS237
|
4.6
|
183.3
|
1.0
|
OD1
|
F:ASP343
|
4.8
|
184.6
|
1.0
|
CG
|
F:GLU262
|
4.9
|
178.3
|
1.0
|
NH2
|
F:ARG271
|
5.0
|
184.6
|
1.0
|
CZ
|
F:ARG271
|
5.0
|
184.6
|
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 09:02:31 2024
|