Chlorine in PDB 8x7e: Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
Protein crystallography data
The structure of Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151, PDB code: 8x7e
was solved by
S.Akai,
A.Nomura,
K.Yamaguchi,
T.Adachi,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
38.34 /
2.30
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
90.45,
79.2,
97.24,
90,
115.67,
90
|
R / Rfree (%)
|
21.9 /
26.3
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
(pdb code 8x7e). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the
Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151, PDB code: 8x7e:
Jump to Chlorine binding site number:
1;
2;
3;
4;
Chlorine binding site 1 out
of 4 in 8x7e
Go back to
Chlorine Binding Sites List in 8x7e
Chlorine binding site 1 out
of 4 in the Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
 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 the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl9000
b:30.6
occ:1.00
|
CL1
|
A:YAL9000
|
0.0
|
30.6
|
1.0
|
C11
|
A:YAL9000
|
1.7
|
26.0
|
1.0
|
C10
|
A:YAL9000
|
2.7
|
24.5
|
1.0
|
C6
|
A:YAL9000
|
2.7
|
26.0
|
1.0
|
N2
|
A:YAL9000
|
3.0
|
19.1
|
1.0
|
O16
|
A:YAL9000
|
3.4
|
31.7
|
1.0
|
O
|
A:PHE377
|
3.5
|
26.5
|
1.0
|
CD1
|
A:PHE378
|
3.6
|
30.1
|
1.0
|
C17
|
A:YAL9000
|
3.6
|
29.1
|
1.0
|
C23
|
A:YAL9000
|
3.7
|
30.1
|
1.0
|
CZ
|
A:PHE388
|
3.8
|
28.2
|
1.0
|
N15
|
A:YAL9000
|
3.8
|
28.7
|
1.0
|
C9
|
A:YAL9000
|
4.0
|
30.7
|
1.0
|
C7
|
A:YAL9000
|
4.0
|
28.1
|
1.0
|
CG2
|
A:VAL376
|
4.1
|
27.6
|
1.0
|
C22
|
A:YAL9000
|
4.1
|
24.4
|
1.0
|
C18
|
A:YAL9000
|
4.1
|
29.9
|
1.0
|
C14
|
A:YAL9000
|
4.2
|
30.0
|
1.0
|
C26
|
A:YAL9000
|
4.2
|
28.7
|
1.0
|
C25
|
A:YAL9000
|
4.2
|
28.7
|
1.0
|
C31
|
A:YAL9000
|
4.3
|
19.8
|
1.0
|
CB
|
A:PHE378
|
4.3
|
28.2
|
1.0
|
CE1
|
A:PHE388
|
4.3
|
34.4
|
1.0
|
C24
|
A:YAL9000
|
4.3
|
31.2
|
1.0
|
CG
|
A:PHE378
|
4.4
|
33.5
|
1.0
|
CE1
|
A:PHE378
|
4.4
|
32.5
|
1.0
|
C8
|
A:YAL9000
|
4.5
|
24.2
|
1.0
|
C
|
A:PHE377
|
4.5
|
29.4
|
1.0
|
CB
|
A:VAL376
|
4.6
|
31.6
|
1.0
|
CE2
|
A:PHE388
|
4.8
|
29.2
|
1.0
|
CA
|
A:PHE378
|
4.8
|
26.7
|
1.0
|
C4
|
A:YAL9000
|
4.9
|
26.3
|
1.0
|
|
Chlorine binding site 2 out
of 4 in 8x7e
Go back to
Chlorine Binding Sites List in 8x7e
Chlorine binding site 2 out
of 4 in the Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
 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 the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl9000
b:31.5
occ:1.00
|
CL1
|
C:YAL9000
|
0.0
|
31.5
|
1.0
|
C11
|
C:YAL9000
|
1.7
|
22.2
|
1.0
|
C10
|
C:YAL9000
|
2.7
|
17.7
|
1.0
|
C6
|
C:YAL9000
|
2.7
|
22.1
|
1.0
|
N2
|
C:YAL9000
|
3.0
|
19.6
|
1.0
|
O16
|
C:YAL9000
|
3.3
|
31.9
|
1.0
|
C17
|
C:YAL9000
|
3.5
|
29.1
|
1.0
|
C23
|
C:YAL9000
|
3.6
|
25.0
|
1.0
|
C25
|
C:YAL9000
|
3.6
|
29.1
|
1.0
|
CD1
|
C:PHE378
|
3.7
|
29.9
|
1.0
|
C26
|
C:YAL9000
|
3.8
|
32.0
|
1.0
|
N15
|
C:YAL9000
|
3.8
|
31.2
|
1.0
|
O
|
C:PHE377
|
3.8
|
25.4
|
1.0
|
CZ
|
C:PHE388
|
3.8
|
28.8
|
1.0
|
C22
|
C:YAL9000
|
3.9
|
25.5
|
1.0
|
CG2
|
C:VAL376
|
3.9
|
21.0
|
1.0
|
C24
|
C:YAL9000
|
4.0
|
31.1
|
1.0
|
C9
|
C:YAL9000
|
4.0
|
22.7
|
1.0
|
C7
|
C:YAL9000
|
4.0
|
19.9
|
1.0
|
C18
|
C:YAL9000
|
4.0
|
27.6
|
1.0
|
C14
|
C:YAL9000
|
4.1
|
28.5
|
1.0
|
C31
|
C:YAL9000
|
4.2
|
23.7
|
1.0
|
CE1
|
C:PHE388
|
4.3
|
25.9
|
1.0
|
CB
|
C:PHE378
|
4.4
|
24.6
|
1.0
|
CE1
|
C:PHE378
|
4.5
|
28.1
|
1.0
|
CG
|
C:PHE378
|
4.5
|
32.2
|
1.0
|
C8
|
C:YAL9000
|
4.5
|
20.5
|
1.0
|
CB
|
C:VAL376
|
4.7
|
24.7
|
1.0
|
C
|
C:PHE377
|
4.7
|
25.8
|
1.0
|
CA
|
C:PHE378
|
4.8
|
27.5
|
1.0
|
CE2
|
C:PHE388
|
4.9
|
26.7
|
1.0
|
C4
|
C:YAL9000
|
4.9
|
24.7
|
1.0
|
|
Chlorine binding site 3 out
of 4 in 8x7e
Go back to
Chlorine Binding Sites List in 8x7e
Chlorine binding site 3 out
of 4 in the Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
 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 the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Cl9000
b:26.2
occ:1.00
|
CL1
|
E:YAL9000
|
0.0
|
26.2
|
1.0
|
C11
|
E:YAL9000
|
1.7
|
27.7
|
1.0
|
C10
|
E:YAL9000
|
2.7
|
27.9
|
1.0
|
C6
|
E:YAL9000
|
2.8
|
25.5
|
1.0
|
N2
|
E:YAL9000
|
3.0
|
23.6
|
1.0
|
CD1
|
E:PHE378
|
3.7
|
35.7
|
1.0
|
O16
|
E:YAL9000
|
3.7
|
31.6
|
1.0
|
C23
|
E:YAL9000
|
3.7
|
24.6
|
1.0
|
CZ
|
E:PHE388
|
3.7
|
23.6
|
1.0
|
C17
|
E:YAL9000
|
3.8
|
27.4
|
1.0
|
CG2
|
E:VAL376
|
3.9
|
25.2
|
1.0
|
C9
|
E:YAL9000
|
4.0
|
27.7
|
1.0
|
O
|
E:PHE377
|
4.0
|
34.3
|
1.0
|
C7
|
E:YAL9000
|
4.0
|
25.8
|
1.0
|
N15
|
E:YAL9000
|
4.0
|
29.9
|
1.0
|
C26
|
E:YAL9000
|
4.0
|
25.0
|
1.0
|
C25
|
E:YAL9000
|
4.2
|
23.8
|
1.0
|
C22
|
E:YAL9000
|
4.2
|
23.3
|
1.0
|
C31
|
E:YAL9000
|
4.2
|
21.6
|
1.0
|
C18
|
E:YAL9000
|
4.2
|
24.8
|
1.0
|
C24
|
E:YAL9000
|
4.3
|
25.0
|
1.0
|
CB
|
E:PHE378
|
4.3
|
37.0
|
1.0
|
CE1
|
E:PHE388
|
4.3
|
32.3
|
1.0
|
C14
|
E:YAL9000
|
4.4
|
27.9
|
1.0
|
CB
|
E:VAL376
|
4.4
|
29.2
|
1.0
|
CG
|
E:PHE378
|
4.4
|
38.1
|
1.0
|
C8
|
E:YAL9000
|
4.5
|
23.9
|
1.0
|
CE1
|
E:PHE378
|
4.5
|
34.0
|
1.0
|
CA
|
E:PHE378
|
4.6
|
34.8
|
1.0
|
C
|
E:PHE377
|
4.6
|
32.1
|
1.0
|
CE2
|
E:PHE388
|
4.6
|
26.2
|
1.0
|
C28
|
E:YAL9000
|
4.8
|
30.6
|
1.0
|
N
|
E:PHE378
|
4.9
|
37.2
|
1.0
|
C4
|
E:YAL9000
|
4.9
|
23.0
|
1.0
|
O3
|
E:YAL9000
|
5.0
|
25.4
|
1.0
|
|
Chlorine binding site 4 out
of 4 in 8x7e
Go back to
Chlorine Binding Sites List in 8x7e
Chlorine binding site 4 out
of 4 in the Crystal Structure of the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151
 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 the Mutant Human Ror Gamma Ligand Binding Domain with Jte-151 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Cl9000
b:31.5
occ:1.00
|
CL1
|
G:YAL9000
|
0.0
|
31.5
|
1.0
|
C11
|
G:YAL9000
|
1.7
|
30.9
|
1.0
|
C10
|
G:YAL9000
|
2.7
|
27.4
|
1.0
|
C6
|
G:YAL9000
|
2.8
|
26.5
|
1.0
|
N2
|
G:YAL9000
|
3.1
|
28.6
|
1.0
|
CZ
|
G:PHE388
|
3.4
|
32.9
|
1.0
|
O16
|
G:YAL9000
|
3.6
|
41.6
|
1.0
|
CD1
|
G:PHE378
|
3.7
|
38.0
|
1.0
|
C23
|
G:YAL9000
|
3.7
|
33.1
|
1.0
|
CG2
|
G:VAL376
|
3.7
|
34.1
|
1.0
|
C17
|
G:YAL9000
|
3.8
|
34.0
|
1.0
|
O
|
G:PHE377
|
4.0
|
33.8
|
1.0
|
C9
|
G:YAL9000
|
4.0
|
29.6
|
1.0
|
N15
|
G:YAL9000
|
4.0
|
38.9
|
1.0
|
C7
|
G:YAL9000
|
4.0
|
29.7
|
1.0
|
CE1
|
G:PHE388
|
4.1
|
32.7
|
1.0
|
CE2
|
G:PHE388
|
4.2
|
36.5
|
1.0
|
C26
|
G:YAL9000
|
4.2
|
34.5
|
1.0
|
C22
|
G:YAL9000
|
4.2
|
31.8
|
1.0
|
CB
|
G:VAL376
|
4.3
|
34.6
|
1.0
|
C25
|
G:YAL9000
|
4.3
|
34.5
|
1.0
|
C18
|
G:YAL9000
|
4.3
|
36.5
|
1.0
|
C24
|
G:YAL9000
|
4.4
|
33.9
|
1.0
|
C31
|
G:YAL9000
|
4.4
|
29.7
|
1.0
|
CB
|
G:PHE378
|
4.4
|
37.4
|
1.0
|
C14
|
G:YAL9000
|
4.4
|
35.5
|
1.0
|
CE1
|
G:PHE378
|
4.5
|
36.9
|
1.0
|
CG
|
G:PHE378
|
4.5
|
39.4
|
1.0
|
C8
|
G:YAL9000
|
4.5
|
25.4
|
1.0
|
C
|
G:PHE377
|
4.7
|
34.1
|
1.0
|
CA
|
G:PHE378
|
4.8
|
34.2
|
1.0
|
C28
|
G:YAL9000
|
4.8
|
35.3
|
1.0
|
|
Reference:
T.Maeba,
K.Hirata,
M.Kotoku,
N.Seki,
K.Maeda,
S.Hirashima,
H.Yamanaka,
T.Sakai,
S.Obika,
A.Hori,
Y.Hara,
S.Noji,
Y.Suwa,
M.Yokota,
S.Fujioka,
T.Yamaguchi,
Y.Katsuda,
T.Hata,
N.Miyagawa,
K.Arita,
Y.Nomura,
T.Taniguchi,
K.Asahina,
Y.Aratsu,
Y.Naka,
T.Adachi,
A.Nomura,
S.Akai,
S.I.Oshida,
S.Pai,
P.Crowe,
E.Bradley,
R.Steensma,
H.Tao,
M.Fenn,
R.Babine,
X.Li,
S.Thacher,
T.Soeta,
Y.Ukaji,
M.Shiozaki.
Discovery and Sar of Jte-151: A Novel Ror Gamma Inhibitor For Clinical Development. J.Med.Chem. V. 67 952 2024.
ISSN: ISSN 0022-2623
PubMed: 38170624
DOI: 10.1021/ACS.JMEDCHEM.3C01933
Page generated: Tue Dec 10 19:28:23 2024
|