Chlorine in PDB 8uz7: Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
Protein crystallography data
The structure of Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome, PDB code: 8uz7
was solved by
R.R.Sotelo-Mundo,
A.C.Gomez-Yanes,
A.A.Lopez-Zavala,
J.A.Lopez-Garcia,
A.Ochoa-Leyva,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
55.45 /
1.70
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
73.564,
84.253,
73.739,
90,
92.69,
90
|
R / Rfree (%)
|
18.9 /
19.1
|
Other elements in 8uz7:
The structure of Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
(pdb code 8uz7). 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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome, PDB code: 8uz7:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
Chlorine binding site 1 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 1 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl301
b:16.7
occ:1.00
|
O
|
A:HOH549
|
3.1
|
31.5
|
1.0
|
O
|
A:HOH533
|
3.1
|
34.1
|
1.0
|
NH1
|
A:ARG53
|
3.2
|
13.1
|
1.0
|
N
|
A:ASP90
|
3.3
|
11.6
|
1.0
|
N
|
A:VAL62
|
3.3
|
14.9
|
1.0
|
CA
|
A:GLY61
|
3.7
|
14.8
|
1.0
|
CB
|
A:ASP90
|
3.7
|
14.0
|
1.0
|
O
|
A:VAL62
|
3.8
|
15.4
|
1.0
|
CG
|
A:ASP90
|
3.9
|
29.0
|
1.0
|
CA
|
A:CYS89
|
4.0
|
17.6
|
1.0
|
C
|
A:GLY61
|
4.0
|
12.3
|
1.0
|
CA
|
A:ASP90
|
4.1
|
14.6
|
1.0
|
C
|
A:CYS89
|
4.1
|
14.8
|
1.0
|
OD2
|
A:ASP90
|
4.1
|
30.6
|
1.0
|
CD1
|
A:TRP91
|
4.2
|
16.4
|
1.0
|
O
|
A:GLY88
|
4.2
|
18.5
|
1.0
|
CD
|
A:ARG53
|
4.3
|
18.7
|
1.0
|
CA
|
A:VAL62
|
4.3
|
16.1
|
1.0
|
CZ
|
A:ARG53
|
4.4
|
14.6
|
1.0
|
C
|
A:VAL62
|
4.5
|
14.4
|
1.0
|
OD1
|
A:ASP90
|
4.5
|
25.6
|
1.0
|
CB
|
A:VAL62
|
4.6
|
15.4
|
1.0
|
CB
|
A:CYS89
|
4.7
|
15.1
|
1.0
|
O
|
A:HOH421
|
4.7
|
35.4
|
1.0
|
N
|
A:TRP91
|
4.7
|
12.1
|
1.0
|
NE
|
A:ARG53
|
4.8
|
15.1
|
1.0
|
C
|
A:ASP90
|
4.9
|
14.7
|
1.0
|
O
|
A:ILE60
|
4.9
|
17.9
|
1.0
|
O
|
A:HOH467
|
4.9
|
31.3
|
1.0
|
N
|
A:GLY61
|
4.9
|
17.3
|
1.0
|
O
|
A:HOH500
|
4.9
|
29.9
|
1.0
|
|
Chlorine binding site 2 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 2 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl302
b:18.8
occ:0.85
|
O
|
A:HOH440
|
3.0
|
25.7
|
1.0
|
NE2
|
A:HIS96
|
3.1
|
16.9
|
1.0
|
CE
|
A:LYS14
|
3.3
|
22.7
|
1.0
|
NZ
|
A:LYS14
|
3.5
|
23.3
|
1.0
|
ND2
|
A:ASN12
|
3.5
|
15.6
|
1.0
|
CG
|
A:LEU231
|
3.6
|
15.3
|
1.0
|
CD1
|
A:LEU231
|
3.7
|
15.3
|
1.0
|
CB
|
A:ASN12
|
3.8
|
11.8
|
1.0
|
CD2
|
A:LEU231
|
4.0
|
17.9
|
1.0
|
CE1
|
A:HIS96
|
4.0
|
15.3
|
1.0
|
CD2
|
A:HIS96
|
4.1
|
13.9
|
1.0
|
CG
|
A:ASN12
|
4.2
|
18.2
|
1.0
|
N
|
A:GLY233
|
4.2
|
18.2
|
1.0
|
C
|
A:VAL232
|
4.3
|
18.8
|
1.0
|
O
|
A:VAL232
|
4.3
|
16.3
|
1.0
|
CA
|
A:GLY233
|
4.3
|
18.6
|
1.0
|
O
|
A:LEU231
|
4.7
|
12.9
|
1.0
|
CD
|
A:LYS14
|
4.7
|
18.2
|
1.0
|
C
|
A:LEU231
|
4.8
|
13.3
|
1.0
|
O
|
A:HOH513
|
4.8
|
33.7
|
1.0
|
N
|
A:VAL232
|
4.8
|
14.7
|
1.0
|
O
|
A:HOH432
|
4.9
|
27.3
|
1.0
|
CB
|
A:LEU231
|
4.9
|
14.2
|
1.0
|
CG
|
A:LYS14
|
5.0
|
17.2
|
1.0
|
CA
|
A:VAL232
|
5.0
|
16.8
|
1.0
|
|
Chlorine binding site 3 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 3 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl301
b:18.2
occ:1.00
|
O
|
C:HOH519
|
3.0
|
33.1
|
1.0
|
O
|
C:HOH509
|
3.1
|
33.8
|
1.0
|
NH1
|
C:ARG53
|
3.2
|
18.6
|
1.0
|
N
|
C:ASP90
|
3.3
|
15.8
|
1.0
|
N
|
C:VAL62
|
3.3
|
12.7
|
1.0
|
CA
|
C:GLY61
|
3.7
|
16.2
|
1.0
|
O
|
C:VAL62
|
3.8
|
15.8
|
1.0
|
CB
|
C:ASP90
|
3.8
|
22.3
|
1.0
|
CA
|
C:CYS89
|
3.9
|
14.4
|
1.0
|
C
|
C:GLY61
|
4.0
|
17.7
|
1.0
|
C
|
C:CYS89
|
4.1
|
15.4
|
1.0
|
CG
|
C:ASP90
|
4.1
|
29.9
|
1.0
|
CA
|
C:ASP90
|
4.1
|
18.2
|
1.0
|
O
|
C:GLY88
|
4.2
|
21.4
|
1.0
|
OD2
|
C:ASP90
|
4.2
|
31.4
|
1.0
|
CA
|
C:VAL62
|
4.3
|
13.3
|
1.0
|
CD
|
C:ARG53
|
4.4
|
19.1
|
1.0
|
CD1
|
C:TRP91
|
4.4
|
14.4
|
1.0
|
CB
|
C:VAL62
|
4.4
|
16.7
|
1.0
|
CZ
|
C:ARG53
|
4.5
|
16.0
|
1.0
|
C
|
C:VAL62
|
4.5
|
14.7
|
1.0
|
CB
|
C:CYS89
|
4.6
|
13.8
|
1.0
|
OD1
|
C:ASP90
|
4.6
|
31.5
|
1.0
|
N
|
C:TRP91
|
4.8
|
16.3
|
1.0
|
NE
|
C:ARG53
|
4.9
|
17.4
|
1.0
|
O
|
C:ILE60
|
4.9
|
22.0
|
1.0
|
N
|
C:CYS89
|
4.9
|
17.9
|
1.0
|
C
|
C:ASP90
|
4.9
|
17.1
|
1.0
|
N
|
C:GLY61
|
5.0
|
18.6
|
1.0
|
C
|
C:GLY88
|
5.0
|
21.1
|
1.0
|
|
Chlorine binding site 4 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 4 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl302
b:21.6
occ:0.81
|
O
|
C:HOH478
|
3.1
|
26.0
|
1.0
|
NZ
|
C:LYS14
|
3.1
|
23.1
|
1.0
|
NE2
|
C:HIS96
|
3.1
|
18.1
|
1.0
|
ND2
|
C:ASN12
|
3.4
|
18.5
|
1.0
|
O
|
C:HOH428
|
3.5
|
32.7
|
1.0
|
CE
|
C:LYS14
|
3.6
|
29.4
|
1.0
|
CG
|
C:LEU231
|
3.7
|
16.3
|
1.0
|
CD1
|
C:LEU231
|
3.7
|
17.4
|
1.0
|
CB
|
C:ASN12
|
3.8
|
17.2
|
1.0
|
CD2
|
C:HIS96
|
4.1
|
18.3
|
1.0
|
CG
|
C:ASN12
|
4.1
|
15.9
|
1.0
|
CE1
|
C:HIS96
|
4.1
|
20.8
|
1.0
|
N
|
C:GLY233
|
4.1
|
21.2
|
1.0
|
C
|
C:VAL232
|
4.2
|
23.1
|
1.0
|
CD2
|
C:LEU231
|
4.2
|
19.1
|
1.0
|
CA
|
C:GLY233
|
4.3
|
24.0
|
1.0
|
O
|
C:VAL232
|
4.3
|
19.6
|
1.0
|
O
|
C:LEU231
|
4.6
|
15.6
|
1.0
|
CD
|
C:LYS14
|
4.7
|
23.5
|
1.0
|
C
|
C:LEU231
|
4.7
|
12.8
|
1.0
|
N
|
C:VAL232
|
4.8
|
16.2
|
1.0
|
CA
|
C:VAL232
|
4.8
|
19.6
|
1.0
|
CG
|
C:LYS14
|
4.9
|
20.4
|
1.0
|
CB
|
C:LEU231
|
5.0
|
16.1
|
1.0
|
|
Chlorine binding site 5 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 5 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl301
b:20.0
occ:0.96
|
O
|
D:HOH543
|
3.1
|
31.2
|
1.0
|
NH1
|
D:ARG53
|
3.2
|
16.9
|
1.0
|
N
|
D:VAL62
|
3.3
|
15.8
|
1.0
|
N
|
D:ASP90
|
3.3
|
14.4
|
1.0
|
CB
|
D:ASP90
|
3.7
|
18.8
|
1.0
|
CA
|
D:GLY61
|
3.7
|
14.9
|
1.0
|
CG
|
D:ASP90
|
3.8
|
27.1
|
1.0
|
O
|
D:VAL62
|
3.9
|
15.4
|
1.0
|
CA
|
D:CYS89
|
3.9
|
18.6
|
1.0
|
OD2
|
D:ASP90
|
4.0
|
28.8
|
1.0
|
C
|
D:GLY61
|
4.0
|
16.9
|
1.0
|
C
|
D:CYS89
|
4.1
|
17.7
|
1.0
|
O
|
D:GLY88
|
4.1
|
19.8
|
1.0
|
CA
|
D:ASP90
|
4.1
|
17.0
|
1.0
|
CD
|
D:ARG53
|
4.2
|
20.2
|
1.0
|
CA
|
D:VAL62
|
4.3
|
17.5
|
1.0
|
OD1
|
D:ASP90
|
4.4
|
28.1
|
1.0
|
CZ
|
D:ARG53
|
4.4
|
16.3
|
1.0
|
CB
|
D:VAL62
|
4.4
|
18.0
|
1.0
|
C
|
D:VAL62
|
4.5
|
17.4
|
1.0
|
CD1
|
D:TRP91
|
4.6
|
18.3
|
1.0
|
O
|
D:HOH433
|
4.7
|
35.0
|
1.0
|
CB
|
D:CYS89
|
4.7
|
15.1
|
1.0
|
NE
|
D:ARG53
|
4.8
|
17.8
|
1.0
|
O
|
D:ILE60
|
4.9
|
18.3
|
1.0
|
N
|
D:CYS89
|
4.9
|
21.5
|
1.0
|
CG2
|
D:VAL62
|
4.9
|
20.0
|
1.0
|
C
|
D:GLY88
|
5.0
|
24.0
|
1.0
|
N
|
D:GLY61
|
5.0
|
17.6
|
1.0
|
N
|
D:TRP91
|
5.0
|
18.7
|
1.0
|
O
|
D:HOH503
|
5.0
|
31.6
|
1.0
|
|
Chlorine binding site 6 out
of 6 in 8uz7
Go back to
Chlorine Binding Sites List in 8uz7
Chlorine binding site 6 out
of 6 in the Crystal Structure of A Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome
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 Novel Triose Phosphate Isomerase Identified on the Shrimp Transcriptome within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl302
b:17.3
occ:0.61
|
O
|
D:HOH424
|
2.1
|
24.7
|
1.0
|
ND2
|
D:ASN195
|
2.2
|
16.4
|
1.0
|
O
|
D:HOH507
|
2.2
|
25.5
|
1.0
|
O
|
D:HOH428
|
2.3
|
23.4
|
1.0
|
CG
|
D:ASN195
|
3.2
|
22.2
|
1.0
|
OD1
|
D:ASN195
|
3.6
|
23.6
|
1.0
|
OD1
|
D:ASP191
|
4.1
|
24.9
|
1.0
|
OD2
|
D:ASP191
|
4.2
|
25.0
|
1.0
|
CB
|
D:ASN195
|
4.5
|
18.6
|
1.0
|
CG
|
D:ASP191
|
4.6
|
24.6
|
1.0
|
CA
|
D:ASN195
|
4.8
|
17.6
|
1.0
|
|
Reference:
R.R.Sotelo-Mundo,
A.C.Gomez-Yanes,
A.A.Lopez-Zavala,
A.Ochoa-Leyva.
Crystal Structure of A Novel Triose Phosphate Isomerase From Shrimp To Be Published.
Page generated: Tue Jul 30 13:28:29 2024
|