Magnesium in PDB 1gki: Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
Protein crystallography data
The structure of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+., PDB code: 1gki
was solved by
F.X.Gomis-Ruth,
G.Moncalian,
F.De La Cruz,
M.Coll,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
50 /
3.0
|
Space group
|
P 31 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
151.100,
151.100,
251.600,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
21 /
23.2
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
(pdb code 1gki). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the
Plasmid Coupling Protein Trwb in Complex with Adp and MG2+., PDB code: 1gki:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
Magnesium binding site 1 out
of 5 in 1gki
Go back to
Magnesium Binding Sites List in 1gki
Magnesium binding site 1 out
of 5 in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
 Mono view
 Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg702
b:57.5
occ:0.69
|
O3B
|
A:ADP701
|
2.2
|
53.4
|
0.8
|
OG
|
A:SER137
|
2.5
|
61.0
|
1.0
|
O1B
|
A:ADP701
|
3.2
|
54.6
|
0.8
|
PB
|
A:ADP701
|
3.2
|
52.5
|
0.8
|
CB
|
A:SER137
|
3.8
|
55.6
|
1.0
|
O1A
|
A:ADP701
|
3.9
|
53.6
|
0.8
|
O3A
|
A:ADP701
|
3.9
|
51.3
|
0.8
|
N
|
A:SER137
|
4.2
|
52.1
|
1.0
|
CE
|
A:LYS136
|
4.3
|
43.2
|
1.0
|
O2B
|
A:ADP701
|
4.4
|
53.6
|
0.8
|
CA
|
A:SER137
|
4.5
|
52.3
|
1.0
|
NZ
|
A:LYS136
|
4.5
|
43.1
|
1.0
|
CB
|
A:LYS136
|
4.6
|
47.6
|
1.0
|
PA
|
A:ADP701
|
4.6
|
51.0
|
0.8
|
|
Magnesium binding site 2 out
of 5 in 1gki
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Magnesium Binding Sites List in 1gki
Magnesium binding site 2 out
of 5 in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
 Mono view
 Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg702
b:57.4
occ:0.78
|
O3B
|
B:ADP701
|
2.1
|
54.9
|
1.0
|
OG
|
B:SER137
|
2.5
|
56.6
|
1.0
|
O1B
|
B:ADP701
|
2.9
|
53.8
|
1.0
|
PB
|
B:ADP701
|
3.1
|
47.4
|
1.0
|
O
|
B:HOH2010
|
3.7
|
41.4
|
1.0
|
CB
|
B:SER137
|
3.8
|
54.6
|
1.0
|
O3A
|
B:ADP701
|
4.0
|
48.1
|
1.0
|
O1A
|
B:ADP701
|
4.2
|
56.3
|
1.0
|
N
|
B:SER137
|
4.2
|
50.6
|
1.0
|
O2B
|
B:ADP701
|
4.2
|
51.4
|
1.0
|
CA
|
B:SER137
|
4.5
|
51.1
|
1.0
|
NZ
|
B:LYS136
|
4.5
|
30.3
|
1.0
|
CB
|
B:LYS136
|
4.6
|
40.4
|
1.0
|
PA
|
B:ADP701
|
4.8
|
52.5
|
1.0
|
|
Magnesium binding site 3 out
of 5 in 1gki
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Magnesium Binding Sites List in 1gki
Magnesium binding site 3 out
of 5 in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
 Mono view
 Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg702
b:62.6
occ:1.00
|
O3B
|
D:ADP701
|
2.3
|
56.5
|
1.0
|
OG
|
D:SER137
|
2.5
|
56.4
|
1.0
|
O1B
|
D:ADP701
|
2.9
|
56.0
|
1.0
|
PB
|
D:ADP701
|
3.1
|
50.8
|
1.0
|
CB
|
D:SER137
|
3.8
|
53.1
|
1.0
|
O3A
|
D:ADP701
|
3.8
|
54.3
|
1.0
|
O1A
|
D:ADP701
|
4.0
|
55.1
|
1.0
|
N
|
D:SER137
|
4.1
|
50.6
|
1.0
|
CE
|
D:LYS136
|
4.4
|
37.3
|
1.0
|
O2B
|
D:ADP701
|
4.4
|
59.0
|
1.0
|
CA
|
D:SER137
|
4.4
|
49.6
|
1.0
|
NZ
|
D:LYS136
|
4.5
|
34.6
|
1.0
|
CB
|
D:LYS136
|
4.5
|
44.3
|
1.0
|
PA
|
D:ADP701
|
4.6
|
54.3
|
1.0
|
|
Magnesium binding site 4 out
of 5 in 1gki
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Magnesium Binding Sites List in 1gki
Magnesium binding site 4 out
of 5 in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
 Mono view
 Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg702
b:61.2
occ:0.89
|
O3B
|
E:ADP701
|
2.1
|
59.1
|
1.0
|
OG
|
E:SER137
|
2.6
|
59.4
|
1.0
|
PB
|
E:ADP701
|
3.2
|
57.4
|
1.0
|
O1B
|
E:ADP701
|
3.3
|
58.6
|
1.0
|
O
|
E:HOH2057
|
3.7
|
38.8
|
1.0
|
CB
|
E:SER137
|
3.9
|
54.5
|
1.0
|
O
|
E:HOH2054
|
3.9
|
33.6
|
1.0
|
O2B
|
E:ADP701
|
4.1
|
56.6
|
1.0
|
N
|
E:SER137
|
4.2
|
47.7
|
1.0
|
O3A
|
E:ADP701
|
4.3
|
60.2
|
1.0
|
CE
|
E:LYS136
|
4.4
|
32.5
|
1.0
|
O
|
E:HOH2012
|
4.4
|
33.0
|
1.0
|
NZ
|
E:LYS136
|
4.5
|
31.0
|
1.0
|
CA
|
E:SER137
|
4.6
|
51.9
|
1.0
|
CB
|
E:LYS136
|
4.6
|
39.2
|
1.0
|
O1A
|
E:ADP701
|
4.7
|
62.0
|
1.0
|
|
Magnesium binding site 5 out
of 5 in 1gki
Go back to
Magnesium Binding Sites List in 1gki
Magnesium binding site 5 out
of 5 in the Plasmid Coupling Protein Trwb in Complex with Adp and MG2+.
 Mono view
 Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Plasmid Coupling Protein Trwb in Complex with Adp and MG2+. within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mg702
b:59.2
occ:0.73
|
OG
|
G:SER137
|
2.1
|
61.1
|
1.0
|
O3B
|
G:ADP701
|
2.7
|
56.8
|
0.8
|
CB
|
G:SER137
|
3.5
|
57.0
|
1.0
|
N
|
G:SER137
|
3.8
|
55.8
|
1.0
|
PB
|
G:ADP701
|
3.8
|
56.5
|
0.8
|
O1B
|
G:ADP701
|
3.9
|
56.1
|
0.8
|
CA
|
G:SER137
|
4.0
|
57.2
|
1.0
|
O3A
|
G:ADP701
|
4.3
|
58.2
|
0.8
|
CB
|
G:LYS136
|
4.4
|
50.8
|
1.0
|
CE
|
G:LYS136
|
4.5
|
46.5
|
1.0
|
O1A
|
G:ADP701
|
4.6
|
59.8
|
0.8
|
C
|
G:LYS136
|
4.7
|
54.5
|
1.0
|
NZ
|
G:LYS136
|
4.9
|
46.4
|
1.0
|
O
|
G:ASP356
|
5.0
|
53.4
|
1.0
|
|
Reference:
F.X.Gomis-Ruth,
G.Moncalian,
R.Perez-Luque,
A.Gonzalez,
E.Cabezon,
F.De La Cruz,
M.Coll.
The Bacterial Conjugation Protein Trwb Resembles Ring Helicases and F1-Atpase Nature V. 409 637 2001.
ISSN: ISSN 0028-0836
PubMed: 11214325
DOI: 10.1038/35054586
Page generated: Tue Aug 13 03:45:59 2024
|