Chlorine in PDB 2p10: Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Protein crystallography data
The structure of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution, PDB code: 2p10
was solved by
Joint Center For Structural Genomics (Jcsg),
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
45.08 /
2.15
|
Space group
|
H 3
|
Cell size a, b, c (Å), α, β, γ (°)
|
180.269,
180.269,
185.514,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
16.2 /
20.4
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
(pdb code 2p10). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the
Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution, PDB code: 2p10:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
Chlorine binding site 1 out
of 6 in 2p10
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Chlorine Binding Sites List in 2p10
Chlorine binding site 1 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl289
b:46.1
occ:1.00
|
OG
|
A:SER260
|
2.9
|
55.7
|
1.0
|
O
|
A:HOH301
|
3.0
|
43.6
|
1.0
|
N
|
A:SER260
|
3.3
|
55.1
|
1.0
|
N
|
A:ALA258
|
3.3
|
54.3
|
1.0
|
CB
|
A:SER260
|
3.5
|
57.1
|
1.0
|
CE1
|
A:HIS232
|
3.5
|
55.8
|
1.0
|
O
|
A:HOH337
|
3.7
|
47.6
|
1.0
|
CA
|
A:GLY257
|
3.7
|
52.0
|
1.0
|
N
|
A:SER259
|
3.7
|
56.1
|
1.0
|
OG1
|
A:THR193
|
3.8
|
82.5
|
1.0
|
C
|
A:GLY257
|
4.0
|
53.4
|
1.0
|
ND1
|
A:HIS232
|
4.0
|
48.9
|
1.0
|
CA
|
A:SER260
|
4.0
|
56.1
|
1.0
|
CB
|
A:SER259
|
4.1
|
58.5
|
1.0
|
CA
|
A:SER259
|
4.2
|
58.1
|
1.0
|
C
|
A:SER259
|
4.2
|
56.7
|
1.0
|
C
|
A:ALA258
|
4.3
|
55.4
|
1.0
|
CA
|
A:ALA258
|
4.3
|
54.8
|
1.0
|
CZ
|
A:PHE255
|
4.3
|
52.7
|
1.0
|
CG2
|
A:THR193
|
4.5
|
82.2
|
1.0
|
O
|
A:HOH422
|
4.6
|
67.8
|
1.0
|
O
|
A:TYR256
|
4.6
|
49.0
|
1.0
|
NE2
|
A:HIS232
|
4.6
|
53.2
|
1.0
|
CB
|
A:THR193
|
4.7
|
83.1
|
1.0
|
CB
|
A:ALA258
|
4.8
|
52.7
|
1.0
|
O
|
A:ILE236
|
4.8
|
56.5
|
1.0
|
N
|
A:GLY257
|
4.9
|
50.5
|
1.0
|
CE2
|
A:PHE255
|
5.0
|
50.3
|
1.0
|
OG
|
A:SER259
|
5.0
|
64.0
|
1.0
|
|
Chlorine binding site 2 out
of 6 in 2p10
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Chlorine Binding Sites List in 2p10
Chlorine binding site 2 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl290
b:76.8
occ:1.00
|
OH
|
A:TYR54
|
3.0
|
55.0
|
1.0
|
NH1
|
A:ARG60
|
3.1
|
55.7
|
0.5
|
NH2
|
A:ARG60
|
3.3
|
51.3
|
0.5
|
CZ
|
A:ARG60
|
3.6
|
49.4
|
0.5
|
O
|
A:HOH416
|
3.6
|
60.7
|
1.0
|
CE1
|
A:TYR54
|
3.7
|
52.4
|
1.0
|
CZ
|
A:TYR54
|
3.8
|
56.0
|
1.0
|
O
|
A:HOH337
|
3.8
|
47.6
|
1.0
|
NH2
|
A:ARG60
|
4.0
|
52.4
|
0.5
|
CB
|
A:ALA258
|
4.1
|
52.7
|
1.0
|
OH
|
A:TYR168
|
4.1
|
67.2
|
1.0
|
CE2
|
A:PHE127
|
4.3
|
49.7
|
1.0
|
CZ
|
A:PHE127
|
4.4
|
53.5
|
1.0
|
O
|
A:HOH367
|
4.4
|
51.9
|
1.0
|
NE2
|
A:HIS232
|
4.6
|
53.2
|
1.0
|
NE
|
A:ARG60
|
4.6
|
55.3
|
0.5
|
CZ
|
A:ARG60
|
4.8
|
57.1
|
0.5
|
CB
|
A:SER56
|
4.8
|
49.9
|
1.0
|
CD2
|
A:PHE127
|
4.8
|
50.9
|
1.0
|
NE
|
A:ARG60
|
4.8
|
57.4
|
0.5
|
CD1
|
A:TYR54
|
5.0
|
55.2
|
1.0
|
CE2
|
A:TYR256
|
5.0
|
53.0
|
1.0
|
|
Chlorine binding site 3 out
of 6 in 2p10
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Chlorine Binding Sites List in 2p10
Chlorine binding site 3 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl288
b:52.9
occ:1.00
|
OG
|
B:SER260
|
3.0
|
59.1
|
1.0
|
O
|
B:HOH327
|
3.1
|
57.9
|
1.0
|
N
|
B:SER260
|
3.2
|
57.3
|
1.0
|
N
|
B:ALA258
|
3.4
|
54.9
|
1.0
|
O
|
B:HOH328
|
3.5
|
58.9
|
1.0
|
CB
|
B:SER260
|
3.5
|
57.8
|
1.0
|
CE1
|
B:HIS232
|
3.6
|
52.7
|
1.0
|
OG1
|
B:THR193
|
3.6
|
85.9
|
1.0
|
N
|
B:SER259
|
3.7
|
55.2
|
1.0
|
CA
|
B:GLY257
|
3.8
|
51.5
|
1.0
|
CB
|
B:SER259
|
4.0
|
57.1
|
1.0
|
ND1
|
B:HIS232
|
4.0
|
52.6
|
1.0
|
CA
|
B:SER260
|
4.0
|
57.1
|
1.0
|
C
|
B:GLY257
|
4.1
|
52.5
|
1.0
|
CA
|
B:SER259
|
4.1
|
56.8
|
1.0
|
C
|
B:SER259
|
4.1
|
56.6
|
1.0
|
CG2
|
B:THR193
|
4.2
|
83.6
|
1.0
|
C
|
B:ALA258
|
4.2
|
55.0
|
1.0
|
CA
|
B:ALA258
|
4.3
|
55.0
|
1.0
|
CB
|
B:THR193
|
4.4
|
84.6
|
1.0
|
CZ
|
B:PHE255
|
4.5
|
52.9
|
1.0
|
NE2
|
B:HIS232
|
4.7
|
52.5
|
1.0
|
O
|
B:TYR256
|
4.7
|
47.9
|
1.0
|
CB
|
B:ALA258
|
4.8
|
54.4
|
1.0
|
O
|
B:ILE236
|
4.9
|
55.4
|
1.0
|
N
|
B:MSE261
|
5.0
|
55.5
|
1.0
|
|
Chlorine binding site 4 out
of 6 in 2p10
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Chlorine Binding Sites List in 2p10
Chlorine binding site 4 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl290
b:44.6
occ:1.00
|
OG
|
C:SER260
|
3.0
|
59.5
|
1.0
|
O
|
C:HOH303
|
3.1
|
43.6
|
1.0
|
N
|
C:ALA258
|
3.2
|
54.8
|
1.0
|
N
|
C:SER260
|
3.3
|
56.6
|
1.0
|
CB
|
C:SER260
|
3.5
|
60.5
|
1.0
|
O
|
C:HOH337
|
3.5
|
48.7
|
1.0
|
CE1
|
C:HIS232
|
3.6
|
55.6
|
1.0
|
OG1
|
C:THR193
|
3.6
|
75.1
|
1.0
|
N
|
C:SER259
|
3.7
|
54.9
|
1.0
|
CA
|
C:GLY257
|
3.7
|
52.7
|
1.0
|
C
|
C:GLY257
|
4.0
|
51.6
|
1.0
|
CA
|
C:SER260
|
4.0
|
57.0
|
1.0
|
ND1
|
C:HIS232
|
4.0
|
47.7
|
1.0
|
CB
|
C:SER259
|
4.0
|
53.9
|
1.0
|
CG2
|
C:THR193
|
4.1
|
78.1
|
1.0
|
CA
|
C:SER259
|
4.2
|
55.2
|
1.0
|
C
|
C:ALA258
|
4.2
|
54.5
|
1.0
|
C
|
C:SER259
|
4.2
|
55.6
|
1.0
|
CA
|
C:ALA258
|
4.2
|
55.2
|
1.0
|
CB
|
C:THR193
|
4.4
|
81.7
|
1.0
|
O
|
C:HOH440
|
4.5
|
69.6
|
1.0
|
CZ
|
C:PHE255
|
4.5
|
49.8
|
1.0
|
NE2
|
C:HIS232
|
4.6
|
48.6
|
1.0
|
O
|
C:TYR256
|
4.7
|
48.3
|
1.0
|
CB
|
C:ALA258
|
4.7
|
55.6
|
1.0
|
OG
|
C:SER259
|
4.9
|
56.8
|
1.0
|
O
|
C:ILE236
|
4.9
|
55.0
|
1.0
|
O
|
C:HOH432
|
4.9
|
62.3
|
1.0
|
N
|
C:GLY257
|
5.0
|
51.5
|
1.0
|
|
Chlorine binding site 5 out
of 6 in 2p10
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Chlorine Binding Sites List in 2p10
Chlorine binding site 5 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl291
b:72.6
occ:1.00
|
N
|
C:SER66
|
3.2
|
54.1
|
1.0
|
O
|
F:HOH288
|
3.3
|
48.7
|
1.0
|
NH2
|
C:ARG263
|
3.5
|
78.2
|
1.0
|
CA
|
C:GLY65
|
3.5
|
54.0
|
1.0
|
NH1
|
C:ARG263
|
3.6
|
81.0
|
1.0
|
OG
|
C:SER66
|
3.6
|
63.2
|
1.0
|
O
|
C:HOH465
|
3.8
|
60.4
|
1.0
|
C
|
C:GLY65
|
3.9
|
54.3
|
1.0
|
CZ
|
C:ARG263
|
4.0
|
81.4
|
1.0
|
CB
|
C:SER66
|
4.0
|
55.1
|
1.0
|
CG2
|
F:THR144
|
4.2
|
45.3
|
1.0
|
CA
|
C:SER66
|
4.2
|
55.0
|
1.0
|
CD1
|
C:LEU192
|
4.4
|
72.9
|
1.0
|
CB
|
F:THR144
|
4.4
|
52.1
|
1.0
|
CD2
|
C:LEU192
|
4.7
|
74.7
|
1.0
|
CG
|
C:LEU192
|
4.8
|
74.1
|
1.0
|
N
|
C:GLY65
|
4.9
|
53.7
|
1.0
|
|
Chlorine binding site 6 out
of 6 in 2p10
Go back to
Chlorine Binding Sites List in 2p10
Chlorine binding site 6 out
of 6 in the Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Crystal Structure of A Putative Phosphonopyruvate Hydrolase (MLL9387) From Mesorhizobium Loti MAFF303099 at 2.15 A Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl288
b:51.4
occ:1.00
|
OG
|
D:SER260
|
3.1
|
56.4
|
1.0
|
O
|
D:HOH298
|
3.2
|
46.7
|
1.0
|
N
|
D:ALA258
|
3.3
|
53.3
|
1.0
|
N
|
D:SER260
|
3.3
|
57.2
|
1.0
|
CB
|
D:SER260
|
3.6
|
57.3
|
1.0
|
N
|
D:SER259
|
3.6
|
55.6
|
1.0
|
CE1
|
D:HIS232
|
3.7
|
58.0
|
1.0
|
O
|
D:HOH321
|
3.7
|
53.3
|
1.0
|
CA
|
D:GLY257
|
3.7
|
52.0
|
1.0
|
OG1
|
D:THR193
|
3.8
|
78.4
|
1.0
|
C
|
D:GLY257
|
4.0
|
52.0
|
1.0
|
CA
|
D:SER260
|
4.0
|
56.7
|
1.0
|
ND1
|
D:HIS232
|
4.1
|
50.4
|
1.0
|
CB
|
D:SER259
|
4.1
|
56.7
|
1.0
|
CA
|
D:SER259
|
4.1
|
57.7
|
1.0
|
C
|
D:SER259
|
4.2
|
57.0
|
1.0
|
C
|
D:ALA258
|
4.2
|
55.6
|
1.0
|
CG2
|
D:THR193
|
4.2
|
82.5
|
1.0
|
CA
|
D:ALA258
|
4.3
|
54.5
|
1.0
|
CZ
|
D:PHE255
|
4.4
|
55.6
|
1.0
|
CB
|
D:THR193
|
4.6
|
82.0
|
1.0
|
OG
|
D:SER259
|
4.7
|
68.8
|
1.0
|
CB
|
D:ALA258
|
4.7
|
53.4
|
1.0
|
O
|
D:TYR256
|
4.8
|
48.4
|
1.0
|
NE2
|
D:HIS232
|
4.8
|
58.0
|
1.0
|
O
|
D:ILE236
|
4.9
|
56.5
|
1.0
|
N
|
D:GLY257
|
5.0
|
50.7
|
1.0
|
|
Reference:
Joint Center For Structural Genomics (Jcsg),
Joint Center For Structural Genomics (Jcsg).
N/A N/A.
Page generated: Sat Jul 20 09:56:23 2024
|