0.016175
0.009339
0.000000
0.000000
0.018677
0.000000
0.000000
0.000000
0.007274
0.00000
0.00000
0.00000
Wang, H.
Kishishita, S.
Murayama, K.
Takemoto, C.
Terada, T.
Shirouzu, M.
RIKEN Structural Genomics/Proteomics Initiative (RSGI)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
61.824
61.824
137.482
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
H2 O
18.015
WATER
non-polymer
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 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
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
O4 S -2
96.063
SULFATE ION
non-polymer
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
US
J.Struct.Biol.
JSBIEM
0803
1047-8477
166
32
37
10.1016/j.jsb.2008.12.003
19135534
Novel dimerization mode of the human Bcl-2 family protein Bak, a mitochondrial apoptosis regulator.
2009
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
IMAGE PLATE
2006-10-30
MAR scanner 300 mm plate
SINGLE WAVELENGTH
M
x-ray
1
0.97105
1.0
22-ID
APS
0.97105
SYNCHROTRON
APS BEAMLINE 22-ID
18641.266
Bcl-2 homologous antagonist/killer
residues 23-185
1
man
polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
19
nat
water
MS0836, Apoptosis regulator BAK, Bcl-2-like 7 protein
no
yes
SEEQVAQDTEEVFRSYVFYRHQQEQEAEGVAAPADPE(MSE)VTLPLQPSST(MSE)GQVGRQLAIIGDDINRRYDSEFQ
T(MSE)LQHLQPTAENAYEYFTKIATSLFESGINWGRVVALLGFGYRLALHVYQHGLTGFLGQVTRFVVDF(MSE)LHHC
IARWIAQRGGWVAALNLGN
SEEQVAQDTEEVFRSYVFYRHQQEQEAEGVAAPADPEMVTLPLQPSSTMGQVGRQLAIIGDDINRRYDSEFQTMLQHLQP
TAENAYEYFTKIATSLFESGINWGRVVALLGFGYRLALHVYQHGLTGFLGQVTRFVVDFMLHHCIARWIAQRGGWVAALN
LGN
A
hss001003453.1
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
human
sample
9606
Homo sapiens
Cell-free protein synthesis
PLASMID
PK060220-06
1
2.03
39.54
VAPOR DIFFUSION, HANGING DROP
5.2
ammonium sulfate, iso-propanol, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
RIKEN Structural Genomics/Proteomics Initiative
RSGI
NPPSFA, National Project on Protein Structural and Functional Analyses
repository
Initial release
Version format compliance
Version format compliance
1
0
2008-04-15
1
1
2008-10-08
1
2
2011-07-13
Y
PDBJ
Y
PDBJ
2007-04-09
REL
REL
SO4
SULFATE ION
HOH
water
SO4
201
2
SO4
SO4
201
A
HOH
202
3
HOH
HOH
202
A
HOH
203
3
HOH
HOH
203
A
HOH
204
3
HOH
HOH
204
A
HOH
205
3
HOH
HOH
205
A
HOH
206
3
HOH
HOH
206
A
HOH
207
3
HOH
HOH
207
A
HOH
208
3
HOH
HOH
208
A
HOH
209
3
HOH
HOH
209
A
HOH
210
3
HOH
HOH
210
A
HOH
211
3
HOH
HOH
211
A
HOH
212
3
HOH
HOH
212
A
HOH
213
3
HOH
HOH
213
A
HOH
214
3
HOH
HOH
214
A
HOH
215
3
HOH
HOH
215
A
HOH
216
3
HOH
HOH
216
A
HOH
217
3
HOH
HOH
217
A
HOH
218
3
HOH
HOH
218
A
HOH
219
3
HOH
HOH
219
A
HOH
220
3
HOH
HOH
220
A
SER
23
n
1
SER
23
A
GLU
24
n
2
GLU
24
A
GLU
25
n
3
GLU
25
A
GLN
26
n
4
GLN
26
A
VAL
27
n
5
VAL
27
A
ALA
28
n
6
ALA
28
A
GLN
29
n
7
GLN
29
A
ASP
30
n
8
ASP
30
A
THR
31
n
9
THR
31
A
GLU
32
n
10
GLU
32
A
GLU
33
n
11
GLU
33
A
VAL
34
n
12
VAL
34
A
PHE
35
n
13
PHE
35
A
ARG
36
n
14
ARG
36
A
SER
37
n
15
SER
37
A
TYR
38
n
16
TYR
38
A
VAL
39
n
17
VAL
39
A
PHE
40
n
18
PHE
40
A
TYR
41
n
19
TYR
41
A
ARG
42
n
20
ARG
42
A
HIS
43
n
21
HIS
43
A
GLN
44
n
22
GLN
44
A
GLN
45
n
23
GLN
45
A
GLU
46
n
24
GLU
46
A
GLN
47
n
25
GLN
47
A
GLU
48
n
26
GLU
48
A
n
27
49
A
n
28
50
A
n
29
51
A
VAL
52
n
30
VAL
52
A
ALA
53
n
31
ALA
53
A
ALA
54
n
32
ALA
54
A
PRO
55
n
33
PRO
55
A
ALA
56
n
34
ALA
56
A
ASP
57
n
35
ASP
57
A
PRO
58
n
36
PRO
58
A
GLU
59
n
37
GLU
59
A
MSE
60
n
38
MSE
60
A
VAL
61
n
39
VAL
61
A
THR
62
n
40
THR
62
A
LEU
63
n
41
LEU
63
A
PRO
64
n
42
PRO
64
A
LEU
65
n
43
LEU
65
A
GLN
66
n
44
GLN
66
A
PRO
67
n
45
PRO
67
A
SER
68
n
46
SER
68
A
SER
69
n
47
SER
69
A
THR
70
n
48
THR
70
A
MSE
71
n
49
MSE
71
A
GLY
72
n
50
GLY
72
A
GLN
73
n
51
GLN
73
A
VAL
74
n
52
VAL
74
A
GLY
75
n
53
GLY
75
A
ARG
76
n
54
ARG
76
A
GLN
77
n
55
GLN
77
A
LEU
78
n
56
LEU
78
A
ALA
79
n
57
ALA
79
A
ILE
80
n
58
ILE
80
A
ILE
81
n
59
ILE
81
A
GLY
82
n
60
GLY
82
A
ASP
83
n
61
ASP
83
A
ASP
84
n
62
ASP
84
A
ILE
85
n
63
ILE
85
A
ASN
86
n
64
ASN
86
A
ARG
87
n
65
ARG
87
A
ARG
88
n
66
ARG
88
A
TYR
89
n
67
TYR
89
A
ASP
90
n
68
ASP
90
A
SER
91
n
69
SER
91
A
GLU
92
n
70
GLU
92
A
PHE
93
n
71
PHE
93
A
GLN
94
n
72
GLN
94
A
THR
95
n
73
THR
95
A
MSE
96
n
74
MSE
96
A
LEU
97
n
75
LEU
97
A
GLN
98
n
76
GLN
98
A
HIS
99
n
77
HIS
99
A
LEU
100
n
78
LEU
100
A
GLN
101
n
79
GLN
101
A
PRO
102
n
80
PRO
102
A
THR
103
n
81
THR
103
A
ALA
104
n
82
ALA
104
A
GLU
105
n
83
GLU
105
A
ASN
106
n
84
ASN
106
A
ALA
107
n
85
ALA
107
A
TYR
108
n
86
TYR
108
A
GLU
109
n
87
GLU
109
A
TYR
110
n
88
TYR
110
A
PHE
111
n
89
PHE
111
A
THR
112
n
90
THR
112
A
LYS
113
n
91
LYS
113
A
ILE
114
n
92
ILE
114
A
ALA
115
n
93
ALA
115
A
THR
116
n
94
THR
116
A
SER
117
n
95
SER
117
A
LEU
118
n
96
LEU
118
A
PHE
119
n
97
PHE
119
A
GLU
120
n
98
GLU
120
A
SER
121
n
99
SER
121
A
GLY
122
n
100
GLY
122
A
ILE
123
n
101
ILE
123
A
ASN
124
n
102
ASN
124
A
TRP
125
n
103
TRP
125
A
GLY
126
n
104
GLY
126
A
ARG
127
n
105
ARG
127
A
VAL
128
n
106
VAL
128
A
VAL
129
n
107
VAL
129
A
ALA
130
n
108
ALA
130
A
LEU
131
n
109
LEU
131
A
LEU
132
n
110
LEU
132
A
GLY
133
n
111
GLY
133
A
PHE
134
n
112
PHE
134
A
GLY
135
n
113
GLY
135
A
TYR
136
n
114
TYR
136
A
ARG
137
n
115
ARG
137
A
LEU
138
n
116
LEU
138
A
ALA
139
n
117
ALA
139
A
LEU
140
n
118
LEU
140
A
HIS
141
n
119
HIS
141
A
VAL
142
n
120
VAL
142
A
TYR
143
n
121
TYR
143
A
GLN
144
n
122
GLN
144
A
HIS
145
n
123
HIS
145
A
GLY
146
n
124
GLY
146
A
LEU
147
n
125
LEU
147
A
THR
148
n
126
THR
148
A
GLY
149
n
127
GLY
149
A
PHE
150
n
128
PHE
150
A
LEU
151
n
129
LEU
151
A
GLY
152
n
130
GLY
152
A
GLN
153
n
131
GLN
153
A
VAL
154
n
132
VAL
154
A
THR
155
n
133
THR
155
A
ARG
156
n
134
ARG
156
A
PHE
157
n
135
PHE
157
A
VAL
158
n
136
VAL
158
A
VAL
159
n
137
VAL
159
A
ASP
160
n
138
ASP
160
A
PHE
161
n
139
PHE
161
A
MSE
162
n
140
MSE
162
A
LEU
163
n
141
LEU
163
A
HIS
164
n
142
HIS
164
A
HIS
165
n
143
HIS
165
A
CYS
166
n
144
CYS
166
A
ILE
167
n
145
ILE
167
A
ALA
168
n
146
ALA
168
A
ARG
169
n
147
ARG
169
A
TRP
170
n
148
TRP
170
A
ILE
171
n
149
ILE
171
A
ALA
172
n
150
ALA
172
A
GLN
173
n
151
GLN
173
A
ARG
174
n
152
ARG
174
A
GLY
175
n
153
GLY
175
A
GLY
176
n
154
GLY
176
A
TRP
177
n
155
TRP
177
A
VAL
178
n
156
VAL
178
A
ALA
179
n
157
ALA
179
A
ALA
180
n
158
ALA
180
A
LEU
181
n
159
LEU
181
A
ASN
182
n
160
ASN
182
A
LEU
183
n
161
LEU
183
A
GLY
184
n
162
GLY
184
A
n
163
185
A
author_and_software_defined_assembly
PISA
1
monomeric
A
MSE
60
SELENOMETHIONINE
A
MSE
38
MET
A
MSE
71
SELENOMETHIONINE
A
MSE
49
MET
A
MSE
96
SELENOMETHIONINE
A
MSE
74
MET
A
MSE
162
SELENOMETHIONINE
A
MSE
140
MET
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
ALA
49
A
ALA
27
1
Y
1
A
GLU
50
A
GLU
28
1
Y
1
A
GLY
51
A
GLY
29
1
Y
1
A
ASN
185
A
ASN
163
1
Y
1
10.35
1.50
119.30
129.65
A
A
A
C
N
CA
LEU
PRO
PRO
63
64
64
Y
1
10.71
1.50
119.30
130.01
A
A
A
C
N
CA
GLN
PRO
PRO
66
67
67
Y
1
9.31
1.50
119.30
128.61
A
A
A
C
N
CA
GLN
PRO
PRO
101
102
102
Y
1
A
ALA
53
-101.39
76.25
1
A
PRO
64
-39.30
-10.15
1
A
LEU
65
-24.94
147.69
1
A
PRO
67
-17.43
-58.21
1
A
HIS
99
-46.44
-74.34
1
A
GLN
101
13.64
88.08
1
A
ALA
107
-32.81
-29.75
1
A
SER
121
-90.69
58.59
protein_rep.param
protein.top
water_rep.param
ion.param
50.2
-3.40
2.27
0.00
-3.40
0.00
6.81
0.248
0.014
0.214
0.214
2.50
49.89
333
5832
5.7
99.4
RANDOM
150963.68
0.000000
1
RESTRAINED
THROUGHOUT
0.0
SAD
FLAT MODEL
60.1895
0.383717
0.37
0.29
5.00
0.21
0.16
2.50
49.89
19
1300
5
0
1276
0.008
1.7
21.7
0.93
0.298
0.040
0.199
2.66
55
867
6
6.0
98.7
29.1
2.5
50
2YV6
5908
-3
0.092
1
25.9
22.2
99.8
2.50
2.59
14.6
563
0.265
23.3
100
refinement
CNS
1.1
data collection
HKL-2000
data reduction
HKL-2000
data scaling
HKL-2000
phasing
SOLVE
Bcl-2 homologous antagonist/killer
Crystal structure of human Bcl-2 family protein Bak
1
N
N
2
N
N
3
N
N
A
SER
23
A
SER
1
HELX_P
A
GLU
46
A
GLU
24
1
1
24
A
ASP
57
A
ASP
35
HELX_P
A
VAL
61
A
VAL
39
5
2
5
A
SER
69
A
SER
47
HELX_P
A
GLN
101
A
GLN
79
1
3
33
A
ASN
106
A
ASN
84
HELX_P
A
PHE
119
A
PHE
97
1
4
14
A
ASN
124
A
ASN
102
HELX_P
A
HIS
145
A
HIS
123
1
5
22
A
PHE
150
A
PHE
128
HELX_P
A
HIS
165
A
HIS
143
1
6
16
A
CYS
166
A
CYS
144
HELX_P
A
ARG
174
A
ARG
152
1
7
9
A
GLY
176
A
GLY
154
HELX_P
A
LEU
183
A
LEU
161
5
8
8
disulf
2.347
A
CYS
166
A
SG
CYS
144
1_555
A
CYS
166
A
SG
CYS
144
12_544
covale
1.329
A
GLU
59
A
C
GLU
37
1_555
A
MSE
60
A
N
MSE
38
1_555
covale
1.330
A
MSE
60
A
C
MSE
38
1_555
A
VAL
61
A
N
VAL
39
1_555
covale
1.333
A
THR
70
A
C
THR
48
1_555
A
MSE
71
A
N
MSE
49
1_555
covale
1.331
A
MSE
71
A
C
MSE
49
1_555
A
GLY
72
A
N
GLY
50
1_555
covale
1.327
A
THR
95
A
C
THR
73
1_555
A
MSE
96
A
N
MSE
74
1_555
covale
1.327
A
MSE
96
A
C
MSE
74
1_555
A
LEU
97
A
N
LEU
75
1_555
covale
1.330
A
PHE
161
A
C
PHE
139
1_555
A
MSE
162
A
N
MSE
140
1_555
covale
1.326
A
MSE
162
A
C
MSE
140
1_555
A
LEU
163
A
N
LEU
141
1_555
APOPTOSIS
STRUCTURE GENOMICS, BCL domain, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Apoptosis
BAK_HUMAN
UNP
1
23
Q16611
SEEQVAQDTEEVFRSYVFYRHQQEQEAEGVAAPADPEMVTLPLQPSSTMGQVGRQLAIIGDDINRRYDSEFQTMLQHLQP
TAENAYEYFTKIATSLFESGINWGRVVALLGFGYRLALHVYQHGLTGFLGQVTRFVVDFMLHHCIARWIAQRGGWVAALN
LGN
23
185
2YV6
23
185
Q16611
A
1
1
163
BINDING SITE FOR RESIDUE SO4 A 201
Software
8
A
ASN
124
A
ASN
102
8
1_555
A
TRP
125
A
TRP
103
8
1_555
A
GLY
152
A
GLY
130
8
8_545
A
ARG
156
A
ARG
134
8
8_545
A
TRP
170
A
TRP
148
8
1_555
A
ARG
174
A
ARG
152
8
1_555
A
HOH
206
C
HOH
8
8_545
A
HOH
207
C
HOH
8
1_555
179
P 65 2 2