Magnesium in PDB 7mny: Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
Protein crystallography data
The structure of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp, PDB code: 7mny
was solved by
C.J.Bley,
S.Nie,
G.W.Mobbs,
S.Petrovic,
A.T.Gres,
X.Liu,
S.Mukherjee,
S.Harvey,
F.M.Huber,
D.H.Lin,
B.Brown,
A.W.Tang,
E.J.Rundlet,
A.R.Correia,
S.Chen,
S.G.Regmi,
T.A.Stevens,
C.A.Jette,
M.Dasso,
A.Patke,
A.F.Palazzo,
A.A.Kossiakoff,
A.Hoelz,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
29.93 /
2.70
|
|
Space group
|
P 21 21 21
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
110.2,
136.031,
158.755,
90,
90,
90
|
|
R / Rfree (%)
|
21.4 /
26.2
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
(pdb code 7mny). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the
Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp, PDB code: 7mny:
Jump to Magnesium binding site number:
1;
2;
3;
4;
5;
6;
Magnesium binding site 1 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 1 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg302
b:39.6
occ:1.00
|
O
|
A:HOH405
|
2.0
|
38.3
|
1.0
|
|
OG1
|
A:THR42
|
2.0
|
41.5
|
1.0
|
|
O2B
|
A:GNP301
|
2.0
|
37.8
|
1.0
|
|
O2G
|
A:GNP301
|
2.1
|
39.7
|
1.0
|
|
OG1
|
A:THR24
|
2.1
|
36.8
|
1.0
|
|
O
|
A:HOH407
|
2.1
|
39.1
|
1.0
|
|
HB
|
A:THR42
|
3.1
|
51.4
|
1.0
|
|
CB
|
A:THR42
|
3.1
|
42.5
|
1.0
|
|
H
|
A:THR42
|
3.1
|
50.1
|
1.0
|
|
HB
|
A:THR24
|
3.1
|
46.2
|
1.0
|
|
CB
|
A:THR24
|
3.2
|
38.1
|
1.0
|
|
PG
|
A:GNP301
|
3.2
|
38.4
|
1.0
|
|
PB
|
A:GNP301
|
3.3
|
37.6
|
1.0
|
|
H
|
A:THR24
|
3.3
|
39.4
|
1.0
|
|
N3B
|
A:GNP301
|
3.6
|
38.4
|
1.0
|
|
N
|
A:THR42
|
3.7
|
41.4
|
1.0
|
|
O3G
|
A:GNP301
|
3.9
|
38.9
|
1.0
|
|
N
|
A:THR24
|
3.9
|
34.5
|
1.0
|
|
CA
|
A:THR42
|
4.0
|
42.9
|
1.0
|
|
OD2
|
A:ASP65
|
4.0
|
37.8
|
1.0
|
|
HB2
|
A:LYS23
|
4.0
|
44.0
|
1.0
|
|
HG21
|
A:THR24
|
4.0
|
46.0
|
1.0
|
|
HE3
|
A:LYS23
|
4.1
|
46.4
|
1.0
|
|
O2A
|
A:GNP301
|
4.1
|
38.2
|
1.0
|
|
O3A
|
A:GNP301
|
4.1
|
37.2
|
1.0
|
|
HG21
|
A:THR42
|
4.1
|
52.1
|
1.0
|
|
CA
|
A:THR24
|
4.1
|
39.0
|
1.0
|
|
O
|
A:HOH408
|
4.2
|
42.8
|
1.0
|
|
CG2
|
A:THR24
|
4.2
|
38.0
|
1.0
|
|
OD1
|
A:ASP65
|
4.2
|
37.0
|
1.0
|
|
CG2
|
A:THR42
|
4.2
|
43.0
|
1.0
|
|
HA
|
A:THR42
|
4.3
|
51.9
|
1.0
|
|
O1G
|
A:GNP301
|
4.4
|
39.5
|
1.0
|
|
HE1
|
A:TYR39
|
4.4
|
47.6
|
1.0
|
|
HNB3
|
A:GNP301
|
4.4
|
46.5
|
1.0
|
|
HA
|
A:ALA41
|
4.4
|
47.6
|
1.0
|
|
CG
|
A:ASP65
|
4.4
|
37.3
|
1.0
|
|
PA
|
A:GNP301
|
4.5
|
37.2
|
1.0
|
|
HA
|
A:THR24
|
4.5
|
47.2
|
1.0
|
|
O1B
|
A:GNP301
|
4.5
|
37.2
|
1.0
|
|
O
|
A:VAL40
|
4.5
|
40.0
|
1.0
|
|
HG23
|
A:THR24
|
4.7
|
46.0
|
1.0
|
|
O1A
|
A:GNP301
|
4.7
|
36.5
|
1.0
|
|
HG23
|
A:THR42
|
4.7
|
52.1
|
1.0
|
|
C
|
A:ALA41
|
4.7
|
41.0
|
1.0
|
|
O
|
A:THR66
|
4.8
|
39.9
|
1.0
|
|
HA
|
A:ALA67
|
4.8
|
51.8
|
1.0
|
|
HE2
|
A:LYS23
|
4.8
|
46.4
|
1.0
|
|
CE
|
A:LYS23
|
4.9
|
38.3
|
1.0
|
|
CB
|
A:LYS23
|
4.9
|
36.3
|
1.0
|
|
HG22
|
A:THR42
|
4.9
|
52.1
|
1.0
|
|
HG22
|
A:THR24
|
4.9
|
46.0
|
1.0
|
|
Magnesium binding site 2 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 2 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Mg302
b:45.6
occ:1.00
|
OG1
|
C:THR42
|
2.0
|
48.8
|
1.0
|
|
O
|
C:HOH405
|
2.0
|
46.3
|
1.0
|
|
O2B
|
C:GNP301
|
2.1
|
44.5
|
1.0
|
|
O
|
C:HOH402
|
2.1
|
46.2
|
1.0
|
|
OG1
|
C:THR24
|
2.1
|
43.7
|
1.0
|
|
O2G
|
C:GNP301
|
2.2
|
48.6
|
1.0
|
|
H
|
C:THR42
|
2.9
|
60.1
|
1.0
|
|
HB
|
C:THR24
|
3.1
|
52.7
|
1.0
|
|
CB
|
C:THR42
|
3.2
|
52.1
|
1.0
|
|
CB
|
C:THR24
|
3.2
|
43.6
|
1.0
|
|
HB
|
C:THR42
|
3.2
|
62.9
|
1.0
|
|
PG
|
C:GNP301
|
3.3
|
47.7
|
1.0
|
|
PB
|
C:GNP301
|
3.3
|
44.7
|
1.0
|
|
N3B
|
C:GNP301
|
3.5
|
47.5
|
1.0
|
|
H
|
C:THR24
|
3.5
|
53.1
|
1.0
|
|
N
|
C:THR42
|
3.5
|
50.4
|
1.0
|
|
O3G
|
C:GNP301
|
3.9
|
50.2
|
1.0
|
|
CA
|
C:THR42
|
3.9
|
52.7
|
1.0
|
|
HG21
|
C:THR24
|
4.0
|
53.6
|
1.0
|
|
N
|
C:THR24
|
4.0
|
44.0
|
1.0
|
|
OD2
|
C:ASP65
|
4.0
|
43.9
|
1.0
|
|
HB2
|
C:LYS23
|
4.0
|
52.4
|
1.0
|
|
O2A
|
C:GNP301
|
4.1
|
45.5
|
1.0
|
|
HA
|
C:ALA41
|
4.1
|
60.4
|
1.0
|
|
CA
|
C:THR24
|
4.2
|
44.0
|
1.0
|
|
OD1
|
C:ASP65
|
4.2
|
46.5
|
1.0
|
|
CG2
|
C:THR24
|
4.2
|
44.3
|
1.0
|
|
HNB3
|
C:GNP301
|
4.2
|
57.5
|
1.0
|
|
HG21
|
C:THR42
|
4.3
|
66.7
|
1.0
|
|
O3A
|
C:GNP301
|
4.3
|
45.4
|
1.0
|
|
CG2
|
C:THR42
|
4.3
|
55.2
|
1.0
|
|
HA
|
C:THR42
|
4.3
|
63.7
|
1.0
|
|
HE2
|
C:LYS23
|
4.4
|
56.4
|
1.0
|
|
O1G
|
C:GNP301
|
4.4
|
50.9
|
1.0
|
|
HA
|
C:THR24
|
4.5
|
53.2
|
1.0
|
|
CG
|
C:ASP65
|
4.5
|
46.1
|
1.0
|
|
HA
|
C:ALA67
|
4.5
|
67.1
|
1.0
|
|
O1B
|
C:GNP301
|
4.5
|
45.2
|
1.0
|
|
C
|
C:ALA41
|
4.5
|
51.5
|
1.0
|
|
O
|
C:VAL40
|
4.6
|
48.6
|
1.0
|
|
PA
|
C:GNP301
|
4.6
|
44.5
|
1.0
|
|
HE1
|
C:TYR39
|
4.6
|
59.7
|
1.0
|
|
O
|
C:THR66
|
4.7
|
51.1
|
1.0
|
|
HG23
|
C:THR42
|
4.7
|
66.7
|
1.0
|
|
HG23
|
C:THR24
|
4.7
|
53.6
|
1.0
|
|
HZ3
|
C:LYS23
|
4.7
|
57.3
|
1.0
|
|
HZ1
|
C:LYS23
|
4.8
|
57.3
|
1.0
|
|
CA
|
C:ALA41
|
4.8
|
52.0
|
1.0
|
|
HG22
|
C:THR24
|
4.9
|
53.6
|
1.0
|
|
O1A
|
C:GNP301
|
5.0
|
43.1
|
1.0
|
|
CB
|
C:LYS23
|
5.0
|
43.3
|
1.0
|
|
Magnesium binding site 3 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 3 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Mg302
b:48.8
occ:1.00
|
OG1
|
E:THR42
|
2.0
|
51.2
|
1.0
|
|
O
|
E:HOH404
|
2.0
|
49.2
|
1.0
|
|
OG1
|
E:THR24
|
2.0
|
47.9
|
1.0
|
|
O
|
E:HOH408
|
2.1
|
48.8
|
1.0
|
|
O2B
|
E:GNP301
|
2.2
|
47.9
|
1.0
|
|
O2G
|
E:GNP301
|
2.2
|
51.2
|
1.0
|
|
H
|
E:THR42
|
3.0
|
63.1
|
1.0
|
|
HB
|
E:THR42
|
3.0
|
63.9
|
1.0
|
|
HB
|
E:THR24
|
3.1
|
56.3
|
1.0
|
|
CB
|
E:THR42
|
3.1
|
52.9
|
1.0
|
|
CB
|
E:THR24
|
3.1
|
46.8
|
1.0
|
|
PG
|
E:GNP301
|
3.3
|
50.3
|
1.0
|
|
H
|
E:THR24
|
3.3
|
56.0
|
1.0
|
|
PB
|
E:GNP301
|
3.4
|
48.4
|
1.0
|
|
N3B
|
E:GNP301
|
3.4
|
49.9
|
1.0
|
|
N
|
E:THR42
|
3.6
|
53.2
|
1.0
|
|
O3G
|
E:GNP301
|
3.9
|
52.4
|
1.0
|
|
N
|
E:THR24
|
3.9
|
46.7
|
1.0
|
|
CA
|
E:THR42
|
3.9
|
53.3
|
1.0
|
|
HG21
|
E:THR24
|
4.0
|
55.4
|
1.0
|
|
OD2
|
E:ASP65
|
4.0
|
48.0
|
1.0
|
|
HB2
|
E:LYS23
|
4.1
|
57.8
|
1.0
|
|
CA
|
E:THR24
|
4.1
|
46.1
|
1.0
|
|
HNB3
|
E:GNP301
|
4.1
|
60.3
|
1.0
|
|
HG21
|
E:THR42
|
4.1
|
66.5
|
1.0
|
|
CG2
|
E:THR24
|
4.1
|
46.4
|
1.0
|
|
CG2
|
E:THR42
|
4.2
|
55.0
|
1.0
|
|
OD1
|
E:ASP65
|
4.3
|
50.0
|
1.0
|
|
O2A
|
E:GNP301
|
4.3
|
49.1
|
1.0
|
|
O3A
|
E:GNP301
|
4.3
|
48.0
|
1.0
|
|
HA
|
E:THR42
|
4.3
|
64.4
|
1.0
|
|
O1A
|
E:GNP301
|
4.4
|
46.9
|
1.0
|
|
HA
|
E:ALA41
|
4.4
|
63.2
|
1.0
|
|
HA
|
E:THR24
|
4.4
|
55.8
|
1.0
|
|
O1G
|
E:GNP301
|
4.5
|
53.8
|
1.0
|
|
HE2
|
E:LYS23
|
4.5
|
61.0
|
1.0
|
|
PA
|
E:GNP301
|
4.5
|
47.2
|
1.0
|
|
O1B
|
E:GNP301
|
4.5
|
49.0
|
1.0
|
|
CG
|
E:ASP65
|
4.5
|
49.9
|
1.0
|
|
HZ3
|
E:LYS23
|
4.6
|
61.3
|
1.0
|
|
HA
|
E:ALA67
|
4.6
|
67.8
|
1.0
|
|
HZ1
|
E:LYS23
|
4.6
|
61.3
|
1.0
|
|
O
|
E:VAL40
|
4.6
|
51.8
|
1.0
|
|
HG23
|
E:THR24
|
4.7
|
55.4
|
1.0
|
|
C
|
E:ALA41
|
4.7
|
54.1
|
1.0
|
|
HG23
|
E:THR42
|
4.7
|
66.5
|
1.0
|
|
O
|
E:THR66
|
4.8
|
53.5
|
1.0
|
|
HG22
|
E:THR24
|
4.8
|
55.4
|
1.0
|
|
HG22
|
E:THR42
|
4.9
|
66.5
|
1.0
|
|
NZ
|
E:LYS23
|
4.9
|
51.7
|
1.0
|
|
Magnesium binding site 4 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 4 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Mg302
b:43.2
occ:1.00
|
O
|
G:HOH402
|
2.0
|
44.4
|
1.0
|
|
OG1
|
G:THR42
|
2.0
|
46.4
|
1.0
|
|
O2G
|
G:GNP301
|
2.0
|
45.0
|
1.0
|
|
OG1
|
G:THR24
|
2.1
|
41.9
|
1.0
|
|
O
|
G:HOH405
|
2.1
|
42.8
|
1.0
|
|
O2B
|
G:GNP301
|
2.2
|
42.3
|
1.0
|
|
HB
|
G:THR24
|
3.0
|
50.1
|
1.0
|
|
CB
|
G:THR24
|
3.1
|
41.4
|
1.0
|
|
H
|
G:THR42
|
3.2
|
56.5
|
1.0
|
|
CB
|
G:THR42
|
3.2
|
48.7
|
1.0
|
|
HB
|
G:THR42
|
3.2
|
58.8
|
1.0
|
|
PG
|
G:GNP301
|
3.2
|
44.8
|
1.0
|
|
H
|
G:THR24
|
3.3
|
49.8
|
1.0
|
|
PB
|
G:GNP301
|
3.3
|
42.4
|
1.0
|
|
N3B
|
G:GNP301
|
3.5
|
43.3
|
1.0
|
|
N
|
G:THR42
|
3.7
|
46.7
|
1.0
|
|
OD2
|
G:ASP65
|
3.9
|
41.5
|
1.0
|
|
N
|
G:THR24
|
3.9
|
41.1
|
1.0
|
|
HG21
|
G:THR24
|
4.0
|
49.9
|
1.0
|
|
O3G
|
G:GNP301
|
4.0
|
47.8
|
1.0
|
|
CA
|
G:THR42
|
4.0
|
48.3
|
1.0
|
|
HB2
|
G:LYS23
|
4.0
|
52.1
|
1.0
|
|
CA
|
G:THR24
|
4.1
|
40.7
|
1.0
|
|
OD1
|
G:ASP65
|
4.1
|
44.8
|
1.0
|
|
CG2
|
G:THR24
|
4.2
|
41.2
|
1.0
|
|
HG21
|
G:THR42
|
4.2
|
61.3
|
1.0
|
|
HNB3
|
G:GNP301
|
4.2
|
52.4
|
1.0
|
|
CG2
|
G:THR42
|
4.3
|
50.7
|
1.0
|
|
O1G
|
G:GNP301
|
4.3
|
46.7
|
1.0
|
|
HA
|
G:THR24
|
4.3
|
49.2
|
1.0
|
|
HE2
|
G:LYS23
|
4.4
|
57.2
|
1.0
|
|
HA
|
G:THR42
|
4.4
|
58.4
|
1.0
|
|
CG
|
G:ASP65
|
4.4
|
44.0
|
1.0
|
|
HA
|
G:ALA41
|
4.4
|
54.2
|
1.0
|
|
O3A
|
G:GNP301
|
4.4
|
42.0
|
1.0
|
|
O1B
|
G:GNP301
|
4.4
|
42.8
|
1.0
|
|
O2A
|
G:GNP301
|
4.5
|
42.1
|
1.0
|
|
HA
|
G:ALA67
|
4.6
|
67.9
|
1.0
|
|
O
|
G:VAL40
|
4.6
|
43.5
|
1.0
|
|
O1A
|
G:GNP301
|
4.6
|
41.3
|
1.0
|
|
HG23
|
G:THR42
|
4.7
|
61.3
|
1.0
|
|
PA
|
G:GNP301
|
4.7
|
40.8
|
1.0
|
|
O
|
G:THR66
|
4.7
|
51.4
|
1.0
|
|
C
|
G:ALA41
|
4.7
|
45.9
|
1.0
|
|
HG23
|
G:THR24
|
4.7
|
49.9
|
1.0
|
|
HZ3
|
G:LYS23
|
4.8
|
56.6
|
1.0
|
|
HZ1
|
G:LYS23
|
4.8
|
56.6
|
1.0
|
|
HE1
|
G:TYR39
|
4.8
|
51.5
|
1.0
|
|
HG22
|
G:THR24
|
4.8
|
49.9
|
1.0
|
|
CB
|
G:LYS23
|
5.0
|
43.1
|
1.0
|
|
Magnesium binding site 5 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 5 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 5 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Mg302
b:69.7
occ:1.00
|
O2G
|
I:GNP301
|
2.0
|
72.3
|
1.0
|
|
OG1
|
I:THR24
|
2.1
|
68.9
|
1.0
|
|
O
|
I:HOH403
|
2.1
|
74.4
|
1.0
|
|
OG1
|
I:THR42
|
2.1
|
71.1
|
1.0
|
|
O2B
|
I:GNP301
|
2.1
|
67.3
|
1.0
|
|
O
|
I:HOH401
|
2.2
|
65.6
|
1.0
|
|
HB
|
I:THR24
|
3.0
|
79.4
|
1.0
|
|
CB
|
I:THR24
|
3.1
|
65.8
|
1.0
|
|
CB
|
I:THR42
|
3.2
|
75.5
|
1.0
|
|
HB
|
I:THR42
|
3.2
|
91.0
|
1.0
|
|
H
|
I:THR42
|
3.3
|
84.6
|
1.0
|
|
PG
|
I:GNP301
|
3.3
|
71.9
|
1.0
|
|
H
|
I:THR24
|
3.3
|
79.7
|
1.0
|
|
PB
|
I:GNP301
|
3.3
|
68.8
|
1.0
|
|
N3B
|
I:GNP301
|
3.6
|
70.5
|
1.0
|
|
N
|
I:THR42
|
3.8
|
70.2
|
1.0
|
|
N
|
I:THR24
|
3.9
|
66.0
|
1.0
|
|
OD2
|
I:ASP65
|
3.9
|
72.6
|
1.0
|
|
O2A
|
I:GNP301
|
3.9
|
62.0
|
1.0
|
|
HG21
|
I:THR24
|
4.0
|
76.7
|
1.0
|
|
HB2
|
I:LYS23
|
4.0
|
86.1
|
1.0
|
|
O3A
|
I:GNP301
|
4.0
|
67.2
|
1.0
|
|
O3G
|
I:GNP301
|
4.0
|
78.1
|
1.0
|
|
CA
|
I:THR42
|
4.1
|
74.9
|
1.0
|
|
CA
|
I:THR24
|
4.1
|
65.1
|
1.0
|
|
CG2
|
I:THR24
|
4.1
|
63.6
|
1.0
|
|
HG21
|
I:THR42
|
4.2
|
97.7
|
1.0
|
|
OD1
|
I:ASP65
|
4.2
|
78.4
|
1.0
|
|
HE2
|
I:LYS23
|
4.3
|
98.9
|
1.0
|
|
CG2
|
I:THR42
|
4.3
|
81.0
|
1.0
|
|
O1G
|
I:GNP301
|
4.3
|
71.6
|
1.0
|
|
HA
|
I:ALA41
|
4.3
|
80.8
|
1.0
|
|
PA
|
I:GNP301
|
4.4
|
63.3
|
1.0
|
|
HA
|
I:THR24
|
4.4
|
78.6
|
1.0
|
|
HA
|
I:THR42
|
4.4
|
90.3
|
1.0
|
|
CG
|
I:ASP65
|
4.4
|
77.8
|
1.0
|
|
HNB3
|
I:GNP301
|
4.5
|
85.0
|
1.0
|
|
HE1
|
I:TYR39
|
4.6
|
77.9
|
1.0
|
|
O
|
I:VAL40
|
4.6
|
63.4
|
1.0
|
|
O1B
|
I:GNP301
|
4.6
|
69.7
|
1.0
|
|
HG23
|
I:THR24
|
4.7
|
76.7
|
1.0
|
|
HZ1
|
I:LYS23
|
4.7
|
95.6
|
1.0
|
|
HG23
|
I:THR42
|
4.7
|
97.7
|
1.0
|
|
O1A
|
I:GNP301
|
4.7
|
63.3
|
1.0
|
|
HZ3
|
I:LYS23
|
4.7
|
95.6
|
1.0
|
|
HA
|
I:ALA67
|
4.7
|
111.5
|
1.0
|
|
C
|
I:ALA41
|
4.7
|
70.6
|
1.0
|
|
O
|
I:HOH404
|
4.7
|
63.3
|
1.0
|
|
HG22
|
I:THR24
|
4.8
|
76.7
|
1.0
|
|
CB
|
I:LYS23
|
4.9
|
72.4
|
1.0
|
|
O
|
I:THR66
|
4.9
|
86.8
|
1.0
|
|
C
|
I:LYS23
|
5.0
|
67.0
|
1.0
|
|
Magnesium binding site 6 out
of 6 in 7mny
Go back to
Magnesium Binding Sites List in 7mny
Magnesium binding site 6 out
of 6 in the Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp
 Mono view
 Stereo pair view
|
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 6 of Crystal Structure of NUP358/RANBP2 Ran-Binding Domain 3 in Complex with Ran-Gppnhp within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
K:Mg302
b:65.7
occ:1.00
|
OG1
|
K:THR24
|
2.0
|
64.7
|
1.0
|
|
O
|
K:HOH401
|
2.0
|
64.5
|
1.0
|
|
O2G
|
K:GNP301
|
2.1
|
69.2
|
1.0
|
|
OG1
|
K:THR42
|
2.1
|
72.5
|
1.0
|
|
O
|
K:HOH402
|
2.1
|
70.3
|
1.0
|
|
O2B
|
K:GNP301
|
2.1
|
64.0
|
1.0
|
|
HB
|
K:THR42
|
3.1
|
93.3
|
1.0
|
|
H
|
K:THR42
|
3.1
|
88.7
|
1.0
|
|
CB
|
K:THR42
|
3.1
|
77.4
|
1.0
|
|
CB
|
K:THR24
|
3.1
|
62.5
|
1.0
|
|
HB
|
K:THR24
|
3.2
|
75.4
|
1.0
|
|
PG
|
K:GNP301
|
3.2
|
67.7
|
1.0
|
|
H
|
K:THR24
|
3.3
|
73.7
|
1.0
|
|
PB
|
K:GNP301
|
3.3
|
62.6
|
1.0
|
|
N3B
|
K:GNP301
|
3.5
|
63.8
|
1.0
|
|
N
|
K:THR42
|
3.7
|
73.5
|
1.0
|
|
O2A
|
K:GNP301
|
3.8
|
61.3
|
1.0
|
|
OD2
|
K:ASP65
|
3.9
|
70.8
|
1.0
|
|
N
|
K:THR24
|
3.9
|
61.2
|
1.0
|
|
HG21
|
K:THR24
|
4.0
|
75.8
|
1.0
|
|
CA
|
K:THR42
|
4.0
|
78.5
|
1.0
|
|
O3G
|
K:GNP301
|
4.0
|
68.9
|
1.0
|
|
HB2
|
K:LYS23
|
4.1
|
78.9
|
1.0
|
|
CA
|
K:THR24
|
4.1
|
60.5
|
1.0
|
|
CG2
|
K:THR24
|
4.2
|
62.8
|
1.0
|
|
HG21
|
K:THR42
|
4.2
|
100.7
|
1.0
|
|
HNB3
|
K:GNP301
|
4.2
|
77.0
|
1.0
|
|
OD1
|
K:ASP65
|
4.2
|
72.7
|
1.0
|
|
O3A
|
K:GNP301
|
4.3
|
61.2
|
1.0
|
|
HE2
|
K:LYS23
|
4.3
|
86.7
|
1.0
|
|
CG2
|
K:THR42
|
4.3
|
83.5
|
1.0
|
|
O1G
|
K:GNP301
|
4.3
|
67.4
|
1.0
|
|
HA
|
K:THR42
|
4.3
|
94.7
|
1.0
|
|
HA
|
K:ALA41
|
4.4
|
80.2
|
1.0
|
|
HA
|
K:THR24
|
4.4
|
73.1
|
1.0
|
|
PA
|
K:GNP301
|
4.4
|
60.2
|
1.0
|
|
CG
|
K:ASP65
|
4.5
|
73.4
|
1.0
|
|
O1B
|
K:GNP301
|
4.5
|
62.9
|
1.0
|
|
HA
|
K:ALA67
|
4.5
|
98.4
|
1.0
|
|
O
|
K:VAL40
|
4.6
|
63.3
|
1.0
|
|
O
|
K:THR66
|
4.6
|
79.1
|
1.0
|
|
HG23
|
K:THR24
|
4.6
|
75.8
|
1.0
|
|
HZ2
|
K:LYS23
|
4.6
|
84.2
|
1.0
|
|
HE1
|
K:TYR39
|
4.6
|
74.3
|
1.0
|
|
HZ3
|
K:LYS23
|
4.6
|
84.2
|
1.0
|
|
O1A
|
K:GNP301
|
4.7
|
60.2
|
1.0
|
|
C
|
K:ALA41
|
4.7
|
72.0
|
1.0
|
|
HG23
|
K:THR42
|
4.8
|
100.7
|
1.0
|
|
HG22
|
K:THR24
|
4.9
|
75.8
|
1.0
|
|
NZ
|
K:LYS23
|
4.9
|
69.8
|
1.0
|
|
HG22
|
K:THR42
|
5.0
|
100.7
|
1.0
|
|
Reference:
C.J.Bley,
S.Nie,
G.W.Mobbs,
S.Petrovic,
A.T.Gres,
X.Liu,
S.Mukherjee,
S.Harvey,
F.M.Huber,
D.H.Lin,
B.Brown,
A.W.Tang,
E.J.Rundlet,
A.R.Correia,
S.Chen,
S.G.Regmi,
T.A.Stevens,
C.A.Jette,
M.Dasso,
A.Patke,
A.F.Palazzo,
A.A.Kossiakoff,
A.Hoelz.
Architecture of the Cytoplasmic Face of the Nuclear Pore. Science V. 376 M9129 2022.
ISSN: ESSN 1095-9203
PubMed: 35679405
DOI: 10.1126/SCIENCE.ABM9129
Page generated: Thu Oct 3 01:03:18 2024
|
