Calcium in PDB 5h7d: Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
Enzymatic activity of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
All present enzymatic activity of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex:
2.6.1.82;
Protein crystallography data
The structure of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex, PDB code: 5h7d
was solved by
S.J.Youn,
N.Y.Kwon,
J.H.Lee,
J.H.Kim,
H.Lee,
J.O.Lee,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
50.00 /
2.57
|
|
Space group
|
P 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
79.489,
155.376,
155.491,
84.84,
89.68,
89.56
|
|
R / Rfree (%)
|
20.4 /
24.1
|
Calcium Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
16;
Binding sites:
The binding sites of Calcium atom in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
(pdb code 5h7d). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 16 binding sites of Calcium where determined in the
Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex, PDB code: 5h7d:
Jump to Calcium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Calcium binding site 1 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 1 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca501
b:82.3
occ:1.00
|
OD1
|
E:ASP165
|
2.3
|
0.6
|
1.0
|
|
O
|
E:THR171
|
2.3
|
0.9
|
1.0
|
|
OE2
|
E:GLU176
|
2.3
|
0.3
|
1.0
|
|
OD1
|
E:ASP167
|
2.4
|
0.8
|
1.0
|
|
OE1
|
E:GLU176
|
2.4
|
1.0
|
1.0
|
|
OD1
|
E:ASP169
|
2.4
|
0.3
|
1.0
|
|
CD
|
E:GLU176
|
2.7
|
0.2
|
1.0
|
|
CG
|
E:ASP167
|
3.3
|
0.7
|
1.0
|
|
CG
|
E:ASP169
|
3.4
|
0.8
|
1.0
|
|
CG
|
E:ASP165
|
3.5
|
0.8
|
1.0
|
|
OD2
|
E:ASP167
|
3.5
|
0.6
|
1.0
|
|
C
|
E:THR171
|
3.6
|
0.1
|
1.0
|
|
OD2
|
E:ASP169
|
4.0
|
0.6
|
1.0
|
|
CG
|
E:GLU176
|
4.1
|
0.2
|
1.0
|
|
CA
|
E:ASP165
|
4.2
|
0.8
|
1.0
|
|
N
|
E:ASP169
|
4.3
|
0.6
|
1.0
|
|
OD2
|
E:ASP165
|
4.3
|
0.4
|
1.0
|
|
N
|
E:THR171
|
4.3
|
0.7
|
1.0
|
|
CB
|
E:ASP165
|
4.4
|
0.3
|
1.0
|
|
OG1
|
E:THR171
|
4.4
|
0.9
|
1.0
|
|
CA
|
E:ILE172
|
4.4
|
0.0
|
1.0
|
|
N
|
E:ILE172
|
4.4
|
0.7
|
1.0
|
|
N
|
E:ASP167
|
4.4
|
0.2
|
1.0
|
|
C
|
E:ASP165
|
4.5
|
0.3
|
1.0
|
|
CB
|
E:ASP169
|
4.5
|
0.4
|
1.0
|
|
CA
|
E:THR171
|
4.6
|
0.4
|
1.0
|
|
CB
|
E:ASP167
|
4.6
|
0.4
|
1.0
|
|
N
|
E:GLY168
|
4.6
|
0.6
|
1.0
|
|
N
|
E:LYS166
|
4.7
|
0.6
|
1.0
|
|
CA
|
E:ASP169
|
4.8
|
0.6
|
1.0
|
|
CA
|
E:ASP167
|
4.8
|
0.0
|
1.0
|
|
CG2
|
E:THR173
|
4.9
|
0.0
|
1.0
|
|
N
|
E:THR173
|
4.9
|
0.3
|
1.0
|
|
O
|
E:ASP165
|
4.9
|
0.8
|
1.0
|
|
C
|
E:ASP167
|
4.9
|
0.6
|
1.0
|
|
N
|
E:GLY170
|
4.9
|
0.3
|
1.0
|
|
Calcium binding site 2 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 2 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Ca502
b:86.7
occ:1.00
|
OD1
|
E:ASP201
|
2.3
|
0.9
|
1.0
|
|
OD1
|
E:ASP203
|
2.3
|
0.4
|
1.0
|
|
OE1
|
E:GLU212
|
2.3
|
0.9
|
1.0
|
|
O
|
E:THR207
|
2.4
|
0.2
|
1.0
|
|
OD1
|
E:ASN205
|
2.4
|
0.7
|
1.0
|
|
OE2
|
E:GLU212
|
2.4
|
0.3
|
1.0
|
|
CD
|
E:GLU212
|
2.8
|
0.8
|
1.0
|
|
CG
|
E:ASP203
|
3.3
|
0.1
|
1.0
|
|
CG
|
E:ASN205
|
3.5
|
0.7
|
1.0
|
|
CG
|
E:ASP201
|
3.5
|
1.0
|
1.0
|
|
OD2
|
E:ASP203
|
3.6
|
0.8
|
1.0
|
|
C
|
E:THR207
|
3.6
|
0.8
|
1.0
|
|
OD1
|
E:ASP209
|
4.0
|
1.0
|
1.0
|
|
ND2
|
E:ASN205
|
4.1
|
0.4
|
1.0
|
|
OD2
|
E:ASP209
|
4.1
|
0.0
|
1.0
|
|
CG
|
E:ASP209
|
4.2
|
0.8
|
1.0
|
|
CA
|
E:ASP201
|
4.2
|
0.1
|
1.0
|
|
N
|
E:THR207
|
4.3
|
0.8
|
1.0
|
|
CG
|
E:GLU212
|
4.3
|
0.5
|
1.0
|
|
OD2
|
E:ASP201
|
4.3
|
0.1
|
1.0
|
|
N
|
E:ASN205
|
4.4
|
1.0
|
1.0
|
|
N
|
E:ILE208
|
4.5
|
0.8
|
1.0
|
|
CB
|
E:ASP201
|
4.5
|
0.5
|
1.0
|
|
CA
|
E:ILE208
|
4.5
|
0.7
|
1.0
|
|
N
|
E:ASP203
|
4.5
|
0.9
|
1.0
|
|
N
|
E:ASP209
|
4.5
|
1.0
|
1.0
|
|
CA
|
E:THR207
|
4.6
|
0.2
|
1.0
|
|
C
|
E:ASP201
|
4.6
|
0.1
|
1.0
|
|
CB
|
E:ASP203
|
4.6
|
0.2
|
1.0
|
|
N
|
E:GLY206
|
4.7
|
0.3
|
1.0
|
|
OG1
|
E:THR207
|
4.7
|
0.7
|
1.0
|
|
CB
|
E:ASN205
|
4.7
|
0.2
|
1.0
|
|
N
|
E:ALA202
|
4.7
|
0.9
|
1.0
|
|
N
|
E:GLY204
|
4.8
|
0.6
|
1.0
|
|
CA
|
E:ASN205
|
4.9
|
0.3
|
1.0
|
|
C
|
E:ILE208
|
4.9
|
0.6
|
1.0
|
|
CA
|
E:ASP203
|
5.0
|
1.0
|
1.0
|
|
Calcium binding site 3 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 3 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Ca501
b:91.2
occ:1.00
|
OE2
|
F:GLU176
|
2.3
|
0.7
|
1.0
|
|
OD1
|
F:ASP165
|
2.3
|
0.6
|
1.0
|
|
O
|
F:THR171
|
2.3
|
0.8
|
1.0
|
|
OD1
|
F:ASP167
|
2.3
|
0.4
|
1.0
|
|
OE1
|
F:GLU176
|
2.4
|
0.3
|
1.0
|
|
OD1
|
F:ASP169
|
2.4
|
0.4
|
1.0
|
|
CD
|
F:GLU176
|
2.7
|
0.3
|
1.0
|
|
CG
|
F:ASP167
|
3.2
|
0.4
|
1.0
|
|
CG
|
F:ASP169
|
3.4
|
0.6
|
1.0
|
|
CG
|
F:ASP165
|
3.4
|
0.9
|
1.0
|
|
OD2
|
F:ASP167
|
3.5
|
0.1
|
1.0
|
|
C
|
F:THR171
|
3.6
|
0.9
|
1.0
|
|
OD2
|
F:ASP169
|
3.9
|
0.6
|
1.0
|
|
OD2
|
F:ASP165
|
4.1
|
0.8
|
1.0
|
|
CG
|
F:GLU176
|
4.1
|
0.7
|
1.0
|
|
N
|
F:ASP169
|
4.2
|
0.1
|
1.0
|
|
N
|
F:THR171
|
4.3
|
0.0
|
1.0
|
|
N
|
F:ASP167
|
4.3
|
0.7
|
1.0
|
|
CA
|
F:ILE172
|
4.4
|
0.4
|
1.0
|
|
OG1
|
F:THR171
|
4.4
|
0.8
|
1.0
|
|
N
|
F:ILE172
|
4.4
|
0.8
|
1.0
|
|
CB
|
F:ASP165
|
4.4
|
0.7
|
1.0
|
|
CB
|
F:ASP169
|
4.5
|
0.9
|
1.0
|
|
CB
|
F:ASP167
|
4.5
|
0.3
|
1.0
|
|
CA
|
F:ASP165
|
4.5
|
0.8
|
1.0
|
|
CA
|
F:THR171
|
4.6
|
0.0
|
1.0
|
|
N
|
F:GLY168
|
4.6
|
0.8
|
1.0
|
|
C
|
F:ASP165
|
4.6
|
0.3
|
1.0
|
|
CA
|
F:ASP169
|
4.8
|
0.4
|
1.0
|
|
CA
|
F:ASP167
|
4.8
|
0.1
|
1.0
|
|
N
|
F:LYS166
|
4.8
|
0.6
|
1.0
|
|
CG2
|
F:THR173
|
4.9
|
0.5
|
1.0
|
|
C
|
F:ASP167
|
4.9
|
0.4
|
1.0
|
|
N
|
F:THR173
|
4.9
|
0.5
|
1.0
|
|
N
|
F:GLY170
|
4.9
|
0.4
|
1.0
|
|
O
|
F:ASP165
|
5.0
|
0.7
|
1.0
|
|
Calcium binding site 4 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 4 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Ca502
b:87.7
occ:1.00
|
OD1
|
F:ASP201
|
2.3
|
0.6
|
1.0
|
|
OE1
|
F:GLU212
|
2.3
|
0.6
|
1.0
|
|
OD1
|
F:ASP203
|
2.3
|
0.4
|
1.0
|
|
O
|
F:THR207
|
2.4
|
0.8
|
1.0
|
|
OD1
|
F:ASN205
|
2.4
|
0.9
|
1.0
|
|
OE2
|
F:GLU212
|
2.4
|
0.4
|
1.0
|
|
CD
|
F:GLU212
|
2.7
|
0.2
|
1.0
|
|
CG
|
F:ASP203
|
3.3
|
0.8
|
1.0
|
|
CG
|
F:ASN205
|
3.5
|
0.6
|
1.0
|
|
OD2
|
F:ASP203
|
3.5
|
0.6
|
1.0
|
|
CG
|
F:ASP201
|
3.6
|
0.2
|
1.0
|
|
C
|
F:THR207
|
3.6
|
0.9
|
1.0
|
|
ND2
|
F:ASN205
|
4.0
|
0.3
|
1.0
|
|
OD1
|
F:ASP209
|
4.0
|
0.9
|
1.0
|
|
OD2
|
F:ASP209
|
4.1
|
0.2
|
1.0
|
|
CA
|
F:ASP201
|
4.2
|
0.3
|
1.0
|
|
CG
|
F:ASP209
|
4.3
|
0.9
|
1.0
|
|
CG
|
F:GLU212
|
4.3
|
0.7
|
1.0
|
|
N
|
F:THR207
|
4.3
|
0.5
|
1.0
|
|
OD2
|
F:ASP201
|
4.4
|
0.5
|
1.0
|
|
N
|
F:ASN205
|
4.4
|
0.8
|
1.0
|
|
CA
|
F:ILE208
|
4.5
|
0.4
|
1.0
|
|
CB
|
F:ASP201
|
4.5
|
0.7
|
1.0
|
|
N
|
F:ILE208
|
4.5
|
0.3
|
1.0
|
|
N
|
F:ASP209
|
4.5
|
0.6
|
1.0
|
|
N
|
F:ASP203
|
4.5
|
0.6
|
1.0
|
|
CA
|
F:THR207
|
4.6
|
0.4
|
1.0
|
|
C
|
F:ASP201
|
4.6
|
0.6
|
1.0
|
|
CB
|
F:ASP203
|
4.6
|
0.5
|
1.0
|
|
OG1
|
F:THR207
|
4.6
|
0.8
|
1.0
|
|
CB
|
F:ASN205
|
4.7
|
0.2
|
1.0
|
|
N
|
F:GLY206
|
4.7
|
0.4
|
1.0
|
|
N
|
F:ALA202
|
4.7
|
0.9
|
1.0
|
|
N
|
F:GLY204
|
4.8
|
0.1
|
1.0
|
|
CA
|
F:ASN205
|
4.9
|
0.2
|
1.0
|
|
C
|
F:ILE208
|
4.9
|
0.4
|
1.0
|
|
CA
|
F:ASP203
|
5.0
|
0.4
|
1.0
|
|
Calcium binding site 5 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 5 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 5 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Ca501
b:82.8
occ:1.00
|
O
|
G:THR171
|
2.3
|
0.5
|
1.0
|
|
OD1
|
G:ASP165
|
2.3
|
0.9
|
1.0
|
|
OE2
|
G:GLU176
|
2.3
|
0.2
|
1.0
|
|
OE1
|
G:GLU176
|
2.4
|
0.3
|
1.0
|
|
OD1
|
G:ASP167
|
2.4
|
0.4
|
1.0
|
|
OD1
|
G:ASP169
|
2.4
|
0.6
|
1.0
|
|
CD
|
G:GLU176
|
2.7
|
0.2
|
1.0
|
|
CG
|
G:ASP167
|
3.3
|
0.7
|
1.0
|
|
CG
|
G:ASP169
|
3.4
|
0.2
|
1.0
|
|
CG
|
G:ASP165
|
3.5
|
0.6
|
1.0
|
|
OD2
|
G:ASP167
|
3.5
|
0.2
|
1.0
|
|
C
|
G:THR171
|
3.6
|
0.6
|
1.0
|
|
OD2
|
G:ASP169
|
4.0
|
0.3
|
1.0
|
|
CG
|
G:GLU176
|
4.1
|
0.4
|
1.0
|
|
CA
|
G:ASP165
|
4.2
|
0.0
|
1.0
|
|
N
|
G:ASP169
|
4.3
|
0.6
|
1.0
|
|
OD2
|
G:ASP165
|
4.3
|
0.2
|
1.0
|
|
N
|
G:THR171
|
4.3
|
0.8
|
1.0
|
|
CB
|
G:ASP165
|
4.4
|
1.0
|
1.0
|
|
OG1
|
G:THR171
|
4.4
|
0.5
|
1.0
|
|
CA
|
G:ILE172
|
4.4
|
0.2
|
1.0
|
|
N
|
G:ILE172
|
4.4
|
0.7
|
1.0
|
|
N
|
G:ASP167
|
4.4
|
0.6
|
1.0
|
|
C
|
G:ASP165
|
4.5
|
0.3
|
1.0
|
|
CB
|
G:ASP169
|
4.5
|
0.4
|
1.0
|
|
CA
|
G:THR171
|
4.5
|
0.5
|
1.0
|
|
CB
|
G:ASP167
|
4.6
|
0.3
|
1.0
|
|
N
|
G:GLY168
|
4.6
|
0.9
|
1.0
|
|
N
|
G:LYS166
|
4.7
|
0.3
|
1.0
|
|
CA
|
G:ASP169
|
4.8
|
0.4
|
1.0
|
|
CA
|
G:ASP167
|
4.8
|
0.5
|
1.0
|
|
CG2
|
G:THR173
|
4.9
|
0.2
|
1.0
|
|
N
|
G:THR173
|
4.9
|
0.3
|
1.0
|
|
O
|
G:ASP165
|
4.9
|
0.6
|
1.0
|
|
C
|
G:ASP167
|
4.9
|
0.9
|
1.0
|
|
N
|
G:GLY170
|
4.9
|
0.2
|
1.0
|
|
Calcium binding site 6 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 6 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 6 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Ca502
b:84.6
occ:1.00
|
OD1
|
G:ASP201
|
2.3
|
0.9
|
1.0
|
|
OE1
|
G:GLU212
|
2.3
|
0.6
|
1.0
|
|
OD1
|
G:ASP203
|
2.3
|
0.5
|
1.0
|
|
OD1
|
G:ASN205
|
2.4
|
0.9
|
1.0
|
|
O
|
G:THR207
|
2.4
|
0.5
|
1.0
|
|
OE2
|
G:GLU212
|
2.4
|
0.3
|
1.0
|
|
CD
|
G:GLU212
|
2.8
|
0.2
|
1.0
|
|
CG
|
G:ASP203
|
3.3
|
0.6
|
1.0
|
|
CG
|
G:ASN205
|
3.5
|
0.5
|
1.0
|
|
CG
|
G:ASP201
|
3.5
|
1.0
|
1.0
|
|
OD2
|
G:ASP203
|
3.6
|
0.2
|
1.0
|
|
C
|
G:THR207
|
3.6
|
0.7
|
1.0
|
|
OD1
|
G:ASP209
|
4.0
|
0.1
|
1.0
|
|
ND2
|
G:ASN205
|
4.0
|
0.6
|
1.0
|
|
OD2
|
G:ASP209
|
4.1
|
0.8
|
1.0
|
|
CG
|
G:ASP209
|
4.2
|
0.2
|
1.0
|
|
CA
|
G:ASP201
|
4.2
|
0.8
|
1.0
|
|
CG
|
G:GLU212
|
4.3
|
0.6
|
1.0
|
|
N
|
G:THR207
|
4.3
|
0.9
|
1.0
|
|
OD2
|
G:ASP201
|
4.3
|
0.9
|
1.0
|
|
N
|
G:ASN205
|
4.4
|
0.5
|
1.0
|
|
N
|
G:ILE208
|
4.5
|
0.1
|
1.0
|
|
CA
|
G:ILE208
|
4.5
|
0.6
|
1.0
|
|
CB
|
G:ASP201
|
4.5
|
0.9
|
1.0
|
|
N
|
G:ASP203
|
4.5
|
1.0
|
1.0
|
|
N
|
G:ASP209
|
4.5
|
0.9
|
1.0
|
|
CA
|
G:THR207
|
4.6
|
1.0
|
1.0
|
|
C
|
G:ASP201
|
4.6
|
0.7
|
1.0
|
|
CB
|
G:ASP203
|
4.6
|
0.3
|
1.0
|
|
OG1
|
G:THR207
|
4.6
|
1.0
|
1.0
|
|
CB
|
G:ASN205
|
4.6
|
0.5
|
1.0
|
|
N
|
G:GLY206
|
4.6
|
0.7
|
1.0
|
|
N
|
G:ALA202
|
4.7
|
0.7
|
1.0
|
|
N
|
G:GLY204
|
4.8
|
0.3
|
1.0
|
|
CA
|
G:ASN205
|
4.9
|
0.7
|
1.0
|
|
C
|
G:ILE208
|
4.9
|
0.7
|
1.0
|
|
CA
|
G:ASP203
|
5.0
|
0.9
|
1.0
|
|
C
|
G:ASN205
|
5.0
|
0.8
|
1.0
|
|
Calcium binding site 7 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 7 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 7 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Ca501
b:90.5
occ:1.00
|
O
|
H:THR171
|
2.3
|
0.9
|
1.0
|
|
OE2
|
H:GLU176
|
2.3
|
0.3
|
1.0
|
|
OD1
|
H:ASP165
|
2.3
|
1.0
|
1.0
|
|
OD1
|
H:ASP167
|
2.4
|
0.5
|
1.0
|
|
OE1
|
H:GLU176
|
2.4
|
0.5
|
1.0
|
|
OD1
|
H:ASP169
|
2.4
|
0.2
|
1.0
|
|
CD
|
H:GLU176
|
2.7
|
0.4
|
1.0
|
|
CG
|
H:ASP167
|
3.2
|
0.6
|
1.0
|
|
CG
|
H:ASP169
|
3.4
|
0.1
|
1.0
|
|
CG
|
H:ASP165
|
3.5
|
1.0
|
1.0
|
|
OD2
|
H:ASP167
|
3.5
|
0.3
|
1.0
|
|
C
|
H:THR171
|
3.6
|
0.1
|
1.0
|
|
OD2
|
H:ASP169
|
3.9
|
0.3
|
1.0
|
|
CG
|
H:GLU176
|
4.1
|
0.9
|
1.0
|
|
OD2
|
H:ASP165
|
4.2
|
0.3
|
1.0
|
|
N
|
H:ASP169
|
4.3
|
0.1
|
1.0
|
|
N
|
H:THR171
|
4.3
|
0.5
|
1.0
|
|
OG1
|
H:THR171
|
4.4
|
0.9
|
1.0
|
|
N
|
H:ASP167
|
4.4
|
0.3
|
1.0
|
|
CA
|
H:ILE172
|
4.4
|
0.8
|
1.0
|
|
N
|
H:ILE172
|
4.4
|
0.7
|
1.0
|
|
CB
|
H:ASP169
|
4.5
|
1.0
|
1.0
|
|
CB
|
H:ASP165
|
4.5
|
0.3
|
1.0
|
|
CA
|
H:ASP165
|
4.5
|
0.8
|
1.0
|
|
CB
|
H:ASP167
|
4.5
|
0.6
|
1.0
|
|
CA
|
H:THR171
|
4.5
|
0.4
|
1.0
|
|
C
|
H:ASP165
|
4.6
|
0.7
|
1.0
|
|
N
|
H:GLY168
|
4.6
|
0.5
|
1.0
|
|
CA
|
H:ASP169
|
4.8
|
0.1
|
1.0
|
|
CA
|
H:ASP167
|
4.8
|
0.2
|
1.0
|
|
N
|
H:LYS166
|
4.8
|
0.5
|
1.0
|
|
N
|
H:THR173
|
4.9
|
0.0
|
1.0
|
|
CG2
|
H:THR173
|
4.9
|
0.1
|
1.0
|
|
C
|
H:ASP167
|
4.9
|
0.8
|
1.0
|
|
N
|
H:GLY170
|
4.9
|
0.2
|
1.0
|
|
O
|
H:ASP165
|
4.9
|
0.9
|
1.0
|
|
Calcium binding site 8 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 8 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 8 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Ca502
b:83.5
occ:1.00
|
OD1
|
H:ASP201
|
2.3
|
0.9
|
1.0
|
|
OE1
|
H:GLU212
|
2.3
|
0.2
|
1.0
|
|
OD1
|
H:ASP203
|
2.3
|
0.7
|
1.0
|
|
O
|
H:THR207
|
2.4
|
0.7
|
1.0
|
|
OD1
|
H:ASN205
|
2.4
|
0.8
|
1.0
|
|
OE2
|
H:GLU212
|
2.4
|
0.1
|
1.0
|
|
CD
|
H:GLU212
|
2.7
|
0.7
|
1.0
|
|
CG
|
H:ASP203
|
3.3
|
0.5
|
1.0
|
|
CG
|
H:ASN205
|
3.5
|
1.0
|
1.0
|
|
CG
|
H:ASP201
|
3.5
|
0.5
|
1.0
|
|
OD2
|
H:ASP203
|
3.6
|
0.1
|
1.0
|
|
C
|
H:THR207
|
3.6
|
0.4
|
1.0
|
|
OD1
|
H:ASP209
|
4.0
|
0.5
|
1.0
|
|
ND2
|
H:ASN205
|
4.0
|
0.8
|
1.0
|
|
OD2
|
H:ASP209
|
4.1
|
0.3
|
1.0
|
|
CA
|
H:ASP201
|
4.2
|
0.9
|
1.0
|
|
CG
|
H:ASP209
|
4.3
|
0.4
|
1.0
|
|
CG
|
H:GLU212
|
4.3
|
0.8
|
1.0
|
|
N
|
H:THR207
|
4.3
|
0.4
|
1.0
|
|
OD2
|
H:ASP201
|
4.3
|
0.7
|
1.0
|
|
N
|
H:ASN205
|
4.4
|
0.3
|
1.0
|
|
CB
|
H:ASP201
|
4.4
|
0.3
|
1.0
|
|
N
|
H:ILE208
|
4.5
|
0.6
|
1.0
|
|
CA
|
H:ILE208
|
4.5
|
0.4
|
1.0
|
|
N
|
H:ASP203
|
4.5
|
0.2
|
1.0
|
|
N
|
H:ASP209
|
4.5
|
0.4
|
1.0
|
|
CA
|
H:THR207
|
4.6
|
0.9
|
1.0
|
|
C
|
H:ASP201
|
4.6
|
0.5
|
1.0
|
|
N
|
H:GLY206
|
4.6
|
0.1
|
1.0
|
|
CB
|
H:ASP203
|
4.6
|
0.8
|
1.0
|
|
OG1
|
H:THR207
|
4.7
|
0.9
|
1.0
|
|
CB
|
H:ASN205
|
4.7
|
0.8
|
1.0
|
|
N
|
H:ALA202
|
4.7
|
0.9
|
1.0
|
|
N
|
H:GLY204
|
4.8
|
0.2
|
1.0
|
|
CA
|
H:ASN205
|
4.9
|
0.8
|
1.0
|
|
C
|
H:ILE208
|
4.9
|
0.9
|
1.0
|
|
CA
|
H:ASP203
|
5.0
|
0.0
|
1.0
|
|
Calcium binding site 9 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 9 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 9 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
K:Ca501
b:81.0
occ:1.00
|
O
|
K:THR171
|
2.3
|
0.8
|
1.0
|
|
OD1
|
K:ASP165
|
2.3
|
0.4
|
1.0
|
|
OE2
|
K:GLU176
|
2.3
|
0.6
|
1.0
|
|
OE1
|
K:GLU176
|
2.4
|
0.8
|
1.0
|
|
OD1
|
K:ASP167
|
2.4
|
0.1
|
1.0
|
|
OD1
|
K:ASP169
|
2.4
|
0.0
|
1.0
|
|
CD
|
K:GLU176
|
2.7
|
0.0
|
1.0
|
|
CG
|
K:ASP167
|
3.3
|
0.8
|
1.0
|
|
CG
|
K:ASP169
|
3.4
|
0.7
|
1.0
|
|
CG
|
K:ASP165
|
3.5
|
0.9
|
1.0
|
|
OD2
|
K:ASP167
|
3.5
|
0.5
|
1.0
|
|
C
|
K:THR171
|
3.6
|
0.3
|
1.0
|
|
OD2
|
K:ASP169
|
4.0
|
0.8
|
1.0
|
|
CG
|
K:GLU176
|
4.1
|
0.4
|
1.0
|
|
CA
|
K:ASP165
|
4.2
|
0.7
|
1.0
|
|
N
|
K:ASP169
|
4.3
|
0.6
|
1.0
|
|
OD2
|
K:ASP165
|
4.3
|
0.5
|
1.0
|
|
N
|
K:THR171
|
4.3
|
0.8
|
1.0
|
|
CB
|
K:ASP165
|
4.4
|
0.9
|
1.0
|
|
OG1
|
K:THR171
|
4.4
|
0.9
|
1.0
|
|
CA
|
K:ILE172
|
4.4
|
0.4
|
1.0
|
|
N
|
K:ILE172
|
4.4
|
0.2
|
1.0
|
|
N
|
K:ASP167
|
4.4
|
0.5
|
1.0
|
|
C
|
K:ASP165
|
4.5
|
0.5
|
1.0
|
|
CB
|
K:ASP169
|
4.5
|
0.2
|
1.0
|
|
CA
|
K:THR171
|
4.5
|
0.6
|
1.0
|
|
CB
|
K:ASP167
|
4.6
|
0.2
|
1.0
|
|
N
|
K:GLY168
|
4.6
|
0.2
|
1.0
|
|
N
|
K:LYS166
|
4.7
|
0.5
|
1.0
|
|
CA
|
K:ASP169
|
4.8
|
1.0
|
1.0
|
|
CA
|
K:ASP167
|
4.8
|
1.0
|
1.0
|
|
CG2
|
K:THR173
|
4.8
|
0.8
|
1.0
|
|
N
|
K:THR173
|
4.9
|
0.5
|
1.0
|
|
O
|
K:ASP165
|
4.9
|
0.4
|
1.0
|
|
C
|
K:ASP167
|
4.9
|
0.9
|
1.0
|
|
N
|
K:GLY170
|
4.9
|
1.0
|
1.0
|
|
Calcium binding site 10 out
of 16 in 5h7d
Go back to
Calcium Binding Sites List in 5h7d
Calcium binding site 10 out
of 16 in the Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 10 of Crystal Structure of the Ygjg-Protein A-ZPA963-Calmodulin Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
K:Ca502
b:86.4
occ:1.00
|
OD1
|
K:ASP201
|
2.3
|
0.1
|
1.0
|
|
OE1
|
K:GLU212
|
2.3
|
0.3
|
1.0
|
|
OD1
|
K:ASP203
|
2.3
|
0.6
|
1.0
|
|
O
|
K:THR207
|
2.4
|
0.4
|
1.0
|
|
OD1
|
K:ASN205
|
2.4
|
1.0
|
1.0
|
|
OE2
|
K:GLU212
|
2.4
|
1.0
|
1.0
|
|
CD
|
K:GLU212
|
2.8
|
1.0
|
1.0
|
|
CG
|
K:ASP203
|
3.3
|
0.1
|
1.0
|
|
CG
|
K:ASN205
|
3.5
|
0.2
|
1.0
|
|
CG
|
K:ASP201
|
3.5
|
0.8
|
1.0
|
|
OD2
|
K:ASP203
|
3.6
|
0.9
|
1.0
|
|
C
|
K:THR207
|
3.6
|
0.8
|
1.0
|
|
OD1
|
K:ASP209
|
4.0
|
1.0
|
1.0
|
|
ND2
|
K:ASN205
|
4.0
|
0.4
|
1.0
|
|
OD2
|
K:ASP209
|
4.1
|
0.4
|
1.0
|
|
CG
|
K:ASP209
|
4.2
|
0.3
|
1.0
|
|
CA
|
K:ASP201
|
4.2
|
0.4
|
1.0
|
|
CG
|
K:GLU212
|
4.3
|
1.0
|
1.0
|
|
N
|
K:THR207
|
4.3
|
0.6
|
1.0
|
|
OD2
|
K:ASP201
|
4.3
|
0.5
|
1.0
|
|
N
|
K:ASN205
|
4.4
|
0.5
|
1.0
|
|
N
|
K:ILE208
|
4.5
|
0.8
|
1.0
|
|
CA
|
K:ILE208
|
4.5
|
0.6
|
1.0
|
|
CB
|
K:ASP201
|
4.5
|
0.6
|
1.0
|
|
N
|
K:ASP209
|
4.5
|
0.7
|
1.0
|
|
N
|
K:ASP203
|
4.5
|
1.0
|
1.0
|
|
CA
|
K:THR207
|
4.6
|
1.0
|
1.0
|
|
C
|
K:ASP201
|
4.6
|
0.8
|
1.0
|
|
CB
|
K:ASP203
|
4.6
|
1.0
|
1.0
|
|
OG1
|
K:THR207
|
4.6
|
0.9
|
1.0
|
|
CB
|
K:ASN205
|
4.7
|
0.9
|
1.0
|
|
N
|
K:GLY206
|
4.7
|
0.9
|
1.0
|
|
N
|
K:ALA202
|
4.7
|
0.8
|
1.0
|
|
N
|
K:GLY204
|
4.8
|
0.2
|
1.0
|
|
CA
|
K:ASN205
|
4.9
|
0.0
|
1.0
|
|
C
|
K:ILE208
|
4.9
|
0.0
|
1.0
|
|
CA
|
K:ASP203
|
5.0
|
0.9
|
1.0
|
|
Reference:
S.J.Youn,
N.Y.Kwon,
J.H.Lee,
J.H.Kim,
J.Choi,
H.Lee,
J.O.Lee.
Construction of Novel Repeat Proteins with Rigid and Predictable Structures Using A Shared Helix Method. Sci Rep V. 7 2595 2017.
ISSN: ESSN 2045-2322
PubMed: 28572639
DOI: 10.1038/S41598-017-02803-Z
Page generated: Sat Dec 12 05:28:05 2020
|
