Chlorine in PDB 2quj: Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
Enzymatic activity of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
All present enzymatic activity of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp:
6.1.1.2;
Protein crystallography data
The structure of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp, PDB code: 2quj
was solved by
N.Shen,
J.P.Ding,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
50.00 /
2.42
|
Space group
|
P 43 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
80.000,
80.000,
383.000,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
21.4 /
23.8
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
(pdb code 2quj). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 9 binding sites of Chlorine where determined in the
Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp, PDB code: 2quj:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Chlorine binding site 1 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 1 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl802
b:89.1
occ:1.00
|
O
|
A:HOH910
|
2.8
|
57.0
|
1.0
|
N
|
A:HIS474
|
3.6
|
79.2
|
1.0
|
O
|
A:HIS474
|
3.6
|
85.4
|
1.0
|
CA
|
A:HIS473
|
3.7
|
73.2
|
1.0
|
CD2
|
A:HIS473
|
3.8
|
63.8
|
1.0
|
CB
|
A:HIS473
|
4.1
|
68.4
|
1.0
|
C
|
A:HIS473
|
4.2
|
75.9
|
1.0
|
CG
|
A:HIS473
|
4.3
|
65.3
|
1.0
|
C
|
A:HIS474
|
4.4
|
85.7
|
1.0
|
O
|
A:HIS472
|
4.4
|
74.1
|
1.0
|
CA
|
A:HIS474
|
4.6
|
83.6
|
1.0
|
N
|
A:HIS473
|
4.8
|
73.0
|
1.0
|
ND1
|
A:HIS474
|
5.0
|
87.7
|
1.0
|
|
Chlorine binding site 2 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 2 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl804
b:88.9
occ:1.00
|
O
|
A:HOH907
|
3.3
|
61.2
|
1.0
|
CB
|
A:PHE138
|
3.7
|
36.1
|
1.0
|
NZ
|
A:LYS111
|
3.8
|
65.6
|
1.0
|
OD1
|
A:ASP101
|
3.9
|
71.8
|
1.0
|
O
|
A:GLY135
|
3.9
|
39.5
|
1.0
|
CG
|
A:PHE138
|
4.1
|
32.6
|
1.0
|
CB
|
A:TYR100
|
4.4
|
56.6
|
1.0
|
CD2
|
A:PHE138
|
4.4
|
30.9
|
1.0
|
C
|
A:GLY135
|
4.8
|
40.7
|
1.0
|
CA
|
A:GLY135
|
4.9
|
39.6
|
1.0
|
CD1
|
A:PHE138
|
4.9
|
34.0
|
1.0
|
CD1
|
A:TYR100
|
5.0
|
55.2
|
1.0
|
CE
|
A:LYS111
|
5.0
|
64.4
|
1.0
|
|
Chlorine binding site 3 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 3 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl805
b:78.0
occ:1.00
|
NZ
|
A:LYS204
|
3.4
|
65.8
|
1.0
|
N
|
A:ASP205
|
3.6
|
57.9
|
1.0
|
CG
|
A:LYS204
|
3.9
|
59.9
|
1.0
|
CB
|
A:LYS204
|
4.0
|
57.8
|
1.0
|
CB
|
A:ASP205
|
4.1
|
61.5
|
1.0
|
CA
|
A:LYS204
|
4.1
|
56.1
|
1.0
|
CD
|
A:LYS204
|
4.4
|
62.9
|
1.0
|
C
|
A:LYS204
|
4.4
|
56.7
|
1.0
|
CA
|
A:ASP205
|
4.5
|
59.0
|
1.0
|
CE
|
A:LYS204
|
4.5
|
64.0
|
1.0
|
|
Chlorine binding site 4 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 4 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl807
b:73.4
occ:1.00
|
NH2
|
A:ARG388
|
3.4
|
56.8
|
1.0
|
NE
|
A:ARG388
|
3.7
|
53.9
|
1.0
|
CD1
|
A:ILE384
|
3.8
|
60.7
|
1.0
|
CZ
|
A:ARG388
|
4.0
|
56.0
|
1.0
|
CG1
|
A:ILE384
|
4.6
|
59.1
|
1.0
|
CD
|
A:ARG388
|
4.8
|
51.6
|
1.0
|
CG
|
A:ARG388
|
4.9
|
51.0
|
1.0
|
|
Chlorine binding site 5 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 5 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl809
b:70.3
occ:1.00
|
CB
|
A:ASP113
|
3.5
|
52.1
|
1.0
|
N
|
A:LYS114
|
3.7
|
53.5
|
1.0
|
CA
|
A:ASP113
|
4.1
|
51.3
|
1.0
|
CB
|
A:LYS114
|
4.3
|
58.2
|
1.0
|
CG
|
A:LYS114
|
4.3
|
61.5
|
1.0
|
C
|
A:ASP113
|
4.5
|
52.2
|
1.0
|
CA
|
A:LYS114
|
4.6
|
55.1
|
1.0
|
CG
|
A:ASP113
|
4.7
|
54.1
|
1.0
|
|
Chlorine binding site 6 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 6 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl801
b:84.7
occ:1.00
|
O3
|
B:GOL812
|
2.8
|
62.5
|
1.0
|
OH
|
B:TYR201
|
3.2
|
42.6
|
1.0
|
NE2
|
A:HIS257
|
3.8
|
49.4
|
1.0
|
CZ
|
B:TYR201
|
4.2
|
40.7
|
1.0
|
CE
|
A:LYS253
|
4.2
|
49.3
|
1.0
|
CE1
|
B:TYR201
|
4.3
|
40.6
|
1.0
|
C3
|
B:GOL812
|
4.3
|
62.4
|
1.0
|
CE1
|
A:HIS257
|
4.4
|
47.5
|
1.0
|
CG2
|
A:ILE327
|
4.6
|
38.4
|
1.0
|
CD2
|
A:HIS257
|
4.9
|
46.7
|
1.0
|
CB
|
A:ILE327
|
4.9
|
40.8
|
1.0
|
CA
|
A:ILE327
|
4.9
|
41.5
|
1.0
|
|
Chlorine binding site 7 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 7 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl803
b:82.1
occ:1.00
|
NH2
|
B:ARG122
|
3.5
|
66.0
|
1.0
|
ND2
|
B:ASN118
|
3.7
|
54.5
|
1.0
|
CB
|
B:ASN118
|
4.1
|
50.7
|
1.0
|
CG
|
B:ASN118
|
4.4
|
52.5
|
1.0
|
CA
|
B:GLU115
|
4.6
|
50.7
|
1.0
|
CZ
|
B:ARG122
|
4.7
|
66.8
|
1.0
|
CG
|
B:GLU115
|
4.8
|
58.9
|
1.0
|
O
|
B:GLU115
|
4.9
|
48.4
|
1.0
|
|
Chlorine binding site 8 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 8 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 8 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl806
b:66.6
occ:1.00
|
N
|
B:ASP205
|
3.8
|
49.3
|
1.0
|
CA
|
B:LYS204
|
4.0
|
46.0
|
1.0
|
NZ
|
B:LYS204
|
4.1
|
59.4
|
1.0
|
CB
|
B:LYS204
|
4.1
|
47.5
|
1.0
|
CE
|
B:LYS204
|
4.4
|
54.4
|
1.0
|
C
|
B:LYS204
|
4.4
|
47.4
|
1.0
|
CG
|
B:LYS204
|
4.5
|
49.9
|
1.0
|
CB
|
B:ASP205
|
4.6
|
54.2
|
1.0
|
CA
|
B:ASP205
|
4.8
|
50.0
|
1.0
|
O
|
B:TRP203
|
4.9
|
43.6
|
1.0
|
|
Chlorine binding site 9 out
of 9 in 2quj
Go back to
Chlorine Binding Sites List in 2quj
Chlorine binding site 9 out
of 9 in the Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 9 of Crystal Structures of Human Tryptophanyl-Trna Synthetase in Complex with Trpamp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl808
b:83.4
occ:1.00
|
CG
|
B:LYS114
|
3.3
|
59.0
|
1.0
|
CE
|
B:LYS114
|
3.4
|
66.2
|
1.0
|
N
|
B:LYS114
|
3.5
|
51.0
|
1.0
|
CD
|
B:LYS114
|
3.6
|
63.4
|
1.0
|
CB
|
B:ASP113
|
3.7
|
52.5
|
1.0
|
CA
|
B:ASP113
|
4.0
|
50.9
|
1.0
|
CB
|
B:LYS114
|
4.1
|
54.0
|
1.0
|
C
|
B:ASP113
|
4.2
|
52.0
|
1.0
|
NZ
|
B:LYS114
|
4.3
|
69.0
|
1.0
|
CA
|
B:LYS114
|
4.4
|
52.4
|
1.0
|
|
Reference:
N.Shen,
M.Zhou,
B.Yang,
Y.Yu,
X.Dong,
J.Ding.
Catalytic Mechanism of the Tryptophan Activation Reaction Revealed By Crystal Structures of Human Tryptophanyl-Trna Synthetase in Different Enzymatic States Nucleic Acids Res. V. 36 1288 2008.
ISSN: ISSN 0305-1048
PubMed: 18180246
DOI: 10.1093/NAR/GKM1153
Page generated: Sat Jul 20 10:57:02 2024
|