Chlorine in PDB 8caa: Crystal Structure of TEAD4 in Complex with Ytp-13
Protein crystallography data
The structure of Crystal Structure of TEAD4 in Complex with Ytp-13, PDB code: 8caa
was solved by
C.Scheufler,
J.Kallen,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
19.44 /
2.00
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
35.729,
89.397,
135.473,
90,
90,
90
|
R / Rfree (%)
|
21.3 /
23.7
|
Other elements in 8caa:
The structure of Crystal Structure of TEAD4 in Complex with Ytp-13 also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of TEAD4 in Complex with Ytp-13
(pdb code 8caa). 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 TEAD4 in Complex with Ytp-13, PDB code: 8caa:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
Chlorine binding site 1 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 1 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl501
b:32.4
occ:1.00
|
CL18
|
A:U3F501
|
0.0
|
32.4
|
1.0
|
C1
|
A:U3F501
|
1.8
|
30.8
|
1.0
|
C2
|
A:U3F501
|
2.7
|
30.3
|
1.0
|
C6
|
A:U3F501
|
2.8
|
29.9
|
1.0
|
F31
|
A:U3F501
|
2.9
|
30.4
|
1.0
|
C17
|
A:U3F501
|
3.1
|
29.5
|
1.0
|
C24
|
A:U3F501
|
3.4
|
28.6
|
1.0
|
C23
|
A:U3F501
|
3.5
|
29.1
|
1.0
|
CG2
|
A:ILE270
|
3.5
|
26.8
|
1.0
|
N27
|
A:U3F501
|
3.6
|
28.6
|
1.0
|
CG
|
A:LYS273
|
3.6
|
35.5
|
1.0
|
CB
|
A:LYS273
|
3.6
|
31.9
|
1.0
|
CB
|
A:ILE270
|
3.7
|
26.5
|
1.0
|
CG1
|
A:VAL414
|
3.8
|
19.4
|
1.0
|
C5
|
A:U3F501
|
4.0
|
29.6
|
1.0
|
C3
|
A:U3F501
|
4.0
|
30.1
|
1.0
|
O26
|
A:U3F501
|
4.0
|
28.6
|
1.0
|
C19
|
A:U3F501
|
4.0
|
30.2
|
1.0
|
CA
|
A:ILE270
|
4.1
|
27.8
|
1.0
|
CE2
|
A:PHE274
|
4.3
|
30.3
|
1.0
|
O
|
A:ILE270
|
4.4
|
28.9
|
1.0
|
C22
|
A:U3F501
|
4.5
|
29.4
|
1.0
|
F25
|
A:U3F501
|
4.5
|
30.0
|
1.0
|
C4
|
A:U3F501
|
4.5
|
29.9
|
1.0
|
CD
|
A:LYS273
|
4.6
|
41.1
|
1.0
|
CG2
|
A:THR394
|
4.8
|
23.4
|
1.0
|
C
|
A:ILE270
|
4.8
|
28.8
|
1.0
|
CB
|
A:VAL414
|
4.8
|
18.9
|
1.0
|
O
|
A:GLN269
|
4.9
|
30.2
|
1.0
|
NZ
|
A:LYS273
|
4.9
|
50.0
|
1.0
|
C20
|
A:U3F501
|
5.0
|
30.7
|
1.0
|
|
Chlorine binding site 2 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 2 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl502
b:43.3
occ:1.00
|
CL11
|
A:U3O502
|
0.0
|
43.3
|
1.0
|
C6
|
A:U3O502
|
1.7
|
40.4
|
1.0
|
C1
|
A:U3O502
|
2.7
|
39.7
|
1.0
|
C5
|
A:U3O502
|
2.7
|
38.9
|
1.0
|
O12
|
A:U3O502
|
2.9
|
37.1
|
1.0
|
CD2
|
A:PHE247
|
3.1
|
23.3
|
1.0
|
CG
|
A:PHE247
|
3.3
|
22.8
|
1.0
|
CB
|
A:PHE247
|
3.3
|
22.2
|
1.0
|
CD1
|
A:ILE374
|
3.6
|
26.9
|
1.0
|
CB
|
A:ALA231
|
3.6
|
21.1
|
1.0
|
CE2
|
A:PHE247
|
3.9
|
24.1
|
1.0
|
C2
|
A:U3O502
|
4.0
|
39.7
|
1.0
|
C4
|
A:U3O502
|
4.0
|
39.0
|
1.0
|
CD1
|
A:PHE247
|
4.2
|
23.5
|
1.0
|
C13
|
A:U3O502
|
4.3
|
35.6
|
1.0
|
CD2
|
A:LEU366
|
4.3
|
30.5
|
1.0
|
C3
|
A:U3O502
|
4.5
|
39.4
|
1.0
|
C
|
A:ALA231
|
4.7
|
21.3
|
1.0
|
CG1
|
A:ILE374
|
4.7
|
26.9
|
1.0
|
CA
|
A:ALA231
|
4.7
|
21.6
|
1.0
|
CZ
|
A:PHE247
|
4.7
|
24.0
|
1.0
|
CA
|
A:PHE247
|
4.8
|
22.8
|
1.0
|
O
|
A:ALA231
|
4.8
|
21.0
|
1.0
|
CE1
|
A:PHE247
|
4.8
|
23.8
|
1.0
|
CE
|
A:MET370
|
4.9
|
46.0
|
1.0
|
|
Chlorine binding site 3 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 3 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl502
b:35.4
occ:1.00
|
CL25
|
A:U3O502
|
0.0
|
35.4
|
1.0
|
C16
|
A:U3O502
|
1.8
|
35.0
|
1.0
|
C15
|
A:U3O502
|
2.7
|
35.4
|
1.0
|
C17
|
A:U3O502
|
2.8
|
34.4
|
1.0
|
S19
|
A:U3O502
|
3.0
|
36.8
|
1.0
|
CE2
|
A:TYR413
|
3.2
|
21.1
|
1.0
|
CD2
|
A:TYR413
|
3.5
|
20.1
|
1.0
|
CZ
|
A:TYR413
|
3.6
|
21.3
|
1.0
|
CZ
|
A:PHE229
|
3.6
|
30.5
|
1.0
|
CE1
|
A:PHE229
|
3.8
|
31.2
|
1.0
|
CG2
|
A:ILE395
|
3.8
|
23.4
|
1.0
|
C14
|
A:U3O502
|
4.0
|
35.1
|
1.0
|
C18
|
A:U3O502
|
4.0
|
34.8
|
1.0
|
OH
|
A:TYR413
|
4.1
|
21.9
|
1.0
|
CG
|
A:TYR413
|
4.1
|
19.3
|
1.0
|
CE1
|
A:TYR413
|
4.2
|
21.0
|
1.0
|
OE1
|
A:GLN397
|
4.3
|
32.5
|
1.0
|
CD1
|
A:TYR413
|
4.4
|
20.3
|
1.0
|
CE2
|
A:PHE229
|
4.4
|
30.6
|
1.0
|
C13
|
A:U3O502
|
4.5
|
35.6
|
1.0
|
CB
|
A:ILE395
|
4.6
|
23.0
|
1.0
|
CD1
|
A:ILE395
|
4.6
|
22.7
|
1.0
|
C20
|
A:U3O502
|
4.8
|
38.2
|
1.0
|
CD1
|
A:PHE229
|
4.8
|
30.2
|
1.0
|
CB
|
A:GLN397
|
4.9
|
20.6
|
1.0
|
OG1
|
A:THR332
|
5.0
|
34.9
|
1.0
|
CG2
|
A:THR332
|
5.0
|
32.1
|
1.0
|
|
Chlorine binding site 4 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 4 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl501
b:31.0
occ:1.00
|
CL18
|
B:U3F501
|
0.0
|
31.0
|
1.0
|
C1
|
B:U3F501
|
1.7
|
30.5
|
1.0
|
C2
|
B:U3F501
|
2.7
|
30.4
|
1.0
|
C6
|
B:U3F501
|
2.7
|
30.2
|
1.0
|
F31
|
B:U3F501
|
2.9
|
30.8
|
1.0
|
C17
|
B:U3F501
|
3.1
|
30.3
|
1.0
|
C24
|
B:U3F501
|
3.4
|
29.1
|
1.0
|
C23
|
B:U3F501
|
3.4
|
29.9
|
1.0
|
CG2
|
B:ILE270
|
3.5
|
25.3
|
1.0
|
CG
|
B:LYS273
|
3.5
|
36.0
|
1.0
|
CB
|
B:ILE270
|
3.6
|
24.8
|
1.0
|
CB
|
B:LYS273
|
3.6
|
31.1
|
1.0
|
N27
|
B:U3F501
|
3.7
|
28.1
|
1.0
|
O26
|
B:U3F501
|
3.8
|
29.2
|
1.0
|
CG1
|
B:VAL414
|
3.9
|
19.8
|
1.0
|
CA
|
B:ILE270
|
4.0
|
24.8
|
1.0
|
C5
|
B:U3F501
|
4.0
|
30.2
|
1.0
|
C19
|
B:U3F501
|
4.0
|
30.7
|
1.0
|
C3
|
B:U3F501
|
4.0
|
30.1
|
1.0
|
O
|
B:ILE270
|
4.3
|
25.1
|
1.0
|
CE2
|
B:PHE274
|
4.4
|
23.9
|
1.0
|
C22
|
B:U3F501
|
4.4
|
30.5
|
1.0
|
F25
|
B:U3F501
|
4.5
|
29.7
|
1.0
|
C4
|
B:U3F501
|
4.5
|
30.2
|
1.0
|
CD
|
B:LYS273
|
4.5
|
42.2
|
1.0
|
C
|
B:ILE270
|
4.7
|
24.9
|
1.0
|
O
|
B:GLN269
|
4.8
|
25.2
|
1.0
|
NZ
|
B:LYS273
|
4.8
|
50.0
|
1.0
|
CB
|
B:VAL414
|
4.9
|
19.7
|
1.0
|
C20
|
B:U3F501
|
4.9
|
32.0
|
1.0
|
CG2
|
B:THR394
|
4.9
|
19.4
|
1.0
|
CG1
|
B:ILE270
|
5.0
|
24.0
|
1.0
|
|
Chlorine binding site 5 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 5 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl502
b:44.6
occ:1.00
|
CL11
|
B:U3O502
|
0.0
|
44.6
|
1.0
|
C6
|
B:U3O502
|
1.7
|
41.5
|
1.0
|
C1
|
B:U3O502
|
2.7
|
41.1
|
1.0
|
C5
|
B:U3O502
|
2.7
|
39.5
|
1.0
|
O12
|
B:U3O502
|
2.9
|
37.0
|
1.0
|
CD2
|
B:PHE247
|
3.2
|
21.7
|
1.0
|
CB
|
B:PHE247
|
3.4
|
22.2
|
1.0
|
CG
|
B:PHE247
|
3.4
|
21.9
|
1.0
|
CD1
|
B:ILE374
|
3.5
|
27.0
|
1.0
|
CB
|
B:ALA231
|
3.6
|
22.8
|
1.0
|
C2
|
B:U3O502
|
4.0
|
41.1
|
1.0
|
C4
|
B:U3O502
|
4.0
|
39.8
|
1.0
|
CE2
|
B:PHE247
|
4.0
|
21.8
|
1.0
|
CD2
|
B:LEU366
|
4.2
|
29.1
|
1.0
|
CD1
|
B:PHE247
|
4.3
|
21.9
|
1.0
|
C13
|
B:U3O502
|
4.3
|
35.0
|
1.0
|
C3
|
B:U3O502
|
4.5
|
40.2
|
1.0
|
CG1
|
B:ILE374
|
4.5
|
25.9
|
1.0
|
C
|
B:ALA231
|
4.7
|
22.0
|
1.0
|
CA
|
B:ALA231
|
4.7
|
22.1
|
1.0
|
CE
|
B:MET370
|
4.7
|
35.7
|
1.0
|
CZ
|
B:PHE247
|
4.8
|
21.3
|
1.0
|
CA
|
B:PHE247
|
4.9
|
23.2
|
1.0
|
O
|
B:ALA231
|
4.9
|
21.6
|
1.0
|
CE1
|
B:PHE247
|
4.9
|
21.7
|
1.0
|
|
Chlorine binding site 6 out
of 6 in 8caa
Go back to
Chlorine Binding Sites List in 8caa
Chlorine binding site 6 out
of 6 in the Crystal Structure of TEAD4 in Complex with Ytp-13
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 TEAD4 in Complex with Ytp-13 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl502
b:36.7
occ:1.00
|
CL25
|
B:U3O502
|
0.0
|
36.7
|
1.0
|
C16
|
B:U3O502
|
1.7
|
35.1
|
1.0
|
C15
|
B:U3O502
|
2.7
|
34.0
|
1.0
|
C17
|
B:U3O502
|
2.7
|
34.2
|
1.0
|
S19
|
B:U3O502
|
3.0
|
33.5
|
1.0
|
CE2
|
B:TYR413
|
3.2
|
18.0
|
1.0
|
CD2
|
B:TYR413
|
3.5
|
17.2
|
1.0
|
CZ
|
B:PHE229
|
3.5
|
28.6
|
1.0
|
CZ
|
B:TYR413
|
3.6
|
19.6
|
1.0
|
CE1
|
B:PHE229
|
3.7
|
29.3
|
1.0
|
CG2
|
B:ILE395
|
3.8
|
18.7
|
1.0
|
C14
|
B:U3O502
|
4.0
|
33.9
|
1.0
|
C18
|
B:U3O502
|
4.0
|
34.3
|
1.0
|
OH
|
B:TYR413
|
4.1
|
20.6
|
1.0
|
CG
|
B:TYR413
|
4.1
|
16.4
|
1.0
|
CE1
|
B:TYR413
|
4.2
|
18.4
|
1.0
|
CE2
|
B:PHE229
|
4.3
|
28.3
|
1.0
|
OE1
|
B:GLN397
|
4.3
|
34.6
|
1.0
|
CD1
|
B:TYR413
|
4.4
|
17.2
|
1.0
|
C13
|
B:U3O502
|
4.5
|
35.0
|
1.0
|
CB
|
B:ILE395
|
4.6
|
18.2
|
1.0
|
CD1
|
B:ILE395
|
4.6
|
19.5
|
1.0
|
CD1
|
B:PHE229
|
4.7
|
28.5
|
1.0
|
C20
|
B:U3O502
|
4.7
|
34.6
|
1.0
|
CG2
|
B:THR332
|
4.7
|
29.8
|
1.0
|
CB
|
B:TYR413
|
5.0
|
16.9
|
1.0
|
|
Reference:
H.Sellner,
E.Chapeau,
P.Furet,
M.Voegtle,
B.Salem,
M.Le Douget,
V.Bordas,
J.M.Groell,
A.L.Le Goff,
C.Rouzet,
T.Wietlisbach,
T.Zimmermann,
J.Mckenna,
C.Brocklehurst,
P.Chene,
M.Wartmann,
C.Scheufler,
J.Kallen,
G.Williams,
S.Harlfinger,
M.Traebert,
B.Dumotier,
T.Schmelzle,
N.Soldermann.
Optimization of A Class of Dihydrobenzofurane Analogs Toward Orally Efficacious Yap-Tead Protein-Protein Interaction Inhibitors. Chemmedchem 00051 2023.
ISSN: ESSN 1860-7187
PubMed: 36988034
DOI: 10.1002/CMDC.202300051
Page generated: Tue Jul 30 07:48:22 2024
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