Magnesium in PDB 5c2g: GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Protein crystallography data
The structure of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound)., PDB code: 5c2g
was solved by
M.A.Arbing,
V.A.Varaljay,
S.Satagopan,
F.R.Tabita,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
40.36 /
2.60
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
74.380,
120.930,
161.440,
90.00,
90.54,
90.00
|
R / Rfree (%)
|
18.1 /
22.2
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
(pdb code 5c2g). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the
GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound)., PDB code: 5c2g:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
Magnesium binding site 1 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 1 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg801
b:18.9
occ:1.00
|
HO2
|
A:CAP800
|
2.1
|
34.0
|
1.0
|
O6
|
A:CAP800
|
2.2
|
28.1
|
1.0
|
OQ2
|
A:KCX191
|
2.2
|
15.8
|
1.0
|
OE1
|
A:GLU194
|
2.2
|
26.9
|
1.0
|
O2
|
A:CAP800
|
2.2
|
28.4
|
1.0
|
OD1
|
A:ASP193
|
2.3
|
26.1
|
1.0
|
O3
|
A:CAP800
|
2.3
|
26.3
|
1.0
|
CG
|
A:ASP193
|
2.8
|
24.5
|
1.0
|
C
|
A:CAP800
|
2.8
|
26.9
|
1.0
|
C2
|
A:CAP800
|
2.8
|
28.6
|
1.0
|
HO3
|
A:CAP800
|
2.9
|
31.5
|
1.0
|
H
|
A:GLU194
|
2.9
|
29.2
|
1.0
|
OD2
|
A:ASP193
|
3.0
|
25.2
|
1.0
|
HG21
|
A:ILE164
|
3.1
|
18.7
|
1.0
|
C3
|
A:CAP800
|
3.1
|
28.0
|
1.0
|
CD
|
A:GLU194
|
3.2
|
27.1
|
1.0
|
HE2
|
A:LYS168
|
3.3
|
35.5
|
1.0
|
HA
|
A:ASP193
|
3.3
|
27.7
|
1.0
|
CX
|
A:KCX191
|
3.3
|
15.0
|
1.0
|
HD22
|
C:ASN111
|
3.5
|
39.4
|
1.0
|
HE2
|
A:HIS287
|
3.6
|
22.6
|
1.0
|
OE2
|
A:GLU194
|
3.6
|
28.3
|
1.0
|
HZ2
|
A:LYS166
|
3.7
|
23.2
|
1.0
|
OQ1
|
A:KCX191
|
3.7
|
17.2
|
1.0
|
N
|
A:GLU194
|
3.7
|
24.4
|
1.0
|
H3
|
A:CAP800
|
3.8
|
33.6
|
1.0
|
HG12
|
A:ILE164
|
3.9
|
21.1
|
1.0
|
CB
|
A:ASP193
|
3.9
|
24.7
|
1.0
|
CA
|
A:ASP193
|
3.9
|
23.1
|
1.0
|
HZ3
|
A:LYS166
|
4.0
|
23.2
|
1.0
|
O7
|
A:CAP800
|
4.1
|
26.0
|
1.0
|
CG2
|
A:ILE164
|
4.1
|
15.6
|
1.0
|
ND2
|
C:ASN111
|
4.1
|
32.8
|
1.0
|
HD21
|
C:ASN111
|
4.2
|
39.4
|
1.0
|
CE
|
A:LYS168
|
4.2
|
29.6
|
1.0
|
HZ1
|
A:LYS168
|
4.2
|
38.2
|
1.0
|
HB3
|
A:GLU194
|
4.2
|
31.4
|
1.0
|
NZ
|
A:LYS166
|
4.2
|
19.3
|
1.0
|
H4
|
A:CAP800
|
4.3
|
33.2
|
1.0
|
NE2
|
A:HIS287
|
4.3
|
18.8
|
1.0
|
HD3
|
A:PRO195
|
4.3
|
21.8
|
1.0
|
C1
|
A:CAP800
|
4.3
|
28.6
|
1.0
|
HG23
|
A:ILE164
|
4.3
|
18.7
|
1.0
|
C4
|
A:CAP800
|
4.3
|
27.6
|
1.0
|
C
|
A:ASP193
|
4.3
|
22.3
|
1.0
|
HB2
|
A:ASP193
|
4.4
|
29.6
|
1.0
|
HZ1
|
A:LYS166
|
4.4
|
23.2
|
1.0
|
HE3
|
A:LYS168
|
4.4
|
35.5
|
1.0
|
CG
|
A:GLU194
|
4.5
|
25.9
|
1.0
|
NZ
|
A:KCX191
|
4.5
|
15.0
|
1.0
|
NZ
|
A:LYS168
|
4.6
|
31.8
|
1.0
|
HG22
|
A:ILE164
|
4.6
|
18.7
|
1.0
|
HB3
|
A:ASP193
|
4.6
|
29.6
|
1.0
|
HZ3
|
A:LYS168
|
4.6
|
38.2
|
1.0
|
HG3
|
A:LYS168
|
4.6
|
36.0
|
1.0
|
O1
|
A:CAP800
|
4.7
|
31.0
|
1.0
|
CB
|
A:GLU194
|
4.7
|
26.2
|
1.0
|
CG1
|
A:ILE164
|
4.7
|
17.5
|
1.0
|
H11
|
A:CAP800
|
4.8
|
34.4
|
1.0
|
H51
|
A:CAP800
|
4.8
|
32.9
|
1.0
|
CA
|
A:GLU194
|
4.8
|
25.1
|
1.0
|
CB
|
A:ILE164
|
4.9
|
16.2
|
1.0
|
HB2
|
A:LYS168
|
4.9
|
35.3
|
1.0
|
HD13
|
A:ILE164
|
4.9
|
18.9
|
1.0
|
HB
|
A:ILE164
|
4.9
|
19.5
|
1.0
|
HG2
|
A:GLU194
|
5.0
|
31.1
|
1.0
|
H12
|
A:CAP800
|
5.0
|
34.4
|
1.0
|
HE1
|
A:HIS287
|
5.0
|
22.5
|
1.0
|
|
Magnesium binding site 2 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 2 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg801
b:22.8
occ:1.00
|
OQ2
|
B:KCX191
|
1.9
|
27.9
|
1.0
|
HO2
|
B:CAP800
|
2.0
|
47.3
|
1.0
|
O3
|
B:CAP800
|
2.1
|
35.6
|
1.0
|
O6
|
B:CAP800
|
2.2
|
39.1
|
1.0
|
OE1
|
B:GLU194
|
2.2
|
30.0
|
1.0
|
O2
|
B:CAP800
|
2.2
|
39.4
|
1.0
|
OD1
|
B:ASP193
|
2.5
|
38.0
|
1.0
|
HO3
|
B:CAP800
|
2.7
|
42.8
|
1.0
|
C2
|
B:CAP800
|
2.8
|
39.7
|
1.0
|
C
|
B:CAP800
|
2.8
|
39.4
|
1.0
|
CG
|
B:ASP193
|
2.9
|
35.9
|
1.0
|
H
|
B:GLU194
|
2.9
|
33.8
|
1.0
|
C3
|
B:CAP800
|
3.0
|
37.9
|
1.0
|
CX
|
B:KCX191
|
3.1
|
30.0
|
1.0
|
OD2
|
B:ASP193
|
3.1
|
34.6
|
1.0
|
HG21
|
B:ILE164
|
3.1
|
32.5
|
1.0
|
CD
|
B:GLU194
|
3.3
|
29.3
|
1.0
|
HA
|
B:ASP193
|
3.3
|
38.8
|
1.0
|
HE2
|
B:HIS287
|
3.4
|
37.3
|
1.0
|
HE2
|
B:LYS168
|
3.5
|
35.9
|
1.0
|
H3
|
B:CAP800
|
3.6
|
45.5
|
1.0
|
OQ1
|
B:KCX191
|
3.6
|
31.3
|
1.0
|
HD21
|
F:ASN111
|
3.6
|
47.7
|
1.0
|
N
|
B:GLU194
|
3.7
|
28.2
|
1.0
|
HG12
|
B:ILE164
|
3.8
|
34.4
|
1.0
|
OE2
|
B:GLU194
|
3.8
|
31.2
|
1.0
|
HZ2
|
B:LYS166
|
3.8
|
43.1
|
1.0
|
CA
|
B:ASP193
|
4.0
|
32.4
|
1.0
|
HZ3
|
B:LYS166
|
4.0
|
43.1
|
1.0
|
CB
|
B:ASP193
|
4.0
|
33.5
|
1.0
|
O7
|
B:CAP800
|
4.1
|
39.7
|
1.0
|
CG2
|
B:ILE164
|
4.1
|
27.1
|
1.0
|
NE2
|
B:HIS287
|
4.1
|
31.1
|
1.0
|
HB3
|
B:GLU194
|
4.1
|
34.3
|
1.0
|
ND2
|
F:ASN111
|
4.2
|
39.7
|
1.0
|
C4
|
B:CAP800
|
4.2
|
38.8
|
1.0
|
NZ
|
B:KCX191
|
4.3
|
30.6
|
1.0
|
C1
|
B:CAP800
|
4.3
|
40.5
|
1.0
|
HD22
|
F:ASN111
|
4.3
|
47.7
|
1.0
|
H4
|
B:CAP800
|
4.3
|
46.5
|
1.0
|
NZ
|
B:LYS166
|
4.3
|
36.0
|
1.0
|
HG23
|
B:ILE164
|
4.4
|
32.5
|
1.0
|
C
|
B:ASP193
|
4.4
|
31.7
|
1.0
|
HZ3
|
B:LYS168
|
4.4
|
39.2
|
1.0
|
HD3
|
B:PRO195
|
4.4
|
26.5
|
1.0
|
CE
|
B:LYS168
|
4.4
|
29.9
|
1.0
|
HB2
|
B:ASP193
|
4.4
|
40.2
|
1.0
|
CG
|
B:GLU194
|
4.5
|
27.8
|
1.0
|
HZ1
|
B:LYS166
|
4.6
|
43.1
|
1.0
|
HE3
|
B:LYS168
|
4.6
|
35.9
|
1.0
|
HG22
|
B:ILE164
|
4.6
|
32.5
|
1.0
|
CG1
|
B:ILE164
|
4.6
|
28.6
|
1.0
|
H51
|
B:CAP800
|
4.6
|
45.2
|
1.0
|
CB
|
B:GLU194
|
4.7
|
28.6
|
1.0
|
O1
|
B:CAP800
|
4.7
|
40.2
|
1.0
|
H12
|
B:CAP800
|
4.7
|
48.6
|
1.0
|
HB3
|
B:ASP193
|
4.7
|
40.2
|
1.0
|
HD13
|
B:ILE164
|
4.8
|
35.4
|
1.0
|
NZ
|
B:LYS168
|
4.8
|
32.6
|
1.0
|
CA
|
B:GLU194
|
4.8
|
27.8
|
1.0
|
CB
|
B:ILE164
|
4.8
|
28.4
|
1.0
|
HE1
|
B:HIS287
|
4.9
|
37.3
|
1.0
|
HZ2
|
B:LYS168
|
4.9
|
39.2
|
1.0
|
HB
|
B:ILE164
|
4.9
|
34.1
|
1.0
|
HG3
|
B:LYS168
|
4.9
|
37.2
|
1.0
|
CE1
|
B:HIS287
|
4.9
|
31.1
|
1.0
|
C5
|
B:CAP800
|
4.9
|
37.6
|
1.0
|
H11
|
B:CAP800
|
4.9
|
48.6
|
1.0
|
|
Magnesium binding site 3 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 3 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg801
b:14.9
occ:1.00
|
O6
|
C:CAP800
|
2.1
|
20.6
|
1.0
|
OE1
|
C:GLU194
|
2.2
|
20.8
|
1.0
|
OD1
|
C:ASP193
|
2.2
|
23.5
|
1.0
|
OQ2
|
C:KCX191
|
2.3
|
24.8
|
1.0
|
HO2
|
C:CAP800
|
2.3
|
28.8
|
1.0
|
O2
|
C:CAP800
|
2.5
|
24.0
|
1.0
|
O3
|
C:CAP800
|
2.5
|
20.0
|
1.0
|
CG
|
C:ASP193
|
2.7
|
18.4
|
1.0
|
OD2
|
C:ASP193
|
2.9
|
16.1
|
1.0
|
H
|
C:GLU194
|
2.9
|
19.6
|
1.0
|
C
|
C:CAP800
|
2.9
|
20.0
|
1.0
|
HO3
|
C:CAP800
|
3.0
|
23.9
|
1.0
|
C2
|
C:CAP800
|
3.1
|
21.9
|
1.0
|
HE2
|
C:LYS168
|
3.2
|
38.0
|
1.0
|
HG21
|
C:ILE164
|
3.2
|
19.5
|
1.0
|
CD
|
C:GLU194
|
3.2
|
21.3
|
1.0
|
HA
|
C:ASP193
|
3.3
|
21.1
|
1.0
|
C3
|
C:CAP800
|
3.4
|
21.2
|
1.0
|
HD21
|
A:ASN111
|
3.4
|
28.5
|
1.0
|
CX
|
C:KCX191
|
3.4
|
24.4
|
1.0
|
OE2
|
C:GLU194
|
3.6
|
21.5
|
1.0
|
HZ1
|
C:LYS166
|
3.6
|
28.1
|
1.0
|
HE2
|
C:HIS287
|
3.7
|
25.9
|
1.0
|
N
|
C:GLU194
|
3.7
|
16.4
|
1.0
|
HZ2
|
C:LYS166
|
3.8
|
28.1
|
1.0
|
CB
|
C:ASP193
|
3.8
|
17.6
|
1.0
|
OQ1
|
C:KCX191
|
3.9
|
26.5
|
1.0
|
CA
|
C:ASP193
|
3.9
|
17.5
|
1.0
|
HG12
|
C:ILE164
|
3.9
|
20.4
|
1.0
|
HD22
|
A:ASN111
|
3.9
|
28.5
|
1.0
|
ND2
|
A:ASN111
|
4.0
|
23.8
|
1.0
|
H3
|
C:CAP800
|
4.0
|
25.4
|
1.0
|
CE
|
C:LYS168
|
4.1
|
31.6
|
1.0
|
O7
|
C:CAP800
|
4.1
|
22.6
|
1.0
|
HZ3
|
C:LYS168
|
4.1
|
39.1
|
1.0
|
NZ
|
C:LYS166
|
4.1
|
23.4
|
1.0
|
CG2
|
C:ILE164
|
4.2
|
16.2
|
1.0
|
HB3
|
C:GLU194
|
4.2
|
24.2
|
1.0
|
HD3
|
C:PRO195
|
4.2
|
23.5
|
1.0
|
HB2
|
C:ASP193
|
4.3
|
21.1
|
1.0
|
HE3
|
C:LYS168
|
4.3
|
38.0
|
1.0
|
C
|
C:ASP193
|
4.3
|
15.5
|
1.0
|
NE2
|
C:HIS287
|
4.4
|
21.6
|
1.0
|
HZ3
|
C:LYS166
|
4.4
|
28.1
|
1.0
|
CG
|
C:GLU194
|
4.5
|
20.0
|
1.0
|
HG23
|
C:ILE164
|
4.5
|
19.5
|
1.0
|
NZ
|
C:LYS168
|
4.5
|
32.6
|
1.0
|
H4
|
C:CAP800
|
4.5
|
24.0
|
1.0
|
C1
|
C:CAP800
|
4.5
|
20.7
|
1.0
|
HB3
|
C:ASP193
|
4.5
|
21.1
|
1.0
|
HG3
|
C:LYS168
|
4.6
|
38.4
|
1.0
|
C4
|
C:CAP800
|
4.6
|
20.0
|
1.0
|
HZ2
|
C:LYS168
|
4.6
|
39.1
|
1.0
|
NZ
|
C:KCX191
|
4.6
|
24.5
|
1.0
|
HG22
|
C:ILE164
|
4.6
|
19.5
|
1.0
|
CB
|
C:GLU194
|
4.7
|
20.2
|
1.0
|
HB2
|
C:LYS168
|
4.8
|
37.8
|
1.0
|
CG1
|
C:ILE164
|
4.8
|
17.0
|
1.0
|
CA
|
C:GLU194
|
4.8
|
19.7
|
1.0
|
O1
|
C:CAP800
|
4.8
|
20.0
|
1.0
|
HD13
|
C:ILE164
|
4.9
|
20.0
|
1.0
|
H51
|
C:CAP800
|
4.9
|
22.6
|
1.0
|
CB
|
C:ILE164
|
4.9
|
17.5
|
1.0
|
HG2
|
C:GLU194
|
4.9
|
24.0
|
1.0
|
HB
|
C:ILE164
|
4.9
|
21.0
|
1.0
|
|
Magnesium binding site 4 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 4 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg801
b:22.9
occ:1.00
|
OQ2
|
D:KCX191
|
2.0
|
24.8
|
1.0
|
OE1
|
D:GLU194
|
2.1
|
23.0
|
1.0
|
HO2
|
D:CAP800
|
2.1
|
39.9
|
1.0
|
O6
|
D:CAP800
|
2.2
|
32.4
|
1.0
|
O3
|
D:CAP800
|
2.3
|
30.1
|
1.0
|
O2
|
D:CAP800
|
2.4
|
33.2
|
1.0
|
OD1
|
D:ASP193
|
2.5
|
39.3
|
1.0
|
HO3
|
D:CAP800
|
2.9
|
36.1
|
1.0
|
C
|
D:CAP800
|
2.9
|
31.2
|
1.0
|
H
|
D:GLU194
|
2.9
|
34.0
|
1.0
|
C2
|
D:CAP800
|
3.0
|
31.6
|
1.0
|
CG
|
D:ASP193
|
3.0
|
37.7
|
1.0
|
CX
|
D:KCX191
|
3.1
|
24.1
|
1.0
|
CD
|
D:GLU194
|
3.1
|
25.3
|
1.0
|
OD2
|
D:ASP193
|
3.2
|
37.7
|
1.0
|
HG21
|
D:ILE164
|
3.2
|
27.2
|
1.0
|
C3
|
D:CAP800
|
3.2
|
31.1
|
1.0
|
HE2
|
D:HIS287
|
3.3
|
39.8
|
1.0
|
HA
|
D:ASP193
|
3.4
|
42.5
|
1.0
|
HE2
|
D:LYS168
|
3.5
|
48.9
|
1.0
|
HD21
|
E:ASN111
|
3.5
|
39.4
|
1.0
|
OQ1
|
D:KCX191
|
3.5
|
24.7
|
1.0
|
OE2
|
D:GLU194
|
3.6
|
26.1
|
1.0
|
H3
|
D:CAP800
|
3.8
|
37.3
|
1.0
|
N
|
D:GLU194
|
3.8
|
28.4
|
1.0
|
HZ2
|
D:LYS166
|
3.8
|
34.5
|
1.0
|
HG12
|
D:ILE164
|
3.8
|
27.4
|
1.0
|
CA
|
D:ASP193
|
4.0
|
35.4
|
1.0
|
NE2
|
D:HIS287
|
4.0
|
33.1
|
1.0
|
HD22
|
E:ASN111
|
4.0
|
39.4
|
1.0
|
HZ3
|
D:LYS166
|
4.0
|
34.5
|
1.0
|
ND2
|
E:ASN111
|
4.0
|
32.9
|
1.0
|
CB
|
D:ASP193
|
4.1
|
37.4
|
1.0
|
HB3
|
D:GLU194
|
4.1
|
30.4
|
1.0
|
CG2
|
D:ILE164
|
4.1
|
22.7
|
1.0
|
O7
|
D:CAP800
|
4.1
|
31.8
|
1.0
|
HZ3
|
D:LYS168
|
4.3
|
49.5
|
1.0
|
NZ
|
D:LYS166
|
4.3
|
28.7
|
1.0
|
CE
|
D:LYS168
|
4.3
|
40.7
|
1.0
|
NZ
|
D:KCX191
|
4.4
|
22.7
|
1.0
|
HG23
|
D:ILE164
|
4.4
|
27.2
|
1.0
|
HD3
|
D:PRO195
|
4.4
|
35.4
|
1.0
|
C
|
D:ASP193
|
4.4
|
33.8
|
1.0
|
C1
|
D:CAP800
|
4.4
|
31.8
|
1.0
|
C4
|
D:CAP800
|
4.4
|
31.9
|
1.0
|
CG
|
D:GLU194
|
4.4
|
24.6
|
1.0
|
HB2
|
D:ASP193
|
4.5
|
44.8
|
1.0
|
H4
|
D:CAP800
|
4.5
|
38.2
|
1.0
|
HE3
|
D:LYS168
|
4.6
|
48.9
|
1.0
|
HZ1
|
D:LYS166
|
4.6
|
34.5
|
1.0
|
CB
|
D:GLU194
|
4.6
|
25.3
|
1.0
|
HG22
|
D:ILE164
|
4.6
|
27.2
|
1.0
|
CG1
|
D:ILE164
|
4.7
|
22.9
|
1.0
|
H52
|
D:CAP800
|
4.7
|
37.9
|
1.0
|
NZ
|
D:LYS168
|
4.7
|
41.3
|
1.0
|
HE1
|
D:HIS287
|
4.7
|
39.6
|
1.0
|
HB3
|
D:ASP193
|
4.8
|
44.8
|
1.0
|
CE1
|
D:HIS287
|
4.8
|
33.0
|
1.0
|
HZ2
|
D:LYS168
|
4.8
|
49.5
|
1.0
|
CA
|
D:GLU194
|
4.8
|
26.9
|
1.0
|
O1
|
D:CAP800
|
4.8
|
32.3
|
1.0
|
HG3
|
D:LYS168
|
4.9
|
47.8
|
1.0
|
HD13
|
D:ILE164
|
4.9
|
28.2
|
1.0
|
CB
|
D:ILE164
|
4.9
|
23.0
|
1.0
|
H11
|
D:CAP800
|
4.9
|
38.2
|
1.0
|
HG2
|
D:GLU194
|
4.9
|
29.6
|
1.0
|
HB
|
D:ILE164
|
4.9
|
27.6
|
1.0
|
CD2
|
D:HIS287
|
4.9
|
33.9
|
1.0
|
|
Magnesium binding site 5 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 5 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg801
b:31.3
occ:1.00
|
OE1
|
E:GLU194
|
2.0
|
27.4
|
1.0
|
OD1
|
E:ASP193
|
2.1
|
46.1
|
1.0
|
O6
|
E:CAP800
|
2.1
|
40.1
|
1.0
|
OQ2
|
E:KCX191
|
2.2
|
25.3
|
1.0
|
HO2
|
E:CAP800
|
2.3
|
42.3
|
1.0
|
O2
|
E:CAP800
|
2.5
|
35.3
|
1.0
|
O3
|
E:CAP800
|
2.5
|
31.4
|
1.0
|
CG
|
E:ASP193
|
2.6
|
44.8
|
1.0
|
H
|
E:GLU194
|
2.8
|
35.0
|
1.0
|
OD2
|
E:ASP193
|
2.9
|
45.0
|
1.0
|
C
|
E:CAP800
|
2.9
|
37.5
|
1.0
|
CD
|
E:GLU194
|
2.9
|
26.9
|
1.0
|
HO3
|
E:CAP800
|
3.0
|
37.6
|
1.0
|
C2
|
E:CAP800
|
3.1
|
35.9
|
1.0
|
HE2
|
E:LYS168
|
3.1
|
31.6
|
1.0
|
HG21
|
E:ILE164
|
3.3
|
31.9
|
1.0
|
OE2
|
E:GLU194
|
3.3
|
27.5
|
1.0
|
HA
|
E:ASP193
|
3.3
|
47.6
|
1.0
|
CX
|
E:KCX191
|
3.4
|
25.3
|
1.0
|
C3
|
E:CAP800
|
3.4
|
34.1
|
1.0
|
HE2
|
E:HIS287
|
3.5
|
38.2
|
1.0
|
HD21
|
D:ASN111
|
3.6
|
46.2
|
1.0
|
N
|
E:GLU194
|
3.6
|
29.2
|
1.0
|
HZ3
|
E:LYS166
|
3.8
|
42.6
|
1.0
|
CB
|
E:ASP193
|
3.8
|
43.4
|
1.0
|
OQ1
|
E:KCX191
|
3.8
|
25.7
|
1.0
|
CA
|
E:ASP193
|
3.9
|
39.7
|
1.0
|
HZ1
|
E:LYS166
|
4.0
|
42.6
|
1.0
|
CE
|
E:LYS168
|
4.0
|
26.3
|
1.0
|
H3
|
E:CAP800
|
4.0
|
40.9
|
1.0
|
HD3
|
E:PRO195
|
4.1
|
30.0
|
1.0
|
HB3
|
E:GLU194
|
4.1
|
30.9
|
1.0
|
ND2
|
D:ASN111
|
4.1
|
38.5
|
1.0
|
HD22
|
D:ASN111
|
4.1
|
46.2
|
1.0
|
O7
|
E:CAP800
|
4.1
|
37.7
|
1.0
|
HZ1
|
E:LYS168
|
4.1
|
33.4
|
1.0
|
HG12
|
E:ILE164
|
4.1
|
33.3
|
1.0
|
CG2
|
E:ILE164
|
4.2
|
26.6
|
1.0
|
CG
|
E:GLU194
|
4.2
|
25.3
|
1.0
|
NE2
|
E:HIS287
|
4.2
|
31.9
|
1.0
|
C
|
E:ASP193
|
4.3
|
36.1
|
1.0
|
HE3
|
E:LYS168
|
4.3
|
31.6
|
1.0
|
NZ
|
E:LYS166
|
4.3
|
35.5
|
1.0
|
HB2
|
E:ASP193
|
4.3
|
52.1
|
1.0
|
NZ
|
E:LYS168
|
4.5
|
27.8
|
1.0
|
HB3
|
E:ASP193
|
4.5
|
52.1
|
1.0
|
CB
|
E:GLU194
|
4.5
|
25.8
|
1.0
|
HG3
|
E:LYS168
|
4.5
|
32.1
|
1.0
|
C1
|
E:CAP800
|
4.5
|
36.8
|
1.0
|
H4
|
E:CAP800
|
4.5
|
41.6
|
1.0
|
HZ3
|
E:LYS168
|
4.5
|
33.4
|
1.0
|
HG23
|
E:ILE164
|
4.5
|
31.9
|
1.0
|
NZ
|
E:KCX191
|
4.5
|
24.9
|
1.0
|
C4
|
E:CAP800
|
4.6
|
34.7
|
1.0
|
HZ2
|
E:LYS166
|
4.6
|
42.6
|
1.0
|
HG2
|
E:GLU194
|
4.7
|
30.3
|
1.0
|
CA
|
E:GLU194
|
4.7
|
26.2
|
1.0
|
HG22
|
E:ILE164
|
4.7
|
31.9
|
1.0
|
HB2
|
E:LYS168
|
4.8
|
31.9
|
1.0
|
O1
|
E:CAP800
|
4.9
|
37.3
|
1.0
|
HG3
|
E:GLU194
|
4.9
|
30.3
|
1.0
|
HE1
|
E:HIS287
|
4.9
|
36.6
|
1.0
|
CD
|
E:PRO195
|
4.9
|
25.0
|
1.0
|
H51
|
E:CAP800
|
4.9
|
40.0
|
1.0
|
CE1
|
E:HIS287
|
4.9
|
30.5
|
1.0
|
CG1
|
E:ILE164
|
5.0
|
27.8
|
1.0
|
HD2
|
E:PRO195
|
5.0
|
30.0
|
1.0
|
|
Magnesium binding site 6 out
of 6 in 5c2g
Go back to
Magnesium Binding Sites List in 5c2g
Magnesium binding site 6 out
of 6 in the GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound).
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of GWS1B Rubisco: Form II Rubisco Derived From Uncultivated Gallionellacea Species (Cabp-Bound). within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Mg801
b:32.1
occ:1.00
|
O6
|
F:CAP800
|
2.2
|
37.8
|
1.0
|
OQ2
|
F:KCX191
|
2.2
|
22.7
|
1.0
|
OE1
|
F:GLU194
|
2.2
|
24.6
|
1.0
|
OD1
|
F:ASP193
|
2.2
|
39.3
|
1.0
|
HO2
|
F:CAP800
|
2.3
|
42.0
|
1.0
|
O2
|
F:CAP800
|
2.4
|
35.0
|
1.0
|
O3
|
F:CAP800
|
2.5
|
34.2
|
1.0
|
CG
|
F:ASP193
|
2.6
|
36.8
|
1.0
|
OD2
|
F:ASP193
|
2.8
|
35.2
|
1.0
|
H
|
F:GLU194
|
2.9
|
32.7
|
1.0
|
C
|
F:CAP800
|
2.9
|
36.8
|
1.0
|
C2
|
F:CAP800
|
3.0
|
35.7
|
1.0
|
HG21
|
F:ILE164
|
3.0
|
29.5
|
1.0
|
HO3
|
F:CAP800
|
3.0
|
41.0
|
1.0
|
HA
|
F:ASP193
|
3.2
|
39.9
|
1.0
|
CD
|
F:GLU194
|
3.2
|
26.4
|
1.0
|
HE2
|
F:LYS168
|
3.3
|
33.0
|
1.0
|
C3
|
F:CAP800
|
3.3
|
35.7
|
1.0
|
CX
|
F:KCX191
|
3.3
|
22.7
|
1.0
|
HZ3
|
F:LYS166
|
3.6
|
36.1
|
1.0
|
OE2
|
F:GLU194
|
3.6
|
26.9
|
1.0
|
HZ1
|
F:LYS166
|
3.7
|
36.1
|
1.0
|
HD22
|
B:ASN111
|
3.7
|
43.4
|
1.0
|
N
|
F:GLU194
|
3.7
|
27.3
|
1.0
|
HE2
|
F:HIS287
|
3.7
|
28.9
|
1.0
|
OQ1
|
F:KCX191
|
3.7
|
23.0
|
1.0
|
CB
|
F:ASP193
|
3.7
|
35.4
|
1.0
|
CA
|
F:ASP193
|
3.8
|
33.2
|
1.0
|
HG12
|
F:ILE164
|
3.9
|
30.5
|
1.0
|
H3
|
F:CAP800
|
3.9
|
42.8
|
1.0
|
CG2
|
F:ILE164
|
4.0
|
24.6
|
1.0
|
NZ
|
F:LYS166
|
4.0
|
30.1
|
1.0
|
O7
|
F:CAP800
|
4.1
|
37.4
|
1.0
|
CE
|
F:LYS168
|
4.1
|
27.5
|
1.0
|
HB2
|
F:ASP193
|
4.2
|
42.4
|
1.0
|
HZ2
|
F:LYS168
|
4.2
|
35.7
|
1.0
|
HD3
|
F:PRO195
|
4.2
|
33.2
|
1.0
|
HB3
|
F:GLU194
|
4.3
|
30.7
|
1.0
|
C
|
F:ASP193
|
4.3
|
31.6
|
1.0
|
ND2
|
B:ASN111
|
4.3
|
36.2
|
1.0
|
HG23
|
F:ILE164
|
4.3
|
29.5
|
1.0
|
HE3
|
F:LYS168
|
4.3
|
33.0
|
1.0
|
HD21
|
B:ASN111
|
4.4
|
43.4
|
1.0
|
HZ2
|
F:LYS166
|
4.4
|
36.1
|
1.0
|
HG22
|
F:ILE164
|
4.4
|
29.5
|
1.0
|
C1
|
F:CAP800
|
4.4
|
35.5
|
1.0
|
NE2
|
F:HIS287
|
4.5
|
24.1
|
1.0
|
HB3
|
F:ASP193
|
4.5
|
42.4
|
1.0
|
H4
|
F:CAP800
|
4.5
|
42.8
|
1.0
|
CG
|
F:GLU194
|
4.5
|
25.0
|
1.0
|
C4
|
F:CAP800
|
4.5
|
35.7
|
1.0
|
NZ
|
F:KCX191
|
4.5
|
22.4
|
1.0
|
NZ
|
F:LYS168
|
4.6
|
29.8
|
1.0
|
HG3
|
F:LYS168
|
4.6
|
34.0
|
1.0
|
CG1
|
F:ILE164
|
4.7
|
25.4
|
1.0
|
HZ1
|
F:LYS168
|
4.7
|
35.7
|
1.0
|
CB
|
F:GLU194
|
4.7
|
25.6
|
1.0
|
HB2
|
F:LYS168
|
4.7
|
33.8
|
1.0
|
CB
|
F:ILE164
|
4.7
|
24.2
|
1.0
|
HB
|
F:ILE164
|
4.7
|
29.1
|
1.0
|
O1
|
F:CAP800
|
4.7
|
36.8
|
1.0
|
HD13
|
F:ILE164
|
4.8
|
28.8
|
1.0
|
CA
|
F:GLU194
|
4.8
|
25.9
|
1.0
|
HG2
|
F:GLU194
|
4.9
|
30.0
|
1.0
|
H52
|
F:CAP800
|
5.0
|
42.7
|
1.0
|
H12
|
F:CAP800
|
5.0
|
42.6
|
1.0
|
|
Reference:
V.A.Varaljay,
S.Satagopan,
J.A.North,
B.Witte,
M.N.Dourado,
K.Anantharaman,
M.A.Arbing,
S.H.Mccann,
R.S.Oremland,
J.F.Banfield,
K.C.Wrighton,
F.R.Tabita.
Functional Metagenomic Selection of Ribulose 1, 5-Bisphosphate Carboxylase/Oxygenase From Uncultivated Bacteria. Environ.Microbiol. V. 18 1187 2016.
ISSN: ESSN 1462-2920
PubMed: 26617072
DOI: 10.1111/1462-2920.13138
Page generated: Sun Sep 29 01:54:54 2024
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