Magnesium in PDB 8s0e: H. Sapiens Occm Bound to Double Stranded Dna
Enzymatic activity of H. Sapiens Occm Bound to Double Stranded Dna
All present enzymatic activity of H. Sapiens Occm Bound to Double Stranded Dna:
3.6.4.12;
Other elements in 8s0e:
The structure of H. Sapiens Occm Bound to Double Stranded Dna also contains other interesting chemical elements:
Magnesium Binding Sites:
The binding sites of Magnesium atom in the H. Sapiens Occm Bound to Double Stranded Dna
(pdb code 8s0e). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the
H. Sapiens Occm Bound to Double Stranded Dna, PDB code: 8s0e:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
Magnesium binding site 1 out
of 5 in 8s0e
Go back to
Magnesium Binding Sites List in 8s0e
Magnesium binding site 1 out
of 5 in the H. Sapiens Occm Bound to Double Stranded Dna
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of H. Sapiens Occm Bound to Double Stranded Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
2:Mg1002
b:133.1
occ:1.00
|
O1B
|
2:AGS1001
|
1.9
|
145.2
|
1.0
|
OG
|
2:SER530
|
2.1
|
146.1
|
1.0
|
O3G
|
2:AGS1001
|
2.3
|
145.2
|
1.0
|
CB
|
2:SER530
|
2.9
|
146.1
|
1.0
|
PG
|
2:AGS1001
|
3.1
|
145.2
|
1.0
|
O2G
|
2:AGS1001
|
3.1
|
145.2
|
1.0
|
PB
|
2:AGS1001
|
3.2
|
145.2
|
1.0
|
N
|
2:SER530
|
3.2
|
146.1
|
1.0
|
O1A
|
2:AGS1001
|
3.4
|
145.2
|
1.0
|
O3B
|
2:AGS1001
|
3.5
|
145.2
|
1.0
|
CA
|
2:SER530
|
3.6
|
146.1
|
1.0
|
PA
|
2:AGS1001
|
3.9
|
145.2
|
1.0
|
O2A
|
2:AGS1001
|
4.0
|
145.2
|
1.0
|
O3A
|
2:AGS1001
|
4.0
|
145.2
|
1.0
|
C
|
2:LYS529
|
4.3
|
156.3
|
1.0
|
N
|
2:LYS529
|
4.4
|
156.3
|
1.0
|
O2B
|
2:AGS1001
|
4.4
|
145.2
|
1.0
|
CB
|
2:LYS529
|
4.5
|
156.3
|
1.0
|
CA
|
2:LYS529
|
4.6
|
156.3
|
1.0
|
NE2
|
6:GLN479
|
4.7
|
155.1
|
1.0
|
C
|
2:SER530
|
4.9
|
146.1
|
1.0
|
S1G
|
2:AGS1001
|
4.9
|
145.2
|
1.0
|
|
Magnesium binding site 2 out
of 5 in 8s0e
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Magnesium Binding Sites List in 8s0e
Magnesium binding site 2 out
of 5 in the H. Sapiens Occm Bound to Double Stranded Dna
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of H. Sapiens Occm Bound to Double Stranded Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
6:Mg902
b:162.0
occ:1.00
|
O1B
|
6:AGS901
|
1.8
|
167.3
|
1.0
|
OG
|
6:SER403
|
2.0
|
150.2
|
1.0
|
O2G
|
6:AGS901
|
2.2
|
167.3
|
1.0
|
O3G
|
6:AGS901
|
2.3
|
167.3
|
1.0
|
PG
|
6:AGS901
|
2.6
|
167.3
|
1.0
|
PB
|
6:AGS901
|
2.8
|
167.3
|
1.0
|
CB
|
6:SER403
|
3.1
|
150.2
|
1.0
|
O3B
|
6:AGS901
|
3.2
|
167.3
|
1.0
|
O3A
|
6:AGS901
|
3.4
|
167.3
|
1.0
|
N
|
6:SER403
|
3.6
|
150.2
|
1.0
|
O1A
|
6:AGS901
|
3.6
|
167.3
|
1.0
|
PA
|
6:AGS901
|
3.8
|
167.3
|
1.0
|
CA
|
6:SER403
|
3.8
|
150.2
|
1.0
|
O2A
|
6:AGS901
|
4.0
|
167.3
|
1.0
|
CB
|
6:LYS402
|
4.1
|
151.3
|
1.0
|
O2B
|
6:AGS901
|
4.2
|
167.3
|
1.0
|
NH2
|
4:ARG732
|
4.3
|
166.7
|
1.0
|
OD2
|
6:ASP460
|
4.3
|
153.8
|
1.0
|
C
|
6:LYS402
|
4.4
|
151.3
|
1.0
|
OD1
|
6:ASP460
|
4.4
|
153.8
|
1.0
|
S1G
|
6:AGS901
|
4.4
|
167.3
|
1.0
|
CE
|
6:LYS402
|
4.6
|
151.3
|
1.0
|
CA
|
6:LYS402
|
4.7
|
151.3
|
1.0
|
CG
|
6:ASP460
|
4.8
|
153.8
|
1.0
|
|
Magnesium binding site 3 out
of 5 in 8s0e
Go back to
Magnesium Binding Sites List in 8s0e
Magnesium binding site 3 out
of 5 in the H. Sapiens Occm Bound to Double Stranded Dna
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of H. Sapiens Occm Bound to Double Stranded Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg902
b:198.2
occ:1.00
|
OG1
|
A:THR541
|
2.1
|
202.8
|
1.0
|
O1B
|
A:AGS901
|
2.1
|
211.5
|
1.0
|
O2G
|
A:AGS901
|
2.1
|
211.5
|
1.0
|
CB
|
A:THR541
|
3.1
|
202.8
|
1.0
|
PG
|
A:AGS901
|
3.1
|
211.5
|
1.0
|
PB
|
A:AGS901
|
3.2
|
211.5
|
1.0
|
S1G
|
A:AGS901
|
3.5
|
211.5
|
1.0
|
O3B
|
A:AGS901
|
3.6
|
211.5
|
1.0
|
O2A
|
A:AGS901
|
3.8
|
211.5
|
1.0
|
O3A
|
A:AGS901
|
3.9
|
211.5
|
1.0
|
CG2
|
A:THR541
|
4.0
|
202.8
|
1.0
|
O1A
|
A:AGS901
|
4.0
|
211.5
|
1.0
|
NH2
|
D:ARG209
|
4.0
|
182.8
|
1.0
|
OD2
|
A:ASP620
|
4.0
|
215.6
|
1.0
|
PA
|
A:AGS901
|
4.1
|
211.5
|
1.0
|
N
|
A:THR541
|
4.3
|
202.8
|
1.0
|
CA
|
A:THR541
|
4.3
|
202.8
|
1.0
|
O3G
|
A:AGS901
|
4.5
|
211.5
|
1.0
|
O2B
|
A:AGS901
|
4.5
|
211.5
|
1.0
|
OD1
|
A:ASP620
|
4.8
|
215.6
|
1.0
|
CG
|
A:ASP620
|
4.8
|
215.6
|
1.0
|
|
Magnesium binding site 4 out
of 5 in 8s0e
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Magnesium Binding Sites List in 8s0e
Magnesium binding site 4 out
of 5 in the H. Sapiens Occm Bound to Double Stranded Dna
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of H. Sapiens Occm Bound to Double Stranded Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg902
b:137.6
occ:1.00
|
OG1
|
D:THR74
|
2.1
|
142.2
|
1.0
|
O1B
|
D:AGS901
|
2.2
|
151.6
|
1.0
|
O2G
|
D:AGS901
|
2.2
|
151.6
|
1.0
|
PB
|
D:AGS901
|
3.3
|
151.6
|
1.0
|
CB
|
D:THR74
|
3.3
|
142.2
|
1.0
|
PG
|
D:AGS901
|
3.3
|
151.6
|
1.0
|
O3B
|
D:AGS901
|
3.6
|
151.6
|
1.0
|
O2B
|
D:AGS901
|
3.8
|
151.6
|
1.0
|
CG2
|
D:THR74
|
4.0
|
142.2
|
1.0
|
S1G
|
D:AGS901
|
4.0
|
151.6
|
1.0
|
OD2
|
D:ASP159
|
4.2
|
163.5
|
1.0
|
OE1
|
E:GLU146
|
4.2
|
131.7
|
1.0
|
N
|
D:THR74
|
4.5
|
142.2
|
1.0
|
CA
|
D:THR74
|
4.5
|
142.2
|
1.0
|
O3A
|
D:AGS901
|
4.6
|
151.6
|
1.0
|
O3G
|
D:AGS901
|
4.6
|
151.6
|
1.0
|
OE2
|
E:GLU146
|
4.8
|
131.7
|
1.0
|
O1A
|
D:AGS901
|
4.8
|
151.6
|
1.0
|
CD
|
E:GLU146
|
4.9
|
131.7
|
1.0
|
|
Magnesium binding site 5 out
of 5 in 8s0e
Go back to
Magnesium Binding Sites List in 8s0e
Magnesium binding site 5 out
of 5 in the H. Sapiens Occm Bound to Double Stranded Dna
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of H. Sapiens Occm Bound to Double Stranded Dna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg502
b:151.9
occ:1.00
|
O1B
|
E:AGS501
|
2.0
|
133.8
|
1.0
|
OG1
|
E:THR44
|
2.0
|
138.8
|
1.0
|
O2G
|
E:AGS501
|
2.1
|
133.8
|
1.0
|
O3G
|
E:AGS501
|
2.3
|
133.8
|
1.0
|
PG
|
E:AGS501
|
2.5
|
133.8
|
1.0
|
CB
|
E:THR44
|
2.8
|
138.8
|
1.0
|
PB
|
E:AGS501
|
3.1
|
133.8
|
1.0
|
O3B
|
E:AGS501
|
3.3
|
133.8
|
1.0
|
N
|
E:THR44
|
3.8
|
138.8
|
1.0
|
CG2
|
E:THR44
|
3.9
|
138.8
|
1.0
|
CA
|
E:THR44
|
3.9
|
138.8
|
1.0
|
O2A
|
E:AGS501
|
3.9
|
133.8
|
1.0
|
O1A
|
E:AGS501
|
4.1
|
133.8
|
1.0
|
O3A
|
E:AGS501
|
4.2
|
133.8
|
1.0
|
O2B
|
E:AGS501
|
4.2
|
133.8
|
1.0
|
PA
|
E:AGS501
|
4.3
|
133.8
|
1.0
|
S1G
|
E:AGS501
|
4.3
|
133.8
|
1.0
|
C
|
E:LYS43
|
5.0
|
139.5
|
1.0
|
|
Reference:
F.Weissmann,
J.F.Greiwe,
T.Puehringer,
E.L.Eastwood,
E.C.Couves,
T.C.R.Miller,
J.F.X.Diffley,
A.Costa.
Mcm Double Hexamer Loading Visualised with Human Proteins Nature 2024.
ISSN: ESSN 1476-4687
Page generated: Thu Oct 31 22:10:33 2024
|