0.018711
0.000000
0.000000
0.000000
0.009113
0.000000
0.000000
0.000000
0.007652
0.00000
0.00000
0.00000
Kwon, Y.D.
Kwong, P.D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
53.445
109.738
130.682
C17 H24 Br N3 O2
382.295
N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
NBD-557
non-polymer
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 S
149.211
y
METHIONINE
L-peptide linking
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
D-saccharide, beta 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
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
Y
1
N
C
Y
2
N
C
Y
3
N
C
Y
4
N
C
N
5
N
N
N
6
N
C
N
7
N
O
N
8
N
C
N
9
N
O
N
10
N
N
N
11
N
C
N
12
N
C
N
13
N
C
N
14
N
C
N
15
N
C
N
16
N
N
N
17
N
C
N
18
N
C
N
19
N
C
N
20
N
C
Y
21
N
C
Y
22
N
C
N
23
N
BR
N
24
N
H
N
25
N
H
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
H
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
N
N
49
S
C
N
50
N
C
N
51
N
O
N
52
N
C
N
53
N
O
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
N
N
69
N
C
N
70
N
N
N
71
N
N
N
72
N
O
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
H
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
O
N
95
N
N
N
96
N
O
N
97
N
H
N
98
N
H
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
N
N
106
S
C
N
107
N
C
N
108
N
O
N
109
N
C
N
110
N
C
N
111
N
O
N
112
N
O
N
113
N
O
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
N
N
122
R
C
N
123
N
C
N
124
N
O
N
125
N
C
N
126
N
S
N
127
N
O
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
H
N
135
N
N
N
136
S
C
N
137
N
C
N
138
N
O
N
139
N
C
N
140
N
C
N
141
N
C
N
142
N
O
N
143
N
N
N
144
N
O
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
N
N
156
S
C
N
157
N
C
N
158
N
O
N
159
N
C
N
160
N
C
N
161
N
C
N
162
N
O
N
163
N
O
N
164
N
O
N
165
N
H
N
166
N
H
N
167
N
H
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
N
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
O
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
N
N
185
S
C
N
186
N
C
N
187
N
O
N
188
N
C
Y
189
N
C
Y
190
N
N
Y
191
N
C
Y
192
N
C
Y
193
N
N
N
194
N
O
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
O
N
206
N
H
N
207
N
H
N
208
N
N
N
209
S
C
N
210
N
C
N
211
N
O
N
212
S
C
N
213
N
C
N
214
N
C
N
215
N
C
N
216
N
O
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
C
N
237
N
C
N
238
N
O
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
N
N
253
S
C
N
254
N
C
N
255
N
O
N
256
N
C
N
257
N
C
N
258
N
C
N
259
N
C
N
260
N
N
N
261
N
O
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
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
N
N
278
S
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
C
N
283
N
S
N
284
N
C
N
285
N
O
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
R
C
N
298
R
C
N
299
R
C
N
300
S
C
N
301
R
C
N
302
N
C
N
303
N
C
N
304
N
C
N
305
N
N
N
306
N
O
N
307
N
O
N
308
N
O
N
309
N
O
N
310
N
O
N
311
N
O
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
N
N
328
S
C
N
329
N
C
N
330
N
O
N
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
C
Y
335
N
C
Y
336
N
C
Y
337
N
C
N
338
N
O
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
N
N
351
S
C
N
352
N
C
N
353
N
O
N
354
N
C
N
355
N
C
N
356
N
C
N
357
N
O
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
N
N
368
S
C
N
369
N
C
N
370
N
O
N
371
N
C
N
372
N
O
N
373
N
O
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
N
N
382
S
C
N
383
N
C
N
384
N
O
N
385
R
C
N
386
N
O
N
387
N
C
N
388
N
O
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
N
N
399
S
C
N
400
N
C
N
401
N
O
N
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
N
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
N
412
N
O
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
N
N
426
S
C
N
427
N
C
N
428
N
O
N
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
Y
433
N
C
Y
434
N
C
Y
435
N
C
N
436
N
O
N
437
N
O
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
N
N
450
S
C
N
451
N
C
N
452
N
O
N
453
N
C
N
454
N
C
N
455
N
C
N
456
N
O
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
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
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
doub
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
doub
N
17
N
sing
Y
18
N
doub
Y
19
N
sing
Y
20
N
sing
Y
21
N
doub
Y
22
N
doub
Y
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
sing
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
sing
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
sing
N
54
N
sing
N
55
N
doub
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
sing
N
65
N
sing
N
66
N
sing
N
67
N
doub
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
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
doub
N
82
N
sing
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
sing
N
92
N
sing
N
93
N
doub
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
doub
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
doub
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
doub
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
doub
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
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
doub
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
doub
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
doub
N
157
N
sing
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
doub
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
doub
N
175
N
sing
N
176
N
sing
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
doub
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
Y
188
N
sing
Y
189
N
doub
Y
190
N
doub
N
191
N
sing
Y
192
N
sing
N
193
N
sing
Y
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
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
doub
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
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
doub
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
sing
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
N
270
N
sing
N
271
N
sing
N
272
N
doub
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
doub
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
doub
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
Y
326
N
doub
Y
327
N
sing
Y
328
N
sing
N
329
N
sing
Y
330
N
doub
N
331
N
sing
Y
332
N
doub
N
333
N
sing
Y
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
doub
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
doub
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
doub
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
doub
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
Y
395
N
doub
Y
396
N
sing
Y
397
N
sing
N
398
N
sing
Y
399
N
doub
Y
400
N
sing
Y
401
N
sing
N
402
N
sing
Y
403
N
sing
Y
404
N
doub
N
405
N
sing
Y
406
N
doub
N
407
N
sing
Y
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
doub
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
Y
423
N
doub
Y
424
N
sing
Y
425
N
sing
N
426
N
sing
Y
427
N
doub
N
428
N
sing
Y
429
N
doub
N
430
N
sing
Y
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
doub
N
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
sing
US
Plos One
1932-6203
9
e85940
e85940
10.1371/journal.pone.0085940
24489681
Crystal Structures of HIV-1 gp120 Envelope Glycoprotein in Complex with NBD Analogues That Target the CD4-Binding Site.
2014
10.2210/pdb4dvr/pdb
pdb_00004dvr
100
1
IMAGE PLATE
2008-06-12
MAR scanner 300 mm plate
SINGLE WAVELENGTH
M
x-ray
1
1
1.0
22-ID
APS
1
SYNCHROTRON
APS BEAMLINE 22-ID
34918.633
Envelope glycoprotein gp120
unp residues 82-122; 199-297; 319-479
1
man
polymer
23092.562
Fab 48d Light chain
1
man
polymer
23386.137
Fab 48d Heavy chain
1
man
polymer
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
7
man
non-polymer
382.295
N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
1
syn
non-polymer
18.015
water
113
nat
water
Env polyprotein,Env polyprotein,Env polyprotein
no
no
EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNG
TGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGGSGSGGDIRQAHC
NLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCR
IKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE
EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTGGSVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNG
TGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFTNNAKTIIVQLNESVVINCTRPNNGGSGSGGDIRQAHC
NLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTGRNITLPCR
IKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKIE
G
polypeptide(L)
no
no
DIQMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFSLTINSLQP
EDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQE
SVTEQDSKDSTYSLSSTLTLSKADYEKHKLYACEVTHQGLSSPVTKSFNRGE
DIQMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFSLTINSLQP
EDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQE
SVTEQDSKDSTYSLSSTLTLSKADYEKHKLYACEVTHQGLSSPVTKSFNRGE
L
polypeptide(L)
no
no
EVQLVQSGAEVKKPGATVKISCKASGYTFSDFYMYWVRQAPGKGLEWMGLIDPEDADTMYAEKFRGRVTITADTSTDTGY
LELSSLRSEDTAVYYCAADPWELNAFNVWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW
NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP
EVQLVQSGAEVKKPGATVKISCKASGYTFSDFYMYWVRQAPGKGLEWMGLIDPEDADTMYAEKFRGRVTITADTSTDTGY
LELSSLRSEDTAVYYCAADPWELNAFNVWGQGTLVSVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW
NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP
H
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
HIV-1
isolate YU-2
human
sample
1
43
env
362651
Human immunodeficiency virus type 1 group M subtype B (isolate YU-2)
HEK293F
9606
Homo sapiens
plasmid
Biological sequence
pVRC8400
HIV-1
isolate YU-2
human
sample
44
146
env
362651
Human immunodeficiency virus type 1 group M subtype B (isolate YU-2)
HEK293F
9606
Homo sapiens
plasmid
Biological sequence
pVRC8400
HIV-1
isolate YU-2
human
sample
153
313
env
362651
Human immunodeficiency virus type 1 group M subtype B (isolate YU-2)
HEK293F
9606
Homo sapiens
plasmid
Biological sequence
pVRC8400
human
human
sample
1
212
9606
Homo sapiens
9606
Homo sapiens
Biological sequence
human
human
sample
1
219
9606
Homo sapiens
9606
Homo sapiens
Biological sequence
1
2.35
47.75
VAPOR DIFFUSION, HANGING DROP
8.5
20% PEG3350, 5% iso-propanol, 0.1M Tris, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp
entity
pdbx_chem_comp_identifier
pdbx_entity_nonpoly
struct_conn
struct_site
struct_site_gen
chem_comp
entity_src_gen
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_unobs_or_zero_occ_atoms
repository
Initial release
Carbohydrate remediation
repository
Remediation
Database references
Non-polymer description
Structure summary
Data collection
Derived calculations
Structure summary
Source and taxonomy
Structure summary
Advisory
Data collection
Database references
Refinement description
1
0
2013-02-27
1
1
2014-03-19
1
2
2014-12-17
1
3
2017-05-31
1
4
2020-07-29
1
5
2021-05-19
1
6
2023-09-13
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_chem_comp.pdbx_synonyms
_entity_src_gen.gene_src_common_name
_entity_src_gen.host_org_common_name
_entity_src_gen.pdbx_host_org_cell_line
_entity_src_gen.pdbx_host_org_strain
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
RCSB
Y
RCSB
2012-02-23
REL
REL
NAG
2-acetamido-2-deoxy-beta-D-glucopyranose
0LY
N-(4-bromophenyl)-N'-(2,2,6,6-tetramethylpiperidin-4-yl)ethanediamide
HOH
water
THE CRYSTALLIZED SEQUENCE WAS CONSTRUCTED BY DELETION OF N-TERMINAL 1-43, BY REPLACING THE V1/V2 REGIONS WITH A GG LINKER, AND REPLACING V3 REGION WITH A LINKER GGSGSG
1RZK
pdb entry 1RZK
PDB
experimental model
NAG
734
4
NAG
NAG
501
G
NAG
762
4
NAG
NAG
502
G
NAG
776
4
NAG
NAG
503
G
NAG
789
4
NAG
NAG
504
G
NAG
795
4
NAG
NAG
505
G
NAG
886
4
NAG
NAG
506
G
NAG
948
4
NAG
NAG
507
G
0LY
1
5
0LY
0LY
508
G
HOH
2
6
HOH
HOH
601
G
HOH
3
6
HOH
HOH
602
G
HOH
4
6
HOH
HOH
603
G
HOH
7
6
HOH
HOH
604
G
HOH
8
6
HOH
HOH
605
G
HOH
13
6
HOH
HOH
606
G
HOH
16
6
HOH
HOH
607
G
HOH
17
6
HOH
HOH
608
G
HOH
20
6
HOH
HOH
609
G
HOH
24
6
HOH
HOH
610
G
HOH
27
6
HOH
HOH
611
G
HOH
28
6
HOH
HOH
612
G
HOH
31
6
HOH
HOH
613
G
HOH
32
6
HOH
HOH
614
G
HOH
35
6
HOH
HOH
615
G
HOH
38
6
HOH
HOH
616
G
HOH
39
6
HOH
HOH
617
G
HOH
40
6
HOH
HOH
618
G
HOH
41
6
HOH
HOH
619
G
HOH
45
6
HOH
HOH
620
G
HOH
49
6
HOH
HOH
621
G
HOH
50
6
HOH
HOH
622
G
HOH
52
6
HOH
HOH
623
G
HOH
53
6
HOH
HOH
624
G
HOH
57
6
HOH
HOH
625
G
HOH
60
6
HOH
HOH
626
G
HOH
63
6
HOH
HOH
627
G
HOH
66
6
HOH
HOH
628
G
HOH
68
6
HOH
HOH
629
G
HOH
70
6
HOH
HOH
630
G
HOH
71
6
HOH
HOH
631
G
HOH
74
6
HOH
HOH
632
G
HOH
78
6
HOH
HOH
633
G
HOH
79
6
HOH
HOH
634
G
HOH
80
6
HOH
HOH
635
G
HOH
82
6
HOH
HOH
636
G
HOH
84
6
HOH
HOH
637
G
HOH
86
6
HOH
HOH
638
G
HOH
90
6
HOH
HOH
639
G
HOH
91
6
HOH
HOH
640
G
HOH
92
6
HOH
HOH
641
G
HOH
93
6
HOH
HOH
642
G
HOH
95
6
HOH
HOH
643
G
HOH
96
6
HOH
HOH
644
G
HOH
97
6
HOH
HOH
645
G
HOH
100
6
HOH
HOH
646
G
HOH
102
6
HOH
HOH
647
G
HOH
103
6
HOH
HOH
648
G
HOH
105
6
HOH
HOH
649
G
HOH
112
6
HOH
HOH
650
G
HOH
1
6
HOH
HOH
301
L
HOH
9
6
HOH
HOH
302
L
HOH
10
6
HOH
HOH
303
L
HOH
11
6
HOH
HOH
304
L
HOH
15
6
HOH
HOH
305
L
HOH
18
6
HOH
HOH
306
L
HOH
21
6
HOH
HOH
307
L
HOH
25
6
HOH
HOH
308
L
HOH
26
6
HOH
HOH
309
L
HOH
34
6
HOH
HOH
310
L
HOH
36
6
HOH
HOH
311
L
HOH
47
6
HOH
HOH
312
L
HOH
54
6
HOH
HOH
313
L
HOH
55
6
HOH
HOH
314
L
HOH
56
6
HOH
HOH
315
L
HOH
58
6
HOH
HOH
316
L
HOH
59
6
HOH
HOH
317
L
HOH
62
6
HOH
HOH
318
L
HOH
65
6
HOH
HOH
319
L
HOH
72
6
HOH
HOH
320
L
HOH
75
6
HOH
HOH
321
L
HOH
76
6
HOH
HOH
322
L
HOH
77
6
HOH
HOH
323
L
HOH
81
6
HOH
HOH
324
L
HOH
83
6
HOH
HOH
325
L
HOH
88
6
HOH
HOH
326
L
HOH
106
6
HOH
HOH
327
L
HOH
108
6
HOH
HOH
328
L
HOH
110
6
HOH
HOH
329
L
HOH
5
6
HOH
HOH
301
H
HOH
6
6
HOH
HOH
302
H
HOH
12
6
HOH
HOH
303
H
HOH
14
6
HOH
HOH
304
H
HOH
19
6
HOH
HOH
305
H
HOH
22
6
HOH
HOH
306
H
HOH
23
6
HOH
HOH
307
H
HOH
29
6
HOH
HOH
308
H
HOH
30
6
HOH
HOH
309
H
HOH
33
6
HOH
HOH
310
H
HOH
37
6
HOH
HOH
311
H
HOH
42
6
HOH
HOH
312
H
HOH
43
6
HOH
HOH
313
H
HOH
44
6
HOH
HOH
314
H
HOH
46
6
HOH
HOH
315
H
HOH
48
6
HOH
HOH
316
H
HOH
51
6
HOH
HOH
317
H
HOH
61
6
HOH
HOH
318
H
HOH
64
6
HOH
HOH
319
H
HOH
67
6
HOH
HOH
320
H
HOH
69
6
HOH
HOH
321
H
HOH
73
6
HOH
HOH
322
H
HOH
85
6
HOH
HOH
323
H
HOH
87
6
HOH
HOH
324
H
HOH
89
6
HOH
HOH
325
H
HOH
94
6
HOH
HOH
326
H
HOH
98
6
HOH
HOH
327
H
HOH
99
6
HOH
HOH
328
H
HOH
101
6
HOH
HOH
329
H
HOH
104
6
HOH
HOH
330
H
HOH
107
6
HOH
HOH
331
H
HOH
109
6
HOH
HOH
332
H
HOH
111
6
HOH
HOH
333
H
HOH
113
6
HOH
HOH
334
H
n
1
83
G
n
2
84
G
n
3
85
G
n
4
86
G
n
5
87
G
n
6
88
G
n
7
89
G
THR
90
n
8
THR
90
G
GLU
91
n
9
GLU
91
G
ASN
92
n
10
ASN
92
G
PHE
93
n
11
PHE
93
G
ASN
94
n
12
ASN
94
G
MET
95
n
13
MET
95
G
TRP
96
n
14
TRP
96
G
LYS
97
n
15
LYS
97
G
ASN
98
n
16
ASN
98
G
ASN
99
n
17
ASN
99
G
MET
100
n
18
MET
100
G
VAL
101
n
19
VAL
101
G
GLU
102
n
20
GLU
102
G
GLN
103
n
21
GLN
103
G
MET
104
n
22
MET
104
G
HIS
105
n
23
HIS
105
G
GLU
106
n
24
GLU
106
G
ASP
107
n
25
ASP
107
G
ILE
108
n
26
ILE
108
G
ILE
109
n
27
ILE
109
G
SER
110
n
28
SER
110
G
LEU
111
n
29
LEU
111
G
TRP
112
n
30
TRP
112
G
ASP
113
n
31
ASP
113
G
GLN
114
n
32
GLN
114
G
SER
115
n
33
SER
115
G
LEU
116
n
34
LEU
116
G
LYS
117
n
35
LYS
117
G
PRO
118
n
36
PRO
118
G
CYS
119
n
37
CYS
119
G
VAL
120
n
38
VAL
120
G
LYS
121
n
39
LYS
121
G
LEU
122
n
40
LEU
122
G
THR
123
n
41
THR
123
G
GLY
124
n
42
GLY
124
G
GLY
198
n
43
GLY
198
G
SER
199
n
44
SER
199
G
VAL
200
n
45
VAL
200
G
ILE
201
n
46
ILE
201
G
THR
202
n
47
THR
202
G
GLN
203
n
48
GLN
203
G
ALA
204
n
49
ALA
204
G
CYS
205
n
50
CYS
205
G
PRO
206
n
51
PRO
206
G
LYS
207
n
52
LYS
207
G
VAL
208
n
53
VAL
208
G
SER
209
n
54
SER
209
G
PHE
210
n
55
PHE
210
G
GLU
211
n
56
GLU
211
G
PRO
212
n
57
PRO
212
G
ILE
213
n
58
ILE
213
G
PRO
214
n
59
PRO
214
G
ILE
215
n
60
ILE
215
G
HIS
216
n
61
HIS
216
G
TYR
217
n
62
TYR
217
G
CYS
218
n
63
CYS
218
G
ALA
219
n
64
ALA
219
G
PRO
220
n
65
PRO
220
G
ALA
221
n
66
ALA
221
G
GLY
222
n
67
GLY
222
G
PHE
223
n
68
PHE
223
G
ALA
224
n
69
ALA
224
G
ILE
225
n
70
ILE
225
G
LEU
226
n
71
LEU
226
G
LYS
227
n
72
LYS
227
G
CYS
228
n
73
CYS
228
G
ASN
229
n
74
ASN
229
G
ASP
230
n
75
ASP
230
G
LYS
231
n
76
LYS
231
G
LYS
232
n
77
LYS
232
G
PHE
233
n
78
PHE
233
G
ASN
234
n
79
ASN
234
G
GLY
235
n
80
GLY
235
G
THR
236
n
81
THR
236
G
GLY
237
n
82
GLY
237
G
PRO
238
n
83
PRO
238
G
CYS
239
n
84
CYS
239
G
THR
240
n
85
THR
240
G
ASN
241
n
86
ASN
241
G
VAL
242
n
87
VAL
242
G
SER
243
n
88
SER
243
G
THR
244
n
89
THR
244
G
VAL
245
n
90
VAL
245
G
GLN
246
n
91
GLN
246
G
CYS
247
n
92
CYS
247
G
THR
248
n
93
THR
248
G
HIS
249
n
94
HIS
249
G
GLY
250
n
95
GLY
250
G
ILE
251
n
96
ILE
251
G
ARG
252
n
97
ARG
252
G
PRO
253
n
98
PRO
253
G
VAL
254
n
99
VAL
254
G
VAL
255
n
100
VAL
255
G
SER
256
n
101
SER
256
G
THR
257
n
102
THR
257
G
GLN
258
n
103
GLN
258
G
LEU
259
n
104
LEU
259
G
LEU
260
n
105
LEU
260
G
LEU
261
n
106
LEU
261
G
ASN
262
n
107
ASN
262
G
GLY
263
n
108
GLY
263
G
SER
264
n
109
SER
264
G
LEU
265
n
110
LEU
265
G
ALA
266
n
111
ALA
266
G
GLU
267
n
112
GLU
267
G
GLU
268
n
113
GLU
268
G
GLU
269
n
114
GLU
269
G
ILE
270
n
115
ILE
270
G
VAL
271
n
116
VAL
271
G
ILE
272
n
117
ILE
272
G
ARG
273
n
118
ARG
273
G
SER
274
n
119
SER
274
G
GLU
275
n
120
GLU
275
G
ASN
276
n
121
ASN
276
G
PHE
277
n
122
PHE
277
G
THR
278
n
123
THR
278
G
ASN
279
n
124
ASN
279
G
ASN
280
n
125
ASN
280
G
ALA
281
n
126
ALA
281
G
LYS
282
n
127
LYS
282
G
THR
283
n
128
THR
283
G
ILE
284
n
129
ILE
284
G
ILE
285
n
130
ILE
285
G
VAL
286
n
131
VAL
286
G
GLN
287
n
132
GLN
287
G
LEU
288
n
133
LEU
288
G
ASN
289
n
134
ASN
289
G
GLU
290
n
135
GLU
290
G
SER
291
n
136
SER
291
G
VAL
292
n
137
VAL
292
G
VAL
293
n
138
VAL
293
G
ILE
294
n
139
ILE
294
G
ASN
295
n
140
ASN
295
G
CYS
296
n
141
CYS
296
G
THR
297
n
142
THR
297
G
ARG
298
n
143
ARG
298
G
PRO
299
n
144
PRO
299
G
ASN
300
n
145
ASN
300
G
ASN
301
n
146
ASN
301
G
n
147
318
G
n
148
319
G
n
149
320
G
n
150
321
G
n
151
322
G
n
152
323
G
GLY
324
n
153
GLY
324
G
ASP
325
n
154
ASP
325
G
ILE
326
n
155
ILE
326
G
ARG
327
n
156
ARG
327
G
GLN
328
n
157
GLN
328
G
ALA
329
n
158
ALA
329
G
HIS
330
n
159
HIS
330
G
CYS
331
n
160
CYS
331
G
ASN
332
n
161
ASN
332
G
LEU
333
n
162
LEU
333
G
SER
334
n
163
SER
334
G
LYS
335
n
164
LYS
335
G
THR
336
n
165
THR
336
G
GLN
337
n
166
GLN
337
G
TRP
338
n
167
TRP
338
G
GLU
339
n
168
GLU
339
G
ASN
340
n
169
ASN
340
G
THR
341
n
170
THR
341
G
LEU
342
n
171
LEU
342
G
GLU
343
n
172
GLU
343
G
GLN
344
n
173
GLN
344
G
ILE
345
n
174
ILE
345
G
ALA
346
n
175
ALA
346
G
ILE
347
n
176
ILE
347
G
LYS
348
n
177
LYS
348
G
LEU
349
n
178
LEU
349
G
LYS
350
n
179
LYS
350
G
GLU
351
n
180
GLU
351
G
GLN
352
n
181
GLN
352
G
PHE
353
n
182
PHE
353
G
GLY
354
n
183
GLY
354
G
ASN
355
n
184
ASN
355
G
ASN
356
n
185
ASN
356
G
LYS
357
n
186
LYS
357
G
THR
358
n
187
THR
358
G
ILE
359
n
188
ILE
359
G
ILE
360
n
189
ILE
360
G
PHE
361
n
190
PHE
361
G
ASN
362
n
191
ASN
362
G
PRO
363
n
192
PRO
363
G
SER
364
n
193
SER
364
G
SER
365
n
194
SER
365
G
GLY
366
n
195
GLY
366
G
GLY
367
n
196
GLY
367
G
ASP
368
n
197
ASP
368
G
PRO
369
n
198
PRO
369
G
GLU
370
n
199
GLU
370
G
ILE
371
n
200
ILE
371
G
VAL
372
n
201
VAL
372
G
THR
373
n
202
THR
373
G
HIS
374
n
203
HIS
374
G
SER
375
n
204
SER
375
G
PHE
376
n
205
PHE
376
G
ASN
377
n
206
ASN
377
G
CYS
378
n
207
CYS
378
G
GLY
379
n
208
GLY
379
G
GLY
380
n
209
GLY
380
G
GLU
381
n
210
GLU
381
G
PHE
382
n
211
PHE
382
G
PHE
383
n
212
PHE
383
G
TYR
384
n
213
TYR
384
G
CYS
385
n
214
CYS
385
G
ASN
386
n
215
ASN
386
G
SER
387
n
216
SER
387
G
THR
388
n
217
THR
388
G
GLN
389
n
218
GLN
389
G
LEU
390
n
219
LEU
390
G
PHE
391
n
220
PHE
391
G
THR
392
n
221
THR
392
G
TRP
393
n
222
TRP
393
G
ASN
394
n
223
ASN
394
G
ASP
395
n
224
ASP
395
G
THR
396
n
225
THR
396
G
n
226
405
G
n
227
406
G
n
228
407
G
n
229
408
G
n
230
409
G
n
231
410
G
n
232
411
G
ARG
412
n
233
ARG
412
G
ASN
413
n
234
ASN
413
G
ILE
414
n
235
ILE
414
G
THR
415
n
236
THR
415
G
LEU
416
n
237
LEU
416
G
PRO
417
n
238
PRO
417
G
CYS
418
n
239
CYS
418
G
ARG
419
n
240
ARG
419
G
ILE
420
n
241
ILE
420
G
LYS
421
n
242
LYS
421
G
GLN
422
n
243
GLN
422
G
ILE
423
n
244
ILE
423
G
ILE
424
n
245
ILE
424
G
ASN
425
n
246
ASN
425
G
MET
426
n
247
MET
426
G
TRP
427
n
248
TRP
427
G
GLN
428
n
249
GLN
428
G
GLU
429
n
250
GLU
429
G
VAL
430
n
251
VAL
430
G
GLY
431
n
252
GLY
431
G
LYS
432
n
253
LYS
432
G
ALA
433
n
254
ALA
433
G
MET
434
n
255
MET
434
G
TYR
435
n
256
TYR
435
G
ALA
436
n
257
ALA
436
G
PRO
437
n
258
PRO
437
G
PRO
438
n
259
PRO
438
G
ILE
439
n
260
ILE
439
G
ARG
440
n
261
ARG
440
G
GLY
441
n
262
GLY
441
G
GLN
442
n
263
GLN
442
G
ILE
443
n
264
ILE
443
G
ARG
444
n
265
ARG
444
G
CYS
445
n
266
CYS
445
G
SER
446
n
267
SER
446
G
SER
447
n
268
SER
447
G
ASN
448
n
269
ASN
448
G
ILE
449
n
270
ILE
449
G
THR
450
n
271
THR
450
G
GLY
451
n
272
GLY
451
G
LEU
452
n
273
LEU
452
G
LEU
453
n
274
LEU
453
G
LEU
454
n
275
LEU
454
G
THR
455
n
276
THR
455
G
ARG
456
n
277
ARG
456
G
ASP
457
n
278
ASP
457
G
n
279
458
G
n
280
459
G
n
281
460
G
n
282
461
G
n
283
462
G
ASN
463
n
284
ASN
463
G
GLY
464
n
285
GLY
464
G
THR
465
n
286
THR
465
G
GLU
466
n
287
GLU
466
G
ILE
467
n
288
ILE
467
G
PHE
468
n
289
PHE
468
G
ARG
469
n
290
ARG
469
G
PRO
470
n
291
PRO
470
G
GLY
471
n
292
GLY
471
G
GLY
472
n
293
GLY
472
G
GLY
473
n
294
GLY
473
G
ASP
474
n
295
ASP
474
G
MET
475
n
296
MET
475
G
ARG
476
n
297
ARG
476
G
ASP
477
n
298
ASP
477
G
ASN
478
n
299
ASN
478
G
TRP
479
n
300
TRP
479
G
ARG
480
n
301
ARG
480
G
SER
481
n
302
SER
481
G
GLU
482
n
303
GLU
482
G
LEU
483
n
304
LEU
483
G
TYR
484
n
305
TYR
484
G
LYS
485
n
306
LYS
485
G
TYR
486
n
307
TYR
486
G
LYS
487
n
308
LYS
487
G
VAL
488
n
309
VAL
488
G
VAL
489
n
310
VAL
489
G
LYS
490
n
311
LYS
490
G
ILE
491
n
312
ILE
491
G
GLU
492
n
313
GLU
492
G
n
1
1
L
ILE
2
n
2
ILE
2
L
GLN
3
n
3
GLN
3
L
MET
4
n
4
MET
4
L
THR
5
n
5
THR
5
L
GLN
6
n
6
GLN
6
L
SER
7
n
7
SER
7
L
PRO
8
n
8
PRO
8
L
SER
9
n
9
SER
9
L
SER
10
n
10
SER
10
L
VAL
11
n
11
VAL
11
L
SER
12
n
12
SER
12
L
ALA
13
n
13
ALA
13
L
SER
14
n
14
SER
14
L
VAL
15
n
15
VAL
15
L
GLY
16
n
16
GLY
16
L
ASP
17
n
17
ASP
17
L
ARG
18
n
18
ARG
18
L
VAL
19
n
19
VAL
19
L
THR
20
n
20
THR
20
L
ILE
21
n
21
ILE
21
L
THR
22
n
22
THR
22
L
CYS
23
n
23
CYS
23
L
ARG
24
n
24
ARG
24
L
ALA
25
n
25
ALA
25
L
SER
26
n
26
SER
26
L
GLN
27
n
27
GLN
27
L
ASP
28
n
28
ASP
28
L
ILE
29
n
29
ILE
29
L
SER
30
n
30
SER
30
L
THR
31
n
31
THR
31
L
TRP
32
n
32
TRP
32
L
LEU
33
n
33
LEU
33
L
ALA
34
n
34
ALA
34
L
TRP
35
n
35
TRP
35
L
TYR
36
n
36
TYR
36
L
GLN
37
n
37
GLN
37
L
GLN
38
n
38
GLN
38
L
LYS
39
n
39
LYS
39
L
PRO
40
n
40
PRO
40
L
GLY
41
n
41
GLY
41
L
LYS
42
n
42
LYS
42
L
ALA
43
n
43
ALA
43
L
PRO
44
n
44
PRO
44
L
LYS
45
n
45
LYS
45
L
LEU
46
n
46
LEU
46
L
LEU
47
n
47
LEU
47
L
ILE
48
n
48
ILE
48
L
TYR
49
n
49
TYR
49
L
ALA
50
n
50
ALA
50
L
ALA
51
n
51
ALA
51
L
SER
52
n
52
SER
52
L
THR
53
n
53
THR
53
L
LEU
54
n
54
LEU
54
L
GLN
55
n
55
GLN
55
L
SER
56
n
56
SER
56
L
GLY
57
n
57
GLY
57
L
VAL
58
n
58
VAL
58
L
PRO
59
n
59
PRO
59
L
SER
60
n
60
SER
60
L
ARG
61
n
61
ARG
61
L
PHE
62
n
62
PHE
62
L
SER
63
n
63
SER
63
L
GLY
64
n
64
GLY
64
L
SER
65
n
65
SER
65
L
GLY
66
n
66
GLY
66
L
SER
67
n
67
SER
67
L
GLY
68
n
68
GLY
68
L
THR
69
n
69
THR
69
L
ASP
70
n
70
ASP
70
L
PHE
71
n
71
PHE
71
L
SER
72
n
72
SER
72
L
LEU
73
n
73
LEU
73
L
THR
74
n
74
THR
74
L
ILE
75
n
75
ILE
75
L
ASN
76
n
76
ASN
76
L
SER
77
n
77
SER
77
L
LEU
78
n
78
LEU
78
L
GLN
79
n
79
GLN
79
L
PRO
80
n
80
PRO
80
L
GLU
81
n
81
GLU
81
L
ASP
82
n
82
ASP
82
L
PHE
83
n
83
PHE
83
L
ALA
84
n
84
ALA
84
L
THR
85
n
85
THR
85
L
TYR
86
n
86
TYR
86
L
TYR
87
n
87
TYR
87
L
CYS
88
n
88
CYS
88
L
GLN
89
n
89
GLN
89
L
GLN
90
n
90
GLN
90
L
ALA
91
n
91
ALA
91
L
ASN
92
n
92
ASN
92
L
SER
93
n
93
SER
93
L
PHE
94
n
94
PHE
94
L
PHE
95
n
95
PHE
95
L
THR
96
n
96
THR
96
L
PHE
97
n
97
PHE
97
L
GLY
98
n
98
GLY
98
L
GLY
99
n
99
GLY
99
L
GLY
100
n
100
GLY
100
L
THR
101
n
101
THR
101
L
LYS
102
n
102
LYS
102
L
VAL
103
n
103
VAL
103
L
GLU
104
n
104
GLU
104
L
ILE
105
n
105
ILE
105
L
LYS
106
n
106
LYS
106
L
ARG
107
n
107
ARG
107
L
THR
108
n
108
THR
108
L
VAL
109
n
109
VAL
109
L
ALA
110
n
110
ALA
110
L
ALA
111
n
111
ALA
111
L
PRO
112
n
112
PRO
112
L
SER
113
n
113
SER
113
L
VAL
114
n
114
VAL
114
L
PHE
115
n
115
PHE
115
L
ILE
116
n
116
ILE
116
L
PHE
117
n
117
PHE
117
L
PRO
118
n
118
PRO
118
L
PRO
119
n
119
PRO
119
L
SER
120
n
120
SER
120
L
ASP
121
n
121
ASP
121
L
GLU
122
n
122
GLU
122
L
GLN
123
n
123
GLN
123
L
LEU
124
n
124
LEU
124
L
LYS
125
n
125
LYS
125
L
SER
126
n
126
SER
126
L
GLY
127
n
127
GLY
127
L
THR
128
n
128
THR
128
L
ALA
129
n
129
ALA
129
L
SER
130
n
130
SER
130
L
VAL
131
n
131
VAL
131
L
VAL
132
n
132
VAL
132
L
CYS
133
n
133
CYS
133
L
LEU
134
n
134
LEU
134
L
LEU
135
n
135
LEU
135
L
ASN
136
n
136
ASN
136
L
ASN
137
n
137
ASN
137
L
PHE
138
n
138
PHE
138
L
TYR
139
n
139
TYR
139
L
PRO
140
n
140
PRO
140
L
ARG
141
n
141
ARG
141
L
GLU
142
n
142
GLU
142
L
ALA
143
n
143
ALA
143
L
LYS
144
n
144
LYS
144
L
VAL
145
n
145
VAL
145
L
GLN
146
n
146
GLN
146
L
TRP
147
n
147
TRP
147
L
LYS
148
n
148
LYS
148
L
VAL
149
n
149
VAL
149
L
ASP
150
n
150
ASP
150
L
ASN
151
n
151
ASN
151
L
ALA
152
n
152
ALA
152
L
LEU
153
n
153
LEU
153
L
GLN
154
n
154
GLN
154
L
SER
155
n
155
SER
155
L
GLY
156
n
156
GLY
156
L
ASN
157
n
157
ASN
157
L
SER
158
n
158
SER
158
L
GLN
159
n
159
GLN
159
L
GLU
160
n
160
GLU
160
L
SER
161
n
161
SER
161
L
VAL
162
n
162
VAL
162
L
THR
163
n
163
THR
163
L
GLU
164
n
164
GLU
164
L
GLN
165
n
165
GLN
165
L
ASP
166
n
166
ASP
166
L
SER
167
n
167
SER
167
L
LYS
168
n
168
LYS
168
L
ASP
169
n
169
ASP
169
L
SER
170
n
170
SER
170
L
THR
171
n
171
THR
171
L
TYR
172
n
172
TYR
172
L
SER
173
n
173
SER
173
L
LEU
174
n
174
LEU
174
L
SER
175
n
175
SER
175
L
SER
176
n
176
SER
176
L
THR
177
n
177
THR
177
L
LEU
178
n
178
LEU
178
L
THR
179
n
179
THR
179
L
LEU
180
n
180
LEU
180
L
SER
181
n
181
SER
181
L
LYS
182
n
182
LYS
182
L
ALA
183
n
183
ALA
183
L
ASP
184
n
184
ASP
184
L
TYR
185
n
185
TYR
185
L
GLU
186
n
186
GLU
186
L
LYS
187
n
187
LYS
187
L
HIS
188
n
188
HIS
188
L
LYS
189
n
189
LYS
189
L
LEU
190
n
190
LEU
190
L
TYR
191
n
191
TYR
191
L
ALA
192
n
192
ALA
192
L
CYS
193
n
193
CYS
193
L
GLU
194
n
194
GLU
194
L
VAL
195
n
195
VAL
195
L
THR
196
n
196
THR
196
L
HIS
197
n
197
HIS
197
L
GLN
198
n
198
GLN
198
L
GLY
199
n
199
GLY
199
L
LEU
200
n
200
LEU
200
L
SER
201
n
201
SER
201
L
SER
202
n
202
SER
202
L
PRO
203
n
203
PRO
203
L
VAL
204
n
204
VAL
204
L
THR
205
n
205
THR
205
L
LYS
206
n
206
LYS
206
L
SER
207
n
207
SER
207
L
PHE
208
n
208
PHE
208
L
ASN
209
n
209
ASN
209
L
ARG
210
n
210
ARG
210
L
GLY
211
n
211
GLY
211
L
GLU
212
n
212
GLU
212
L
GLU
1
n
1
GLU
1
H
VAL
2
n
2
VAL
2
H
GLN
3
n
3
GLN
3
H
LEU
4
n
4
LEU
4
H
VAL
5
n
5
VAL
5
H
GLN
6
n
6
GLN
6
H
SER
7
n
7
SER
7
H
GLY
8
n
8
GLY
8
H
ALA
9
n
9
ALA
9
H
GLU
10
n
10
GLU
10
H
VAL
11
n
11
VAL
11
H
LYS
12
n
12
LYS
12
H
LYS
13
n
13
LYS
13
H
PRO
14
n
14
PRO
14
H
GLY
15
n
15
GLY
15
H
ALA
16
n
16
ALA
16
H
THR
17
n
17
THR
17
H
VAL
18
n
18
VAL
18
H
LYS
19
n
19
LYS
19
H
ILE
20
n
20
ILE
20
H
SER
21
n
21
SER
21
H
CYS
22
n
22
CYS
22
H
LYS
23
n
23
LYS
23
H
ALA
24
n
24
ALA
24
H
SER
25
n
25
SER
25
H
GLY
26
n
26
GLY
26
H
TYR
27
n
27
TYR
27
H
THR
28
n
28
THR
28
H
PHE
29
n
29
PHE
29
H
SER
30
n
30
SER
30
H
ASP
31
n
31
ASP
31
H
PHE
32
n
32
PHE
32
H
TYR
33
n
33
TYR
33
H
MET
34
n
34
MET
34
H
TYR
35
n
35
TYR
35
H
TRP
36
n
36
TRP
36
H
VAL
37
n
37
VAL
37
H
ARG
38
n
38
ARG
38
H
GLN
39
n
39
GLN
39
H
ALA
40
n
40
ALA
40
H
PRO
41
n
41
PRO
41
H
GLY
42
n
42
GLY
42
H
LYS
43
n
43
LYS
43
H
GLY
44
n
44
GLY
44
H
LEU
45
n
45
LEU
45
H
GLU
46
n
46
GLU
46
H
TRP
47
n
47
TRP
47
H
MET
48
n
48
MET
48
H
GLY
49
n
49
GLY
49
H
LEU
50
n
50
LEU
50
H
ILE
51
n
51
ILE
51
H
ASP
52
n
52
ASP
52
H
PRO
53
n
53
PRO
53
H
GLU
54
n
54
GLU
54
H
ASP
55
n
55
ASP
55
H
ALA
56
n
56
ALA
56
H
ASP
57
n
57
ASP
57
H
THR
58
n
58
THR
58
H
MET
59
n
59
MET
59
H
TYR
60
n
60
TYR
60
H
ALA
61
n
61
ALA
61
H
GLU
62
n
62
GLU
62
H
LYS
63
n
63
LYS
63
H
PHE
64
n
64
PHE
64
H
ARG
65
n
65
ARG
65
H
GLY
66
n
66
GLY
66
H
ARG
67
n
67
ARG
67
H
VAL
68
n
68
VAL
68
H
THR
69
n
69
THR
69
H
ILE
70
n
70
ILE
70
H
THR
71
n
71
THR
71
H
ALA
72
n
72
ALA
72
H
ASP
73
n
73
ASP
73
H
THR
74
n
74
THR
74
H
SER
75
n
75
SER
75
H
THR
76
n
76
THR
76
H
ASP
77
n
77
ASP
77
H
THR
78
n
78
THR
78
H
GLY
79
n
79
GLY
79
H
TYR
80
n
80
TYR
80
H
LEU
81
n
81
LEU
81
H
GLU
82
n
82
GLU
82
H
LEU
83
n
83
LEU
83
H
SER
84
n
84
SER
84
H
SER
85
n
85
SER
85
H
LEU
86
n
86
LEU
86
H
ARG
87
n
87
ARG
87
H
SER
88
n
88
SER
88
H
GLU
89
n
89
GLU
89
H
ASP
90
n
90
ASP
90
H
THR
91
n
91
THR
91
H
ALA
92
n
92
ALA
92
H
VAL
93
n
93
VAL
93
H
TYR
94
n
94
TYR
94
H
TYR
95
n
95
TYR
95
H
CYS
96
n
96
CYS
96
H
ALA
97
n
97
ALA
97
H
ALA
98
n
98
ALA
98
H
ASP
99
n
99
ASP
99
H
PRO
100
n
100
PRO
100
H
TRP
101
n
101
TRP
101
H
GLU
102
n
102
GLU
102
H
LEU
103
n
103
LEU
103
H
ASN
104
n
104
ASN
104
H
ALA
105
n
105
ALA
105
H
PHE
106
n
106
PHE
106
H
ASN
107
n
107
ASN
107
H
VAL
108
n
108
VAL
108
H
TRP
109
n
109
TRP
109
H
GLY
110
n
110
GLY
110
H
GLN
111
n
111
GLN
111
H
GLY
112
n
112
GLY
112
H
THR
113
n
113
THR
113
H
LEU
114
n
114
LEU
114
H
VAL
115
n
115
VAL
115
H
SER
116
n
116
SER
116
H
VAL
117
n
117
VAL
117
H
SER
118
n
118
SER
118
H
SER
119
n
119
SER
119
H
ALA
120
n
120
ALA
120
H
SER
121
n
121
SER
121
H
THR
122
n
122
THR
122
H
LYS
123
n
123
LYS
123
H
GLY
124
n
124
GLY
124
H
PRO
125
n
125
PRO
125
H
SER
126
n
126
SER
126
H
VAL
127
n
127
VAL
127
H
PHE
128
n
128
PHE
128
H
PRO
129
n
129
PRO
129
H
LEU
130
n
130
LEU
130
H
ALA
131
n
131
ALA
131
H
PRO
132
n
132
PRO
132
H
SER
133
n
133
SER
133
H
SER
134
n
134
SER
134
H
LYS
135
n
135
LYS
135
H
SER
136
n
136
SER
136
H
THR
137
n
137
THR
137
H
SER
138
n
138
SER
138
H
GLY
139
n
139
GLY
139
H
GLY
140
n
140
GLY
140
H
THR
141
n
141
THR
141
H
ALA
142
n
142
ALA
142
H
ALA
143
n
143
ALA
143
H
LEU
144
n
144
LEU
144
H
GLY
145
n
145
GLY
145
H
CYS
146
n
146
CYS
146
H
LEU
147
n
147
LEU
147
H
VAL
148
n
148
VAL
148
H
LYS
149
n
149
LYS
149
H
ASP
150
n
150
ASP
150
H
TYR
151
n
151
TYR
151
H
PHE
152
n
152
PHE
152
H
PRO
153
n
153
PRO
153
H
GLU
154
n
154
GLU
154
H
PRO
155
n
155
PRO
155
H
VAL
156
n
156
VAL
156
H
THR
157
n
157
THR
157
H
VAL
158
n
158
VAL
158
H
SER
159
n
159
SER
159
H
TRP
160
n
160
TRP
160
H
ASN
161
n
161
ASN
161
H
SER
162
n
162
SER
162
H
GLY
163
n
163
GLY
163
H
ALA
164
n
164
ALA
164
H
LEU
165
n
165
LEU
165
H
THR
166
n
166
THR
166
H
SER
167
n
167
SER
167
H
GLY
168
n
168
GLY
168
H
VAL
169
n
169
VAL
169
H
HIS
170
n
170
HIS
170
H
THR
171
n
171
THR
171
H
PHE
172
n
172
PHE
172
H
PRO
173
n
173
PRO
173
H
ALA
174
n
174
ALA
174
H
VAL
175
n
175
VAL
175
H
LEU
176
n
176
LEU
176
H
GLN
177
n
177
GLN
177
H
SER
178
n
178
SER
178
H
SER
179
n
179
SER
179
H
GLY
180
n
180
GLY
180
H
LEU
181
n
181
LEU
181
H
TYR
182
n
182
TYR
182
H
SER
183
n
183
SER
183
H
LEU
184
n
184
LEU
184
H
SER
185
n
185
SER
185
H
SER
186
n
186
SER
186
H
VAL
187
n
187
VAL
187
H
VAL
188
n
188
VAL
188
H
THR
189
n
189
THR
189
H
VAL
190
n
190
VAL
190
H
PRO
191
n
191
PRO
191
H
SER
192
n
192
SER
192
H
SER
193
n
193
SER
193
H
SER
194
n
194
SER
194
H
LEU
195
n
195
LEU
195
H
GLY
196
n
196
GLY
196
H
THR
197
n
197
THR
197
H
GLN
198
n
198
GLN
198
H
THR
199
n
199
THR
199
H
TYR
200
n
200
TYR
200
H
ILE
201
n
201
ILE
201
H
CYS
202
n
202
CYS
202
H
ASN
203
n
203
ASN
203
H
VAL
204
n
204
VAL
204
H
ASN
205
n
205
ASN
205
H
HIS
206
n
206
HIS
206
H
LYS
207
n
207
LYS
207
H
PRO
208
n
208
PRO
208
H
SER
209
n
209
SER
209
H
ASN
210
n
210
ASN
210
H
THR
211
n
211
THR
211
H
LYS
212
n
212
LYS
212
H
VAL
213
n
213
VAL
213
H
ASP
214
n
214
ASP
214
H
LYS
215
n
215
LYS
215
H
LYS
216
n
216
LYS
216
H
VAL
217
n
217
VAL
217
H
GLU
218
n
218
GLU
218
H
PRO
219
n
219
PRO
219
H
4.3939
-3.2548
2.3038
6.6073
-1.5238
3.6797
0.1752
-0.0979
-0.0567
-0.0924
-0.0224
-0.4238
0.1660
0.3224
-0.1392
0.4390
-0.0278
0.0039
0.4890
-0.1111
0.3686
refined
43.4667
6.0101
87.9153
X-RAY DIFFRACTION
3.9122
-1.3859
0.4538
3.8768
-0.2043
3.6564
-0.0349
-0.2795
0.1358
0.3244
0.2250
-0.4710
-0.1653
0.1099
-0.1996
0.4549
-0.0504
0.0162
0.3299
-0.0321
0.3893
refined
41.9438
21.6070
100.7025
X-RAY DIFFRACTION
4.4743
-0.4195
2.2937
7.7229
-2.8066
4.9214
-0.3318
-0.0699
-0.0045
0.7412
0.4413
0.0364
-0.1766
-0.0215
-0.1119
0.4737
0.0477
0.0158
0.4931
0.0291
0.3524
refined
23.2974
45.8486
80.9719
X-RAY DIFFRACTION
7.1487
-0.1064
2.1727
4.3729
-0.6992
3.6958
-0.1638
-0.5053
0.2242
0.1004
0.0405
0.2325
-0.7514
-0.8182
0.1847
0.6729
0.1294
0.0154
0.6693
0.0102
0.3742
refined
2.5121
69.0879
65.1466
X-RAY DIFFRACTION
1.7299
-0.7662
1.9664
0.3289
-0.8376
2.1675
0.0586
-0.4352
-1.0138
0.1836
0.6610
1.0092
0.1456
-0.6500
-0.4383
0.4198
-0.1262
-0.0510
0.6747
0.3924
0.9283
refined
3.9875
34.7810
76.4624
X-RAY DIFFRACTION
5.3603
2.8943
-0.3762
8.1240
-3.1084
5.2099
0.1881
-0.1572
-0.0655
-0.2347
-0.0151
0.5624
-0.7008
-0.2828
-0.1946
0.5335
0.1257
0.0824
0.4290
0.0411
0.4090
refined
-0.1816
60.9847
51.7526
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
chain G and (resid 1:252 or resid 474:492)
X-RAY DIFFRACTION
2
chain G and resid 253:473
X-RAY DIFFRACTION
3
chain H and resid 1:118
X-RAY DIFFRACTION
4
chain H and resid 119:219
X-RAY DIFFRACTION
5
chain L and resid 1:108
X-RAY DIFFRACTION
6
chain L and resid 109:212
author_and_software_defined_assembly
PISA
3
trimeric
7880
-4
33050
G
ASN
289
GLYCOSYLATION SITE
A
ASN
134
ASN
G
ASN
276
GLYCOSYLATION SITE
A
ASN
121
ASN
G
ASN
295
GLYCOSYLATION SITE
A
ASN
140
ASN
G
ASN
386
GLYCOSYLATION SITE
A
ASN
215
ASN
G
ASN
234
GLYCOSYLATION SITE
A
ASN
79
ASN
G
ASN
262
GLYCOSYLATION SITE
A
ASN
107
ASN
G
ASN
448
GLYCOSYLATION SITE
A
ASN
269
ASN
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
G
N
PHE
93
A
N
PHE
11
G
O
GLY
237
A
O
GLY
82
G
O
ILE
201
A
O
ILE
46
G
N
LYS
121
A
N
LYS
39
G
N
LEU
122
A
N
LEU
40
G
O
LYS
432
A
O
LYS
253
G
O
ALA
433
A
O
ALA
254
G
N
ILE
424
A
N
ILE
245
G
O
SER
243
A
O
SER
88
G
N
LYS
227
A
N
LYS
72
G
N
ALA
224
A
N
ALA
69
G
O
VAL
489
A
O
VAL
310
G
N
LEU
260
A
N
LEU
105
G
O
GLY
451
A
O
GLY
272
G
O
LEU
454
A
O
LEU
275
G
N
ILE
284
A
N
ILE
129
G
O
GLU
466
A
O
GLU
287
G
N
ILE
360
A
N
ILE
189
G
N
ARG
273
A
N
ARG
118
G
O
ILE
285
A
O
ILE
130
G
N
ILE
284
A
N
ILE
129
G
O
LEU
454
A
O
LEU
275
G
N
CYS
331
A
N
CYS
160
G
O
LEU
416
A
O
LEU
237
G
O
ARG
419
A
O
ARG
240
G
N
TYR
384
A
N
TYR
213
G
O
PHE
383
A
O
PHE
212
G
N
PHE
376
A
N
PHE
205
L
N
THR
5
B
N
THR
5
L
O
ARG
24
B
O
ARG
24
L
N
ILE
21
B
N
ILE
21
L
O
LEU
73
B
O
LEU
73
L
O
THR
74
B
O
THR
74
L
N
SER
63
B
N
SER
63
L
N
VAL
11
B
N
VAL
11
L
O
GLU
104
B
O
GLU
104
L
O
THR
101
B
O
THR
101
L
N
TYR
86
B
N
TYR
86
L
O
THR
85
B
O
THR
85
L
N
GLN
38
B
N
GLN
38
L
N
TRP
35
B
N
TRP
35
L
O
ILE
48
B
O
ILE
48
L
N
TYR
49
B
N
TYR
49
L
O
THR
53
B
O
THR
53
L
N
PHE
115
B
N
PHE
115
L
O
LEU
134
B
O
LEU
134
L
N
VAL
131
B
N
VAL
131
L
O
LEU
178
B
O
LEU
178
L
O
THR
177
B
O
THR
177
L
N
GLN
159
B
N
GLN
159
L
O
ALA
152
B
O
ALA
152
L
N
VAL
149
B
N
VAL
149
L
N
LYS
148
B
N
LYS
148
L
O
ALA
192
B
O
ALA
192
L
N
VAL
195
B
N
VAL
195
L
O
VAL
204
B
O
VAL
204
H
N
VAL
5
C
N
VAL
5
H
O
LYS
23
C
O
LYS
23
H
N
ILE
20
C
N
ILE
20
H
O
LEU
81
C
O
LEU
81
H
O
TYR
80
C
O
TYR
80
H
N
THR
71
C
N
THR
71
H
N
LYS
12
C
N
LYS
12
H
O
SER
116
C
O
SER
116
H
O
VAL
115
C
O
VAL
115
H
N
ALA
92
C
N
ALA
92
H
O
TYR
95
C
O
TYR
95
H
N
VAL
37
C
N
VAL
37
H
N
TRP
36
C
N
TRP
36
H
O
MET
48
C
O
MET
48
H
N
ASP
52
C
N
ASP
52
H
O
ASP
57
C
O
ASP
57
H
N
LYS
12
C
N
LYS
12
H
O
SER
116
C
O
SER
116
H
O
VAL
115
C
O
VAL
115
H
N
ALA
92
C
N
ALA
92
H
N
ALA
98
C
N
ALA
98
H
O
VAL
108
C
O
VAL
108
H
N
PHE
128
C
N
PHE
128
H
O
LEU
147
C
O
LEU
147
H
N
LEU
144
C
N
LEU
144
H
O
VAL
188
C
O
VAL
188
H
O
VAL
187
C
O
VAL
187
H
N
HIS
170
C
N
HIS
170
H
N
SER
138
C
N
SER
138
H
O
THR
141
C
O
THR
141
H
N
LEU
144
C
N
LEU
144
H
O
VAL
188
C
O
VAL
188
H
O
SER
183
C
O
SER
183
H
N
VAL
175
C
N
VAL
175
H
N
SER
159
C
N
SER
159
H
O
ASN
203
C
O
ASN
203
H
N
HIS
206
C
N
HIS
206
H
O
THR
211
C
O
THR
211
1
G
OD2
ASP
230
A
OD2
ASP
75
0
Y
1
G
GLU
83
A
GLU
1
1
Y
1
G
VAL
84
A
VAL
2
1
Y
1
G
LYS
85
A
LYS
3
1
Y
1
G
LEU
86
A
LEU
4
1
Y
1
G
GLU
87
A
GLU
5
1
Y
1
G
ASN
88
A
ASN
6
1
Y
1
G
VAL
89
A
VAL
7
1
Y
1
G
GLY
318
A
GLY
147
1
Y
1
G
GLY
319
A
GLY
148
1
Y
1
G
SER
320
A
SER
149
1
Y
1
G
GLY
321
A
GLY
150
1
Y
1
G
SER
322
A
SER
151
1
Y
1
G
GLY
323
A
GLY
152
1
Y
1
G
ARG
405
A
ARG
226
1
Y
1
G
LYS
406
A
LYS
227
1
Y
1
G
LEU
407
A
LEU
228
1
Y
1
G
ASN
408
A
ASN
229
1
Y
1
G
ASN
409
A
ASN
230
1
Y
1
G
THR
410
A
THR
231
1
Y
1
G
GLY
411
A
GLY
232
1
Y
1
G
GLY
458
A
GLY
279
1
Y
1
G
GLY
459
A
GLY
280
1
Y
1
G
LYS
460
A
LYS
281
1
Y
1
G
ASP
461
A
ASP
282
1
Y
1
G
THR
462
A
THR
283
1
Y
1
L
ASP
1
B
ASP
1
1
Y
1
G
G
O
O
HOH
HOH
647
650
1.86
1
G
G
O
O
HOH
HOH
643
644
1.90
1
G
G
SG
CB
CYS
CYS
119
205
1.94
1
H
H
OG
O
SER
HOH
7
302
2.00
1
G
G
ND2
C2
ASN
NAG
289
504
2.04
1
L
L
OH
O
TYR
HOH
185
320
2.06
1
G
G
N
O
LYS
HOH
97
617
2.06
1
H
H
O
O
HOH
HOH
323
329
2.09
1
H
H
N
O
ASP
HOH
214
308
2.11
1
G
G
NH1
O
ARG
HOH
419
618
2.15
1
G
G
O
O
TYR
HOH
435
637
2.15
1
G
G
O
NH1
PHE
ARG
233
273
2.15
1
L
L
NE2
O
GLN
HOH
123
315
2.16
1
H
H
O
O
HOH
HOH
326
328
2.16
1
L
L
OG
OD1
SER
ASP
181
184
2.16
1
G
G
O
O
GLY
HOH
472
639
2.16
1
G
G
N
O
LYS
HOH
232
623
2.18
1
G
G
OE1
O
GLU
HOH
211
632
2.19
1
G
LEU
116
-107.20
75.14
1
G
ASN
229
-112.99
64.04
1
G
ASN
241
-109.00
79.41
1
G
PRO
253
-59.52
81.86
1
G
GLN
258
63.88
-60.61
1
G
GLU
268
-98.21
-79.77
1
G
ASN
276
-169.35
88.73
1
G
SER
387
-114.91
59.89
1
L
SER
30
56.97
-121.61
1
L
SER
52
-163.65
-45.18
1
L
PRO
59
-47.38
150.48
1
L
ALA
84
-170.53
-163.04
1
L
ALA
91
-154.27
34.18
1
L
SER
93
-143.80
-58.74
1
L
ASN
137
52.46
90.19
1
L
PRO
140
-70.00
-165.21
1
L
LYS
189
-132.14
-44.59
1
H
PRO
14
-58.07
97.26
1
H
THR
28
-65.72
98.27
1
H
LEU
130
-113.45
74.43
1
H
SER
133
-171.87
-177.45
1
H
SER
136
-143.57
21.20
1
H
ASP
150
58.17
71.87
1
H
PRO
153
-95.97
-158.64
1
H
THR
197
-134.93
-46.38
71.8165
2.8745
0.0000
0.0000
-0.3003
-0.0000
-2.5742
0.2887
0.2284
0.2333
2.5
49.4
1970
27496
24129
8.16
87.79
1.000
0.000
0.46
1
1.42
MOLECULAR REPLACEMENT
35.42
0.90
1.11
pdb entry 1RZK
ML
FLAT BULK SOLVENT MODEL
2.5
49.4
113
5767
121
0
5533
0.001
5792
0.359
7862
7.027
2116
0.022
895
0.002
998
0.4201
0.3274
2.5591
90
1009
56.00
0.4125
0.3145
2.6283
100
1163
66.00
0.3581
0.3217
2.7056
113
1264
72.00
0.4188
0.3084
2.7929
122
1363
76.00
0.4086
0.3060
2.8927
133
1482
84.00
0.4087
0.2947
3.0085
141
1576
88.00
0.3515
0.2928
3.1454
151
1691
94.00
0.3036
0.2634
3.3112
153
1721
97.00
0.3366
0.2444
3.5186
156
1758
99.00
0.2584
0.2337
3.7902
159
1793
99.00
0.2926
0.2098
4.1715
160
1793
99.00
0.2302
0.1835
4.7747
159
1803
99.00
0.2446
0.1957
6.0139
164
1833
99.00
0.2651
0.2117
49.4776
169
1910
98.00
56.8
2.5
49.4
4DVR
27379
24559
0.0
0
0.134
0.155
1
11.04
4.6
89.7
0.497
2.5
2.54
2.2
0.46
1
1.8
62.9
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.8_1069
data extraction
PDB
deposit@deposit.rcsb.org
June 10, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.10
data collection
HKL-2000
data reduction
HKL-2000
data scaling
HKL-2000
phasing
PHASES
Crystal structure of YU2 gp120 core in complex with Fab 48d and NBD-557
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
4
N
N
4
N
N
4
N
N
4
N
N
5
N
N
6
N
N
6
N
N
6
N
N
monomer
G
ASN
99
A
ASN
17
HELX_P
G
LEU
116
A
LEU
34
1
1
18
G
LYS
335
A
LYS
164
HELX_P
G
GLY
354
A
GLY
183
1
2
20
G
ASP
368
A
ASP
197
HELX_P
G
THR
373
A
THR
202
1
3
6
G
ASP
474
A
ASP
295
HELX_P
G
SER
481
A
SER
302
1
4
8
L
SER
120
B
SER
120
HELX_P
L
GLY
127
B
GLY
127
1
5
8
L
LYS
182
B
LYS
182
HELX_P
L
LYS
187
B
LYS
187
1
6
6
H
THR
28
C
THR
28
HELX_P
H
PHE
32
C
PHE
32
5
7
5
H
ARG
87
C
ARG
87
HELX_P
H
THR
91
C
THR
91
5
8
5
H
SER
193
C
SER
193
HELX_P
H
LEU
195
C
LEU
195
5
9
3
H
LYS
207
C
LYS
207
HELX_P
H
ASN
210
C
ASN
210
5
10
4
disulf
2.033
G
CYS
119
A
SG
CYS
37
1_555
G
CYS
205
A
SG
CYS
50
1_555
disulf
2.031
G
CYS
218
A
SG
CYS
63
1_555
G
CYS
247
A
SG
CYS
92
1_555
disulf
2.031
G
CYS
228
A
SG
CYS
73
1_555
G
CYS
239
A
SG
CYS
84
1_555
disulf
2.031
G
CYS
296
A
SG
CYS
141
1_555
G
CYS
331
A
SG
CYS
160
1_555
disulf
2.030
G
CYS
378
A
SG
CYS
207
1_555
G
CYS
445
A
SG
CYS
266
1_555
disulf
2.031
G
CYS
385
A
SG
CYS
214
1_555
G
CYS
418
A
SG
CYS
239
1_555
disulf
2.031
L
CYS
23
B
SG
CYS
23
1_555
L
CYS
88
B
SG
CYS
88
1_555
disulf
2.034
L
CYS
133
B
SG
CYS
133
1_555
L
CYS
193
B
SG
CYS
193
1_555
disulf
2.032
H
CYS
22
C
SG
CYS
22
1_555
H
CYS
96
C
SG
CYS
96
1_555
disulf
2.031
H
CYS
146
C
SG
CYS
146
1_555
H
CYS
202
C
SG
CYS
202
1_555
covale
1.440
one
N-Glycosylation
G
ASN
234
A
ND2
ASN
79
1_555
G
NAG
501
D
C1
NAG
1_555
covale
1.441
one
N-Glycosylation
G
ASN
262
A
ND2
ASN
107
1_555
G
NAG
502
E
C1
NAG
1_555
covale
1.439
one
N-Glycosylation
G
ASN
276
A
ND2
ASN
121
1_555
G
NAG
503
F
C1
NAG
1_555
covale
1.439
one
N-Glycosylation
G
ASN
289
A
ND2
ASN
134
1_555
G
NAG
504
G
C1
NAG
1_555
covale
1.440
one
N-Glycosylation
G
ASN
295
A
ND2
ASN
140
1_555
G
NAG
505
H
C1
NAG
1_555
covale
1.440
one
N-Glycosylation
G
ASN
386
A
ND2
ASN
215
1_555
G
NAG
506
I
C1
NAG
1_555
covale
1.442
one
N-Glycosylation
G
ASN
448
A
ND2
ASN
269
1_555
G
NAG
507
J
C1
NAG
1_555
IMMUNE SYSTEM/TRANSCRIPTION INHIBITOR
HIV-1 gp120, CD4 binding site, NBD-557, IMMUNE SYSTEM-TRANSCRIPTION INHIBITOR complex
L
SER
7
B
SER
7
1
L
PRO
8
B
PRO
8
-1.33
L
TYR
139
B
TYR
139
1
L
PRO
140
B
PRO
140
0.90
H
PHE
152
C
PHE
152
1
H
PRO
153
C
PRO
153
-2.40
H
GLU
154
C
GLU
154
1
H
PRO
155
C
PRO
155
-0.86
ENV_HV1Y2
UNP
1
82
P35961
EVKLENVTENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLT
ENV_HV1Y2
UNP
1
195
P35961
SVITQACPKVSFEPIPIHYCAPAGFAILKCNDKKFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEIVIRSENFT
NNAKTIIVQLNESVVINCTRPNN
ENV_HV1Y2
UNP
1
319
P35961
GDIRQAHCNLSKTQWENTLEQIAIKLKEQFGNNKTIIFNPSSGGDPEIVTHSFNCGGEFFYCNSTQLFTWNDTRKLNNTG
RNITLPCRIKQIINMWQEVGKAMYAPPIRGQIRCSSNITGLLLTRDGGKDTNGTEIFRPGGGDMRDNWRSELYKYKVVKI
E
4DVR
PDB
2
1
4DVR
4DVR
PDB
3
1
4DVR
82
122
4DVR
83
123
P35961
G
1
1
41
195
297
4DVR
199
301
P35961
G
2
44
146
319
479
4DVR
324
492
P35961
G
3
153
313
1
212
4DVR
1
212
4DVR
L
4
1
212
1
219
4DVR
1
219
4DVR
H
5
1
219
1
linker
GLY
124
4DVR
G
P35961
UNP
42
1
linker
GLY
198
4DVR
G
P35961
UNP
43
2
linker
GLY
318
4DVR
G
P35961
UNP
147
2
linker
GLY
319
4DVR
G
P35961
UNP
148
2
linker
SER
320
4DVR
G
P35961
UNP
149
2
linker
GLY
321
4DVR
G
P35961
UNP
150
2
linker
SER
322
4DVR
G
P35961
UNP
151
2
linker
GLY
323
4DVR
G
P35961
UNP
152
2
4
3
5
7
4
6
4
4
4
6
4
4
4
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
G
ASN
92
A
ASN
10
G
ASN
94
A
ASN
12
G
THR
236
A
THR
81
G
PRO
238
A
PRO
83
G
VAL
200
A
VAL
45
G
THR
202
A
THR
47
G
VAL
120
A
VAL
38
G
LEU
122
A
LEU
40
G
LYS
432
A
LYS
253
G
MET
434
A
MET
255
G
ILE
423
A
ILE
244
G
ASN
425
A
ASN
246
G
VAL
242
A
VAL
87
G
VAL
245
A
VAL
90
G
PHE
223
A
PHE
68
G
CYS
228
A
CYS
73
G
TYR
486
A
TYR
307
G
LYS
490
A
LYS
311
G
LEU
259
A
LEU
104
G
LEU
261
A
LEU
106
G
ILE
443
A
ILE
264
G
ARG
456
A
ARG
277
G
ILE
284
A
ILE
129
G
ARG
298
A
ARG
143
G
GLU
466
A
GLU
287
G
PRO
470
A
PRO
291
G
ILE
359
A
ILE
188
G
PHE
361
A
PHE
190
G
VAL
271
A
VAL
116
G
SER
274
A
SER
119
G
ILE
284
A
ILE
129
G
ARG
298
A
ARG
143
G
ILE
443
A
ILE
264
G
ARG
456
A
ARG
277
G
GLN
328
A
GLN
157
G
SER
334
A
SER
163
G
ASN
413
A
ASN
234
G
LYS
421
A
LYS
242
G
GLU
381
A
GLU
210
G
CYS
385
A
CYS
214
G
HIS
374
A
HIS
203
G
CYS
378
A
CYS
207
L
MET
4
B
MET
4
L
SER
7
B
SER
7
L
VAL
19
B
VAL
19
L
ALA
25
B
ALA
25
L
ASP
70
B
ASP
70
L
ILE
75
B
ILE
75
L
PHE
62
B
PHE
62
L
SER
67
B
SER
67
L
SER
10
B
SER
10
L
ALA
13
B
ALA
13
L
THR
101
B
THR
101
L
ILE
105
B
ILE
105
L
THR
85
B
THR
85
L
GLN
90
B
GLN
90
L
LEU
33
B
LEU
33
L
GLN
38
B
GLN
38
L
LYS
45
B
LYS
45
L
TYR
49
B
TYR
49
L
THR
53
B
THR
53
L
LEU
54
B
LEU
54
L
SER
113
B
SER
113
L
PHE
117
B
PHE
117
L
THR
128
B
THR
128
L
PHE
138
B
PHE
138
L
TYR
172
B
TYR
172
L
SER
181
B
SER
181
L
SER
158
B
SER
158
L
VAL
162
B
VAL
162
L
ALA
152
B
ALA
152
L
GLN
154
B
GLN
154
L
LYS
144
B
LYS
144
L
VAL
149
B
VAL
149
L
LEU
190
B
LEU
190
L
THR
196
B
THR
196
L
VAL
204
B
VAL
204
L
ASN
209
B
ASN
209
H
GLN
3
C
GLN
3
H
GLN
6
C
GLN
6
H
VAL
18
C
VAL
18
H
SER
25
C
SER
25
H
THR
78
C
THR
78
H
LEU
83
C
LEU
83
H
VAL
68
C
VAL
68
H
ASP
73
C
ASP
73
H
GLU
10
C
GLU
10
H
LYS
12
C
LYS
12
H
THR
113
C
THR
113
H
VAL
117
C
VAL
117
H
ALA
92
C
ALA
92
H
ALA
98
C
ALA
98
H
MET
34
C
MET
34
H
GLN
39
C
GLN
39
H
LEU
45
C
LEU
45
H
ASP
52
C
ASP
52
H
ASP
57
C
ASP
57
H
TYR
60
C
TYR
60
H
GLU
10
C
GLU
10
H
LYS
12
C
LYS
12
H
THR
113
C
THR
113
H
VAL
117
C
VAL
117
H
ALA
92
C
ALA
92
H
ALA
98
C
ALA
98
H
VAL
108
C
VAL
108
H
TRP
109
C
TRP
109
H
SER
126
C
SER
126
H
LEU
130
C
LEU
130
H
THR
141
C
THR
141
H
TYR
151
C
TYR
151
H
TYR
182
C
TYR
182
H
PRO
191
C
PRO
191
H
VAL
169
C
VAL
169
H
THR
171
C
THR
171
H
THR
137
C
THR
137
H
SER
138
C
SER
138
H
THR
141
C
THR
141
H
TYR
151
C
TYR
151
H
TYR
182
C
TYR
182
H
PRO
191
C
PRO
191
H
VAL
175
C
VAL
175
H
LEU
176
C
LEU
176
H
THR
157
C
THR
157
H
TRP
160
C
TRP
160
H
TYR
200
C
TYR
200
H
HIS
206
C
HIS
206
H
THR
211
C
THR
211
H
VAL
217
C
VAL
217
19
P 21 21 21