1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Park, S.H.
Mrse, A.A.
Nevzorov, A.A.
Mesleh, M.F.
Oblatt-Montal, M.
Montal, M.
Opella, S.J.
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
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 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
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
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
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
C
N
48
N
O
N
49
N
N
N
50
N
O
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
N
N
62
S
C
N
63
N
C
N
64
N
O
N
65
N
C
N
66
N
C
N
67
N
C
N
68
N
O
N
69
N
O
N
70
N
O
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
H
N
79
N
H
N
80
N
N
N
81
N
C
N
82
N
C
N
83
N
O
N
84
N
O
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
N
N
91
S
C
N
92
N
C
N
93
N
O
N
94
S
C
N
95
N
C
N
96
N
C
N
97
N
C
N
98
N
O
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
N
N
113
S
C
N
114
N
C
N
115
N
O
N
116
N
C
N
117
N
C
N
118
N
C
N
119
N
C
N
120
N
O
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
N
N
135
S
C
N
136
N
C
N
137
N
O
N
138
N
C
N
139
N
C
N
140
N
C
N
141
N
C
N
142
N
N
N
143
N
O
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
N
N
160
S
C
N
161
N
C
N
162
N
O
N
163
N
C
N
164
N
C
N
165
N
S
N
166
N
C
N
167
N
O
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
N
N
180
S
C
N
181
N
C
N
182
N
O
N
183
N
C
N
184
N
C
N
185
N
C
N
186
N
O
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
N
N
197
S
C
N
198
N
C
N
199
N
O
N
200
N
C
N
201
N
O
N
202
N
O
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
N
N
211
S
C
N
212
N
C
N
213
N
O
N
214
N
C
Y
215
N
C
Y
216
N
C
Y
217
N
C
Y
218
N
N
Y
219
N
C
Y
220
N
C
Y
221
N
C
Y
222
N
C
Y
223
N
C
N
224
N
O
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
N
N
238
S
C
N
239
N
C
N
240
N
O
N
241
N
C
Y
242
N
C
Y
243
N
C
Y
244
N
C
Y
245
N
C
Y
246
N
C
Y
247
N
C
N
248
N
O
N
249
N
O
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
N
N
262
S
C
N
263
N
C
N
264
N
O
N
265
N
C
N
266
N
C
N
267
N
C
N
268
N
O
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
doub
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
doub
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
doub
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
doub
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
doub
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
doub
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
doub
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
doub
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
doub
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
doub
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
doub
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
Y
211
N
doub
Y
212
N
sing
Y
213
N
sing
N
214
N
sing
Y
215
N
doub
Y
216
N
sing
Y
217
N
sing
N
218
N
sing
Y
219
N
sing
Y
220
N
doub
N
221
N
sing
Y
222
N
doub
N
223
N
sing
Y
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
doub
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
Y
239
N
doub
Y
240
N
sing
Y
241
N
sing
N
242
N
sing
Y
243
N
doub
N
244
N
sing
Y
245
N
doub
N
246
N
sing
Y
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
doub
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
333
409
424
10.1016/j.jmb.2003.08.048
14529626
Three-dimensional structure of the channel-forming trans-membrane domain of virus protein "u" (Vpu) from HIV-1
2003
10.2210/pdb1pi7/pdb
pdb_00001pi7
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
3873.885
VPU protein
Trans-membrane domain
Y29G
1
man
polymer
U ORF protein
no
no
MQPIQIAIVALVVAIIIAIVVWSIVIIEGRGGKKKK
MQPIQIAIVALVVAIIIAIVVWSIVIIEGRGGKKKK
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
Lentivirus
Escherichia
sample
VPU
11676
Human immunodeficiency virus 1
562
Escherichia coli
BLR(DE3)pLysS
plasmid
pET-31b(+)
database_2
pdbx_nmr_spectrometer
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Data collection
1
0
2003-11-11
1
1
2008-04-29
1
2
2011-07-13
1
3
2021-10-27
1
4
2024-05-22
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_spectrometer.model
_struct_ref_seq_dif.details
RCSB
Y
RCSB
2003-05-29
REL
REL
PISEMA: Polarization Inversion Spin Exchange at the Magic Angle
5
PISEMA
7.0
ambient
293
K
This structure was constructed as a symmetric pentamer of the Vpu2-30+ trans-membrane construct based on the empirical minimization of energy upon the addition of sidechains to a backbone structure that was generated from solid-state NMR data using the program SCWRL.
SCWRL 2.1
1
minimized average structure
Completely aligned in glass plates: 3.5 mg Vpu2-30+ U-15N, 75 mg lipid mixture (DOPC:DOPG, 9:1)
Delaglio, F., Grzesiek, S., Vuister, G.W., Zhu, G., Pfeifer, J., Bax, A.
processing
NMRPipe
2.1
Bower, M.J., Cohen, F.E. & Dunbrack Jr., R.L.
refinement
SCRWL
2.1
700
Bruker
AVANCE
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
n
6
6
A
ALA
7
n
7
ALA
7
A
ILE
8
n
8
ILE
8
A
VAL
9
n
9
VAL
9
A
ALA
10
n
10
ALA
10
A
LEU
11
n
11
LEU
11
A
VAL
12
n
12
VAL
12
A
VAL
13
n
13
VAL
13
A
ALA
14
n
14
ALA
14
A
ILE
15
n
15
ILE
15
A
ILE
16
n
16
ILE
16
A
ILE
17
n
17
ILE
17
A
ALA
18
n
18
ALA
18
A
ILE
19
n
19
ILE
19
A
VAL
20
n
20
VAL
20
A
VAL
21
n
21
VAL
21
A
TRP
22
n
22
TRP
22
A
SER
23
n
23
SER
23
A
ILE
24
n
24
ILE
24
A
VAL
25
n
25
VAL
25
A
n
26
26
A
n
27
27
A
n
28
28
A
n
29
29
A
n
30
30
A
n
31
31
A
n
32
32
A
n
33
33
A
n
34
34
A
n
35
35
A
n
36
36
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
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
MET
1
A
MET
1
1
Y
1
A
GLN
2
A
GLN
2
1
Y
1
A
PRO
3
A
PRO
3
1
Y
1
A
ILE
4
A
ILE
4
1
Y
1
A
GLN
5
A
GLN
5
1
Y
1
A
ILE
6
A
ILE
6
1
Y
1
A
ILE
26
A
ILE
26
1
Y
1
A
ILE
27
A
ILE
27
1
Y
1
A
GLU
28
A
GLU
28
1
Y
1
A
GLY
29
A
GLY
29
1
Y
1
A
ARG
30
A
ARG
30
1
Y
1
A
GLY
31
A
GLY
31
1
Y
1
A
GLY
32
A
GLY
32
1
Y
1
A
LYS
33
A
LYS
33
1
Y
1
A
LYS
34
A
LYS
34
1
Y
1
A
LYS
35
A
LYS
35
1
Y
1
A
LYS
36
A
LYS
36
1
Y
2
A
MET
1
A
MET
1
1
Y
2
A
GLN
2
A
GLN
2
1
Y
2
A
PRO
3
A
PRO
3
1
Y
2
A
ILE
4
A
ILE
4
1
Y
2
A
GLN
5
A
GLN
5
1
Y
2
A
ILE
6
A
ILE
6
1
Y
2
A
ILE
26
A
ILE
26
1
Y
2
A
ILE
27
A
ILE
27
1
Y
2
A
GLU
28
A
GLU
28
1
Y
2
A
GLY
29
A
GLY
29
1
Y
2
A
ARG
30
A
ARG
30
1
Y
2
A
GLY
31
A
GLY
31
1
Y
2
A
GLY
32
A
GLY
32
1
Y
2
A
LYS
33
A
LYS
33
1
Y
2
A
LYS
34
A
LYS
34
1
Y
2
A
LYS
35
A
LYS
35
1
Y
2
A
LYS
36
A
LYS
36
1
Y
3
A
MET
1
A
MET
1
1
Y
3
A
GLN
2
A
GLN
2
1
Y
3
A
PRO
3
A
PRO
3
1
Y
3
A
ILE
4
A
ILE
4
1
Y
3
A
GLN
5
A
GLN
5
1
Y
3
A
ILE
6
A
ILE
6
1
Y
3
A
ILE
26
A
ILE
26
1
Y
3
A
ILE
27
A
ILE
27
1
Y
3
A
GLU
28
A
GLU
28
1
Y
3
A
GLY
29
A
GLY
29
1
Y
3
A
ARG
30
A
ARG
30
1
Y
3
A
GLY
31
A
GLY
31
1
Y
3
A
GLY
32
A
GLY
32
1
Y
3
A
LYS
33
A
LYS
33
1
Y
3
A
LYS
34
A
LYS
34
1
Y
3
A
LYS
35
A
LYS
35
1
Y
3
A
LYS
36
A
LYS
36
1
Y
4
A
MET
1
A
MET
1
1
Y
4
A
GLN
2
A
GLN
2
1
Y
4
A
PRO
3
A
PRO
3
1
Y
4
A
ILE
4
A
ILE
4
1
Y
4
A
GLN
5
A
GLN
5
1
Y
4
A
ILE
6
A
ILE
6
1
Y
4
A
ILE
26
A
ILE
26
1
Y
4
A
ILE
27
A
ILE
27
1
Y
4
A
GLU
28
A
GLU
28
1
Y
4
A
GLY
29
A
GLY
29
1
Y
4
A
ARG
30
A
ARG
30
1
Y
4
A
GLY
31
A
GLY
31
1
Y
4
A
GLY
32
A
GLY
32
1
Y
4
A
LYS
33
A
LYS
33
1
Y
4
A
LYS
34
A
LYS
34
1
Y
4
A
LYS
35
A
LYS
35
1
Y
4
A
LYS
36
A
LYS
36
1
Y
5
A
MET
1
A
MET
1
1
Y
5
A
GLN
2
A
GLN
2
1
Y
5
A
PRO
3
A
PRO
3
1
Y
5
A
ILE
4
A
ILE
4
1
Y
5
A
GLN
5
A
GLN
5
1
Y
5
A
ILE
6
A
ILE
6
1
Y
5
A
ILE
26
A
ILE
26
1
Y
5
A
ILE
27
A
ILE
27
1
Y
5
A
GLU
28
A
GLU
28
1
Y
5
A
GLY
29
A
GLY
29
1
Y
5
A
ARG
30
A
ARG
30
1
Y
5
A
GLY
31
A
GLY
31
1
Y
5
A
GLY
32
A
GLY
32
1
Y
5
A
LYS
33
A
LYS
33
1
Y
5
A
LYS
34
A
LYS
34
1
Y
5
A
LYS
35
A
LYS
35
1
Y
5
A
LYS
36
A
LYS
36
1
Y
1
A
A
O
HG23
ILE
VAL
24
25
1.30
1
A
A
O
H
LEU
ILE
11
15
1.46
1
A
A
O
H
ALA
TRP
18
22
1.49
1
A
A
O
HG13
VAL
ILE
13
17
1.54
2
A
A
O
HG23
ILE
VAL
24
25
1.30
2
A
A
O
H
LEU
ILE
11
15
1.46
2
A
A
O
H
ALA
TRP
18
22
1.49
2
A
A
O
HG13
VAL
ILE
13
17
1.54
3
A
A
O
HG23
ILE
VAL
24
25
1.30
3
A
A
O
H
LEU
ILE
11
15
1.46
3
A
A
O
H
ALA
TRP
18
22
1.49
3
A
A
O
HG13
VAL
ILE
13
17
1.54
4
A
A
O
HG23
ILE
VAL
24
25
1.31
4
A
A
O
H
LEU
ILE
11
15
1.46
4
A
A
O
H
ALA
TRP
18
22
1.49
4
A
A
O
HG13
VAL
ILE
13
17
1.54
5
A
A
O
HG23
ILE
VAL
24
25
1.30
5
A
A
O
H
LEU
ILE
11
15
1.46
5
A
A
O
H
ALA
TRP
18
22
1.49
5
A
A
O
HG13
VAL
ILE
13
17
1.54
Structure of the channel-forming trans-membrane domain of Virus protein "u" (Vpu) from HIV-1
1
N
N
A
ALA
7
A
ALA
7
HELX_P
A
VAL
25
A
VAL
25
1
1
19
VIRAL PROTEIN
ALPHA HELIX, Viral protein
VPU_HV1LW
UNP
1
1
Q70625
MQPIQIAIVALVVAIIIAIVVWSIVIIEYR
1
30
1PI7
1
30
Q70625
A
1
1
30
1
TYR
engineered mutation
GLY
29
1PI7
A
Q70625
UNP
29
29
1
cloning artifact
GLY
31
1PI7
A
Q70625
UNP
31
1
cloning artifact
GLY
32
1PI7
A
Q70625
UNP
32
1
cloning artifact
LYS
33
1PI7
A
Q70625
UNP
33
1
cloning artifact
LYS
34
1PI7
A
Q70625
UNP
34
1
cloning artifact
LYS
35
1PI7
A
Q70625
UNP
35
1
cloning artifact
LYS
36
1PI7
A
Q70625
UNP
36
1
P 1