Magnesium in PDB 4q86: Ycao with Amp Bound
Protein crystallography data
The structure of Ycao with Amp Bound, PDB code: 4q86
was solved by
J.R.Chekan,
S.K.Nair,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
127.14 /
2.25
|
|
Space group
|
P 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
111.254,
112.949,
132.886,
89.94,
73.51,
77.23
|
|
R / Rfree (%)
|
21.8 /
25
|
Magnesium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
20;
Page 3, Binding sites: 21 -
21;
Binding sites:
The binding sites of Magnesium atom in the Ycao with Amp Bound
(pdb code 4q86). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 21 binding sites of Magnesium where determined in the
Ycao with Amp Bound, PDB code: 4q86:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Magnesium binding site 1 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 1 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg602
b:14.2
occ:1.00
|
O
|
A:LEU216
|
2.5
|
28.4
|
1.0
|
|
OG
|
A:SER215
|
2.5
|
25.5
|
1.0
|
|
O
|
A:LYS336
|
2.7
|
35.8
|
1.0
|
|
O
|
A:LEU334
|
2.8
|
30.2
|
1.0
|
|
O
|
A:HOH784
|
3.5
|
31.9
|
1.0
|
|
N
|
A:LEU216
|
3.5
|
28.0
|
1.0
|
|
C
|
A:LEU216
|
3.6
|
31.2
|
1.0
|
|
CE1
|
A:TYR247
|
3.6
|
37.8
|
1.0
|
|
OH
|
A:TYR247
|
3.7
|
40.1
|
1.0
|
|
C
|
A:LYS336
|
3.8
|
32.8
|
1.0
|
|
CB
|
A:SER215
|
3.8
|
28.5
|
1.0
|
|
N
|
A:LYS336
|
3.8
|
29.4
|
1.0
|
|
C
|
A:LEU334
|
3.8
|
26.9
|
1.0
|
|
CZ
|
A:TYR247
|
3.9
|
37.7
|
1.0
|
|
C
|
A:SER215
|
3.9
|
28.8
|
1.0
|
|
C
|
A:PHE335
|
3.9
|
27.4
|
1.0
|
|
CA
|
A:SER215
|
4.0
|
28.6
|
1.0
|
|
CA
|
A:PHE335
|
4.1
|
27.2
|
1.0
|
|
CA
|
A:LEU216
|
4.2
|
27.7
|
1.0
|
|
CA
|
A:LYS336
|
4.3
|
34.4
|
1.0
|
|
N
|
A:PHE335
|
4.3
|
25.6
|
1.0
|
|
O
|
A:PHE335
|
4.5
|
33.3
|
1.0
|
|
CD1
|
A:TYR247
|
4.5
|
35.5
|
1.0
|
|
O
|
A:ASP333
|
4.6
|
33.0
|
1.0
|
|
CA
|
A:ALA339
|
4.7
|
35.1
|
1.0
|
|
O
|
A:ASP338
|
4.7
|
32.2
|
1.0
|
|
O
|
A:SER215
|
4.7
|
28.4
|
1.0
|
|
CB
|
A:LYS336
|
4.7
|
34.1
|
1.0
|
|
N
|
A:PRO217
|
4.8
|
32.2
|
1.0
|
|
CB
|
A:ALA339
|
4.8
|
36.3
|
1.0
|
|
N
|
A:ALA339
|
4.9
|
32.5
|
1.0
|
|
C
|
A:ASP338
|
4.9
|
32.6
|
1.0
|
|
O
|
A:GLN337
|
4.9
|
30.2
|
1.0
|
|
O
|
A:HOH794
|
4.9
|
28.9
|
1.0
|
|
N
|
A:GLN337
|
5.0
|
33.2
|
1.0
|
|
CA
|
A:LEU334
|
5.0
|
25.0
|
1.0
|
|
CB
|
A:LEU216
|
5.0
|
29.7
|
1.0
|
|
CE2
|
A:TYR247
|
5.0
|
38.4
|
1.0
|
|
Magnesium binding site 2 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 2 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg603
b:18.1
occ:1.00
|
OE2
|
A:GLU199
|
1.9
|
17.9
|
1.0
|
|
O
|
A:HOH1032
|
1.9
|
25.7
|
1.0
|
|
O
|
A:HOH1024
|
2.0
|
28.4
|
1.0
|
|
O
|
A:HOH1031
|
2.0
|
30.7
|
1.0
|
|
O
|
A:HOH796
|
2.0
|
13.4
|
1.0
|
|
O
|
A:HOH1016
|
2.1
|
19.0
|
1.0
|
|
CD
|
A:GLU199
|
2.9
|
21.4
|
1.0
|
|
OE1
|
A:GLU199
|
3.3
|
22.8
|
1.0
|
|
OE2
|
A:GLU78
|
3.8
|
21.0
|
1.0
|
|
O
|
A:HOH741
|
4.1
|
22.8
|
1.0
|
|
OE1
|
A:GLN195
|
4.1
|
32.0
|
1.0
|
|
OE1
|
A:GLU78
|
4.1
|
32.3
|
1.0
|
|
O
|
A:HOH1007
|
4.2
|
21.9
|
1.0
|
|
O
|
A:HOH773
|
4.2
|
23.4
|
1.0
|
|
O
|
A:MET183
|
4.3
|
22.5
|
1.0
|
|
CG
|
A:GLU199
|
4.3
|
21.6
|
1.0
|
|
O
|
A:HOH863
|
4.3
|
18.7
|
1.0
|
|
O3P
|
A:AMP601
|
4.3
|
19.7
|
1.0
|
|
CD
|
A:GLU78
|
4.4
|
24.0
|
1.0
|
|
NE2
|
A:GLN195
|
4.5
|
33.5
|
1.0
|
|
OE1
|
A:GLU75
|
4.5
|
27.1
|
1.0
|
|
NH2
|
A:ARG79
|
4.5
|
19.9
|
1.0
|
|
O
|
A:HOH872
|
4.5
|
33.0
|
1.0
|
|
NH2
|
A:ARG203
|
4.6
|
25.2
|
1.0
|
|
CD
|
A:GLN195
|
4.7
|
27.8
|
1.0
|
|
CB
|
A:GLU199
|
5.0
|
20.3
|
1.0
|
|
Magnesium binding site 3 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 3 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg604
b:31.2
occ:1.00
|
O
|
A:HOH872
|
2.0
|
33.0
|
1.0
|
|
O
|
A:HOH717
|
2.1
|
18.0
|
1.0
|
|
O
|
A:HOH991
|
2.1
|
35.4
|
1.0
|
|
O
|
A:HOH1007
|
2.2
|
21.9
|
1.0
|
|
OE1
|
A:GLU75
|
2.3
|
27.1
|
1.0
|
|
O
|
A:HOH725
|
2.3
|
24.8
|
1.0
|
|
CD
|
A:GLU75
|
3.3
|
25.7
|
1.0
|
|
O
|
A:HOH764
|
3.3
|
25.5
|
1.0
|
|
OE2
|
A:GLU75
|
3.6
|
24.9
|
1.0
|
|
O
|
A:HOH741
|
3.7
|
22.8
|
1.0
|
|
NE2
|
A:GLN293
|
3.9
|
31.1
|
1.0
|
|
O
|
A:HOH1031
|
4.0
|
30.7
|
1.0
|
|
O
|
A:HOH1016
|
4.2
|
19.0
|
1.0
|
|
O
|
A:ASN59
|
4.2
|
25.7
|
1.0
|
|
OE1
|
A:GLN293
|
4.2
|
32.5
|
1.0
|
|
O2P
|
A:AMP601
|
4.3
|
24.8
|
1.0
|
|
OE1
|
A:GLU290
|
4.4
|
42.9
|
1.0
|
|
CD
|
A:GLN293
|
4.5
|
32.5
|
1.0
|
|
O3P
|
A:AMP601
|
4.6
|
19.7
|
1.0
|
|
O
|
A:HOH778
|
4.6
|
31.6
|
1.0
|
|
CG
|
A:GLU75
|
4.7
|
21.9
|
1.0
|
|
CE
|
A:LYS61
|
4.9
|
30.7
|
1.0
|
|
O
|
A:HOH1032
|
4.9
|
25.7
|
1.0
|
|
O
|
A:HOH843
|
5.0
|
35.0
|
1.0
|
|
Magnesium binding site 4 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 4 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg602
b:7.4
occ:1.00
|
O
|
B:LEU216
|
2.5
|
20.3
|
1.0
|
|
OG
|
B:SER215
|
2.6
|
22.1
|
1.0
|
|
O
|
B:LEU334
|
2.7
|
18.0
|
1.0
|
|
O
|
B:LYS336
|
2.7
|
26.3
|
1.0
|
|
O
|
B:HOH862
|
2.9
|
45.4
|
1.0
|
|
O
|
B:HOH824
|
3.0
|
24.5
|
1.0
|
|
N
|
B:LEU216
|
3.5
|
22.9
|
1.0
|
|
CE1
|
B:TYR247
|
3.6
|
29.0
|
1.0
|
|
C
|
B:LEU216
|
3.6
|
22.9
|
1.0
|
|
OH
|
B:TYR247
|
3.6
|
32.2
|
1.0
|
|
C
|
B:LEU334
|
3.6
|
17.9
|
1.0
|
|
N
|
B:LYS336
|
3.7
|
24.1
|
1.0
|
|
C
|
B:LYS336
|
3.8
|
26.5
|
1.0
|
|
CB
|
B:SER215
|
3.8
|
22.5
|
1.0
|
|
CZ
|
B:TYR247
|
3.9
|
27.8
|
1.0
|
|
C
|
B:PHE335
|
3.9
|
22.8
|
1.0
|
|
C
|
B:SER215
|
3.9
|
20.7
|
1.0
|
|
CA
|
B:PHE335
|
4.0
|
21.2
|
1.0
|
|
CA
|
B:SER215
|
4.0
|
19.1
|
1.0
|
|
CA
|
B:LEU216
|
4.2
|
21.8
|
1.0
|
|
N
|
B:PHE335
|
4.2
|
17.9
|
1.0
|
|
CA
|
B:LYS336
|
4.2
|
25.8
|
1.0
|
|
O
|
B:PHE335
|
4.5
|
24.0
|
1.0
|
|
CD1
|
B:TYR247
|
4.5
|
25.0
|
1.0
|
|
O
|
B:ASP333
|
4.6
|
23.9
|
1.0
|
|
CB
|
B:LYS336
|
4.7
|
24.9
|
1.0
|
|
O
|
B:SER215
|
4.7
|
21.6
|
1.0
|
|
O
|
B:ASP338
|
4.7
|
23.6
|
1.0
|
|
CA
|
B:ALA339
|
4.8
|
27.2
|
1.0
|
|
N
|
B:PRO217
|
4.8
|
22.9
|
1.0
|
|
CA
|
B:LEU334
|
4.8
|
17.7
|
1.0
|
|
CE2
|
B:TYR247
|
4.9
|
26.3
|
1.0
|
|
CB
|
B:LEU216
|
4.9
|
21.1
|
1.0
|
|
N
|
B:GLN337
|
4.9
|
28.9
|
1.0
|
|
CB
|
B:ALA339
|
5.0
|
27.5
|
1.0
|
|
O
|
B:GLN337
|
5.0
|
23.0
|
1.0
|
|
Magnesium binding site 5 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 5 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg603
b:18.0
occ:1.00
|
O
|
B:HOH975
|
1.9
|
26.4
|
1.0
|
|
OE2
|
B:GLU199
|
2.0
|
15.6
|
1.0
|
|
O
|
B:HOH756
|
2.1
|
17.9
|
1.0
|
|
O
|
B:HOH1019
|
2.1
|
18.6
|
1.0
|
|
O
|
B:HOH1025
|
2.2
|
13.6
|
1.0
|
|
O
|
B:HOH943
|
2.2
|
23.6
|
1.0
|
|
CD
|
B:GLU199
|
3.0
|
16.0
|
1.0
|
|
OE1
|
B:GLU199
|
3.4
|
17.5
|
1.0
|
|
OE2
|
B:GLU78
|
3.7
|
21.4
|
1.0
|
|
O
|
B:HOH1031
|
3.8
|
27.5
|
1.0
|
|
O
|
B:HOH769
|
3.9
|
32.7
|
1.0
|
|
OE1
|
B:GLU78
|
4.0
|
23.8
|
1.0
|
|
NE2
|
B:GLN195
|
4.1
|
23.7
|
1.0
|
|
CD
|
B:GLU78
|
4.3
|
23.2
|
1.0
|
|
O
|
B:MET183
|
4.3
|
26.1
|
1.0
|
|
O3P
|
B:AMP601
|
4.4
|
17.4
|
1.0
|
|
CG
|
B:GLU199
|
4.4
|
15.8
|
1.0
|
|
O
|
B:HOH715
|
4.4
|
17.4
|
1.0
|
|
OE1
|
B:GLN195
|
4.4
|
25.5
|
1.0
|
|
OE1
|
B:GLU75
|
4.6
|
26.7
|
1.0
|
|
O
|
B:HOH757
|
4.6
|
16.2
|
1.0
|
|
NH2
|
B:ARG79
|
4.6
|
21.4
|
1.0
|
|
NH2
|
B:ARG203
|
4.7
|
25.5
|
1.0
|
|
CD
|
B:GLN195
|
4.7
|
22.4
|
1.0
|
|
O
|
B:HOH1026
|
4.7
|
26.2
|
1.0
|
|
MG
|
B:MG604
|
4.7
|
24.8
|
1.0
|
|
C5'
|
B:AMP601
|
5.0
|
20.0
|
1.0
|
|
CB
|
B:GLU199
|
5.0
|
16.5
|
1.0
|
|
Magnesium binding site 6 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 6 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg604
b:24.8
occ:1.00
|
O
|
B:HOH1031
|
1.9
|
27.5
|
1.0
|
|
OE1
|
B:GLU75
|
2.0
|
26.7
|
1.0
|
|
O
|
B:HOH1026
|
2.0
|
26.2
|
1.0
|
|
O
|
B:HOH776
|
2.1
|
27.2
|
1.0
|
|
O
|
B:HOH745
|
2.1
|
22.2
|
1.0
|
|
O
|
B:HOH739
|
2.2
|
20.7
|
1.0
|
|
CD
|
B:GLU75
|
3.0
|
22.9
|
1.0
|
|
OE2
|
B:GLU75
|
3.5
|
24.6
|
1.0
|
|
O
|
B:HOH1025
|
3.6
|
13.6
|
1.0
|
|
O
|
B:HOH943
|
3.7
|
23.6
|
1.0
|
|
O2P
|
B:AMP601
|
3.9
|
19.5
|
1.0
|
|
O
|
B:HOH805
|
4.0
|
21.7
|
1.0
|
|
O
|
B:HOH715
|
4.0
|
17.4
|
1.0
|
|
O
|
B:HOH986
|
4.1
|
26.3
|
1.0
|
|
O
|
B:ASN59
|
4.2
|
22.8
|
1.0
|
|
O3P
|
B:AMP601
|
4.2
|
17.4
|
1.0
|
|
CG
|
B:GLU75
|
4.3
|
21.0
|
1.0
|
|
NE2
|
B:GLN293
|
4.4
|
33.1
|
1.0
|
|
OE1
|
B:GLN293
|
4.5
|
34.5
|
1.0
|
|
O
|
B:HOH756
|
4.5
|
17.9
|
1.0
|
|
C5'
|
B:AMP601
|
4.6
|
20.0
|
1.0
|
|
P
|
B:AMP601
|
4.6
|
18.3
|
1.0
|
|
OE1
|
B:GLU290
|
4.7
|
30.3
|
1.0
|
|
MG
|
B:MG603
|
4.7
|
18.0
|
1.0
|
|
CE
|
B:LYS61
|
4.8
|
25.6
|
1.0
|
|
CD
|
B:GLN293
|
4.9
|
31.0
|
1.0
|
|
CB
|
B:GLU75
|
5.0
|
20.8
|
1.0
|
|
Magnesium binding site 7 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 7 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 7 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg602
b:17.8
occ:1.00
|
OG
|
C:SER215
|
2.5
|
53.8
|
1.0
|
|
O
|
C:LEU216
|
2.6
|
41.1
|
1.0
|
|
O
|
C:LYS336
|
2.6
|
40.3
|
1.0
|
|
O
|
C:LEU334
|
2.8
|
37.5
|
1.0
|
|
O
|
C:HOH820
|
3.3
|
44.5
|
1.0
|
|
N
|
C:LEU216
|
3.6
|
36.2
|
1.0
|
|
CE1
|
C:TYR247
|
3.6
|
47.1
|
1.0
|
|
C
|
C:LEU216
|
3.7
|
39.5
|
1.0
|
|
OH
|
C:TYR247
|
3.7
|
53.6
|
1.0
|
|
N
|
C:LYS336
|
3.7
|
37.4
|
1.0
|
|
C
|
C:LYS336
|
3.7
|
40.3
|
1.0
|
|
C
|
C:LEU334
|
3.7
|
36.5
|
1.0
|
|
CB
|
C:SER215
|
3.8
|
45.8
|
1.0
|
|
C
|
C:PHE335
|
3.9
|
37.5
|
1.0
|
|
CZ
|
C:TYR247
|
3.9
|
47.4
|
1.0
|
|
C
|
C:SER215
|
4.0
|
40.4
|
1.0
|
|
CA
|
C:PHE335
|
4.1
|
36.5
|
1.0
|
|
CA
|
C:SER215
|
4.1
|
42.5
|
1.0
|
|
CA
|
C:LYS336
|
4.2
|
38.7
|
1.0
|
|
CA
|
C:LEU216
|
4.2
|
35.8
|
1.0
|
|
N
|
C:PHE335
|
4.2
|
38.3
|
1.0
|
|
O
|
C:PHE335
|
4.4
|
44.8
|
1.0
|
|
CD1
|
C:TYR247
|
4.5
|
46.5
|
1.0
|
|
O
|
C:ASP333
|
4.6
|
36.7
|
1.0
|
|
O
|
C:ASP338
|
4.7
|
35.3
|
1.0
|
|
CB
|
C:LYS336
|
4.7
|
41.2
|
1.0
|
|
CA
|
C:ALA339
|
4.7
|
46.1
|
1.0
|
|
O
|
C:SER215
|
4.8
|
36.6
|
1.0
|
|
N
|
C:PRO217
|
4.8
|
43.8
|
1.0
|
|
O
|
C:GLN337
|
4.9
|
35.5
|
1.0
|
|
N
|
C:ALA339
|
4.9
|
41.6
|
1.0
|
|
C
|
C:ASP338
|
4.9
|
40.9
|
1.0
|
|
N
|
C:GLN337
|
4.9
|
42.3
|
1.0
|
|
CB
|
C:ALA339
|
4.9
|
41.9
|
1.0
|
|
CA
|
C:LEU334
|
4.9
|
35.0
|
1.0
|
|
CE2
|
C:TYR247
|
5.0
|
45.8
|
1.0
|
|
Magnesium binding site 8 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 8 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 8 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg603
b:26.1
occ:1.00
|
OE2
|
C:GLU199
|
1.8
|
30.7
|
1.0
|
|
O
|
C:HOH928
|
1.9
|
26.7
|
1.0
|
|
O
|
C:HOH735
|
2.1
|
26.2
|
1.0
|
|
O
|
C:HOH803
|
2.1
|
33.3
|
1.0
|
|
O
|
C:HOH886
|
2.2
|
32.4
|
1.0
|
|
O
|
C:HOH931
|
2.5
|
33.3
|
1.0
|
|
CD
|
C:GLU199
|
2.8
|
33.4
|
1.0
|
|
OE1
|
C:GLU199
|
3.2
|
36.0
|
1.0
|
|
OE1
|
C:GLN195
|
3.9
|
49.5
|
1.0
|
|
OE2
|
C:GLU78
|
4.0
|
46.3
|
1.0
|
|
CG
|
C:GLU199
|
4.1
|
33.8
|
1.0
|
|
O
|
C:HOH930
|
4.1
|
40.2
|
1.0
|
|
OE1
|
C:GLU78
|
4.2
|
51.0
|
1.0
|
|
O
|
C:HOH772
|
4.2
|
33.5
|
1.0
|
|
O
|
C:MET183
|
4.3
|
43.1
|
1.0
|
|
NE2
|
C:GLN195
|
4.4
|
39.9
|
1.0
|
|
O
|
C:HOH901
|
4.4
|
26.1
|
1.0
|
|
O2P
|
C:AMP601
|
4.5
|
32.2
|
1.0
|
|
CD
|
C:GLU78
|
4.5
|
46.2
|
1.0
|
|
CD
|
C:GLN195
|
4.5
|
41.1
|
1.0
|
|
NH2
|
C:ARG203
|
4.6
|
45.7
|
1.0
|
|
NH1
|
C:ARG79
|
4.7
|
59.2
|
1.0
|
|
CB
|
C:GLU199
|
4.7
|
35.9
|
1.0
|
|
OE2
|
C:GLU75
|
4.8
|
34.5
|
1.0
|
|
Magnesium binding site 9 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 9 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 9 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg604
b:36.1
occ:1.00
|
O
|
C:HOH836
|
2.0
|
29.2
|
1.0
|
|
O
|
C:HOH929
|
2.0
|
32.8
|
1.0
|
|
O
|
C:HOH732
|
2.1
|
19.8
|
1.0
|
|
O
|
C:HOH930
|
2.1
|
40.2
|
1.0
|
|
O
|
C:HOH922
|
2.2
|
31.7
|
1.0
|
|
OE2
|
C:GLU75
|
2.2
|
34.5
|
1.0
|
|
CD
|
C:GLU75
|
3.2
|
34.8
|
1.0
|
|
OE1
|
C:GLU75
|
3.6
|
36.1
|
1.0
|
|
O
|
C:HOH931
|
3.8
|
33.3
|
1.0
|
|
O1P
|
C:AMP601
|
4.0
|
30.6
|
1.0
|
|
O
|
C:HOH901
|
4.0
|
26.1
|
1.0
|
|
O
|
C:HOH928
|
4.0
|
26.7
|
1.0
|
|
NE2
|
C:GLN293
|
4.1
|
43.8
|
1.0
|
|
O
|
C:ASN59
|
4.1
|
34.8
|
1.0
|
|
O2P
|
C:AMP601
|
4.2
|
32.2
|
1.0
|
|
OE1
|
C:GLN293
|
4.3
|
48.1
|
1.0
|
|
OE1
|
C:GLU290
|
4.5
|
47.7
|
1.0
|
|
CG
|
C:GLU75
|
4.5
|
37.7
|
1.0
|
|
CE
|
C:LYS61
|
4.6
|
47.0
|
1.0
|
|
P
|
C:AMP601
|
4.6
|
31.7
|
1.0
|
|
CD
|
C:GLN293
|
4.6
|
46.6
|
1.0
|
|
O
|
C:HOH735
|
4.7
|
26.2
|
1.0
|
|
C5'
|
C:AMP601
|
4.9
|
35.0
|
1.0
|
|
Magnesium binding site 10 out
of 21 in 4q86
Go back to
Magnesium Binding Sites List in 4q86
Magnesium binding site 10 out
of 21 in the Ycao with Amp Bound
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 10 of Ycao with Amp Bound within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Mg602
b:15.4
occ:1.00
|
OG
|
D:SER215
|
2.6
|
30.1
|
1.0
|
|
O
|
D:LYS336
|
2.6
|
24.5
|
1.0
|
|
O
|
D:LEU216
|
2.7
|
29.5
|
1.0
|
|
O
|
D:LEU334
|
2.7
|
28.5
|
1.0
|
|
O
|
D:HOH816
|
3.2
|
21.5
|
1.0
|
|
OH
|
D:TYR247
|
3.6
|
39.7
|
1.0
|
|
N
|
D:LYS336
|
3.6
|
27.1
|
1.0
|
|
N
|
D:LEU216
|
3.7
|
32.7
|
1.0
|
|
C
|
D:LEU334
|
3.7
|
27.2
|
1.0
|
|
CE1
|
D:TYR247
|
3.7
|
37.4
|
1.0
|
|
C
|
D:LYS336
|
3.7
|
27.1
|
1.0
|
|
C
|
D:LEU216
|
3.8
|
29.3
|
1.0
|
|
C
|
D:PHE335
|
3.8
|
27.6
|
1.0
|
|
CB
|
D:SER215
|
3.8
|
29.6
|
1.0
|
|
CZ
|
D:TYR247
|
3.9
|
39.0
|
1.0
|
|
CA
|
D:PHE335
|
3.9
|
27.1
|
1.0
|
|
C
|
D:SER215
|
4.0
|
31.2
|
1.0
|
|
CA
|
D:SER215
|
4.1
|
29.5
|
1.0
|
|
CA
|
D:LYS336
|
4.1
|
30.1
|
1.0
|
|
N
|
D:PHE335
|
4.2
|
28.9
|
1.0
|
|
CA
|
D:LEU216
|
4.3
|
29.8
|
1.0
|
|
O
|
D:PHE335
|
4.4
|
27.9
|
1.0
|
|
O
|
D:ASP333
|
4.5
|
29.2
|
1.0
|
|
CD1
|
D:TYR247
|
4.6
|
32.0
|
1.0
|
|
CB
|
D:LYS336
|
4.6
|
29.7
|
1.0
|
|
O
|
D:ASP338
|
4.7
|
31.5
|
1.0
|
|
CA
|
D:ALA339
|
4.8
|
36.2
|
1.0
|
|
O
|
D:SER215
|
4.8
|
30.7
|
1.0
|
|
CA
|
D:LEU334
|
4.9
|
27.9
|
1.0
|
|
N
|
D:GLN337
|
4.9
|
29.8
|
1.0
|
|
N
|
D:PRO217
|
4.9
|
32.1
|
1.0
|
|
C
|
D:ASP338
|
4.9
|
35.8
|
1.0
|
|
O
|
D:GLN337
|
4.9
|
26.0
|
1.0
|
|
N
|
D:ALA339
|
5.0
|
37.4
|
1.0
|
|
CE2
|
D:TYR247
|
5.0
|
38.4
|
1.0
|
|
CB
|
D:ALA339
|
5.0
|
33.6
|
1.0
|
|
Reference:
K.L.Dunbar,
J.R.Chekan,
C.L.Cox,
B.J.Burkhart,
S.K.Nair,
D.A.Mitchell.
Discovery of A New Atp-Binding Motif Involved in Peptidic Azoline Biosynthesis. Nat.Chem.Biol. V. 10 823 2014.
ISSN: ISSN 1552-4450
PubMed: 25129028
DOI: 10.1038/NCHEMBIO.1608
Page generated: Mon Aug 11 22:15:57 2025
|
