Magnesium in PDB 8rpi: Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
Enzymatic activity of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
All present enzymatic activity of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp:
2.2.1.6;
Protein crystallography data
The structure of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp, PDB code: 8rpi
was solved by
L.Lucrezia,
C.Leogrande,
F.Rabe Von Pappenheim,
K.Tittmann,
M.Mueller,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
85.69 /
2.71
|
|
Space group
|
C 1 2 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
174.149,
118.539,
202.047,
90,
96.72,
90
|
|
R / Rfree (%)
|
19.5 /
23.4
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
(pdb code 8rpi). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the
Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp, PDB code: 8rpi:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
Magnesium binding site 1 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 1 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg702
b:55.4
occ:1.00
|
O
|
A:GLY488
|
1.9
|
54.2
|
1.0
|
|
O3B
|
A:TDL703
|
1.9
|
55.6
|
1.0
|
|
OD1
|
A:ASP459
|
2.1
|
57.5
|
1.0
|
|
O2A
|
A:TDL703
|
2.2
|
57.3
|
1.0
|
|
O
|
A:HOH801
|
2.2
|
56.7
|
1.0
|
|
OD1
|
A:ASN486
|
2.3
|
60.8
|
1.0
|
|
CG
|
A:ASP459
|
3.0
|
58.1
|
1.0
|
|
C
|
A:GLY488
|
3.1
|
55.7
|
1.0
|
|
H
|
A:LEU490
|
3.1
|
67.5
|
1.0
|
|
HD21
|
A:ASN486
|
3.1
|
67.3
|
1.0
|
|
PB
|
A:TDL703
|
3.2
|
54.1
|
1.0
|
|
OD2
|
A:ASP459
|
3.2
|
56.2
|
1.0
|
|
CG
|
A:ASN486
|
3.3
|
58.5
|
1.0
|
|
PA
|
A:TDL703
|
3.3
|
58.7
|
1.0
|
|
O3A
|
A:TDL703
|
3.4
|
54.6
|
1.0
|
|
H
|
A:GLY460
|
3.4
|
67.8
|
1.0
|
|
HA
|
A:TYR489
|
3.4
|
68.6
|
1.0
|
|
ND2
|
A:ASN486
|
3.6
|
56.1
|
1.0
|
|
H
|
A:GLY488
|
3.8
|
72.2
|
1.0
|
|
HB3
|
A:CYS458
|
3.8
|
63.8
|
1.0
|
|
H
|
A:ASP459
|
3.9
|
62.8
|
1.0
|
|
N
|
A:LEU490
|
3.9
|
56.3
|
1.0
|
|
N
|
A:TYR489
|
4.0
|
56.3
|
1.0
|
|
CA
|
A:GLY488
|
4.0
|
58.1
|
1.0
|
|
O7
|
A:TDL703
|
4.1
|
54.2
|
1.0
|
|
HD1
|
A:TYR489
|
4.1
|
64.8
|
1.0
|
|
N
|
A:GLY460
|
4.1
|
56.5
|
1.0
|
|
CA
|
A:TYR489
|
4.1
|
57.2
|
1.0
|
|
O1B
|
A:TDL703
|
4.1
|
55.0
|
1.0
|
|
N
|
A:GLY488
|
4.1
|
60.2
|
1.0
|
|
H
|
A:ASN486
|
4.2
|
69.9
|
1.0
|
|
HA2
|
A:GLY488
|
4.2
|
69.7
|
1.0
|
|
O2B
|
A:TDL703
|
4.3
|
58.6
|
1.0
|
|
HB2
|
A:LEU490
|
4.3
|
69.9
|
1.0
|
|
HA3
|
A:GLY460
|
4.4
|
64.7
|
1.0
|
|
HB3
|
A:LEU490
|
4.4
|
69.9
|
1.0
|
|
CB
|
A:ASP459
|
4.4
|
56.5
|
1.0
|
|
HD22
|
A:ASN486
|
4.4
|
67.3
|
1.0
|
|
N
|
A:ASP459
|
4.4
|
52.3
|
1.0
|
|
O
|
A:PHE484
|
4.5
|
58.2
|
1.0
|
|
O1A
|
A:TDL703
|
4.6
|
59.7
|
1.0
|
|
C
|
A:TYR489
|
4.6
|
55.5
|
1.0
|
|
CB
|
A:ASN486
|
4.6
|
58.8
|
1.0
|
|
N
|
A:ASN486
|
4.7
|
58.3
|
1.0
|
|
CB
|
A:CYS458
|
4.7
|
53.2
|
1.0
|
|
CB
|
A:LEU490
|
4.8
|
58.2
|
1.0
|
|
CA
|
A:ASP459
|
4.8
|
54.6
|
1.0
|
|
CA
|
A:GLY460
|
4.8
|
53.9
|
1.0
|
|
H
|
A:TYR489
|
4.8
|
67.6
|
1.0
|
|
C
|
A:ASP459
|
4.8
|
56.3
|
1.0
|
|
HA3
|
A:GLY488
|
4.9
|
69.7
|
1.0
|
|
HB3
|
A:ASP459
|
4.9
|
67.8
|
1.0
|
|
HB2
|
A:CYS458
|
4.9
|
63.8
|
1.0
|
|
C
|
A:ASN486
|
5.0
|
57.3
|
1.0
|
|
HB2
|
A:ASP459
|
5.0
|
67.8
|
1.0
|
|
CD1
|
A:TYR489
|
5.0
|
54.0
|
1.0
|
|
CA
|
A:LEU490
|
5.0
|
58.6
|
1.0
|
|
Magnesium binding site 2 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 2 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg702
b:49.0
occ:1.00
|
O
|
B:GLY488
|
1.9
|
52.2
|
1.0
|
|
O1A
|
B:TDL704
|
1.9
|
50.9
|
1.0
|
|
O2B
|
B:TDL704
|
2.0
|
50.8
|
1.0
|
|
O
|
B:HOH812
|
2.1
|
51.1
|
1.0
|
|
OD1
|
B:ASP459
|
2.2
|
51.5
|
1.0
|
|
OD1
|
B:ASN486
|
2.2
|
52.6
|
1.0
|
|
C
|
B:GLY488
|
3.1
|
51.5
|
1.0
|
|
PA
|
B:TDL704
|
3.1
|
47.9
|
1.0
|
|
CG
|
B:ASP459
|
3.2
|
52.7
|
1.0
|
|
H
|
B:LEU490
|
3.2
|
61.1
|
1.0
|
|
PB
|
B:TDL704
|
3.2
|
49.1
|
1.0
|
|
CG
|
B:ASN486
|
3.2
|
52.6
|
1.0
|
|
H
|
B:GLY460
|
3.3
|
62.5
|
1.0
|
|
HD21
|
B:ASN486
|
3.3
|
62.7
|
1.0
|
|
O3A
|
B:TDL704
|
3.3
|
46.3
|
1.0
|
|
OD2
|
B:ASP459
|
3.5
|
52.3
|
1.0
|
|
HA
|
B:TYR489
|
3.5
|
59.6
|
1.0
|
|
H
|
B:GLY488
|
3.6
|
61.8
|
1.0
|
|
ND2
|
B:ASN486
|
3.7
|
52.3
|
1.0
|
|
HB3
|
B:CYS458
|
3.7
|
60.6
|
1.0
|
|
H
|
B:ASP459
|
3.9
|
60.6
|
1.0
|
|
O7
|
B:TDL704
|
3.9
|
50.2
|
1.0
|
|
CA
|
B:GLY488
|
4.0
|
50.7
|
1.0
|
|
N
|
B:LEU490
|
4.0
|
50.9
|
1.0
|
|
H
|
B:ASN486
|
4.0
|
61.3
|
1.0
|
|
N
|
B:TYR489
|
4.0
|
50.8
|
1.0
|
|
N
|
B:GLY460
|
4.0
|
52.1
|
1.0
|
|
HD1
|
B:TYR489
|
4.1
|
56.5
|
1.0
|
|
N
|
B:GLY488
|
4.1
|
51.5
|
1.0
|
|
HA2
|
B:GLY488
|
4.1
|
60.8
|
1.0
|
|
CA
|
B:TYR489
|
4.2
|
49.6
|
1.0
|
|
O1B
|
B:TDL704
|
4.2
|
51.8
|
1.0
|
|
O3B
|
B:TDL704
|
4.2
|
52.1
|
1.0
|
|
HA3
|
B:GLY460
|
4.3
|
58.8
|
1.0
|
|
HB2
|
B:LEU490
|
4.3
|
60.4
|
1.0
|
|
O2A
|
B:TDL704
|
4.3
|
50.3
|
1.0
|
|
O
|
B:PHE484
|
4.4
|
55.1
|
1.0
|
|
N
|
B:ASP459
|
4.4
|
50.5
|
1.0
|
|
HB3
|
B:LEU490
|
4.4
|
60.4
|
1.0
|
|
HD22
|
B:ASN486
|
4.5
|
62.7
|
1.0
|
|
CB
|
B:ASP459
|
4.5
|
52.2
|
1.0
|
|
CB
|
B:CYS458
|
4.6
|
50.5
|
1.0
|
|
CB
|
B:ASN486
|
4.6
|
53.9
|
1.0
|
|
N
|
B:ASN486
|
4.6
|
51.1
|
1.0
|
|
C
|
B:TYR489
|
4.6
|
50.0
|
1.0
|
|
HB2
|
B:CYS458
|
4.6
|
60.6
|
1.0
|
|
CA
|
B:GLY460
|
4.7
|
49.0
|
1.0
|
|
CB
|
B:LEU490
|
4.8
|
50.4
|
1.0
|
|
CA
|
B:ASP459
|
4.8
|
51.3
|
1.0
|
|
C
|
B:ASN486
|
4.8
|
52.1
|
1.0
|
|
HA3
|
B:GLY488
|
4.8
|
60.8
|
1.0
|
|
H
|
B:TYR489
|
4.8
|
61.0
|
1.0
|
|
C
|
B:ASP459
|
4.9
|
52.2
|
1.0
|
|
CA
|
B:ASN486
|
4.9
|
53.1
|
1.0
|
|
O
|
B:ASN486
|
4.9
|
52.0
|
1.0
|
|
HB2
|
B:ASN486
|
5.0
|
64.7
|
1.0
|
|
CD1
|
B:TYR489
|
5.0
|
47.1
|
1.0
|
|
HB3
|
B:ASP459
|
5.0
|
62.6
|
1.0
|
|
Magnesium binding site 3 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 3 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg702
b:52.1
occ:1.00
|
OD1
|
C:ASP459
|
1.9
|
57.0
|
1.0
|
|
O3B
|
C:TDL703
|
2.1
|
53.2
|
1.0
|
|
OD1
|
C:ASN486
|
2.1
|
55.8
|
1.0
|
|
O2A
|
C:TDL703
|
2.2
|
54.9
|
1.0
|
|
O
|
C:GLY488
|
2.3
|
50.7
|
1.0
|
|
HD21
|
C:ASN486
|
2.9
|
64.8
|
1.0
|
|
CG
|
C:ASP459
|
2.9
|
54.4
|
1.0
|
|
CG
|
C:ASN486
|
3.0
|
54.4
|
1.0
|
|
H
|
C:GLY460
|
3.1
|
61.8
|
1.0
|
|
PB
|
C:TDL703
|
3.2
|
53.6
|
1.0
|
|
OD2
|
C:ASP459
|
3.3
|
50.5
|
1.0
|
|
ND2
|
C:ASN486
|
3.3
|
54.0
|
1.0
|
|
O3A
|
C:TDL703
|
3.3
|
54.6
|
1.0
|
|
PA
|
C:TDL703
|
3.3
|
53.1
|
1.0
|
|
HB3
|
C:CYS458
|
3.4
|
63.8
|
1.0
|
|
H
|
C:LEU490
|
3.5
|
67.2
|
1.0
|
|
H
|
C:ASP459
|
3.5
|
63.0
|
1.0
|
|
C
|
C:GLY488
|
3.6
|
52.8
|
1.0
|
|
H
|
C:ASN486
|
3.8
|
64.5
|
1.0
|
|
HA
|
C:TYR489
|
3.9
|
66.0
|
1.0
|
|
N
|
C:GLY460
|
3.9
|
51.5
|
1.0
|
|
H
|
C:GLY488
|
3.9
|
64.3
|
1.0
|
|
O
|
C:PHE484
|
4.0
|
52.8
|
1.0
|
|
O1B
|
C:TDL703
|
4.1
|
52.6
|
1.0
|
|
N
|
C:ASP459
|
4.1
|
52.5
|
1.0
|
|
HD22
|
C:ASN486
|
4.1
|
64.8
|
1.0
|
|
O7
|
C:TDL703
|
4.2
|
53.5
|
1.0
|
|
CB
|
C:ASP459
|
4.3
|
54.7
|
1.0
|
|
CB
|
C:CYS458
|
4.3
|
53.2
|
1.0
|
|
HB2
|
C:CYS458
|
4.3
|
63.8
|
1.0
|
|
N
|
C:LEU490
|
4.4
|
56.0
|
1.0
|
|
O2B
|
C:TDL703
|
4.4
|
54.0
|
1.0
|
|
HA3
|
C:GLY460
|
4.4
|
59.9
|
1.0
|
|
N
|
C:ASN486
|
4.4
|
53.7
|
1.0
|
|
CB
|
C:ASN486
|
4.4
|
55.0
|
1.0
|
|
HD1
|
C:TYR489
|
4.4
|
61.7
|
1.0
|
|
N
|
C:GLY488
|
4.4
|
53.6
|
1.0
|
|
CA
|
C:GLY488
|
4.4
|
53.2
|
1.0
|
|
O1A
|
C:TDL703
|
4.5
|
50.4
|
1.0
|
|
N
|
C:TYR489
|
4.5
|
54.7
|
1.0
|
|
CA
|
C:ASP459
|
4.6
|
53.8
|
1.0
|
|
HB2
|
C:LEU490
|
4.6
|
66.7
|
1.0
|
|
CA
|
C:TYR489
|
4.6
|
55.0
|
1.0
|
|
HA2
|
C:GLY488
|
4.6
|
63.9
|
1.0
|
|
HB3
|
C:LEU490
|
4.6
|
66.7
|
1.0
|
|
C
|
C:ASP459
|
4.7
|
54.2
|
1.0
|
|
HB3
|
C:ASP459
|
4.7
|
65.6
|
1.0
|
|
CA
|
C:GLY460
|
4.7
|
49.9
|
1.0
|
|
HA
|
C:ASN485
|
4.8
|
67.3
|
1.0
|
|
CA
|
C:ASN486
|
4.8
|
55.0
|
1.0
|
|
HB2
|
C:ASP459
|
4.8
|
65.6
|
1.0
|
|
C
|
C:CYS458
|
4.9
|
52.1
|
1.0
|
|
HB2
|
C:ASN486
|
4.9
|
66.0
|
1.0
|
|
C
|
C:ASN486
|
4.9
|
52.4
|
1.0
|
|
HB3
|
C:ASN486
|
5.0
|
66.0
|
1.0
|
|
HG1
|
C:THR408
|
5.0
|
65.4
|
1.0
|
|
Magnesium binding site 4 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 4 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg702
b:50.0
occ:1.00
|
O
|
D:GLY488
|
1.7
|
49.6
|
1.0
|
|
O1B
|
D:TDL703
|
2.0
|
49.7
|
1.0
|
|
OD1
|
D:ASP459
|
2.1
|
52.0
|
1.0
|
|
OD1
|
D:ASN486
|
2.2
|
51.8
|
1.0
|
|
O2A
|
D:TDL703
|
2.2
|
48.8
|
1.0
|
|
O
|
D:HOH812
|
2.6
|
51.0
|
1.0
|
|
C
|
D:GLY488
|
3.0
|
51.2
|
1.0
|
|
CG
|
D:ASP459
|
3.1
|
52.1
|
1.0
|
|
CG
|
D:ASN486
|
3.2
|
52.5
|
1.0
|
|
HD21
|
D:ASN486
|
3.2
|
62.4
|
1.0
|
|
H
|
D:LEU490
|
3.2
|
62.5
|
1.0
|
|
PB
|
D:TDL703
|
3.3
|
49.2
|
1.0
|
|
PA
|
D:TDL703
|
3.4
|
48.1
|
1.0
|
|
HA
|
D:TYR489
|
3.4
|
62.3
|
1.0
|
|
OD2
|
D:ASP459
|
3.4
|
52.1
|
1.0
|
|
O3A
|
D:TDL703
|
3.4
|
48.3
|
1.0
|
|
H
|
D:GLY460
|
3.4
|
58.8
|
1.0
|
|
H
|
D:GLY488
|
3.6
|
65.5
|
1.0
|
|
ND2
|
D:ASN486
|
3.6
|
52.0
|
1.0
|
|
H
|
D:ASP459
|
3.8
|
58.3
|
1.0
|
|
CA
|
D:GLY488
|
3.9
|
53.3
|
1.0
|
|
HB3
|
D:CYS458
|
3.9
|
60.5
|
1.0
|
|
N
|
D:TYR489
|
3.9
|
51.2
|
1.0
|
|
N
|
D:GLY488
|
4.0
|
54.6
|
1.0
|
|
H
|
D:ASN486
|
4.0
|
61.4
|
1.0
|
|
N
|
D:LEU490
|
4.0
|
52.1
|
1.0
|
|
HD1
|
D:TYR489
|
4.0
|
60.6
|
1.0
|
|
CA
|
D:TYR489
|
4.1
|
51.9
|
1.0
|
|
N
|
D:GLY460
|
4.1
|
49.0
|
1.0
|
|
O7
|
D:TDL703
|
4.1
|
48.1
|
1.0
|
|
HA2
|
D:GLY488
|
4.1
|
63.9
|
1.0
|
|
O2B
|
D:TDL703
|
4.2
|
49.3
|
1.0
|
|
O3B
|
D:TDL703
|
4.3
|
50.5
|
1.0
|
|
HA3
|
D:GLY460
|
4.4
|
58.2
|
1.0
|
|
N
|
D:ASP459
|
4.4
|
48.6
|
1.0
|
|
HB2
|
D:LEU490
|
4.4
|
61.9
|
1.0
|
|
HD22
|
D:ASN486
|
4.5
|
62.4
|
1.0
|
|
CB
|
D:ASP459
|
4.5
|
51.7
|
1.0
|
|
O
|
D:PHE484
|
4.5
|
50.5
|
1.0
|
|
CB
|
D:ASN486
|
4.5
|
53.1
|
1.0
|
|
N
|
D:ASN486
|
4.6
|
51.2
|
1.0
|
|
O1A
|
D:TDL703
|
4.6
|
49.2
|
1.0
|
|
C
|
D:TYR489
|
4.6
|
51.7
|
1.0
|
|
H
|
D:TYR489
|
4.7
|
61.5
|
1.0
|
|
HA3
|
D:GLY488
|
4.7
|
63.9
|
1.0
|
|
HB3
|
D:LEU490
|
4.7
|
61.9
|
1.0
|
|
CB
|
D:CYS458
|
4.8
|
50.4
|
1.0
|
|
C
|
D:ASN486
|
4.8
|
51.3
|
1.0
|
|
CA
|
D:ASP459
|
4.8
|
49.2
|
1.0
|
|
CA
|
D:GLY460
|
4.8
|
48.5
|
1.0
|
|
HB2
|
D:CYS458
|
4.8
|
60.5
|
1.0
|
|
C
|
D:ASP459
|
4.8
|
47.9
|
1.0
|
|
CA
|
D:ASN486
|
4.9
|
52.3
|
1.0
|
|
O
|
D:ASN486
|
4.9
|
50.6
|
1.0
|
|
HB2
|
D:ASN486
|
4.9
|
63.8
|
1.0
|
|
HB3
|
D:ASP459
|
4.9
|
62.0
|
1.0
|
|
CD1
|
D:TYR489
|
4.9
|
50.5
|
1.0
|
|
CB
|
D:LEU490
|
5.0
|
51.6
|
1.0
|
|
Magnesium binding site 5 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 5 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg702
b:58.2
occ:1.00
|
O
|
E:GLY488
|
1.8
|
56.1
|
1.0
|
|
O2B
|
E:TDL703
|
2.1
|
56.3
|
1.0
|
|
O2A
|
E:TDL703
|
2.1
|
57.0
|
1.0
|
|
OD1
|
E:ASP459
|
2.1
|
58.1
|
1.0
|
|
O
|
E:HOH806
|
2.2
|
53.9
|
1.0
|
|
OD1
|
E:ASN486
|
2.4
|
56.5
|
1.0
|
|
C
|
E:GLY488
|
3.0
|
57.1
|
1.0
|
|
CG
|
E:ASP459
|
3.1
|
56.3
|
1.0
|
|
H
|
E:LEU490
|
3.2
|
66.5
|
1.0
|
|
HD21
|
E:ASN486
|
3.3
|
68.7
|
1.0
|
|
PA
|
E:TDL703
|
3.3
|
56.6
|
1.0
|
|
PB
|
E:TDL703
|
3.3
|
54.6
|
1.0
|
|
CG
|
E:ASN486
|
3.3
|
57.5
|
1.0
|
|
H
|
E:GLY460
|
3.4
|
65.7
|
1.0
|
|
HA
|
E:TYR489
|
3.4
|
67.5
|
1.0
|
|
OD2
|
E:ASP459
|
3.4
|
53.9
|
1.0
|
|
O3A
|
E:TDL703
|
3.4
|
51.4
|
1.0
|
|
ND2
|
E:ASN486
|
3.7
|
57.2
|
1.0
|
|
H
|
E:GLY488
|
3.7
|
68.2
|
1.0
|
|
HB3
|
E:CYS458
|
3.9
|
62.0
|
1.0
|
|
H
|
E:ASP459
|
3.9
|
63.6
|
1.0
|
|
N
|
E:TYR489
|
4.0
|
57.4
|
1.0
|
|
HD1
|
E:TYR489
|
4.0
|
64.9
|
1.0
|
|
CA
|
E:GLY488
|
4.0
|
58.0
|
1.0
|
|
O7
|
E:TDL703
|
4.0
|
56.3
|
1.0
|
|
H
|
E:ASN486
|
4.0
|
69.2
|
1.0
|
|
N
|
E:GLY460
|
4.0
|
54.7
|
1.0
|
|
N
|
E:LEU490
|
4.0
|
55.4
|
1.0
|
|
N
|
E:GLY488
|
4.1
|
56.9
|
1.0
|
|
CA
|
E:TYR489
|
4.1
|
56.2
|
1.0
|
|
HA2
|
E:GLY488
|
4.1
|
69.6
|
1.0
|
|
O3B
|
E:TDL703
|
4.2
|
55.1
|
1.0
|
|
HA3
|
E:GLY460
|
4.2
|
65.8
|
1.0
|
|
O1B
|
E:TDL703
|
4.3
|
55.6
|
1.0
|
|
N
|
E:ASP459
|
4.4
|
53.0
|
1.0
|
|
CB
|
E:ASP459
|
4.5
|
56.3
|
1.0
|
|
HB2
|
E:LEU490
|
4.5
|
66.4
|
1.0
|
|
HD22
|
E:ASN486
|
4.5
|
68.7
|
1.0
|
|
O1A
|
E:TDL703
|
4.5
|
57.2
|
1.0
|
|
O
|
E:PHE484
|
4.6
|
51.0
|
1.0
|
|
C
|
E:TYR489
|
4.6
|
55.1
|
1.0
|
|
N
|
E:ASN486
|
4.6
|
57.6
|
1.0
|
|
HB3
|
E:LEU490
|
4.7
|
66.4
|
1.0
|
|
CA
|
E:GLY460
|
4.7
|
54.9
|
1.0
|
|
CB
|
E:ASN486
|
4.7
|
59.3
|
1.0
|
|
CB
|
E:CYS458
|
4.8
|
51.7
|
1.0
|
|
CA
|
E:ASP459
|
4.8
|
55.8
|
1.0
|
|
C
|
E:ASP459
|
4.8
|
54.7
|
1.0
|
|
H
|
E:TYR489
|
4.8
|
68.9
|
1.0
|
|
HG
|
E:CYS515
|
4.8
|
74.6
|
1.0
|
|
HA3
|
E:GLY488
|
4.8
|
69.6
|
1.0
|
|
CD1
|
E:TYR489
|
4.9
|
54.1
|
1.0
|
|
HB2
|
E:CYS458
|
4.9
|
62.0
|
1.0
|
|
HB2
|
E:ASP459
|
4.9
|
67.6
|
1.0
|
|
C
|
E:ASN486
|
4.9
|
56.9
|
1.0
|
|
CB
|
E:LEU490
|
5.0
|
55.3
|
1.0
|
|
CA
|
E:ASN486
|
5.0
|
59.1
|
1.0
|
|
Magnesium binding site 6 out
of 6 in 8rpi
Go back to
Magnesium Binding Sites List in 8rpi
Magnesium binding site 6 out
of 6 in the Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Janthe From Janthinobacterium Sp. HH01, Lactyl-Thdp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg702
b:60.4
occ:1.00
|
O
|
F:GLY488
|
1.9
|
56.3
|
1.0
|
|
O
|
F:HOH801
|
1.9
|
58.5
|
1.0
|
|
OD1
|
F:ASP459
|
2.1
|
62.0
|
1.0
|
|
O2A
|
F:TDL703
|
2.1
|
60.6
|
1.0
|
|
O2B
|
F:TDL703
|
2.2
|
61.2
|
1.0
|
|
OD1
|
F:ASN486
|
2.2
|
66.7
|
1.0
|
|
CG
|
F:ASP459
|
3.0
|
62.9
|
1.0
|
|
C
|
F:GLY488
|
3.1
|
56.9
|
1.0
|
|
H
|
F:GLY460
|
3.2
|
72.8
|
1.0
|
|
H
|
F:LEU490
|
3.3
|
68.9
|
1.0
|
|
CG
|
F:ASN486
|
3.3
|
65.5
|
1.0
|
|
PA
|
F:TDL703
|
3.3
|
56.2
|
1.0
|
|
OD2
|
F:ASP459
|
3.3
|
62.0
|
1.0
|
|
HD21
|
F:ASN486
|
3.4
|
77.6
|
1.0
|
|
PB
|
F:TDL703
|
3.5
|
60.9
|
1.0
|
|
HA
|
F:TYR489
|
3.5
|
69.3
|
1.0
|
|
O3A
|
F:TDL703
|
3.5
|
60.6
|
1.0
|
|
H
|
F:GLY488
|
3.7
|
72.2
|
1.0
|
|
HB3
|
F:CYS458
|
3.7
|
76.3
|
1.0
|
|
ND2
|
F:ASN486
|
3.7
|
64.7
|
1.0
|
|
H
|
F:ASP459
|
3.8
|
71.8
|
1.0
|
|
N
|
F:GLY460
|
3.9
|
60.6
|
1.0
|
|
HD1
|
F:TYR489
|
4.0
|
63.6
|
1.0
|
|
H
|
F:ASN486
|
4.0
|
73.2
|
1.0
|
|
N
|
F:TYR489
|
4.0
|
56.8
|
1.0
|
|
CA
|
F:GLY488
|
4.0
|
58.8
|
1.0
|
|
O7
|
F:TDL703
|
4.0
|
57.4
|
1.0
|
|
N
|
F:LEU490
|
4.1
|
57.4
|
1.0
|
|
N
|
F:GLY488
|
4.1
|
60.2
|
1.0
|
|
CA
|
F:TYR489
|
4.2
|
57.8
|
1.0
|
|
HA3
|
F:GLY460
|
4.2
|
71.1
|
1.0
|
|
HA2
|
F:GLY488
|
4.2
|
70.6
|
1.0
|
|
N
|
F:ASP459
|
4.4
|
59.8
|
1.0
|
|
O
|
F:PHE484
|
4.4
|
65.3
|
1.0
|
|
O1B
|
F:TDL703
|
4.4
|
60.4
|
1.0
|
|
CB
|
F:ASP459
|
4.4
|
62.5
|
1.0
|
|
O3B
|
F:TDL703
|
4.5
|
63.1
|
1.0
|
|
HB3
|
F:LEU490
|
4.6
|
74.3
|
1.0
|
|
O1A
|
F:TDL703
|
4.6
|
61.3
|
1.0
|
|
N
|
F:ASN486
|
4.6
|
61.0
|
1.0
|
|
HD22
|
F:ASN486
|
4.6
|
77.6
|
1.0
|
|
HB2
|
F:LEU490
|
4.6
|
74.3
|
1.0
|
|
CA
|
F:GLY460
|
4.6
|
59.2
|
1.0
|
|
CB
|
F:ASN486
|
4.6
|
65.0
|
1.0
|
|
CB
|
F:CYS458
|
4.7
|
63.6
|
1.0
|
|
C
|
F:TYR489
|
4.7
|
57.2
|
1.0
|
|
CA
|
F:ASP459
|
4.7
|
60.2
|
1.0
|
|
C
|
F:ASP459
|
4.7
|
60.0
|
1.0
|
|
C
|
F:ASN486
|
4.8
|
58.6
|
1.0
|
|
H
|
F:TYR489
|
4.9
|
68.1
|
1.0
|
|
HB2
|
F:CYS458
|
4.9
|
76.3
|
1.0
|
|
HA3
|
F:GLY488
|
4.9
|
70.6
|
1.0
|
|
CD1
|
F:TYR489
|
4.9
|
53.0
|
1.0
|
|
HB3
|
F:ASP459
|
4.9
|
75.0
|
1.0
|
|
CA
|
F:ASN486
|
4.9
|
60.0
|
1.0
|
|
HB2
|
F:ASP459
|
4.9
|
75.0
|
1.0
|
|
CB
|
F:LEU490
|
5.0
|
61.9
|
1.0
|
|
HB2
|
F:ASN486
|
5.0
|
77.9
|
1.0
|
|
Reference:
L.Lucrezia,
C.Leogrande,
F.Rabe Von Pappenheim.
Jhe From Janthinobacterium Sp. HH01 To Be Published.
Page generated: Fri Aug 15 14:06:06 2025
|
