Calcium in PDB 6y94: CA2+-Bound Calmodulin Mutant N53I
Calcium Binding Sites:
The binding sites of Calcium atom in the CA2+-Bound Calmodulin Mutant N53I
(pdb code 6y94). This binding sites where shown within
5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the
CA2+-Bound Calmodulin Mutant N53I, PDB code: 6y94:
Jump to Calcium binding site number:
1;
2;
3;
4;
Calcium binding site 1 out
of 4 in 6y94
Go back to
Calcium Binding Sites List in 6y94
Calcium binding site 1 out
of 4 in the CA2+-Bound Calmodulin Mutant N53I
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 1 of CA2+-Bound Calmodulin Mutant N53I within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca201
b:25.0
occ:1.00
|
OD2
|
A:ASP20
|
2.4
|
25.0
|
1.0
|
|
OD2
|
A:ASP24
|
2.4
|
25.0
|
1.0
|
|
O
|
A:THR26
|
2.4
|
25.0
|
1.0
|
|
OD2
|
A:ASP22
|
2.4
|
25.0
|
1.0
|
|
OE1
|
A:GLU31
|
2.5
|
25.0
|
1.0
|
|
OE2
|
A:GLU31
|
2.6
|
25.0
|
1.0
|
|
HB2
|
A:ASP22
|
2.9
|
75.0
|
1.0
|
|
CD
|
A:GLU31
|
2.9
|
25.0
|
1.0
|
|
H
|
A:ASP22
|
3.3
|
25.0
|
1.0
|
|
CG
|
A:ASP20
|
3.4
|
25.0
|
1.0
|
|
HG1
|
A:THR26
|
3.4
|
25.0
|
1.0
|
|
CG
|
A:ASP22
|
3.4
|
25.0
|
1.0
|
|
OG1
|
A:THR26
|
3.4
|
25.0
|
1.0
|
|
CG
|
A:ASP24
|
3.5
|
25.0
|
1.0
|
|
C
|
A:THR26
|
3.5
|
25.0
|
1.0
|
|
H
|
A:THR26
|
3.6
|
25.0
|
1.0
|
|
CB
|
A:ASP22
|
3.6
|
25.0
|
1.0
|
|
HA
|
A:ILE27
|
3.8
|
25.0
|
1.0
|
|
HA
|
A:ASP20
|
3.8
|
25.0
|
1.0
|
|
H
|
A:ASP24
|
3.8
|
25.0
|
1.0
|
|
OD1
|
A:ASP24
|
3.9
|
25.0
|
1.0
|
|
OD1
|
A:ASP20
|
4.0
|
25.0
|
1.0
|
|
HG22
|
A:THR28
|
4.1
|
25.0
|
1.0
|
|
N
|
A:ASP22
|
4.2
|
25.0
|
1.0
|
|
H
|
A:GLY23
|
4.3
|
25.0
|
1.0
|
|
N
|
A:THR26
|
4.3
|
25.0
|
1.0
|
|
CB
|
A:ASP20
|
4.3
|
25.0
|
1.0
|
|
CA
|
A:THR26
|
4.3
|
25.0
|
1.0
|
|
HB3
|
A:ASP22
|
4.3
|
75.0
|
1.0
|
|
H
|
A:LYS21
|
4.4
|
25.0
|
1.0
|
|
CA
|
A:ASP20
|
4.4
|
25.0
|
1.0
|
|
CG
|
A:GLU31
|
4.4
|
25.0
|
1.0
|
|
H
|
A:THR28
|
4.4
|
25.0
|
1.0
|
|
N
|
A:ILE27
|
4.4
|
25.0
|
1.0
|
|
HB2
|
A:ASP20
|
4.4
|
50.0
|
1.0
|
|
CB
|
A:THR26
|
4.5
|
25.0
|
1.0
|
|
CA
|
A:ASP22
|
4.5
|
25.0
|
1.0
|
|
CA
|
A:ILE27
|
4.5
|
25.0
|
1.0
|
|
OD1
|
A:ASP22
|
4.6
|
25.0
|
1.0
|
|
N
|
A:LYS21
|
4.7
|
25.0
|
1.0
|
|
C
|
A:ASP20
|
4.7
|
25.0
|
1.0
|
|
HG3
|
A:GLU31
|
4.7
|
50.0
|
1.0
|
|
CB
|
A:ASP24
|
4.7
|
25.0
|
1.0
|
|
H
|
A:GLY25
|
4.7
|
25.0
|
1.0
|
|
HG2
|
A:GLU31
|
4.7
|
50.0
|
1.0
|
|
HB3
|
A:ASP24
|
4.8
|
50.0
|
1.0
|
|
N
|
A:ASP24
|
4.8
|
25.0
|
1.0
|
|
N
|
A:GLY23
|
4.9
|
25.0
|
1.0
|
|
HB
|
A:THR26
|
5.0
|
25.0
|
1.0
|
|
Calcium binding site 2 out
of 4 in 6y94
Go back to
Calcium Binding Sites List in 6y94
Calcium binding site 2 out
of 4 in the CA2+-Bound Calmodulin Mutant N53I
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 2 of CA2+-Bound Calmodulin Mutant N53I within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca202
b:25.0
occ:1.00
|
OD2
|
A:ASP56
|
2.4
|
25.0
|
1.0
|
|
OD1
|
A:ASN60
|
2.5
|
25.0
|
1.0
|
|
OE1
|
A:GLU67
|
2.5
|
25.0
|
1.0
|
|
OD2
|
A:ASP58
|
2.5
|
25.0
|
1.0
|
|
O
|
A:THR62
|
2.5
|
25.0
|
1.0
|
|
OE2
|
A:GLU67
|
2.5
|
25.0
|
1.0
|
|
OD1
|
A:ASP58
|
2.6
|
25.0
|
1.0
|
|
CD
|
A:GLU67
|
2.8
|
25.0
|
1.0
|
|
CG
|
A:ASP58
|
2.9
|
25.0
|
1.0
|
|
HA
|
A:ASP56
|
3.3
|
25.0
|
1.0
|
|
CG
|
A:ASP56
|
3.5
|
25.0
|
1.0
|
|
CG
|
A:ASN60
|
3.6
|
25.0
|
1.0
|
|
H
|
A:THR62
|
3.6
|
25.0
|
1.0
|
|
H
|
A:ASN60
|
3.7
|
25.0
|
1.0
|
|
C
|
A:THR62
|
3.7
|
25.0
|
1.0
|
|
HA
|
A:ILE63
|
3.9
|
25.0
|
1.0
|
|
H
|
A:ASP64
|
4.0
|
25.0
|
1.0
|
|
CA
|
A:ASP56
|
4.1
|
25.0
|
1.0
|
|
HB2
|
A:ASP56
|
4.1
|
50.0
|
1.0
|
|
CB
|
A:ASP56
|
4.1
|
25.0
|
1.0
|
|
HB3
|
A:ASN60
|
4.2
|
50.0
|
1.0
|
|
CG
|
A:GLU67
|
4.3
|
25.0
|
1.0
|
|
HD22
|
A:ASN60
|
4.3
|
25.0
|
1.0
|
|
N
|
A:THR62
|
4.3
|
25.0
|
1.0
|
|
H
|
A:ASP58
|
4.4
|
25.0
|
1.0
|
|
ND2
|
A:ASN60
|
4.4
|
25.0
|
1.0
|
|
CB
|
A:ASP58
|
4.4
|
25.0
|
1.0
|
|
CB
|
A:ASN60
|
4.4
|
25.0
|
1.0
|
|
OD1
|
A:ASP56
|
4.5
|
25.0
|
1.0
|
|
H
|
A:GLY61
|
4.5
|
25.0
|
1.0
|
|
N
|
A:ASN60
|
4.5
|
25.0
|
1.0
|
|
OG1
|
A:THR62
|
4.5
|
25.0
|
1.0
|
|
HG1
|
A:THR62
|
4.5
|
25.0
|
1.0
|
|
OD1
|
A:ASP64
|
4.6
|
25.0
|
1.0
|
|
H
|
A:GLY59
|
4.6
|
25.0
|
1.0
|
|
CA
|
A:THR62
|
4.6
|
25.0
|
1.0
|
|
HG2
|
A:GLU67
|
4.6
|
50.0
|
1.0
|
|
N
|
A:ILE63
|
4.6
|
25.0
|
1.0
|
|
HG3
|
A:GLU67
|
4.6
|
50.0
|
1.0
|
|
CA
|
A:ILE63
|
4.7
|
25.0
|
1.0
|
|
HB3
|
A:ASP58
|
4.8
|
50.0
|
1.0
|
|
CG
|
A:ASP64
|
4.8
|
25.0
|
1.0
|
|
N
|
A:ASP64
|
4.8
|
25.0
|
1.0
|
|
HB2
|
A:ASP58
|
4.9
|
50.0
|
1.0
|
|
C
|
A:ASP56
|
4.9
|
25.0
|
1.0
|
|
CA
|
A:ASN60
|
4.9
|
25.0
|
1.0
|
|
N
|
A:GLY61
|
4.9
|
25.0
|
1.0
|
|
Calcium binding site 3 out
of 4 in 6y94
Go back to
Calcium Binding Sites List in 6y94
Calcium binding site 3 out
of 4 in the CA2+-Bound Calmodulin Mutant N53I
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 3 of CA2+-Bound Calmodulin Mutant N53I within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca203
b:25.0
occ:1.00
|
OD2
|
A:ASP95
|
2.4
|
25.0
|
1.0
|
|
OD1
|
A:ASP93
|
2.4
|
25.0
|
1.0
|
|
O
|
A:TYR99
|
2.4
|
25.0
|
1.0
|
|
OD1
|
A:ASN97
|
2.5
|
25.0
|
1.0
|
|
OE1
|
A:GLU104
|
2.5
|
25.0
|
1.0
|
|
OE2
|
A:GLU104
|
2.5
|
25.0
|
1.0
|
|
CD
|
A:GLU104
|
2.8
|
25.0
|
1.0
|
|
H
|
A:ASN97
|
3.3
|
25.0
|
1.0
|
|
CG
|
A:ASP93
|
3.4
|
25.0
|
1.0
|
|
HA
|
A:ASP93
|
3.5
|
25.0
|
1.0
|
|
CG
|
A:ASP95
|
3.5
|
25.0
|
1.0
|
|
H
|
A:ASP95
|
3.6
|
25.0
|
1.0
|
|
CG
|
A:ASN97
|
3.6
|
25.0
|
1.0
|
|
C
|
A:TYR99
|
3.7
|
25.0
|
1.0
|
|
H
|
A:TYR99
|
3.7
|
25.0
|
1.0
|
|
HA
|
A:ILE100
|
3.8
|
25.0
|
1.0
|
|
H
|
A:SER101
|
3.8
|
25.0
|
1.0
|
|
H
|
A:GLY96
|
4.0
|
25.0
|
1.0
|
|
OD1
|
A:ASP95
|
4.1
|
25.0
|
1.0
|
|
HG
|
A:SER101
|
4.1
|
25.0
|
1.0
|
|
OD2
|
A:ASP93
|
4.1
|
25.0
|
1.0
|
|
CA
|
A:ASP93
|
4.2
|
25.0
|
1.0
|
|
N
|
A:ASN97
|
4.2
|
25.0
|
1.0
|
|
HB2
|
A:TYR99
|
4.2
|
50.0
|
1.0
|
|
CB
|
A:ASP93
|
4.3
|
25.0
|
1.0
|
|
CG
|
A:GLU104
|
4.3
|
25.0
|
1.0
|
|
HB3
|
A:ASN97
|
4.3
|
50.0
|
1.0
|
|
HD22
|
A:ASN97
|
4.3
|
25.0
|
1.0
|
|
H
|
A:LYS94
|
4.4
|
25.0
|
1.0
|
|
ND2
|
A:ASN97
|
4.4
|
25.0
|
1.0
|
|
N
|
A:ASP95
|
4.4
|
25.0
|
1.0
|
|
N
|
A:TYR99
|
4.4
|
25.0
|
1.0
|
|
CB
|
A:ASN97
|
4.5
|
25.0
|
1.0
|
|
N
|
A:GLY96
|
4.5
|
25.0
|
1.0
|
|
CA
|
A:TYR99
|
4.6
|
25.0
|
1.0
|
|
N
|
A:ILE100
|
4.6
|
25.0
|
1.0
|
|
HB2
|
A:ASP93
|
4.6
|
50.0
|
1.0
|
|
CA
|
A:ILE100
|
4.6
|
25.0
|
1.0
|
|
C
|
A:ASP93
|
4.6
|
25.0
|
1.0
|
|
CB
|
A:ASP95
|
4.6
|
25.0
|
1.0
|
|
H
|
A:GLY98
|
4.6
|
25.0
|
1.0
|
|
N
|
A:SER101
|
4.6
|
25.0
|
1.0
|
|
N
|
A:LYS94
|
4.7
|
25.0
|
1.0
|
|
HB3
|
A:ASP95
|
4.7
|
25.0
|
1.0
|
|
HG3
|
A:GLU104
|
4.7
|
25.0
|
1.0
|
|
HG2
|
A:GLU104
|
4.8
|
25.0
|
1.0
|
|
CA
|
A:ASN97
|
4.8
|
25.0
|
1.0
|
|
CB
|
A:TYR99
|
4.8
|
25.0
|
1.0
|
|
CA
|
A:ASP95
|
4.9
|
25.0
|
1.0
|
|
HB2
|
A:GLU104
|
4.9
|
50.0
|
1.0
|
|
HB3
|
A:TYR99
|
5.0
|
50.0
|
1.0
|
|
C
|
A:ASP95
|
5.0
|
25.0
|
1.0
|
|
HB3
|
A:SER101
|
5.0
|
50.0
|
1.0
|
|
Calcium binding site 4 out
of 4 in 6y94
Go back to
Calcium Binding Sites List in 6y94
Calcium binding site 4 out
of 4 in the CA2+-Bound Calmodulin Mutant N53I
 Mono view
 Stereo pair view
|
|
A full contact list of Calcium with other atoms in the Ca binding
site number 4 of CA2+-Bound Calmodulin Mutant N53I within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Ca204
b:25.0
occ:1.00
|
OD1
|
A:ASP131
|
2.4
|
25.0
|
1.0
|
|
OD1
|
A:ASP129
|
2.4
|
25.0
|
1.0
|
|
OD2
|
A:ASP133
|
2.4
|
25.0
|
1.0
|
|
OE2
|
A:GLU140
|
2.5
|
25.0
|
1.0
|
|
O
|
A:GLN135
|
2.5
|
25.0
|
1.0
|
|
OE1
|
A:GLU140
|
2.5
|
25.0
|
1.0
|
|
OD1
|
A:ASN137
|
2.7
|
25.0
|
1.0
|
|
CD
|
A:GLU140
|
2.9
|
25.0
|
1.0
|
|
H
|
A:ASP133
|
3.2
|
25.0
|
1.0
|
|
HA
|
A:ASP129
|
3.3
|
25.0
|
1.0
|
|
CG
|
A:ASP133
|
3.5
|
25.0
|
1.0
|
|
H
|
A:GLN135
|
3.5
|
25.0
|
1.0
|
|
H
|
A:ASP131
|
3.5
|
25.0
|
1.0
|
|
CG
|
A:ASP131
|
3.6
|
25.0
|
1.0
|
|
CG
|
A:ASP129
|
3.6
|
25.0
|
1.0
|
|
H
|
A:ASN137
|
3.6
|
25.0
|
1.0
|
|
C
|
A:GLN135
|
3.6
|
25.0
|
1.0
|
|
CG
|
A:ASN137
|
3.7
|
25.0
|
1.0
|
|
HA
|
A:VAL136
|
3.8
|
25.0
|
1.0
|
|
H
|
A:GLY132
|
3.9
|
25.0
|
1.0
|
|
CA
|
A:ASP129
|
4.1
|
25.0
|
1.0
|
|
N
|
A:ASP133
|
4.1
|
25.0
|
1.0
|
|
HD22
|
A:ASN137
|
4.2
|
50.0
|
1.0
|
|
OD2
|
A:ASP131
|
4.2
|
25.0
|
1.0
|
|
OD1
|
A:ASP133
|
4.2
|
25.0
|
1.0
|
|
HB2
|
A:GLN135
|
4.3
|
50.0
|
1.0
|
|
HB3
|
A:ASP133
|
4.3
|
50.0
|
1.0
|
|
H
|
A:ILE130
|
4.3
|
25.0
|
1.0
|
|
N
|
A:GLN135
|
4.3
|
25.0
|
1.0
|
|
N
|
A:ASN137
|
4.3
|
25.0
|
1.0
|
|
N
|
A:ASP131
|
4.3
|
25.0
|
1.0
|
|
CB
|
A:ASP129
|
4.3
|
25.0
|
1.0
|
|
CG
|
A:GLU140
|
4.4
|
25.0
|
1.0
|
|
CB
|
A:ASP133
|
4.4
|
25.0
|
1.0
|
|
HE2
|
A:TYR99
|
4.4
|
25.0
|
1.0
|
|
H
|
A:GLY134
|
4.4
|
25.0
|
1.0
|
|
OD2
|
A:ASP129
|
4.4
|
25.0
|
1.0
|
|
ND2
|
A:ASN137
|
4.4
|
25.0
|
1.0
|
|
N
|
A:GLY132
|
4.5
|
25.0
|
1.0
|
|
N
|
A:VAL136
|
4.5
|
25.0
|
1.0
|
|
CA
|
A:GLN135
|
4.5
|
25.0
|
1.0
|
|
C
|
A:ASP129
|
4.5
|
25.0
|
1.0
|
|
CA
|
A:VAL136
|
4.5
|
25.0
|
1.0
|
|
CB
|
A:ASP131
|
4.5
|
25.0
|
1.0
|
|
HB2
|
A:ASP129
|
4.6
|
50.0
|
1.0
|
|
N
|
A:ILE130
|
4.6
|
25.0
|
1.0
|
|
HB3
|
A:ASP131
|
4.6
|
50.0
|
1.0
|
|
HG3
|
A:GLU140
|
4.7
|
50.0
|
1.0
|
|
CA
|
A:ASP133
|
4.7
|
25.0
|
1.0
|
|
CA
|
A:ASP131
|
4.8
|
25.0
|
1.0
|
|
CB
|
A:ASN137
|
4.8
|
25.0
|
1.0
|
|
HB2
|
A:ASN137
|
4.8
|
50.0
|
1.0
|
|
N
|
A:GLY134
|
4.8
|
25.0
|
1.0
|
|
C
|
A:VAL136
|
4.8
|
25.0
|
1.0
|
|
HD2
|
A:TYR99
|
4.9
|
25.0
|
1.0
|
|
HG2
|
A:GLU140
|
4.9
|
50.0
|
1.0
|
|
C
|
A:ASP131
|
4.9
|
25.0
|
1.0
|
|
HB2
|
A:GLU140
|
4.9
|
50.0
|
1.0
|
|
CB
|
A:GLN135
|
4.9
|
25.0
|
1.0
|
|
C
|
A:ASP133
|
5.0
|
25.0
|
1.0
|
|
Reference:
C.Holt,
L.Hamborg,
K.Lau,
M.Brohus,
A.B.Sorensen,
K.T.Larsen,
C.Sommer,
F.V.Petegem,
M.T.Overgaard,
R.Wimmer.
The Arrhythmogenic N53I Variant Subtly Changes the Structure and Dynamics in the Calmodulin N-Domain, Altering Its Interaction with the Cardiac Ryanodine Receptor J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
Page generated: Thu Jul 18 21:48:19 2024
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