0.016736
0.000000
0.000000
0.000000
0.016749
0.000000
0.000000
0.000000
0.012222
0.00000
0.00000
0.00000
Wielens, J.
Chalmers, D.K.
Headey, S.J.
Deadman, J.J.
Rhodes, D.K.
Parker, M.W.
Scanlon, M.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
59.750
59.704
81.818
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
Cd 2
112.411
CADMIUM ION
non-polymer
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C6 H12 O6
180.156
beta-D-fructofuranose
beta-D-fructose; D-fructose; fructose
D-saccharide, beta linking
C6 H12 O6
180.156
alpha-D-glucopyranose
alpha-D-glucose; D-glucose; glucose
D-saccharide, alpha 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 H9 N3 S
179.242
1-methyl-3-(thiophen-2-yl)-1H-pyrazol-5-amine
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
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
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
O
N
48
N
N
N
49
N
O
N
50
N
H
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
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
CD
N
75
N
N
N
76
R
C
N
77
N
C
N
78
N
O
N
79
N
C
N
80
N
S
N
81
N
O
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
H
N
89
N
C
N
90
R
C
N
91
S
C
N
92
S
C
N
93
R
C
N
94
N
C
N
95
N
O
N
96
N
O
N
97
N
O
N
98
N
O
N
99
N
O
N
100
N
O
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
H
N
113
S
C
N
114
R
C
N
115
S
C
N
116
S
C
N
117
R
C
N
118
N
C
N
119
N
O
N
120
N
O
N
121
N
O
N
122
N
O
N
123
N
O
N
124
N
O
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
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
O
N
141
N
C
N
142
N
C
N
143
N
C
N
144
N
O
N
145
N
N
N
146
N
O
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
N
N
158
S
C
N
159
N
C
N
160
N
O
N
161
N
C
N
162
N
C
N
163
N
C
N
164
N
O
N
165
N
O
N
166
N
O
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
H
N
175
N
H
N
176
N
N
N
177
N
C
N
178
N
C
N
179
N
O
N
180
N
O
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
N
N
187
S
C
N
188
N
C
N
189
N
O
N
190
N
C
Y
191
N
C
Y
192
N
N
Y
193
N
C
Y
194
N
C
Y
195
N
N
N
196
N
O
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
H
N
206
N
H
N
207
N
O
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
S
C
N
215
N
C
N
216
N
C
N
217
N
C
N
218
N
O
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
H
N
231
N
H
N
232
N
N
N
233
S
C
N
234
N
C
N
235
N
O
N
236
N
C
N
237
N
C
N
238
N
C
N
239
N
C
N
240
N
O
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
H
N
253
N
H
N
254
N
N
N
255
S
C
N
256
N
C
N
257
N
O
N
258
N
C
N
259
N
C
N
260
N
C
N
261
N
C
N
262
N
N
N
263
N
O
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
H
N
278
N
H
N
279
N
N
N
280
S
C
N
281
N
C
N
282
N
O
N
283
N
C
N
284
N
C
N
285
N
S
N
286
N
C
N
287
N
O
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
N
H
N
298
N
H
Y
299
N
C
Y
300
N
C
Y
301
N
N
Y
302
N
N
Y
303
N
C
Y
304
N
C
Y
305
N
S
Y
306
N
C
Y
307
N
C
Y
308
N
C
N
309
N
C
N
310
N
N
N
311
N
H
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
N
N
321
S
C
N
322
N
C
N
323
N
O
N
324
N
C
Y
325
N
C
Y
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
N
331
N
O
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
N
C
N
348
N
C
N
349
N
C
N
350
N
O
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
N
N
361
S
C
N
362
N
C
N
363
N
O
N
364
N
C
N
365
N
O
N
366
N
O
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
S
N
375
N
O
N
376
N
O
N
377
N
O
N
378
N
O
N
379
N
N
N
380
S
C
N
381
N
C
N
382
N
O
N
383
R
C
N
384
N
O
N
385
N
C
N
386
N
O
N
387
N
H
N
388
N
H
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
N
N
397
S
C
N
398
N
C
N
399
N
O
N
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
Y
404
N
N
Y
405
N
C
Y
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
N
410
N
O
N
411
N
H
N
412
N
H
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
N
N
424
S
C
N
425
N
C
N
426
N
O
N
427
N
C
Y
428
N
C
Y
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
Y
433
N
C
N
434
N
O
N
435
N
O
N
436
N
H
N
437
N
H
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
N
N
448
S
C
N
449
N
C
N
450
N
O
N
451
N
C
N
452
N
C
N
453
N
C
N
454
N
O
N
455
N
H
N
456
N
H
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
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
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
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
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
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
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
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
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
sing
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
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
Y
285
N
doub
Y
286
N
sing
Y
287
N
sing
N
288
N
sing
Y
289
N
sing
N
290
N
sing
Y
291
N
doub
Y
292
N
sing
Y
293
N
sing
Y
294
N
doub
Y
295
N
sing
Y
296
N
doub
Y
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
sing
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
doub
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
Y
318
N
doub
Y
319
N
sing
Y
320
N
sing
N
321
N
sing
Y
322
N
doub
N
323
N
sing
Y
324
N
doub
N
325
N
sing
Y
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
doub
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
sing
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
doub
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
doub
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
doub
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
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
doub
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
Y
391
N
doub
Y
392
N
sing
Y
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
sing
Y
400
N
doub
N
401
N
sing
Y
402
N
doub
N
403
N
sing
Y
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
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
doub
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
Y
419
N
doub
Y
420
N
sing
Y
421
N
sing
N
422
N
sing
Y
423
N
doub
N
424
N
sing
Y
425
N
doub
N
426
N
sing
Y
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
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
doub
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
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
DE
Chemmedchem
1860-7179
6
258
261
10.1002/cmdc.201000483
21275048
Fragment-based design of ligands targeting a novel site on the integrase enzyme of human immunodeficiency virus 1
2011
10.2210/pdb3ovn/pdb
pdb_00003ovn
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
K-B pair of biomorph mirrors
CCD
2007-02-14
MARMOSAIC 300 mm CCD
double crystal monochromator and K-B pair of biomorph mirrors
SINGLE WAVELENGTH
M
x-ray
1
1
1.0
23-ID-B
APS
1
SYNCHROTRON
APS BEAMLINE 23-ID-B
17802.174
POL polyprotein
Integrase CATALYTIC CORE DOMAIN, 765-927
C56S, W131D, F139D, F185H
2
man
polymer
342.297
beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose
1
man
branched
96.063
SULFATE ION
2
syn
non-polymer
179.242
1-methyl-3-(thiophen-2-yl)-1H-pyrazol-5-amine
2
syn
non-polymer
112.411
CADMIUM ION
4
syn
non-polymer
18.015
water
57
nat
water
sucrose
no
no
MHGQVDSSPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAA
CDWAGIKQEDGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGGIGGYSAGERIVDIIATDIQ
TKE
MHGQVDSSPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAA
CDWAGIKQEDGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNHKRKGGIGGYSAGERIVDIIATDIQ
TKE
A,B
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
NL43
sample
pol
11676
Human immunodeficiency virus 1
562
Escherichia coli
BL21 (DE3)
PLASMID
PET23B+
1
2.05
39.98
VAPOR DIFFUSION, HANGING DROP
5.6
1.6M AmSO4, 0.1M Na Citrate pH 5.6, 5mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
atom_site
chem_comp
entity
entity_name_com
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_molecule_features
pdbx_nonpoly_scheme
pdbx_struct_conn_angle
pdbx_validate_close_contact
struct_asym
struct_conn
struct_conn_type
struct_ref_seq_dif
struct_site
struct_site_gen
chem_comp
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Advisory
Atomic model
Data collection
Database references
Derived calculations
Non-polymer description
Structure summary
Data collection
Database references
Refinement description
Structure summary
1
0
2011-03-09
1
1
2011-07-13
2
0
2020-07-29
2
1
2023-11-01
_atom_site.B_iso_or_equiv
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.auth_asym_id
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.label_asym_id
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_entity_id
_atom_site.occupancy
_atom_site.type_symbol
_chem_comp.formula
_chem_comp.formula_weight
_chem_comp.id
_chem_comp.mon_nstd_flag
_chem_comp.name
_chem_comp.type
_entity.formula_weight
_entity.pdbx_description
_entity.pdbx_number_of_molecules
_entity.src_method
_entity.type
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_asym.entity_id
_struct_ref_seq_dif.details
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
D
SUC
1
n
C
GLC
1
D
SUC
1
n
C
FRU
2
DFrufb
b-D-fructofuranose
b-D-Fruf
Fru
DGlcpa
a-D-glucopyranose
a-D-Glcp
Glc
HIV-1 integrase core domain
RCSB
Y
PDBJ
2010-09-16
REL
REL
oligosaccharide
DFrufb2-1DGlcpa
2
GMML
1.0
Glycam Condensed Sequence
WURCS=2.0/2,2,1/[ha122h-2b_2-5][a2122h-1a_1-5]/1-2/a2-b1
2
PDB2Glycan
1.1.0
WURCS
[][b-D-Fruf]{[(2+1)][a-D-Glcp]{}}
2
PDB-CARE
LINUCS
C1
O2
GLC
FRU
1
2
2
O1
HO2
sing
n
n
SO4
SULFATE ION
MPV
1-methyl-3-(thiophen-2-yl)-1H-pyrazol-5-amine
CD
CADMIUM ION
HOH
water
3L3U
PDB ENTRY 3L3U
PDB
experimental model
Nutrient
oligosaccharide with reducing-end-to-reducing-end glycosidic bond
sucrose
Oligosaccharide
SO4
1
3
SO4
SO4
1
A
MPA
1
4
MPV
MPV
213
A
CD
1003
5
CD
CD
1003
A
CD
1004
5
CD
CD
1004
A
SO4
2
3
SO4
SO4
2
B
MPA
1
4
MPV
MPV
213
B
CD
1001
5
CD
CD
1001
B
CD
1002
5
CD
CD
1002
B
HOH
5
6
HOH
HOH
5
A
HOH
7
6
HOH
HOH
7
A
HOH
8
6
HOH
HOH
8
A
HOH
10
6
HOH
HOH
10
A
HOH
13
6
HOH
HOH
13
A
HOH
14
6
HOH
HOH
14
A
HOH
15
6
HOH
HOH
15
A
HOH
16
6
HOH
HOH
16
A
HOH
18
6
HOH
HOH
18
A
HOH
20
6
HOH
HOH
20
A
HOH
24
6
HOH
HOH
24
A
HOH
25
6
HOH
HOH
25
A
HOH
27
6
HOH
HOH
27
A
HOH
28
6
HOH
HOH
28
A
HOH
31
6
HOH
HOH
31
A
HOH
32
6
HOH
HOH
32
A
HOH
33
6
HOH
HOH
33
A
HOH
38
6
HOH
HOH
38
A
HOH
44
6
HOH
HOH
44
A
HOH
49
6
HOH
HOH
49
A
HOH
1
6
HOH
HOH
214
A
HOH
51
6
HOH
HOH
215
A
HOH
52
6
HOH
HOH
216
A
HOH
53
6
HOH
HOH
217
A
HOH
56
6
HOH
HOH
218
A
HOH
57
6
HOH
HOH
219
A
HOH
3
6
HOH
HOH
3
B
HOH
4
6
HOH
HOH
4
B
HOH
6
6
HOH
HOH
6
B
HOH
9
6
HOH
HOH
9
B
HOH
11
6
HOH
HOH
11
B
HOH
12
6
HOH
HOH
12
B
HOH
17
6
HOH
HOH
17
B
HOH
19
6
HOH
HOH
19
B
HOH
21
6
HOH
HOH
21
B
HOH
22
6
HOH
HOH
22
B
HOH
23
6
HOH
HOH
23
B
HOH
26
6
HOH
HOH
26
B
HOH
29
6
HOH
HOH
29
B
HOH
30
6
HOH
HOH
30
B
HOH
34
6
HOH
HOH
34
B
HOH
35
6
HOH
HOH
35
B
HOH
36
6
HOH
HOH
36
B
HOH
37
6
HOH
HOH
37
B
HOH
39
6
HOH
HOH
39
B
HOH
40
6
HOH
HOH
40
B
HOH
41
6
HOH
HOH
41
B
HOH
42
6
HOH
HOH
42
B
HOH
43
6
HOH
HOH
43
B
HOH
45
6
HOH
HOH
45
B
HOH
46
6
HOH
HOH
46
B
HOH
47
6
HOH
HOH
47
B
HOH
48
6
HOH
HOH
48
B
HOH
2
6
HOH
HOH
214
B
HOH
50
6
HOH
HOH
215
B
HOH
54
6
HOH
HOH
216
B
HOH
55
6
HOH
HOH
217
B
n
1
50
A
n
2
51
A
n
3
52
A
n
4
53
A
n
5
54
A
n
6
55
A
SER
56
n
7
SER
56
A
SER
57
n
8
SER
57
A
PRO
58
n
9
PRO
58
A
GLY
59
n
10
GLY
59
A
ILE
60
n
11
ILE
60
A
TRP
61
n
12
TRP
61
A
GLN
62
n
13
GLN
62
A
LEU
63
n
14
LEU
63
A
ASP
64
n
15
ASP
64
A
CYS
65
n
16
CYS
65
A
THR
66
n
17
THR
66
A
HIS
67
n
18
HIS
67
A
LEU
68
n
19
LEU
68
A
GLU
69
n
20
GLU
69
A
GLY
70
n
21
GLY
70
A
LYS
71
n
22
LYS
71
A
VAL
72
n
23
VAL
72
A
ILE
73
n
24
ILE
73
A
LEU
74
n
25
LEU
74
A
VAL
75
n
26
VAL
75
A
ALA
76
n
27
ALA
76
A
VAL
77
n
28
VAL
77
A
HIS
78
n
29
HIS
78
A
VAL
79
n
30
VAL
79
A
ALA
80
n
31
ALA
80
A
SER
81
n
32
SER
81
A
GLY
82
n
33
GLY
82
A
TYR
83
n
34
TYR
83
A
ILE
84
n
35
ILE
84
A
GLU
85
n
36
GLU
85
A
ALA
86
n
37
ALA
86
A
GLU
87
n
38
GLU
87
A
VAL
88
n
39
VAL
88
A
ILE
89
n
40
ILE
89
A
PRO
90
n
41
PRO
90
A
ALA
91
n
42
ALA
91
A
GLU
92
n
43
GLU
92
A
THR
93
n
44
THR
93
A
GLY
94
n
45
GLY
94
A
GLN
95
n
46
GLN
95
A
GLU
96
n
47
GLU
96
A
THR
97
n
48
THR
97
A
ALA
98
n
49
ALA
98
A
TYR
99
n
50
TYR
99
A
PHE
100
n
51
PHE
100
A
LEU
101
n
52
LEU
101
A
LEU
102
n
53
LEU
102
A
LYS
103
n
54
LYS
103
A
LEU
104
n
55
LEU
104
A
ALA
105
n
56
ALA
105
A
GLY
106
n
57
GLY
106
A
ARG
107
n
58
ARG
107
A
TRP
108
n
59
TRP
108
A
PRO
109
n
60
PRO
109
A
VAL
110
n
61
VAL
110
A
LYS
111
n
62
LYS
111
A
THR
112
n
63
THR
112
A
VAL
113
n
64
VAL
113
A
HIS
114
n
65
HIS
114
A
THR
115
n
66
THR
115
A
ASP
116
n
67
ASP
116
A
ASN
117
n
68
ASN
117
A
GLY
118
n
69
GLY
118
A
SER
119
n
70
SER
119
A
ASN
120
n
71
ASN
120
A
PHE
121
n
72
PHE
121
A
THR
122
n
73
THR
122
A
SER
123
n
74
SER
123
A
THR
124
n
75
THR
124
A
THR
125
n
76
THR
125
A
VAL
126
n
77
VAL
126
A
LYS
127
n
78
LYS
127
A
ALA
128
n
79
ALA
128
A
ALA
129
n
80
ALA
129
A
CYS
130
n
81
CYS
130
A
ASP
131
n
82
ASP
131
A
TRP
132
n
83
TRP
132
A
ALA
133
n
84
ALA
133
A
GLY
134
n
85
GLY
134
A
ILE
135
n
86
ILE
135
A
LYS
136
n
87
LYS
136
A
GLN
137
n
88
GLN
137
A
GLU
138
n
89
GLU
138
A
ASP
139
n
90
ASP
139
A
GLY
140
n
91
GLY
140
A
ILE
141
n
92
ILE
141
A
PRO
142
n
93
PRO
142
A
n
94
143
A
n
95
144
A
n
96
145
A
n
97
146
A
n
98
147
A
n
99
148
A
n
100
149
A
n
101
150
A
n
102
151
A
GLU
152
n
103
GLU
152
A
SER
153
n
104
SER
153
A
MET
154
n
105
MET
154
A
ASN
155
n
106
ASN
155
A
LYS
156
n
107
LYS
156
A
GLU
157
n
108
GLU
157
A
LEU
158
n
109
LEU
158
A
LYS
159
n
110
LYS
159
A
LYS
160
n
111
LYS
160
A
ILE
161
n
112
ILE
161
A
ILE
162
n
113
ILE
162
A
GLY
163
n
114
GLY
163
A
GLN
164
n
115
GLN
164
A
VAL
165
n
116
VAL
165
A
ARG
166
n
117
ARG
166
A
ASP
167
n
118
ASP
167
A
GLN
168
n
119
GLN
168
A
ALA
169
n
120
ALA
169
A
GLU
170
n
121
GLU
170
A
HIS
171
n
122
HIS
171
A
LEU
172
n
123
LEU
172
A
LYS
173
n
124
LYS
173
A
THR
174
n
125
THR
174
A
ALA
175
n
126
ALA
175
A
VAL
176
n
127
VAL
176
A
GLN
177
n
128
GLN
177
A
MET
178
n
129
MET
178
A
ALA
179
n
130
ALA
179
A
VAL
180
n
131
VAL
180
A
PHE
181
n
132
PHE
181
A
ILE
182
n
133
ILE
182
A
HIS
183
n
134
HIS
183
A
ASN
184
n
135
ASN
184
A
HIS
185
n
136
HIS
185
A
LYS
186
n
137
LYS
186
A
ARG
187
n
138
ARG
187
A
LYS
188
n
139
LYS
188
A
GLY
189
n
140
GLY
189
A
GLY
190
n
141
GLY
190
A
ILE
191
n
142
ILE
191
A
GLY
192
n
143
GLY
192
A
GLY
193
n
144
GLY
193
A
TYR
194
n
145
TYR
194
A
SER
195
n
146
SER
195
A
ALA
196
n
147
ALA
196
A
GLY
197
n
148
GLY
197
A
GLU
198
n
149
GLU
198
A
ARG
199
n
150
ARG
199
A
ILE
200
n
151
ILE
200
A
VAL
201
n
152
VAL
201
A
ASP
202
n
153
ASP
202
A
ILE
203
n
154
ILE
203
A
ILE
204
n
155
ILE
204
A
ALA
205
n
156
ALA
205
A
THR
206
n
157
THR
206
A
ASP
207
n
158
ASP
207
A
n
159
208
A
n
160
209
A
n
161
210
A
n
162
211
A
n
163
212
A
n
1
50
B
n
2
51
B
n
3
52
B
n
4
53
B
n
5
54
B
n
6
55
B
n
7
56
B
SER
57
n
8
SER
57
B
PRO
58
n
9
PRO
58
B
GLY
59
n
10
GLY
59
B
ILE
60
n
11
ILE
60
B
TRP
61
n
12
TRP
61
B
GLN
62
n
13
GLN
62
B
LEU
63
n
14
LEU
63
B
ASP
64
n
15
ASP
64
B
CYS
65
n
16
CYS
65
B
THR
66
n
17
THR
66
B
HIS
67
n
18
HIS
67
B
LEU
68
n
19
LEU
68
B
GLU
69
n
20
GLU
69
B
GLY
70
n
21
GLY
70
B
LYS
71
n
22
LYS
71
B
VAL
72
n
23
VAL
72
B
ILE
73
n
24
ILE
73
B
LEU
74
n
25
LEU
74
B
VAL
75
n
26
VAL
75
B
ALA
76
n
27
ALA
76
B
VAL
77
n
28
VAL
77
B
HIS
78
n
29
HIS
78
B
VAL
79
n
30
VAL
79
B
ALA
80
n
31
ALA
80
B
SER
81
n
32
SER
81
B
GLY
82
n
33
GLY
82
B
TYR
83
n
34
TYR
83
B
ILE
84
n
35
ILE
84
B
GLU
85
n
36
GLU
85
B
ALA
86
n
37
ALA
86
B
GLU
87
n
38
GLU
87
B
VAL
88
n
39
VAL
88
B
ILE
89
n
40
ILE
89
B
PRO
90
n
41
PRO
90
B
ALA
91
n
42
ALA
91
B
GLU
92
n
43
GLU
92
B
THR
93
n
44
THR
93
B
GLY
94
n
45
GLY
94
B
GLN
95
n
46
GLN
95
B
GLU
96
n
47
GLU
96
B
THR
97
n
48
THR
97
B
ALA
98
n
49
ALA
98
B
TYR
99
n
50
TYR
99
B
PHE
100
n
51
PHE
100
B
LEU
101
n
52
LEU
101
B
LEU
102
n
53
LEU
102
B
LYS
103
n
54
LYS
103
B
LEU
104
n
55
LEU
104
B
ALA
105
n
56
ALA
105
B
GLY
106
n
57
GLY
106
B
ARG
107
n
58
ARG
107
B
TRP
108
n
59
TRP
108
B
PRO
109
n
60
PRO
109
B
VAL
110
n
61
VAL
110
B
LYS
111
n
62
LYS
111
B
THR
112
n
63
THR
112
B
VAL
113
n
64
VAL
113
B
HIS
114
n
65
HIS
114
B
THR
115
n
66
THR
115
B
ASP
116
n
67
ASP
116
B
ASN
117
n
68
ASN
117
B
GLY
118
n
69
GLY
118
B
SER
119
n
70
SER
119
B
ASN
120
n
71
ASN
120
B
PHE
121
n
72
PHE
121
B
THR
122
n
73
THR
122
B
SER
123
n
74
SER
123
B
THR
124
n
75
THR
124
B
THR
125
n
76
THR
125
B
VAL
126
n
77
VAL
126
B
LYS
127
n
78
LYS
127
B
ALA
128
n
79
ALA
128
B
ALA
129
n
80
ALA
129
B
CYS
130
n
81
CYS
130
B
ASP
131
n
82
ASP
131
B
TRP
132
n
83
TRP
132
B
ALA
133
n
84
ALA
133
B
GLY
134
n
85
GLY
134
B
ILE
135
n
86
ILE
135
B
LYS
136
n
87
LYS
136
B
GLN
137
n
88
GLN
137
B
GLU
138
n
89
GLU
138
B
ASP
139
n
90
ASP
139
B
n
91
140
B
n
92
141
B
n
93
142
B
n
94
143
B
n
95
144
B
n
96
145
B
n
97
146
B
n
98
147
B
n
99
148
B
n
100
149
B
n
101
150
B
n
102
151
B
GLU
152
n
103
GLU
152
B
SER
153
n
104
SER
153
B
MET
154
n
105
MET
154
B
ASN
155
n
106
ASN
155
B
LYS
156
n
107
LYS
156
B
GLU
157
n
108
GLU
157
B
LEU
158
n
109
LEU
158
B
LYS
159
n
110
LYS
159
B
LYS
160
n
111
LYS
160
B
ILE
161
n
112
ILE
161
B
ILE
162
n
113
ILE
162
B
GLY
163
n
114
GLY
163
B
GLN
164
n
115
GLN
164
B
VAL
165
n
116
VAL
165
B
ARG
166
n
117
ARG
166
B
ASP
167
n
118
ASP
167
B
GLN
168
n
119
GLN
168
B
ALA
169
n
120
ALA
169
B
GLU
170
n
121
GLU
170
B
HIS
171
n
122
HIS
171
B
LEU
172
n
123
LEU
172
B
LYS
173
n
124
LYS
173
B
THR
174
n
125
THR
174
B
ALA
175
n
126
ALA
175
B
VAL
176
n
127
VAL
176
B
GLN
177
n
128
GLN
177
B
MET
178
n
129
MET
178
B
ALA
179
n
130
ALA
179
B
VAL
180
n
131
VAL
180
B
PHE
181
n
132
PHE
181
B
ILE
182
n
133
ILE
182
B
HIS
183
n
134
HIS
183
B
ASN
184
n
135
ASN
184
B
HIS
185
n
136
HIS
185
B
LYS
186
n
137
LYS
186
B
ARG
187
n
138
ARG
187
B
LYS
188
n
139
LYS
188
B
GLY
189
n
140
GLY
189
B
GLY
190
n
141
GLY
190
B
ILE
191
n
142
ILE
191
B
GLY
192
n
143
GLY
192
B
GLY
193
n
144
GLY
193
B
TYR
194
n
145
TYR
194
B
SER
195
n
146
SER
195
B
ALA
196
n
147
ALA
196
B
GLY
197
n
148
GLY
197
B
GLU
198
n
149
GLU
198
B
ARG
199
n
150
ARG
199
B
ILE
200
n
151
ILE
200
B
VAL
201
n
152
VAL
201
B
ASP
202
n
153
ASP
202
B
ILE
203
n
154
ILE
203
B
ILE
204
n
155
ILE
204
B
ALA
205
n
156
ALA
205
B
THR
206
n
157
THR
206
B
ASP
207
n
158
ASP
207
B
ILE
208
n
159
ILE
208
B
GLN
209
n
160
GLN
209
B
n
161
210
B
n
162
211
B
n
163
212
B
author_and_software_defined_assembly
PISA
2
dimeric
2830
-14
13070
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1003
F
CD
CD
1_555
A
HIS
67
A
NE2
HIS
18
1_555
116.3
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1003
F
CD
CD
1_555
A
GLU
92
A
OE1
GLU
43
1_555
103.3
A
HIS
67
A
NE2
HIS
18
1_555
A
CD
1003
F
CD
CD
1_555
A
GLU
92
A
OE1
GLU
43
1_555
88.1
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1003
F
CD
CD
1_555
A
HOH
217
L
O
HOH
1_555
86.7
A
HIS
67
A
NE2
HIS
18
1_555
A
CD
1003
F
CD
CD
1_555
A
HOH
217
L
O
HOH
1_555
88.0
A
GLU
92
A
OE1
GLU
43
1_555
A
CD
1003
F
CD
CD
1_555
A
HOH
217
L
O
HOH
1_555
170.0
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1004
G
CD
CD
1_555
A
GLU
92
A
OE2
GLU
43
1_555
94.7
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1004
G
CD
CD
1_555
A
ASP
116
A
OD2
ASP
67
1_555
104.0
A
GLU
92
A
OE2
GLU
43
1_555
A
CD
1004
G
CD
CD
1_555
A
ASP
116
A
OD2
ASP
67
1_555
161.0
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1004
G
CD
CD
1_555
A
HOH
214
L
O
HOH
1_555
96.8
A
GLU
92
A
OE2
GLU
43
1_555
A
CD
1004
G
CD
CD
1_555
A
HOH
214
L
O
HOH
1_555
90.3
A
ASP
116
A
OD2
ASP
67
1_555
A
CD
1004
G
CD
CD
1_555
A
HOH
214
L
O
HOH
1_555
90.0
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
CYS
65
B
SG
CYS
16
1_555
159.3
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
GLU
92
B
OE2
GLU
43
1_555
83.6
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1001
J
CD
CD
1_555
B
GLU
92
B
OE2
GLU
43
1_555
86.4
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
ASP
116
B
OD2
ASP
67
1_555
83.5
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1001
J
CD
CD
1_555
B
ASP
116
B
OD2
ASP
67
1_555
97.6
B
GLU
92
B
OE2
GLU
43
1_555
B
CD
1001
J
CD
CD
1_555
B
ASP
116
B
OD2
ASP
67
1_555
153.1
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
214
M
O
HOH
1_555
94.1
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
214
M
O
HOH
1_555
106.2
B
GLU
92
B
OE2
GLU
43
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
214
M
O
HOH
1_555
107.2
B
ASP
116
B
OD2
ASP
67
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
214
M
O
HOH
1_555
97.2
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
93.7
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
65.6
B
GLU
92
B
OE2
GLU
43
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
62.9
B
ASP
116
B
OD2
ASP
67
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
94.5
B
HOH
214
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
166.6
B
HOH
43
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
B
CYS
65
B
SG
CYS
16
1_555
88.0
B
HOH
43
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
B
HIS
67
B
NE2
HIS
18
1_555
100.4
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1002
K
CD
CD
1_555
B
HIS
67
B
NE2
HIS
18
1_555
114.7
B
HOH
43
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
B
GLU
92
B
OE1
GLU
43
1_555
166.0
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1002
K
CD
CD
1_555
B
GLU
92
B
OE1
GLU
43
1_555
104.7
B
HIS
67
B
NE2
HIS
18
1_555
B
CD
1002
K
CD
CD
1_555
B
GLU
92
B
OE1
GLU
43
1_555
80.0
B
HOH
43
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
73.6
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1002
K
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
73.5
B
HIS
67
B
NE2
HIS
18
1_555
B
CD
1002
K
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
170.1
B
GLU
92
B
OE1
GLU
43
1_555
B
CD
1002
K
CD
CD
1_555
B
HOH
217
M
O
HOH
1_555
103.9
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
A
O
ILE
89
A
O
ILE
40
A
N
VAL
72
A
N
VAL
23
A
O
ILE
73
A
O
ILE
24
A
N
THR
66
A
N
THR
17
A
N
LEU
63
A
N
LEU
14
A
O
HIS
114
A
O
HIS
65
A
N
VAL
113
A
N
VAL
64
A
O
GLU
138
A
O
GLU
89
A
N
LYS
188
A
N
LYS
139
A
O
TYR
194
A
O
TYR
145
B
O
GLU
85
B
O
GLU
36
B
N
ALA
76
B
N
ALA
27
B
O
VAL
75
B
O
VAL
26
B
N
ASP
64
B
N
ASP
15
B
N
LEU
63
B
N
LEU
14
B
O
HIS
114
B
O
HIS
65
B
N
VAL
113
B
N
VAL
64
B
O
LYS
136
B
O
LYS
87
1
A
CG
LYS
127
A
CG
LYS
78
1
Y
1
A
CD
LYS
127
A
CD
LYS
78
1
Y
1
A
CE
LYS
127
A
CE
LYS
78
1
Y
1
A
NZ
LYS
127
A
NZ
LYS
78
1
Y
1
A
CG
LYS
136
A
CG
LYS
87
1
Y
1
A
CD
LYS
136
A
CD
LYS
87
1
Y
1
A
CE
LYS
136
A
CE
LYS
87
1
Y
1
A
NZ
LYS
136
A
NZ
LYS
87
1
Y
1
A
MET
50
A
MET
1
1
Y
1
A
HIS
51
A
HIS
2
1
Y
1
A
GLY
52
A
GLY
3
1
Y
1
A
GLN
53
A
GLN
4
1
Y
1
A
VAL
54
A
VAL
5
1
Y
1
A
ASP
55
A
ASP
6
1
Y
1
A
TYR
143
A
TYR
94
1
Y
1
A
ASN
144
A
ASN
95
1
Y
1
A
PRO
145
A
PRO
96
1
Y
1
A
GLN
146
A
GLN
97
1
Y
1
A
SER
147
A
SER
98
1
Y
1
A
GLN
148
A
GLN
99
1
Y
1
A
GLY
149
A
GLY
100
1
Y
1
A
VAL
150
A
VAL
101
1
Y
1
A
ILE
151
A
ILE
102
1
Y
1
A
ILE
208
A
ILE
159
1
Y
1
A
GLN
209
A
GLN
160
1
Y
1
A
THR
210
A
THR
161
1
Y
1
A
LYS
211
A
LYS
162
1
Y
1
A
GLU
212
A
GLU
163
1
Y
1
B
MET
50
B
MET
1
1
Y
1
B
HIS
51
B
HIS
2
1
Y
1
B
GLY
52
B
GLY
3
1
Y
1
B
GLN
53
B
GLN
4
1
Y
1
B
VAL
54
B
VAL
5
1
Y
1
B
ASP
55
B
ASP
6
1
Y
1
B
SER
56
B
SER
7
1
Y
1
B
GLY
140
B
GLY
91
1
Y
1
B
ILE
141
B
ILE
92
1
Y
1
B
PRO
142
B
PRO
93
1
Y
1
B
TYR
143
B
TYR
94
1
Y
1
B
ASN
144
B
ASN
95
1
Y
1
B
PRO
145
B
PRO
96
1
Y
1
B
GLN
146
B
GLN
97
1
Y
1
B
SER
147
B
SER
98
1
Y
1
B
GLN
148
B
GLN
99
1
Y
1
B
GLY
149
B
GLY
100
1
Y
1
B
VAL
150
B
VAL
101
1
Y
1
B
ILE
151
B
ILE
102
1
Y
1
B
THR
210
B
THR
161
1
Y
1
B
LYS
211
B
LYS
162
1
Y
1
B
GLU
212
B
GLU
163
1
Y
1
B
B
NH1
O
ARG
HOH
107
30
2.01
1
C
C
O5
O5
GLC
FRU
1
2
2.16
25.036
-0.83
0.00
0.00
3.24
0.00
-2.41
0.944
0.923
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.24882
0.21084
0.21278
1.95
40.91
1117
21811
20602
5.1
98.83
4.656
0.130
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.165
0.80
0.80
1.40
PDB ENTRY 3L3U
MAXIMUM LIKELIHOOD
MASK
1.95
40.91
57
2286
61
0
2168
0.022
0.022
2266
0.001
0.020
1472
2.174
1.962
3073
1.062
3.000
3615
6.585
5.000
280
35.231
25.054
93
16.860
15.000
379
11.879
15.000
8
0.112
0.200
351
0.008
0.020
2485
0.001
0.020
429
1.189
1.500
1397
0.277
1.500
586
2.124
2.000
2242
2.897
3.000
869
4.472
4.500
831
0.305
0.270
2.001
92
1517
20
99.63
22.38
1.95
48.25
3OVN
23203
21811
0.1
0.112
1
9.7
4.5
99.4
0.497
1.95
2.06
2.9
3184
0.479
4.6
99.4
data collection
Blu-Ice
phasing
AMoRE
refinement
REFMAC
5.5.0109
data reduction
MOSFLM
data scaling
SCALA
N
Fragment-based approach to the design of ligands targeting a novel site on HIV-1 integrase
1
N
N
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
3
N
N
4
N
N
5
N
N
5
N
N
6
N
N
6
N
N
A
THR
93
A
THR
44
HELX_P
A
TRP
108
A
TRP
59
1
1
16
A
GLY
118
A
GLY
69
HELX_P
A
SER
123
A
SER
74
1
2
6
A
SER
123
A
SER
74
HELX_P
A
GLY
134
A
GLY
85
1
3
12
A
GLU
152
A
GLU
103
HELX_P
A
ARG
166
A
ARG
117
1
4
15
A
ASP
167
A
ASP
118
HELX_P
A
ALA
169
A
ALA
120
5
5
3
A
HIS
171
A
HIS
122
HELX_P
A
LYS
186
A
LYS
137
1
6
16
A
ALA
196
A
ALA
147
HELX_P
A
ALA
205
A
ALA
156
1
7
10
B
THR
93
B
THR
44
HELX_P
B
TRP
108
B
TRP
59
1
8
16
B
GLY
118
B
GLY
69
HELX_P
B
THR
122
B
THR
73
5
9
5
B
SER
123
B
SER
74
HELX_P
B
GLY
134
B
GLY
85
1
10
12
B
GLU
152
B
GLU
103
HELX_P
B
ARG
166
B
ARG
117
1
11
15
B
ASP
167
B
ASP
118
HELX_P
B
ALA
169
B
ALA
120
5
12
3
B
HIS
171
B
HIS
122
HELX_P
B
LYS
186
B
LYS
137
1
13
16
B
SER
195
B
SER
146
HELX_P
B
ILE
208
B
ILE
159
1
14
14
covale
1.444
both
sing
C
GLC
1
C
C1
GLC
1_555
C
FRU
2
C
O2
FRU
1_555
metalc
2.453
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1003
F
CD
CD
1_555
metalc
2.576
A
CYS
65
A
SG
CYS
16
1_555
A
CD
1004
G
CD
CD
1_555
metalc
2.370
A
HIS
67
A
NE2
HIS
18
1_555
A
CD
1003
F
CD
CD
1_555
metalc
1.888
A
GLU
92
A
OE1
GLU
43
1_555
A
CD
1003
F
CD
CD
1_555
metalc
2.158
A
GLU
92
A
OE2
GLU
43
1_555
A
CD
1004
G
CD
CD
1_555
metalc
2.366
A
ASP
116
A
OD2
ASP
67
1_555
A
CD
1004
G
CD
CD
1_555
metalc
2.645
A
HOH
214
L
O
HOH
1_555
A
CD
1004
G
CD
CD
1_555
metalc
2.059
A
HOH
217
L
O
HOH
1_555
A
CD
1003
F
CD
CD
1_555
metalc
2.518
B
HOH
40
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
metalc
1.949
B
HOH
43
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
metalc
2.637
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1001
J
CD
CD
1_555
metalc
2.542
B
CYS
65
B
SG
CYS
16
1_555
B
CD
1002
K
CD
CD
1_555
metalc
2.189
B
HIS
67
B
NE2
HIS
18
1_555
B
CD
1002
K
CD
CD
1_555
metalc
2.035
B
GLU
92
B
OE2
GLU
43
1_555
B
CD
1001
J
CD
CD
1_555
metalc
1.841
B
GLU
92
B
OE1
GLU
43
1_555
B
CD
1002
K
CD
CD
1_555
metalc
2.279
B
ASP
116
B
OD2
ASP
67
1_555
B
CD
1001
J
CD
CD
1_555
metalc
2.609
B
HOH
214
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
metalc
2.370
B
HOH
217
M
O
HOH
1_555
B
CD
1001
J
CD
CD
1_555
metalc
1.930
B
HOH
217
M
O
HOH
1_555
B
CD
1002
K
CD
CD
1_555
VIRAL PROTEIN/TRANSFERASE INHIBITOR
DNA INTEGRATION, AIDS, INTEGRASE, ENDONUCLEASE, POLYNUCLEOTIDYL TRANSFERASE, DNA BINDING, VIRAL PROTEIN, RNaseH, FRAGMENT BINDING, VIRAL PROTEIN-TRANSFERASE INHIBITOR complex
Q72498_9HIV1
UNP
1
765
Q72498
MHGQVDCSPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSNFTSTTVKAA
CWWAGIKQEFGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIATDIQ
TKE
765
927
3OVN
50
212
Q72498
A
1
1
163
765
927
3OVN
50
212
Q72498
B
1
1
163
1
CYS
engineered mutation
SER
56
3OVN
A
Q72498
UNP
771
7
1
TRP
engineered mutation
ASP
131
3OVN
A
Q72498
UNP
846
82
1
PHE
engineered mutation
ASP
139
3OVN
A
Q72498
UNP
854
90
1
PHE
engineered mutation
HIS
185
3OVN
A
Q72498
UNP
900
136
2
CYS
engineered mutation
SER
56
3OVN
B
Q72498
UNP
771
7
2
TRP
engineered mutation
ASP
131
3OVN
B
Q72498
UNP
846
82
2
PHE
engineered mutation
ASP
139
3OVN
B
Q72498
UNP
854
90
2
PHE
engineered mutation
HIS
185
3OVN
B
Q72498
UNP
900
136
5
2
5
anti-parallel
anti-parallel
parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
parallel
A
ILE
84
A
ILE
35
A
ILE
89
A
ILE
40
A
LYS
71
A
LYS
22
A
HIS
78
A
HIS
29
A
ILE
60
A
ILE
11
A
LEU
68
A
LEU
19
A
THR
112
A
THR
63
A
THR
115
A
THR
66
A
LYS
136
A
LYS
87
A
ASP
139
A
ASP
90
A
ARG
187
A
ARG
138
A
LYS
188
A
LYS
139
A
TYR
194
A
TYR
145
A
SER
195
A
SER
146
B
TYR
83
B
TYR
34
B
ILE
89
B
ILE
40
B
LYS
71
B
LYS
22
B
HIS
78
B
HIS
29
B
ILE
60
B
ILE
11
B
LEU
68
B
LEU
19
B
THR
112
B
THR
63
B
HIS
114
B
HIS
65
B
LYS
136
B
LYS
87
B
GLU
138
B
GLU
89
19
P 21 21 21