Calcium in PDB 5n7d: Magi-1 Complexed with A RSK1 Peptide
Enzymatic activity of Magi-1 Complexed with A RSK1 Peptide
All present enzymatic activity of Magi-1 Complexed with A RSK1 Peptide:
2.7.11.1;
Protein crystallography data
The structure of Magi-1 Complexed with A RSK1 Peptide, PDB code: 5n7d
was solved by
G.Gogl,
L.Nyitray,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
49.27 /
2.30
|
Space group
|
C 1 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
195.810,
60.680,
99.710,
90.00,
98.81,
90.00
|
R / Rfree (%)
|
19.1 /
22.7
|
Calcium Binding Sites:
The binding sites of Calcium atom in the Magi-1 Complexed with A RSK1 Peptide
(pdb code 5n7d). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the
Magi-1 Complexed with A RSK1 Peptide, PDB code: 5n7d:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
Calcium binding site 1 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 1 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca904
b:89.6
occ:1.00
|
OE2
|
A:GLU592
|
2.4
|
89.9
|
1.0
|
O
|
A:VAL590
|
2.4
|
58.8
|
1.0
|
O
|
A:GLY589
|
2.9
|
0.2
|
1.0
|
CD
|
A:GLU592
|
3.1
|
79.2
|
1.0
|
OE1
|
A:GLU592
|
3.1
|
87.0
|
1.0
|
C
|
A:GLY589
|
3.2
|
81.5
|
1.0
|
C
|
A:VAL590
|
3.5
|
49.9
|
1.0
|
N
|
A:VAL590
|
3.7
|
69.4
|
1.0
|
CA
|
A:GLY589
|
4.0
|
69.8
|
1.0
|
CA
|
A:VAL590
|
4.1
|
63.9
|
1.0
|
CG
|
A:GLU592
|
4.5
|
63.8
|
1.0
|
CB
|
A:VAL590
|
4.6
|
54.3
|
1.0
|
N
|
A:ASP591
|
4.6
|
50.9
|
1.0
|
O
|
A:HOH1151
|
4.9
|
65.4
|
1.0
|
N
|
A:GLU592
|
4.9
|
44.5
|
1.0
|
|
Calcium binding site 2 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 2 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca905
b:54.4
occ:1.00
|
O
|
A:GLY746
|
2.4
|
44.8
|
1.0
|
O
|
A:HOH1090
|
2.4
|
58.3
|
1.0
|
O
|
A:ARG744
|
2.4
|
52.7
|
1.0
|
O
|
A:GLY741
|
2.4
|
45.0
|
1.0
|
O
|
A:HOH1155
|
2.4
|
51.3
|
1.0
|
OE1
|
A:GLU786
|
2.5
|
49.5
|
1.0
|
OE2
|
A:GLU786
|
2.5
|
52.2
|
1.0
|
CD
|
A:GLU786
|
2.8
|
52.1
|
1.0
|
C
|
A:GLY741
|
3.2
|
43.3
|
1.0
|
C
|
A:GLY746
|
3.5
|
51.1
|
1.0
|
C
|
A:ARG744
|
3.6
|
51.6
|
1.0
|
N
|
A:GLY746
|
3.7
|
47.8
|
1.0
|
CA
|
A:GLY741
|
4.0
|
41.9
|
1.0
|
N
|
A:VAL742
|
4.0
|
37.7
|
1.0
|
C
|
A:LYS745
|
4.1
|
60.0
|
1.0
|
CA
|
A:VAL742
|
4.1
|
45.6
|
1.0
|
CA
|
A:GLY746
|
4.1
|
49.8
|
1.0
|
OG1
|
A:THR747
|
4.2
|
50.1
|
1.0
|
CG
|
A:GLU786
|
4.3
|
46.9
|
1.0
|
O
|
A:HOH1027
|
4.3
|
58.8
|
1.0
|
C
|
A:VAL742
|
4.3
|
41.1
|
1.0
|
CA
|
A:LYS745
|
4.4
|
58.0
|
1.0
|
O
|
A:VAL742
|
4.4
|
55.5
|
1.0
|
N
|
A:ARG744
|
4.4
|
50.1
|
1.0
|
N
|
A:LYS745
|
4.4
|
56.7
|
1.0
|
N
|
A:THR747
|
4.6
|
50.9
|
1.0
|
CA
|
A:ARG744
|
4.6
|
46.9
|
1.0
|
CG
|
A:ARG744
|
4.6
|
50.1
|
1.0
|
CA
|
A:THR747
|
4.8
|
49.3
|
1.0
|
O
|
A:LYS745
|
4.8
|
67.3
|
1.0
|
|
Calcium binding site 3 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 3 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca906
b:36.6
occ:1.00
|
OG
|
A:SER773
|
2.4
|
38.8
|
1.0
|
O
|
A:HOH1095
|
2.4
|
31.3
|
1.0
|
CB
|
A:SER773
|
3.5
|
26.1
|
1.0
|
CA
|
A:SER773
|
4.0
|
35.8
|
1.0
|
NH1
|
A:ARG770
|
4.4
|
36.8
|
1.0
|
O
|
A:HOH1034
|
4.4
|
39.6
|
1.0
|
O
|
A:SER773
|
4.4
|
41.3
|
1.0
|
C
|
A:SER773
|
4.7
|
38.6
|
1.0
|
|
Calcium binding site 4 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 4 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca907
b:89.0
occ:1.00
|
O
|
A:HOH1172
|
3.0
|
68.4
|
1.0
|
O
|
A:ASP815
|
3.1
|
31.7
|
1.0
|
N
|
A:GLY819
|
3.3
|
36.2
|
1.0
|
O
|
A:SER816
|
3.5
|
38.0
|
1.0
|
CA
|
A:GLY819
|
3.7
|
40.4
|
1.0
|
C
|
A:SER816
|
3.7
|
22.6
|
1.0
|
O
|
A:HOH1177
|
3.9
|
63.2
|
1.0
|
C
|
A:GLY819
|
3.9
|
41.4
|
1.0
|
N
|
A:LYS818
|
4.0
|
29.8
|
1.0
|
N
|
A:MET817
|
4.0
|
32.4
|
1.0
|
C
|
A:MET817
|
4.1
|
34.5
|
1.0
|
O
|
A:LYS820
|
4.1
|
36.8
|
1.0
|
C
|
A:ASP815
|
4.2
|
31.1
|
1.0
|
O
|
A:GLY819
|
4.2
|
36.0
|
1.0
|
CA
|
A:MET817
|
4.3
|
27.4
|
1.0
|
C
|
A:LYS818
|
4.4
|
32.3
|
1.0
|
CA
|
A:SER816
|
4.4
|
27.7
|
1.0
|
O
|
A:GLY821
|
4.4
|
32.8
|
1.0
|
N
|
A:LYS820
|
4.5
|
41.3
|
1.0
|
CG
|
A:LYS818
|
4.5
|
25.8
|
1.0
|
O
|
A:MET817
|
4.6
|
25.2
|
1.0
|
CA
|
A:LYS818
|
4.7
|
32.2
|
1.0
|
N
|
A:SER816
|
4.8
|
31.7
|
1.0
|
N
|
A:ARG823
|
4.8
|
29.1
|
1.0
|
C
|
A:LYS820
|
4.9
|
41.2
|
1.0
|
C
|
A:GLY821
|
4.9
|
33.9
|
1.0
|
CA
|
A:THR822
|
5.0
|
35.5
|
1.0
|
|
Calcium binding site 5 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 5 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca903
b:0.5
occ:1.00
|
OE2
|
B:GLU786
|
2.4
|
0.2
|
1.0
|
O
|
B:HOH1007
|
2.5
|
76.5
|
1.0
|
O
|
B:ARG744
|
2.5
|
0.1
|
1.0
|
OE1
|
B:GLU786
|
2.6
|
0.5
|
1.0
|
O
|
B:GLY741
|
2.7
|
98.8
|
1.0
|
CD
|
B:GLU786
|
2.8
|
0.7
|
1.0
|
O
|
B:HOH1018
|
3.0
|
69.7
|
1.0
|
O
|
B:GLY746
|
3.1
|
92.0
|
1.0
|
O
|
B:VAL742
|
3.6
|
0.9
|
1.0
|
C
|
B:ARG744
|
3.7
|
0.1
|
1.0
|
C
|
B:GLY741
|
3.7
|
87.7
|
1.0
|
O
|
B:HOH1005
|
3.7
|
77.8
|
1.0
|
CA
|
B:VAL742
|
3.8
|
98.5
|
1.0
|
C
|
B:VAL742
|
3.9
|
0.3
|
1.0
|
N
|
B:GLY746
|
4.1
|
95.4
|
1.0
|
N
|
B:VAL742
|
4.2
|
84.4
|
1.0
|
C
|
B:GLY746
|
4.2
|
93.5
|
1.0
|
CG
|
B:GLU786
|
4.3
|
0.3
|
1.0
|
N
|
B:ARG744
|
4.4
|
0.5
|
1.0
|
N
|
B:LYS745
|
4.5
|
0.0
|
1.0
|
CA
|
B:LYS745
|
4.5
|
0.1
|
1.0
|
CA
|
B:ARG744
|
4.6
|
0.9
|
1.0
|
C
|
B:LYS745
|
4.7
|
0.0
|
1.0
|
CA
|
B:GLY746
|
4.7
|
91.9
|
1.0
|
N
|
B:LYS743
|
4.8
|
0.4
|
1.0
|
CA
|
B:GLY741
|
4.9
|
86.9
|
1.0
|
OG1
|
B:THR747
|
4.9
|
0.0
|
1.0
|
C
|
B:LYS743
|
5.0
|
0.2
|
1.0
|
|
Calcium binding site 6 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 6 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca904
b:0.5
occ:1.00
|
O
|
B:VAL590
|
2.6
|
97.8
|
1.0
|
O
|
B:GLY589
|
3.6
|
0.6
|
1.0
|
C
|
B:VAL590
|
3.7
|
86.4
|
1.0
|
C
|
B:GLY589
|
4.0
|
0.5
|
1.0
|
CG
|
B:GLU592
|
4.0
|
89.5
|
1.0
|
CD
|
B:GLU592
|
4.2
|
0.7
|
1.0
|
N
|
B:VAL590
|
4.3
|
93.5
|
1.0
|
CA
|
B:VAL590
|
4.4
|
84.9
|
1.0
|
N
|
B:GLU592
|
4.5
|
74.7
|
1.0
|
OE2
|
B:GLU592
|
4.5
|
0.2
|
1.0
|
OE1
|
B:GLU592
|
4.6
|
0.6
|
1.0
|
CB
|
B:GLU592
|
4.7
|
76.2
|
1.0
|
CB
|
B:VAL590
|
4.7
|
82.7
|
1.0
|
N
|
B:ASP591
|
4.8
|
86.2
|
1.0
|
CA
|
B:GLY589
|
4.9
|
0.3
|
1.0
|
|
Calcium binding site 7 out
of 7 in 5n7d
Go back to
Calcium Binding Sites List in 5n7d
Calcium binding site 7 out
of 7 in the Magi-1 Complexed with A RSK1 Peptide
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Magi-1 Complexed with A RSK1 Peptide within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Ca905
b:59.5
occ:1.00
|
OD2
|
B:ASP861
|
2.1
|
83.0
|
1.0
|
O
|
B:HOH1014
|
2.4
|
60.3
|
1.0
|
O
|
B:MET817
|
2.4
|
57.0
|
1.0
|
O
|
B:GLY821
|
2.4
|
58.6
|
1.0
|
O
|
B:GLY819
|
2.5
|
63.4
|
1.0
|
CG
|
B:ASP861
|
3.0
|
74.8
|
1.0
|
OD1
|
B:ASP861
|
3.1
|
76.2
|
1.0
|
C
|
B:MET817
|
3.3
|
57.4
|
1.0
|
C
|
B:GLY821
|
3.6
|
64.7
|
1.0
|
C
|
B:GLY819
|
3.7
|
70.4
|
1.0
|
CA
|
B:MET817
|
3.9
|
59.5
|
1.0
|
N
|
B:GLY821
|
4.0
|
72.8
|
1.0
|
N
|
B:GLY819
|
4.1
|
63.9
|
1.0
|
C
|
B:LYS818
|
4.2
|
57.0
|
1.0
|
OG1
|
B:THR822
|
4.2
|
73.4
|
1.0
|
N
|
B:LYS818
|
4.3
|
58.8
|
1.0
|
C
|
B:LYS820
|
4.3
|
73.2
|
1.0
|
CA
|
B:GLY821
|
4.3
|
66.7
|
1.0
|
O
|
B:LYS818
|
4.4
|
66.9
|
1.0
|
CB
|
B:ASP861
|
4.4
|
67.8
|
1.0
|
CA
|
B:GLY819
|
4.5
|
69.0
|
1.0
|
CB
|
B:MET817
|
4.6
|
55.3
|
1.0
|
N
|
B:LYS820
|
4.6
|
72.2
|
1.0
|
N
|
B:THR822
|
4.7
|
65.8
|
1.0
|
CA
|
B:LYS818
|
4.7
|
53.6
|
1.0
|
CA
|
B:LYS820
|
4.7
|
67.8
|
1.0
|
O
|
B:LYS820
|
4.8
|
81.3
|
1.0
|
CA
|
B:THR822
|
4.8
|
68.0
|
1.0
|
|
Reference:
G.Gogl,
B.Biri-Kovacs,
A.L.Poti,
H.Vadaszi,
B.Szeder,
A.Bodor,
G.Schlosser,
A.Acs,
L.Turiak,
L.Buday,
A.Alexa,
L.Nyitray,
A.Remenyi.
Dynamic Control of Rsk Complexes By Phosphoswitch-Based Regulation. Febs J. V. 285 46 2018.
ISSN: ISSN 1742-4658
PubMed: 29083550
DOI: 10.1111/FEBS.14311
Page generated: Mon Jul 15 08:50:34 2024
|