1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Oltersdorf, T.
Elmore, S.W.
Shoemaker, A.R.
Armstrong, R.C.
Augeri, D.J.
Belli, B.A.
Bruncko, M.
Deckwerth, T.L.
Dinges, J.
Hajduk, P.J.
Joseph, M.K.
Kitada, S.
Korsmeyer, S.J.
Kunzer, A.R.
Letai, A.
Li, C.
Mitten, M.J.
Nettesheim, D.G.
Ng, S.
Nimmer, P.M.
O'Connor, J.M.
Oleksijew, A.
Petros, A.M.
Reed, J.C.
Shen, W.
Tahir, S.K.
Thompson, C.B.
Tomaselli, K.J.
Wang, B.
Wendt, M.D.
Zhang, H.
Fesik, S.W.
Rosenberg, S.H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C27 H22 F N3 O5 S2
551.609
N-[(4'-FLUORO-1,1'-BIPHENYL-4-YL)CARBONYL]-3-NITRO-4-{[2-(PHENYLSULFANYL)ETHYL]AMINO}BENZENESULFONAMIDE
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
Nature
NATUAS
0006
0028-0836
435
677
681
10.1038/nature03579
15902208
An inhibitor of Bcl-2 family proteins induces regression of solid tumours
2005
10.2210/pdb1ysi/pdb
pdb_00001ysi
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
20804.918
Apoptosis regulator Bcl-X
1
man
polymer
551.609
N-[(4'-FLUORO-1,1'-BIPHENYL-4-YL)CARBONYL]-3-NITRO-4-{[2-(PHENYLSULFANYL)ETHYL]AMINO}BENZENESULFONAMIDE
1
syn
non-polymer
Bcl-2-like 1 protein
no
no
MSMAMSQSNRELVVDFLSYKLSQKGYSWSQFSDVEENRTEAPEGTESEAVKQALREAGDEFELRYRRAFSDLTSQLHITP
GTAYQSFEQVVNELFRDGVNWGRIVAFFSFGGALCVESVDKEMQVLVSRIAAWMATYLNDHLEPWIQENGGWDTFVELYG
NNAAAESRKGQERLEHHHHHH
MSMAMSQSNRELVVDFLSYKLSQKGYSWSQFSDVEENRTEAPEGTESEAVKQALREAGDEFELRYRRAFSDLTSQLHITP
GTAYQSFEQVVNELFRDGVNWGRIVAFFSFGGALCVESVDKEMQVLVSRIAAWMATYLNDHLEPWIQENGGWDTFVELYG
NNAAAESRKGQERLEHHHHHH
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
human
Homo
Escherichia
Escherichia coli
sample
BCL2L1, BCL2L, BCLX
9606
Homo sapiens
469008
Escherichia coli BL21(DE3)
BL21(DE3)
plasmid
pET30b
atom_site
database_2
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Atomic model
Database references
Derived calculations
1
0
2005-06-07
1
1
2007-10-17
1
2
2011-07-13
2
0
2022-03-02
_atom_site.B_iso_or_equiv
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
solution structure of same protein, uncomplexed
crystal structure of same protein, uncomplexed
solution structure of same protein complexed with bak peptide
solution structure of same protein complexed with bad peptide
SEQUENCE
RESIDUES 49-88 (SEQUENCE DATABASE RESIDUES 45-84)
ARE NOT PRESENT DUE TO A LOOP DELETION.
RCSB
Y
RCSB
2005-02-08
REL
N3B
N-[(4'-FLUORO-1,1'-BIPHENYL-4-YL)CARBONYL]-3-NITRO-4-{[2-(PHENYLSULFANYL)ETHYL]AMINO}BENZENESULFONAMIDE
1
3D_13C-separated_NOESY
3D_13C-edited_12C-filtered_NOESY
50 mM
7.0
ambient
303
K
simulated annealing
1mM Bcl-xL U-15N,13C 50mM sodium phosphate, 5 mM deuterated Dithiothreitol, 100% D2O
100% D2O
Brunger
refinement
X-PLOR
3.1
600
Bruker
DRX
N3B
1000
2
N3B
N3B
1000
A
MET
1
n
1
MET
1
A
SER
2
n
2
SER
2
A
MET
3
n
3
MET
3
A
ALA
4
n
4
ALA
4
A
MET
5
n
5
MET
5
A
SER
6
n
6
SER
6
A
GLN
7
n
7
GLN
7
A
SER
8
n
8
SER
8
A
ASN
9
n
9
ASN
9
A
ARG
10
n
10
ARG
10
A
GLU
11
n
11
GLU
11
A
LEU
12
n
12
LEU
12
A
VAL
13
n
13
VAL
13
A
VAL
14
n
14
VAL
14
A
ASP
15
n
15
ASP
15
A
PHE
16
n
16
PHE
16
A
LEU
17
n
17
LEU
17
A
SER
18
n
18
SER
18
A
TYR
19
n
19
TYR
19
A
LYS
20
n
20
LYS
20
A
LEU
21
n
21
LEU
21
A
SER
22
n
22
SER
22
A
GLN
23
n
23
GLN
23
A
LYS
24
n
24
LYS
24
A
GLY
25
n
25
GLY
25
A
TYR
26
n
26
TYR
26
A
SER
27
n
27
SER
27
A
TRP
28
n
28
TRP
28
A
SER
29
n
29
SER
29
A
GLN
30
n
30
GLN
30
A
PHE
31
n
31
PHE
31
A
SER
32
n
32
SER
32
A
ASP
33
n
33
ASP
33
A
VAL
34
n
34
VAL
34
A
GLU
35
n
35
GLU
35
A
GLU
36
n
36
GLU
36
A
ASN
37
n
37
ASN
37
A
ARG
38
n
38
ARG
38
A
THR
39
n
39
THR
39
A
GLU
40
n
40
GLU
40
A
ALA
41
n
41
ALA
41
A
PRO
42
n
42
PRO
42
A
GLU
43
n
43
GLU
43
A
GLY
44
n
44
GLY
44
A
THR
45
n
45
THR
45
A
GLU
46
n
46
GLU
46
A
SER
47
n
47
SER
47
A
GLU
48
n
48
GLU
48
A
ALA
89
n
49
ALA
89
A
VAL
90
n
50
VAL
90
A
LYS
91
n
51
LYS
91
A
GLN
92
n
52
GLN
92
A
ALA
93
n
53
ALA
93
A
LEU
94
n
54
LEU
94
A
ARG
95
n
55
ARG
95
A
GLU
96
n
56
GLU
96
A
ALA
97
n
57
ALA
97
A
GLY
98
n
58
GLY
98
A
ASP
99
n
59
ASP
99
A
GLU
100
n
60
GLU
100
A
PHE
101
n
61
PHE
101
A
GLU
102
n
62
GLU
102
A
LEU
103
n
63
LEU
103
A
ARG
104
n
64
ARG
104
A
TYR
105
n
65
TYR
105
A
ARG
106
n
66
ARG
106
A
ARG
107
n
67
ARG
107
A
ALA
108
n
68
ALA
108
A
PHE
109
n
69
PHE
109
A
SER
110
n
70
SER
110
A
ASP
111
n
71
ASP
111
A
LEU
112
n
72
LEU
112
A
THR
113
n
73
THR
113
A
SER
114
n
74
SER
114
A
GLN
115
n
75
GLN
115
A
LEU
116
n
76
LEU
116
A
HIS
117
n
77
HIS
117
A
ILE
118
n
78
ILE
118
A
THR
119
n
79
THR
119
A
PRO
120
n
80
PRO
120
A
GLY
121
n
81
GLY
121
A
THR
122
n
82
THR
122
A
ALA
123
n
83
ALA
123
A
TYR
124
n
84
TYR
124
A
GLN
125
n
85
GLN
125
A
SER
126
n
86
SER
126
A
PHE
127
n
87
PHE
127
A
GLU
128
n
88
GLU
128
A
GLN
129
n
89
GLN
129
A
VAL
130
n
90
VAL
130
A
VAL
131
n
91
VAL
131
A
ASN
132
n
92
ASN
132
A
GLU
133
n
93
GLU
133
A
LEU
134
n
94
LEU
134
A
PHE
135
n
95
PHE
135
A
ARG
136
n
96
ARG
136
A
ASP
137
n
97
ASP
137
A
GLY
138
n
98
GLY
138
A
VAL
139
n
99
VAL
139
A
ASN
140
n
100
ASN
140
A
TRP
141
n
101
TRP
141
A
GLY
142
n
102
GLY
142
A
ARG
143
n
103
ARG
143
A
ILE
144
n
104
ILE
144
A
VAL
145
n
105
VAL
145
A
ALA
146
n
106
ALA
146
A
PHE
147
n
107
PHE
147
A
PHE
148
n
108
PHE
148
A
SER
149
n
109
SER
149
A
PHE
150
n
110
PHE
150
A
GLY
151
n
111
GLY
151
A
GLY
152
n
112
GLY
152
A
ALA
153
n
113
ALA
153
A
LEU
154
n
114
LEU
154
A
CYS
155
n
115
CYS
155
A
VAL
156
n
116
VAL
156
A
GLU
157
n
117
GLU
157
A
SER
158
n
118
SER
158
A
VAL
159
n
119
VAL
159
A
ASP
160
n
120
ASP
160
A
LYS
161
n
121
LYS
161
A
GLU
162
n
122
GLU
162
A
MET
163
n
123
MET
163
A
GLN
164
n
124
GLN
164
A
VAL
165
n
125
VAL
165
A
LEU
166
n
126
LEU
166
A
VAL
167
n
127
VAL
167
A
SER
168
n
128
SER
168
A
ARG
169
n
129
ARG
169
A
ILE
170
n
130
ILE
170
A
ALA
171
n
131
ALA
171
A
ALA
172
n
132
ALA
172
A
TRP
173
n
133
TRP
173
A
MET
174
n
134
MET
174
A
ALA
175
n
135
ALA
175
A
THR
176
n
136
THR
176
A
TYR
177
n
137
TYR
177
A
LEU
178
n
138
LEU
178
A
ASN
179
n
139
ASN
179
A
ASP
180
n
140
ASP
180
A
HIS
181
n
141
HIS
181
A
LEU
182
n
142
LEU
182
A
GLU
183
n
143
GLU
183
A
PRO
184
n
144
PRO
184
A
TRP
185
n
145
TRP
185
A
ILE
186
n
146
ILE
186
A
GLN
187
n
147
GLN
187
A
GLU
188
n
148
GLU
188
A
ASN
189
n
149
ASN
189
A
GLY
190
n
150
GLY
190
A
GLY
191
n
151
GLY
191
A
TRP
192
n
152
TRP
192
A
ASP
193
n
153
ASP
193
A
THR
194
n
154
THR
194
A
PHE
195
n
155
PHE
195
A
VAL
196
n
156
VAL
196
A
GLU
197
n
157
GLU
197
A
LEU
198
n
158
LEU
198
A
TYR
199
n
159
TYR
199
A
GLY
200
n
160
GLY
200
A
ASN
201
n
161
ASN
201
A
ASN
202
n
162
ASN
202
A
ALA
203
n
163
ALA
203
A
ALA
204
n
164
ALA
204
A
ALA
205
n
165
ALA
205
A
GLU
206
n
166
GLU
206
A
SER
207
n
167
SER
207
A
ARG
208
n
168
ARG
208
A
LYS
209
n
169
LYS
209
A
GLY
210
n
170
GLY
210
A
GLN
211
n
171
GLN
211
A
GLU
212
n
172
GLU
212
A
ARG
213
n
173
ARG
213
A
LEU
214
n
174
LEU
214
A
GLU
215
n
175
GLU
215
A
HIS
216
n
176
HIS
216
A
HIS
217
n
177
HIS
217
A
HIS
218
n
178
HIS
218
A
HIS
219
n
179
HIS
219
A
HIS
220
n
180
HIS
220
A
HIS
221
n
181
HIS
221
A
author_defined_assembly
1
monomeric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
ARG
10
0.293
SIDE CHAIN
1
A
ARG
38
0.316
SIDE CHAIN
1
A
ARG
95
0.267
SIDE CHAIN
1
A
ARG
104
0.305
SIDE CHAIN
1
A
ARG
106
0.273
SIDE CHAIN
1
A
ARG
107
0.280
SIDE CHAIN
1
A
ARG
136
0.277
SIDE CHAIN
1
A
ARG
143
0.196
SIDE CHAIN
1
A
ARG
169
0.307
SIDE CHAIN
1
A
ARG
208
0.309
SIDE CHAIN
1
A
ARG
213
0.317
SIDE CHAIN
1
A
MET
3
34.65
55.83
1
A
GLN
7
-164.78
33.99
1
A
ASN
9
-122.23
-52.94
1
A
SER
27
66.24
-158.15
1
A
TRP
28
-150.55
-45.25
1
A
PHE
31
-55.81
-72.29
1
A
ASP
33
62.74
-124.27
1
A
VAL
34
79.54
140.82
1
A
ASN
37
-54.36
-79.24
1
A
ARG
38
174.13
-71.15
1
A
THR
39
65.16
61.85
1
A
GLU
43
61.03
-84.79
1
A
THR
45
-165.08
-43.06
1
A
GLU
46
32.78
39.75
1
A
GLU
102
-92.42
48.61
1
A
LEU
103
-150.85
-57.66
1
A
TYR
105
-102.40
76.55
1
A
ALA
108
-105.86
-70.82
1
A
ALA
123
179.52
-77.79
1
A
LYS
161
-78.20
-76.41
1
A
GLU
162
-178.06
37.76
1
A
ASP
180
-141.44
13.46
1
A
LEU
182
-177.62
-36.74
1
A
ASN
202
-142.22
54.86
1
A
ARG
208
64.29
-81.35
1
A
LYS
209
-58.83
-97.96
1
A
GLN
211
-52.58
-89.88
1
A
GLU
212
52.84
75.69
1
A
ARG
213
69.52
-69.03
1
A
LEU
214
-165.23
32.81
Solution structure of the anti-apoptotic protein Bcl-xL in complex with an acyl-sulfonamide-based ligand
1
N
N
2
N
N
A
ASN
9
A
ASN
9
HELX_P
A
GLY
25
A
GLY
25
1
1
17
A
ALA
89
A
ALA
49
HELX_P
A
TYR
105
A
TYR
65
1
2
17
A
PHE
109
A
PHE
69
HELX_P
A
GLN
115
A
GLN
75
1
3
7
A
ALA
123
A
ALA
83
HELX_P
A
PHE
135
A
PHE
95
1
4
13
A
ASN
140
A
ASN
100
HELX_P
A
GLU
162
A
GLU
122
1
5
23
A
LEU
166
A
LEU
126
HELX_P
A
ASP
180
A
ASP
140
1
6
15
A
LEU
182
A
LEU
142
HELX_P
A
GLY
190
A
GLY
150
1
7
9
A
GLY
191
A
GLY
151
HELX_P
A
LEU
198
A
LEU
158
1
8
8
APOPTOSIS
COMPLEX, APOPTOSIS
BCLX_HUMAN
UNP
1
1
Q07817
MSQSNRELVVDFLSYKLSQKGYSWSQFSDVEENRTEAPEGTESE
BCLX_HUMAN
UNP
1
85
Q07817
AVKQALREAGDEFELRYRRAFSDLTSQLHITPGTAYQSFEQVVNELFRDGVNWGRIVAFFSFGGALCVESVDKEMQVLVS
RIAAWMATYLNDHLEPWIQENGGWDTFVELYGNNAAAESRKGQER
1
44
1YSI
5
48
Q07817
A
1
5
48
85
209
1YSI
89
213
Q07817
A
2
49
173
1
expression tag
MET
1
1YSI
A
Q07817
UNP
1
1
expression tag
SER
2
1YSI
A
Q07817
UNP
2
1
expression tag
MET
3
1YSI
A
Q07817
UNP
3
1
expression tag
ALA
4
1YSI
A
Q07817
UNP
4
1
expression tag
LEU
214
1YSI
A
Q07817
UNP
174
1
expression tag
GLU
215
1YSI
A
Q07817
UNP
175
1
expression tag
HIS
216
1YSI
A
Q07817
UNP
176
1
expression tag
HIS
217
1YSI
A
Q07817
UNP
177
1
expression tag
HIS
218
1YSI
A
Q07817
UNP
178
1
expression tag
HIS
219
1YSI
A
Q07817
UNP
179
1
expression tag
HIS
220
1YSI
A
Q07817
UNP
180
1
expression tag
HIS
181
1YSI
A
Q07817
UNP
141
BINDING SITE FOR RESIDUE N3B A 1000
A
N3B
1000
Software
10
A
PHE
101
A
PHE
61
10
1_555
A
TYR
105
A
TYR
65
10
1_555
A
ALA
108
A
ALA
68
10
1_555
A
PHE
109
A
PHE
69
10
1_555
A
LEU
134
A
LEU
94
10
1_555
A
ASN
140
A
ASN
100
10
1_555
A
GLY
142
A
GLY
102
10
1_555
A
ARG
143
A
ARG
103
10
1_555
A
VAL
145
A
VAL
105
10
1_555
A
TYR
199
A
TYR
159
10
1_555
1
P 1