Chlorine in PDB 7tgf: Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
Enzymatic activity of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
All present enzymatic activity of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.:
3.2.2.22;
Protein crystallography data
The structure of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin., PDB code: 7tgf
was solved by
M.J.Rudolph,
N.Mantis,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
49.89 /
1.35
|
|
Space group
|
P 41 21 2
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
50.83,
50.83,
260.009,
90,
90,
90
|
|
R / Rfree (%)
|
15.8 /
18.1
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
(pdb code 7tgf). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the
Single-Domain Vhh Intrabodies Neutralize Ricin Toxin., PDB code: 7tgf:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Chlorine binding site 1 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 1 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl302
b:44.2
occ:1.00
|
H
|
A:GLU135
|
2.2
|
25.3
|
1.0
|
|
O
|
A:HOH406
|
2.4
|
48.3
|
1.0
|
|
HB3
|
A:LEU133
|
2.6
|
28.1
|
1.0
|
|
HB3
|
A:GLU135
|
2.6
|
32.3
|
1.0
|
|
O
|
A:HOH489
|
2.6
|
31.4
|
1.0
|
|
HG2
|
A:GLU135
|
2.8
|
39.7
|
1.0
|
|
HD13
|
A:ILE205
|
2.8
|
35.3
|
1.0
|
|
N
|
A:GLU135
|
2.9
|
21.1
|
1.0
|
|
HB2
|
A:ARG134
|
3.2
|
22.6
|
1.0
|
|
CB
|
A:GLU135
|
3.2
|
26.9
|
1.0
|
|
H
|
A:ARG134
|
3.3
|
22.8
|
1.0
|
|
CG
|
A:GLU135
|
3.3
|
33.1
|
1.0
|
|
CB
|
A:LEU133
|
3.5
|
23.4
|
1.0
|
|
N
|
A:ARG134
|
3.6
|
18.9
|
1.0
|
|
OE1
|
A:GLU135
|
3.6
|
58.5
|
1.0
|
|
HD13
|
A:LEU133
|
3.6
|
35.3
|
1.0
|
|
HB2
|
A:LEU133
|
3.6
|
28.1
|
1.0
|
|
HG21
|
A:ILE205
|
3.6
|
27.4
|
1.0
|
|
CA
|
A:GLU135
|
3.7
|
19.8
|
1.0
|
|
CD1
|
A:ILE205
|
3.7
|
29.4
|
1.0
|
|
CD
|
A:GLU135
|
3.8
|
53.1
|
1.0
|
|
HD11
|
A:ILE205
|
3.8
|
35.3
|
1.0
|
|
C
|
A:ARG134
|
3.9
|
22.1
|
1.0
|
|
CA
|
A:ARG134
|
4.0
|
17.9
|
1.0
|
|
CB
|
A:ARG134
|
4.0
|
18.8
|
1.0
|
|
HD22
|
A:LEU133
|
4.1
|
34.1
|
1.0
|
|
C
|
A:LEU133
|
4.1
|
21.9
|
1.0
|
|
HB2
|
A:GLU135
|
4.1
|
32.3
|
1.0
|
|
HA
|
A:GLU135
|
4.1
|
23.8
|
1.0
|
|
HD12
|
A:ILE205
|
4.2
|
35.3
|
1.0
|
|
OE2
|
A:GLU127
|
4.2
|
22.9
|
1.0
|
|
HG3
|
A:GLU135
|
4.2
|
39.7
|
1.0
|
|
CA
|
A:LEU133
|
4.3
|
21.2
|
1.0
|
|
CD1
|
A:LEU133
|
4.3
|
29.4
|
1.0
|
|
CG
|
A:LEU133
|
4.4
|
24.8
|
1.0
|
|
HG23
|
A:ILE205
|
4.5
|
27.4
|
1.0
|
|
CG2
|
A:ILE205
|
4.5
|
22.8
|
1.0
|
|
HB3
|
A:ARG134
|
4.5
|
22.6
|
1.0
|
|
HA
|
A:LEU133
|
4.5
|
25.4
|
1.0
|
|
HG12
|
A:ILE205
|
4.5
|
28.5
|
1.0
|
|
HD12
|
A:LEU133
|
4.5
|
35.3
|
1.0
|
|
O
|
A:HOH556
|
4.6
|
32.5
|
1.0
|
|
CG1
|
A:ILE205
|
4.7
|
23.7
|
1.0
|
|
CD2
|
A:LEU133
|
4.7
|
28.4
|
1.0
|
|
HE
|
A:ARG134
|
4.7
|
21.7
|
1.0
|
|
OE2
|
A:GLU135
|
4.8
|
54.7
|
1.0
|
|
H
|
A:ASN136
|
4.8
|
24.2
|
1.0
|
|
O
|
A:LEU133
|
4.9
|
21.4
|
1.0
|
|
O
|
A:HOH622
|
4.9
|
41.4
|
1.0
|
|
C
|
A:GLU135
|
4.9
|
20.5
|
1.0
|
|
HA
|
A:ARG134
|
5.0
|
21.5
|
1.0
|
|
Chlorine binding site 2 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 2 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl303
b:31.0
occ:1.00
|
H
|
A:GLY120
|
2.3
|
24.0
|
1.0
|
|
HD21
|
A:ASN122
|
2.6
|
35.0
|
1.0
|
|
HD3
|
A:ARG125
|
2.8
|
51.6
|
1.0
|
|
HG2
|
A:ARG125
|
3.0
|
36.9
|
1.0
|
|
HH11
|
A:ARG125
|
3.1
|
71.9
|
1.0
|
|
N
|
A:GLY120
|
3.1
|
20.0
|
1.0
|
|
HB2
|
A:ARG125
|
3.3
|
28.8
|
1.0
|
|
ND2
|
A:ASN122
|
3.4
|
29.2
|
1.0
|
|
HA3
|
A:GLY120
|
3.5
|
24.1
|
1.0
|
|
HA
|
A:PHE119
|
3.5
|
24.1
|
1.0
|
|
CD
|
A:ARG125
|
3.6
|
43.0
|
1.0
|
|
CG
|
A:ARG125
|
3.6
|
30.7
|
1.0
|
|
HD22
|
A:ASN122
|
3.6
|
35.0
|
1.0
|
|
CA
|
A:GLY120
|
3.8
|
20.1
|
1.0
|
|
HB2
|
A:PHE119
|
3.8
|
25.6
|
1.0
|
|
CB
|
A:ARG125
|
3.8
|
24.0
|
1.0
|
|
NH1
|
A:ARG125
|
3.9
|
59.9
|
1.0
|
|
HB3
|
A:ARG125
|
4.0
|
28.8
|
1.0
|
|
C
|
A:PHE119
|
4.1
|
19.2
|
1.0
|
|
CA
|
A:PHE119
|
4.1
|
20.1
|
1.0
|
|
HD2
|
A:ARG125
|
4.2
|
51.6
|
1.0
|
|
HH12
|
A:ARG125
|
4.3
|
71.9
|
1.0
|
|
O
|
A:GLY120
|
4.4
|
21.0
|
1.0
|
|
C
|
A:GLY120
|
4.4
|
17.4
|
1.0
|
|
CB
|
A:PHE119
|
4.4
|
21.3
|
1.0
|
|
HG3
|
A:ARG125
|
4.5
|
36.9
|
1.0
|
|
CG
|
A:ASN122
|
4.5
|
24.5
|
1.0
|
|
NE
|
A:ARG125
|
4.5
|
50.9
|
1.0
|
|
O
|
A:HOH521
|
4.6
|
43.5
|
1.0
|
|
HB3
|
A:PHE119
|
4.6
|
25.6
|
1.0
|
|
HA2
|
A:GLY120
|
4.7
|
24.1
|
1.0
|
|
CZ
|
A:ARG125
|
4.7
|
61.4
|
1.0
|
|
OD1
|
A:ASN122
|
4.8
|
29.7
|
1.0
|
|
H
|
A:ASN122
|
5.0
|
22.2
|
1.0
|
|
Chlorine binding site 3 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 3 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl304
b:24.0
occ:1.00
|
HG1
|
A:THR13
|
2.3
|
20.3
|
1.0
|
|
H
|
A:HIS65
|
2.4
|
25.0
|
1.0
|
|
HB3
|
A:HIS65
|
2.9
|
29.5
|
1.0
|
|
HD2
|
A:HIS65
|
2.9
|
55.8
|
1.0
|
|
HB2
|
A:ASN64
|
2.9
|
22.2
|
1.0
|
|
OG1
|
A:THR13
|
3.1
|
16.9
|
1.0
|
|
HA
|
A:ALA14
|
3.1
|
20.3
|
1.0
|
|
O
|
A:HOH609
|
3.1
|
42.3
|
1.0
|
|
HG3
|
A:GLU145
|
3.2
|
29.3
|
1.0
|
|
N
|
A:HIS65
|
3.2
|
20.9
|
1.0
|
|
HB2
|
A:GLU145
|
3.4
|
22.7
|
1.0
|
|
HB2
|
A:ALA14
|
3.4
|
21.6
|
1.0
|
|
HA
|
A:ASN64
|
3.5
|
21.6
|
1.0
|
|
CD
|
A:GLU145
|
3.5
|
56.2
|
1.0
|
|
CD2
|
A:HIS65
|
3.6
|
46.5
|
1.0
|
|
N
|
A:ALA14
|
3.6
|
14.7
|
1.0
|
|
HB
|
A:THR13
|
3.6
|
19.4
|
1.0
|
|
CB
|
A:HIS65
|
3.6
|
24.6
|
1.0
|
|
OE2
|
A:GLU145
|
3.7
|
58.7
|
1.0
|
|
CA
|
A:ALA14
|
3.7
|
16.9
|
1.0
|
|
CG
|
A:GLU145
|
3.7
|
24.4
|
1.0
|
|
C
|
A:THR13
|
3.7
|
15.4
|
1.0
|
|
CB
|
A:ASN64
|
3.8
|
18.5
|
1.0
|
|
CB
|
A:THR13
|
3.9
|
16.1
|
1.0
|
|
H
|
A:ALA14
|
3.9
|
17.6
|
1.0
|
|
OE1
|
A:GLU145
|
3.9
|
57.5
|
1.0
|
|
CG
|
A:HIS65
|
3.9
|
44.8
|
1.0
|
|
CA
|
A:ASN64
|
4.0
|
17.9
|
1.0
|
|
O
|
A:THR13
|
4.0
|
16.8
|
1.0
|
|
CA
|
A:HIS65
|
4.0
|
22.2
|
1.0
|
|
C
|
A:ASN64
|
4.0
|
18.6
|
1.0
|
|
CB
|
A:ALA14
|
4.0
|
18.0
|
1.0
|
|
O
|
A:HOH437
|
4.0
|
46.3
|
1.0
|
|
CB
|
A:GLU145
|
4.1
|
18.9
|
1.0
|
|
HB3
|
A:ASN64
|
4.1
|
22.2
|
1.0
|
|
CA
|
A:THR13
|
4.4
|
13.9
|
1.0
|
|
HB2
|
A:HIS65
|
4.4
|
29.5
|
1.0
|
|
HB1
|
A:ALA14
|
4.5
|
21.6
|
1.0
|
|
HA
|
A:HIS65
|
4.5
|
26.6
|
1.0
|
|
HG2
|
A:GLU145
|
4.6
|
29.3
|
1.0
|
|
HD21
|
A:ASN141
|
4.6
|
22.0
|
1.0
|
|
HB3
|
A:GLU145
|
4.7
|
22.7
|
1.0
|
|
O
|
A:HOH539
|
4.8
|
35.5
|
1.0
|
|
HB3
|
A:ALA14
|
4.8
|
21.6
|
1.0
|
|
H
|
A:ALA66
|
4.9
|
31.3
|
1.0
|
|
NE2
|
A:HIS65
|
4.9
|
45.1
|
1.0
|
|
H
|
A:THR13
|
4.9
|
17.7
|
1.0
|
|
CG
|
A:ASN64
|
4.9
|
18.1
|
1.0
|
|
H
|
A:GLY15
|
4.9
|
22.9
|
1.0
|
|
HA
|
A:GLU145
|
4.9
|
19.1
|
1.0
|
|
Chlorine binding site 4 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 4 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl305
b:28.2
occ:1.00
|
HH
|
A:TYR115
|
2.3
|
42.1
|
1.0
|
|
H
|
A:ALA118
|
2.4
|
23.9
|
1.0
|
|
HD1
|
A:PHE117
|
2.9
|
25.1
|
1.0
|
|
HA
|
A:PHE117
|
3.0
|
20.8
|
1.0
|
|
HE2
|
A:TYR115
|
3.1
|
33.7
|
1.0
|
|
O
|
A:HOH628
|
3.1
|
44.8
|
1.0
|
|
OH
|
A:TYR115
|
3.1
|
35.1
|
1.0
|
|
N
|
A:ALA118
|
3.2
|
19.9
|
1.0
|
|
HE2
|
A:PHE119
|
3.3
|
27.5
|
1.0
|
|
HB3
|
A:ALA118
|
3.4
|
26.8
|
1.0
|
|
HB3
|
A:PHE117
|
3.6
|
21.4
|
1.0
|
|
HB2
|
A:ALA118
|
3.7
|
26.8
|
1.0
|
|
CA
|
A:PHE117
|
3.8
|
17.3
|
1.0
|
|
HD2
|
A:PHE119
|
3.8
|
27.9
|
1.0
|
|
CE2
|
A:TYR115
|
3.8
|
28.1
|
1.0
|
|
CD1
|
A:PHE117
|
3.9
|
20.9
|
1.0
|
|
CB
|
A:ALA118
|
3.9
|
22.3
|
1.0
|
|
CE2
|
A:PHE119
|
3.9
|
22.9
|
1.0
|
|
CZ
|
A:TYR115
|
3.9
|
35.1
|
1.0
|
|
C
|
A:PHE117
|
4.0
|
18.1
|
1.0
|
|
CB
|
A:PHE117
|
4.1
|
17.9
|
1.0
|
|
CD2
|
A:PHE119
|
4.2
|
23.2
|
1.0
|
|
CA
|
A:ALA118
|
4.2
|
21.6
|
1.0
|
|
O
|
A:HOH469
|
4.2
|
23.4
|
1.0
|
|
HD11
|
A:LEU161
|
4.3
|
50.3
|
1.0
|
|
CG
|
A:PHE117
|
4.5
|
17.5
|
1.0
|
|
H
|
A:PHE119
|
4.5
|
23.8
|
1.0
|
|
HD21
|
A:LEU161
|
4.7
|
49.1
|
1.0
|
|
HB1
|
A:ALA118
|
4.8
|
26.8
|
1.0
|
|
HE1
|
A:PHE117
|
4.9
|
25.4
|
1.0
|
|
HA
|
A:ALA118
|
4.9
|
25.9
|
1.0
|
|
CE1
|
A:PHE117
|
4.9
|
21.1
|
1.0
|
|
CZ
|
A:PHE119
|
5.0
|
20.4
|
1.0
|
|
Chlorine binding site 5 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 5 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl306
b:68.3
occ:1.00
|
HH21
|
A:ARG48
|
2.9
|
71.7
|
1.0
|
|
HE
|
A:ARG48
|
3.2
|
65.9
|
1.0
|
|
NH2
|
A:ARG48
|
3.3
|
59.7
|
1.0
|
|
HB
|
A:THR77
|
3.4
|
19.7
|
1.0
|
|
O
|
A:HOH541
|
3.5
|
21.8
|
1.0
|
|
NE
|
A:ARG48
|
3.6
|
54.9
|
1.0
|
|
HG23
|
A:VAL256
|
3.6
|
19.7
|
1.0
|
|
HG21
|
A:VAL256
|
3.6
|
19.7
|
1.0
|
|
HB3
|
A:ASN78
|
3.6
|
20.5
|
1.0
|
|
CZ
|
A:ARG48
|
3.7
|
61.2
|
1.0
|
|
OG1
|
A:THR77
|
3.7
|
18.1
|
1.0
|
|
HH22
|
A:ARG48
|
3.8
|
71.7
|
1.0
|
|
HB2
|
A:ARG48
|
3.8
|
24.2
|
1.0
|
|
CG2
|
A:VAL256
|
4.0
|
16.4
|
1.0
|
|
O
|
A:THR77
|
4.0
|
15.3
|
1.0
|
|
CB
|
A:THR77
|
4.0
|
16.4
|
1.0
|
|
HG22
|
A:VAL256
|
4.1
|
19.7
|
1.0
|
|
O
|
A:HOH435
|
4.3
|
51.9
|
1.0
|
|
C
|
A:THR77
|
4.4
|
13.6
|
1.0
|
|
HG1
|
A:THR77
|
4.4
|
21.7
|
1.0
|
|
HD22
|
A:ASN78
|
4.5
|
35.3
|
1.0
|
|
HD2
|
A:ARG48
|
4.5
|
53.6
|
1.0
|
|
O
|
A:HOH449
|
4.5
|
14.0
|
1.0
|
|
CB
|
A:ASN78
|
4.6
|
17.1
|
1.0
|
|
O
|
A:HOH425
|
4.6
|
27.3
|
1.0
|
|
HB3
|
A:ARG48
|
4.6
|
24.2
|
1.0
|
|
CD
|
A:ARG48
|
4.6
|
44.7
|
1.0
|
|
CB
|
A:ARG48
|
4.6
|
20.2
|
1.0
|
|
NH1
|
A:ARG48
|
4.7
|
57.2
|
1.0
|
|
CA
|
A:THR77
|
4.8
|
15.4
|
1.0
|
|
ND2
|
A:ASN78
|
4.9
|
29.4
|
1.0
|
|
N
|
A:ASN78
|
4.9
|
14.2
|
1.0
|
|
Chlorine binding site 6 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 6 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl307
b:51.6
occ:1.00
|
HD2
|
A:ARG196
|
2.3
|
50.1
|
1.0
|
|
HH11
|
A:ARG196
|
2.4
|
33.1
|
1.0
|
|
HG
|
A:SER198
|
2.4
|
34.7
|
1.0
|
|
OG
|
A:SER198
|
3.1
|
28.9
|
1.0
|
|
CD
|
A:ARG196
|
3.2
|
41.7
|
1.0
|
|
NH1
|
A:ARG196
|
3.2
|
27.6
|
1.0
|
|
HD3
|
A:ARG196
|
3.3
|
50.1
|
1.0
|
|
HG3
|
A:ARG191
|
3.4
|
19.5
|
1.0
|
|
HG2
|
A:ARG191
|
3.6
|
19.5
|
1.0
|
|
HH12
|
A:ARG196
|
3.7
|
33.1
|
1.0
|
|
HG22
|
A:THR190
|
3.8
|
28.7
|
1.0
|
|
CG
|
A:ARG191
|
3.9
|
16.3
|
1.0
|
|
HG3
|
A:ARG196
|
3.9
|
37.2
|
1.0
|
|
NE
|
A:ARG196
|
4.0
|
36.1
|
1.0
|
|
CZ
|
A:ARG196
|
4.0
|
25.7
|
1.0
|
|
HB3
|
A:SER198
|
4.0
|
32.7
|
1.0
|
|
NH1
|
A:ARG191
|
4.1
|
19.0
|
1.0
|
|
CB
|
A:SER198
|
4.1
|
27.2
|
1.0
|
|
CZ
|
A:ARG191
|
4.1
|
17.1
|
1.0
|
|
CG
|
A:ARG196
|
4.2
|
31.0
|
1.0
|
|
HG21
|
A:THR190
|
4.2
|
28.7
|
1.0
|
|
HH12
|
A:ARG191
|
4.2
|
22.8
|
1.0
|
|
HH11
|
A:ARG191
|
4.2
|
22.8
|
1.0
|
|
NH2
|
A:ARG191
|
4.4
|
21.0
|
1.0
|
|
HB2
|
A:SER198
|
4.4
|
32.7
|
1.0
|
|
NE
|
A:ARG191
|
4.5
|
17.8
|
1.0
|
|
HA
|
A:ARG191
|
4.5
|
18.9
|
1.0
|
|
CG2
|
A:THR190
|
4.5
|
23.9
|
1.0
|
|
HG2
|
A:ARG196
|
4.5
|
37.2
|
1.0
|
|
HH22
|
A:ARG191
|
4.6
|
25.2
|
1.0
|
|
HH21
|
A:ARG191
|
4.8
|
25.2
|
1.0
|
|
HE
|
A:ARG191
|
4.8
|
21.3
|
1.0
|
|
HB
|
A:THR190
|
4.8
|
25.0
|
1.0
|
|
HE
|
A:ARG196
|
4.8
|
43.4
|
1.0
|
|
CD
|
A:ARG191
|
4.8
|
16.4
|
1.0
|
|
Chlorine binding site 7 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 7 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl308
b:58.2
occ:1.00
|
O
|
A:GLN55
|
2.9
|
19.0
|
1.0
|
|
HB3
|
A:GLN55
|
3.0
|
24.1
|
1.0
|
|
O
|
A:HOH496
|
3.1
|
37.4
|
1.0
|
|
HG21
|
A:VAL76
|
3.1
|
18.6
|
1.0
|
|
HG11
|
A:VAL76
|
3.2
|
18.7
|
1.0
|
|
HG2
|
A:PRO46
|
3.6
|
21.9
|
1.0
|
|
HA
|
A:GLN55
|
3.7
|
22.6
|
1.0
|
|
C
|
A:GLN55
|
3.8
|
18.6
|
1.0
|
|
CB
|
A:GLN55
|
3.8
|
20.1
|
1.0
|
|
O
|
A:HOH453
|
3.8
|
26.0
|
1.0
|
|
O
|
A:HOH470
|
4.0
|
26.1
|
1.0
|
|
CA
|
A:GLN55
|
4.0
|
18.8
|
1.0
|
|
CG2
|
A:VAL76
|
4.1
|
15.5
|
1.0
|
|
CG1
|
A:VAL76
|
4.1
|
15.6
|
1.0
|
|
HB
|
A:VAL76
|
4.2
|
17.3
|
1.0
|
|
HG3
|
A:PRO46
|
4.3
|
21.9
|
1.0
|
|
HG2
|
A:GLN55
|
4.3
|
28.8
|
1.0
|
|
CG
|
A:PRO46
|
4.4
|
18.3
|
1.0
|
|
CB
|
A:VAL76
|
4.4
|
14.4
|
1.0
|
|
O
|
A:ARG31
|
4.4
|
18.2
|
1.0
|
|
HB2
|
A:GLN55
|
4.5
|
24.1
|
1.0
|
|
HD21
|
A:LEU51
|
4.6
|
22.2
|
1.0
|
|
HG23
|
A:VAL76
|
4.6
|
18.6
|
1.0
|
|
HG22
|
A:VAL76
|
4.6
|
18.6
|
1.0
|
|
CG
|
A:GLN55
|
4.6
|
23.9
|
1.0
|
|
HD11
|
A:LEU51
|
4.7
|
27.3
|
1.0
|
|
HG12
|
A:VAL76
|
4.7
|
18.7
|
1.0
|
|
HG13
|
A:VAL76
|
4.7
|
18.7
|
1.0
|
|
O
|
A:LEU32
|
4.7
|
19.7
|
1.0
|
|
OE1
|
A:GLN55
|
4.9
|
31.4
|
1.0
|
|
HG23
|
A:THR34
|
4.9
|
54.3
|
1.0
|
|
Chlorine binding site 8 out
of 8 in 7tgf
Go back to
Chlorine Binding Sites List in 7tgf
Chlorine binding site 8 out
of 8 in the Single-Domain Vhh Intrabodies Neutralize Ricin Toxin.
 Mono view
 Stereo pair view
|
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 8 of Single-Domain Vhh Intrabodies Neutralize Ricin Toxin. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl202
b:25.2
occ:1.00
|
H
|
B:CYS102
|
2.4
|
22.4
|
0.3
|
|
H
|
B:CYS102
|
2.4
|
21.2
|
0.7
|
|
HG
|
B:SER52
|
2.5
|
27.0
|
1.0
|
|
HE21
|
A:GLN182
|
2.6
|
26.3
|
1.0
|
|
HG
|
B:CYS102
|
2.7
|
23.1
|
0.3
|
|
HB
|
B:VAL101
|
2.9
|
21.1
|
1.0
|
|
HB2
|
B:SER52
|
3.0
|
21.9
|
1.0
|
|
HA
|
B:VAL101
|
3.0
|
21.2
|
1.0
|
|
O
|
B:HOH325
|
3.1
|
33.6
|
1.0
|
|
OG
|
B:SER52
|
3.1
|
22.5
|
1.0
|
|
N
|
B:CYS102
|
3.3
|
18.7
|
0.3
|
|
N
|
B:CYS102
|
3.3
|
17.7
|
0.7
|
|
O
|
B:HOH349
|
3.3
|
20.8
|
1.0
|
|
NE2
|
A:GLN182
|
3.4
|
21.9
|
1.0
|
|
HG12
|
B:VAL101
|
3.4
|
22.0
|
1.0
|
|
CB
|
B:SER52
|
3.5
|
18.3
|
1.0
|
|
HA
|
B:SER52
|
3.5
|
20.4
|
1.0
|
|
HB2
|
B:CYS102
|
3.5
|
23.1
|
0.7
|
|
CB
|
B:VAL101
|
3.6
|
17.6
|
1.0
|
|
HB2
|
B:CYS102
|
3.6
|
23.2
|
0.3
|
|
HG2
|
A:GLN182
|
3.6
|
23.1
|
1.0
|
|
CA
|
B:VAL101
|
3.6
|
17.7
|
1.0
|
|
SG
|
B:CYS102
|
3.7
|
19.3
|
0.3
|
|
HE22
|
A:GLN182
|
3.9
|
26.3
|
1.0
|
|
HE2
|
B:TYR59
|
3.9
|
25.9
|
1.0
|
|
HB2
|
B:ALA33
|
4.0
|
21.5
|
1.0
|
|
O
|
B:HOH314
|
4.0
|
36.6
|
1.0
|
|
CG1
|
B:VAL101
|
4.0
|
18.3
|
1.0
|
|
C
|
B:VAL101
|
4.0
|
19.4
|
1.0
|
|
CB
|
B:CYS102
|
4.0
|
19.3
|
0.3
|
|
CA
|
B:SER52
|
4.0
|
17.0
|
1.0
|
|
HG3
|
A:GLN182
|
4.1
|
23.1
|
1.0
|
|
CB
|
B:CYS102
|
4.1
|
19.2
|
0.7
|
|
CG
|
A:GLN182
|
4.2
|
19.2
|
1.0
|
|
SG
|
B:CYS102
|
4.2
|
22.5
|
0.7
|
|
CA
|
B:CYS102
|
4.3
|
19.0
|
0.3
|
|
CD
|
A:GLN182
|
4.3
|
20.3
|
1.0
|
|
CA
|
B:CYS102
|
4.3
|
18.0
|
0.7
|
|
HH
|
B:TYR59
|
4.3
|
32.2
|
1.0
|
|
HB3
|
B:SER52
|
4.3
|
21.9
|
1.0
|
|
HG11
|
B:VAL101
|
4.3
|
22.0
|
1.0
|
|
H
|
B:SER53
|
4.5
|
23.3
|
1.0
|
|
CE2
|
B:TYR59
|
4.7
|
21.5
|
1.0
|
|
O
|
B:HOH367
|
4.7
|
50.4
|
1.0
|
|
HB1
|
B:ALA33
|
4.7
|
21.5
|
1.0
|
|
CB
|
B:ALA33
|
4.8
|
17.9
|
1.0
|
|
HG13
|
B:VAL101
|
4.8
|
22.0
|
1.0
|
|
CG2
|
B:VAL101
|
4.9
|
17.7
|
1.0
|
|
HA
|
B:CYS102
|
4.9
|
22.9
|
0.3
|
|
N
|
B:SER52
|
4.9
|
16.1
|
1.0
|
|
HB3
|
B:CYS102
|
4.9
|
23.2
|
0.3
|
|
H
|
B:SER54
|
5.0
|
30.1
|
1.0
|
|
HA
|
B:CYS102
|
5.0
|
21.6
|
0.7
|
|
N
|
B:VAL101
|
5.0
|
18.1
|
1.0
|
|
Reference:
T.F.Czajka,
D.J.Vance,
S.Davis,
M.J.Rudolph,
N.J.Mantis.
Single-Domain Antibodies Neutralize Ricin Toxin Intracellularly By Blocking Access to Ribosomal P-Stalk Proteins. J.Biol.Chem. V. 298 01742 2022.
ISSN: ESSN 1083-351X
PubMed: 35182523
DOI: 10.1016/J.JBC.2022.101742
Page generated: Sun Jul 13 07:25:51 2025
|
