Magnesium in PDB 1cm8: Phosphorylated Map Kinase P38-Gamma
Protein crystallography data
The structure of Phosphorylated Map Kinase P38-Gamma, PDB code: 1cm8
was solved by
S.Bellon,
M.J.Fitzgibbon,
T.Fox,
H.M.Hsiao,
K.P.Wilson,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
50.00 /
2.40
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
63.500,
66.820,
206.020,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
23.2 /
28.3
|
Magnesium Binding Sites:
The binding sites of Magnesium atom in the Phosphorylated Map Kinase P38-Gamma
(pdb code 1cm8). This binding sites where shown within
5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the
Phosphorylated Map Kinase P38-Gamma, PDB code: 1cm8:
Jump to Magnesium binding site number:
1;
2;
3;
4;
Magnesium binding site 1 out
of 4 in 1cm8
Go back to
Magnesium Binding Sites List in 1cm8
Magnesium binding site 1 out
of 4 in the Phosphorylated Map Kinase P38-Gamma
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 1 of Phosphorylated Map Kinase P38-Gamma within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg401
b:39.3
occ:1.00
|
O2G
|
A:ANP400
|
2.1
|
64.3
|
1.0
|
OD1
|
A:ASN158
|
2.1
|
37.2
|
1.0
|
O2A
|
A:ANP400
|
2.3
|
39.7
|
1.0
|
N3B
|
A:ANP400
|
2.5
|
55.7
|
1.0
|
PG
|
A:ANP400
|
2.8
|
66.7
|
1.0
|
O
|
A:HOH2039
|
2.9
|
59.3
|
1.0
|
OD2
|
A:ASP171
|
3.0
|
39.8
|
1.0
|
CG
|
A:ASN158
|
3.3
|
43.2
|
1.0
|
PA
|
A:ANP400
|
3.5
|
45.1
|
1.0
|
C5'
|
A:ANP400
|
3.8
|
40.8
|
1.0
|
O
|
A:GLY157
|
3.8
|
39.6
|
1.0
|
O1G
|
A:ANP400
|
3.8
|
65.3
|
1.0
|
PB
|
A:ANP400
|
3.8
|
53.0
|
1.0
|
CG
|
A:ASP171
|
3.9
|
44.8
|
1.0
|
O5'
|
A:ANP400
|
4.0
|
44.3
|
1.0
|
ND2
|
A:ASN158
|
4.0
|
34.9
|
1.0
|
O3G
|
A:ANP400
|
4.1
|
61.8
|
1.0
|
O3A
|
A:ANP400
|
4.1
|
46.4
|
1.0
|
CB
|
A:ASP171
|
4.2
|
42.7
|
1.0
|
CE
|
A:LYS155
|
4.2
|
44.1
|
1.0
|
C
|
A:GLY157
|
4.2
|
37.1
|
1.0
|
CB
|
A:ASN158
|
4.4
|
40.1
|
1.0
|
CA
|
A:ASN158
|
4.4
|
38.0
|
1.0
|
N
|
A:ASN158
|
4.5
|
35.9
|
1.0
|
O3'
|
A:ANP400
|
4.7
|
51.0
|
1.0
|
O2B
|
A:ANP400
|
4.7
|
44.5
|
1.0
|
C3'
|
A:ANP400
|
4.7
|
44.4
|
1.0
|
O1A
|
A:ANP400
|
4.8
|
43.3
|
1.0
|
NZ
|
A:LYS155
|
4.8
|
48.4
|
1.0
|
O1B
|
A:ANP400
|
4.8
|
55.0
|
1.0
|
C4'
|
A:ANP400
|
4.8
|
40.7
|
1.0
|
|
Magnesium binding site 2 out
of 4 in 1cm8
Go back to
Magnesium Binding Sites List in 1cm8
Magnesium binding site 2 out
of 4 in the Phosphorylated Map Kinase P38-Gamma
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 2 of Phosphorylated Map Kinase P38-Gamma within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Mg402
b:42.8
occ:1.00
|
OD1
|
A:ASP171
|
2.3
|
47.1
|
1.0
|
O3G
|
A:ANP400
|
2.5
|
61.8
|
1.0
|
O2B
|
A:ANP400
|
2.6
|
44.5
|
1.0
|
O
|
A:HOH2153
|
2.7
|
48.9
|
1.0
|
O
|
A:HOH2152
|
2.7
|
45.1
|
1.0
|
OD2
|
A:ASP171
|
2.8
|
39.8
|
1.0
|
CG
|
A:ASP171
|
2.9
|
44.8
|
1.0
|
PG
|
A:ANP400
|
3.8
|
66.7
|
1.0
|
CA
|
A:GLY173
|
3.8
|
46.8
|
1.0
|
PB
|
A:ANP400
|
3.9
|
53.0
|
1.0
|
N3B
|
A:ANP400
|
4.1
|
55.7
|
1.0
|
N
|
A:GLY173
|
4.2
|
45.2
|
1.0
|
NZ
|
A:LYS56
|
4.3
|
41.3
|
1.0
|
C
|
A:GLY173
|
4.4
|
47.4
|
1.0
|
CB
|
A:ASP171
|
4.4
|
42.7
|
1.0
|
O2G
|
A:ANP400
|
4.5
|
64.3
|
1.0
|
O
|
A:HOH2111
|
4.6
|
58.9
|
1.0
|
N
|
A:LEU174
|
4.8
|
45.5
|
1.0
|
O3A
|
A:ANP400
|
4.8
|
46.4
|
1.0
|
O1G
|
A:ANP400
|
5.0
|
65.3
|
1.0
|
O
|
A:GLY173
|
5.0
|
49.5
|
1.0
|
|
Magnesium binding site 3 out
of 4 in 1cm8
Go back to
Magnesium Binding Sites List in 1cm8
Magnesium binding site 3 out
of 4 in the Phosphorylated Map Kinase P38-Gamma
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 3 of Phosphorylated Map Kinase P38-Gamma within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg1401
b:41.3
occ:1.00
|
O2G
|
B:ANP1400
|
2.1
|
64.1
|
1.0
|
OD1
|
B:ASN1158
|
2.1
|
35.2
|
1.0
|
O2A
|
B:ANP1400
|
2.3
|
44.7
|
1.0
|
N3B
|
B:ANP1400
|
2.6
|
57.4
|
1.0
|
PG
|
B:ANP1400
|
2.8
|
63.6
|
1.0
|
OD2
|
B:ASP1171
|
3.0
|
36.4
|
1.0
|
CG
|
B:ASN1158
|
3.3
|
40.5
|
1.0
|
PA
|
B:ANP1400
|
3.6
|
46.4
|
1.0
|
O
|
B:GLY1157
|
3.7
|
39.7
|
1.0
|
C5'
|
B:ANP1400
|
3.7
|
40.8
|
1.0
|
O1G
|
B:ANP1400
|
3.8
|
65.6
|
1.0
|
O
|
B:HOH2185
|
3.8
|
53.3
|
1.0
|
PB
|
B:ANP1400
|
3.9
|
56.7
|
1.0
|
O5'
|
B:ANP1400
|
4.0
|
45.8
|
1.0
|
ND2
|
B:ASN1158
|
4.0
|
38.6
|
1.0
|
CG
|
B:ASP1171
|
4.0
|
45.7
|
1.0
|
O3G
|
B:ANP1400
|
4.1
|
61.2
|
1.0
|
CE
|
B:LYS1155
|
4.1
|
43.9
|
1.0
|
C
|
B:GLY1157
|
4.2
|
36.8
|
1.0
|
O3A
|
B:ANP1400
|
4.2
|
48.9
|
1.0
|
CB
|
B:ASP1171
|
4.2
|
42.5
|
1.0
|
CB
|
B:ASN1158
|
4.4
|
38.4
|
1.0
|
CA
|
B:ASN1158
|
4.5
|
37.8
|
1.0
|
N
|
B:ASN1158
|
4.5
|
33.8
|
1.0
|
O3'
|
B:ANP1400
|
4.6
|
46.6
|
1.0
|
C3'
|
B:ANP1400
|
4.7
|
41.2
|
1.0
|
NZ
|
B:LYS1155
|
4.8
|
47.0
|
1.0
|
O2B
|
B:ANP1400
|
4.8
|
48.8
|
1.0
|
O1A
|
B:ANP1400
|
4.8
|
41.8
|
1.0
|
C4'
|
B:ANP1400
|
4.8
|
40.9
|
1.0
|
O1B
|
B:ANP1400
|
4.9
|
55.9
|
1.0
|
CA
|
B:GLY1157
|
5.0
|
37.5
|
1.0
|
|
Magnesium binding site 4 out
of 4 in 1cm8
Go back to
Magnesium Binding Sites List in 1cm8
Magnesium binding site 4 out
of 4 in the Phosphorylated Map Kinase P38-Gamma
Mono view
Stereo pair view
|
A full contact list of Magnesium with other atoms in the Mg binding
site number 4 of Phosphorylated Map Kinase P38-Gamma within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Mg1402
b:48.9
occ:1.00
|
OD1
|
B:ASP1171
|
2.3
|
45.0
|
1.0
|
O3G
|
B:ANP1400
|
2.5
|
61.2
|
1.0
|
O
|
B:HOH2118
|
2.6
|
50.7
|
1.0
|
O2B
|
B:ANP1400
|
2.6
|
48.8
|
1.0
|
OD2
|
B:ASP1171
|
2.8
|
36.4
|
1.0
|
CG
|
B:ASP1171
|
2.9
|
45.7
|
1.0
|
O
|
B:HOH2016
|
3.5
|
39.0
|
1.0
|
PG
|
B:ANP1400
|
3.7
|
63.6
|
1.0
|
CA
|
B:GLY1173
|
3.8
|
47.2
|
1.0
|
PB
|
B:ANP1400
|
3.9
|
56.7
|
1.0
|
N3B
|
B:ANP1400
|
4.0
|
57.4
|
1.0
|
N
|
B:GLY1173
|
4.2
|
44.6
|
1.0
|
NZ
|
B:LYS1056
|
4.3
|
41.7
|
1.0
|
CB
|
B:ASP1171
|
4.4
|
42.5
|
1.0
|
C
|
B:GLY1173
|
4.4
|
49.0
|
1.0
|
O2G
|
B:ANP1400
|
4.4
|
64.1
|
1.0
|
O
|
B:HOH2037
|
4.5
|
64.4
|
1.0
|
N
|
B:LEU1174
|
4.8
|
47.5
|
1.0
|
O3A
|
B:ANP1400
|
4.8
|
48.9
|
1.0
|
O1G
|
B:ANP1400
|
4.9
|
65.6
|
1.0
|
O
|
B:GLY1173
|
5.0
|
50.1
|
1.0
|
|
Reference:
S.Bellon,
M.J.Fitzgibbon,
T.Fox,
H.M.Hsiao,
K.P.Wilson.
The Structure of Phosphorylated P38GAMMA Is Monomeric and Reveals A Conserved Activation-Loop Conformation. Structure Fold.Des. V. 7 1057 1999.
ISSN: ISSN 0969-2126
PubMed: 10508788
DOI: 10.1016/S0969-2126(99)80173-7
Page generated: Tue Aug 13 02:29:59 2024
|