Calcium in PDB 7dbc: Pra in Complex with Tubulin
Protein crystallography data
The structure of Pra in Complex with Tubulin, PDB code: 7dbc
was solved by
C.Y.Wu,
Y.X.Wang,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
19.92 /
2.40
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
105.417,
158.27,
180.747,
90,
90,
90
|
R / Rfree (%)
|
19.8 /
23.4
|
Other elements in 7dbc:
The structure of Pra in Complex with Tubulin also contains other interesting chemical elements:
Calcium Binding Sites:
The binding sites of Calcium atom in the Pra in Complex with Tubulin
(pdb code 7dbc). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the
Pra in Complex with Tubulin, PDB code: 7dbc:
Jump to Calcium binding site number:
1;
2;
Calcium binding site 1 out
of 2 in 7dbc
Go back to
Calcium Binding Sites List in 7dbc
Calcium binding site 1 out
of 2 in the Pra in Complex with Tubulin
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Pra in Complex with Tubulin within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca503
b:67.8
occ:1.00
|
O
|
A:THR41
|
2.1
|
76.0
|
1.0
|
O
|
A:GLY44
|
2.2
|
59.1
|
1.0
|
OD2
|
A:ASP39
|
2.2
|
61.3
|
1.0
|
O
|
A:HOH660
|
2.2
|
139.2
|
1.0
|
OE2
|
A:GLU55
|
2.3
|
71.4
|
1.0
|
OD1
|
A:ASP39
|
2.4
|
68.0
|
1.0
|
CG
|
A:ASP39
|
2.7
|
67.0
|
1.0
|
OE1
|
A:GLU55
|
2.7
|
72.2
|
1.0
|
OG1
|
A:THR41
|
2.8
|
77.9
|
1.0
|
CD
|
A:GLU55
|
2.8
|
69.0
|
1.0
|
C
|
A:THR41
|
3.2
|
74.9
|
1.0
|
C
|
A:GLY44
|
3.3
|
65.9
|
1.0
|
CB
|
A:THR41
|
3.4
|
73.2
|
1.0
|
CA
|
A:THR41
|
3.7
|
69.1
|
1.0
|
CA
|
A:GLY45
|
3.8
|
69.5
|
1.0
|
N
|
A:GLY45
|
4.0
|
61.4
|
1.0
|
N
|
A:THR41
|
4.1
|
69.9
|
1.0
|
CB
|
A:ASP39
|
4.2
|
61.5
|
1.0
|
CZ
|
A:PHE49
|
4.2
|
61.6
|
1.0
|
CG
|
A:GLU55
|
4.3
|
67.0
|
1.0
|
N
|
A:ILE42
|
4.4
|
75.4
|
1.0
|
N
|
A:GLY44
|
4.4
|
67.6
|
1.0
|
OD1
|
A:ASN50
|
4.4
|
63.8
|
1.0
|
CA
|
A:GLY44
|
4.4
|
69.4
|
1.0
|
OD2
|
A:ASP47
|
4.6
|
67.5
|
1.0
|
NE2
|
A:HIS61
|
4.8
|
68.4
|
1.0
|
CE1
|
A:PHE49
|
4.8
|
64.4
|
1.0
|
CG2
|
A:THR41
|
4.8
|
69.0
|
1.0
|
ND2
|
A:ASN50
|
4.9
|
62.8
|
1.0
|
CA
|
A:ILE42
|
4.9
|
71.3
|
1.0
|
|
Calcium binding site 2 out
of 2 in 7dbc
Go back to
Calcium Binding Sites List in 7dbc
Calcium binding site 2 out
of 2 in the Pra in Complex with Tubulin
Mono view
Stereo pair view
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Pra in Complex with Tubulin within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Ca503
b:52.8
occ:1.00
|
OE2
|
C:GLU55
|
2.1
|
52.8
|
1.0
|
OG1
|
C:THR41
|
2.1
|
62.9
|
1.0
|
OD2
|
C:ASP39
|
2.2
|
52.1
|
1.0
|
O
|
C:GLY44
|
2.2
|
53.2
|
1.0
|
OE1
|
C:GLU55
|
2.3
|
55.2
|
1.0
|
O
|
C:THR41
|
2.5
|
63.2
|
1.0
|
CD
|
C:GLU55
|
2.6
|
44.8
|
1.0
|
OD1
|
C:ASP39
|
2.6
|
57.4
|
1.0
|
CG
|
C:ASP39
|
2.7
|
52.9
|
1.0
|
C
|
C:GLY44
|
3.3
|
48.3
|
1.0
|
CB
|
C:THR41
|
3.4
|
59.6
|
1.0
|
C
|
C:THR41
|
3.5
|
52.6
|
1.0
|
CA
|
C:GLY45
|
3.9
|
57.4
|
1.0
|
CA
|
C:THR41
|
3.9
|
52.9
|
1.0
|
N
|
C:GLY45
|
4.0
|
49.7
|
1.0
|
CG
|
C:GLU55
|
4.0
|
42.7
|
1.0
|
NE2
|
C:HIS61
|
4.2
|
45.9
|
1.0
|
CB
|
C:ASP39
|
4.3
|
54.5
|
1.0
|
N
|
C:THR41
|
4.3
|
53.5
|
1.0
|
OD2
|
C:ASP47
|
4.4
|
61.3
|
1.0
|
N
|
C:GLY44
|
4.4
|
53.8
|
1.0
|
OD1
|
C:ASN50
|
4.4
|
44.1
|
1.0
|
CA
|
C:GLY44
|
4.4
|
49.5
|
1.0
|
CZ
|
C:PHE49
|
4.5
|
45.7
|
1.0
|
CE1
|
C:PHE49
|
4.6
|
48.0
|
1.0
|
CG2
|
C:THR41
|
4.6
|
59.5
|
1.0
|
ND2
|
C:ASN50
|
4.6
|
47.0
|
1.0
|
O
|
C:HOH733
|
4.6
|
52.2
|
1.0
|
N
|
C:ILE42
|
4.7
|
52.9
|
1.0
|
CB
|
C:GLU55
|
4.9
|
39.9
|
1.0
|
CG
|
C:ASN50
|
5.0
|
41.4
|
1.0
|
CD2
|
C:HIS61
|
5.0
|
43.7
|
1.0
|
|
Reference:
C.Y.Wu,
Y.X.Wang.
Pra in Complex with Tubulin To Be Published.
Page generated: Fri Nov 5 11:34:29 2021
|