0.016962
0.000000
0.000000
0.000000
0.003330
0.000000
0.000000
0.000000
0.021738
0.000000
0.000000
0.000000
Alanazi, A.
Momany, C.
Neidle, E.L.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.000
90.000
90.000
58.956
300.295
46.003
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
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA 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
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
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
N
N
75
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
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
O
N
89
N
P
N
90
N
O
N
91
N
O
N
92
N
O
N
93
N
C
N
94
R
C
N
95
N
O
N
96
S
C
N
97
N
O
N
98
N
C
N
99
R
C
Y
100
N
N
Y
101
N
C
Y
102
N
N
Y
103
N
C
Y
104
N
C
N
105
N
N
Y
106
N
N
Y
107
N
C
Y
108
N
N
Y
109
N
C
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
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
H
N
122
N
H
N
123
N
H
N
124
N
O
N
125
N
P
N
126
N
O
N
127
N
O
N
128
N
O
N
129
N
C
N
130
R
C
N
131
N
O
N
132
S
C
N
133
N
O
N
134
N
C
N
135
R
C
N
136
N
N
N
137
N
C
N
138
N
O
N
139
N
N
N
140
N
C
N
141
N
N
N
142
N
C
N
143
N
C
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
O
N
159
N
P
N
160
N
O
N
161
N
O
N
162
N
O
N
163
N
C
N
164
R
C
N
165
N
O
N
166
S
C
N
167
N
O
N
168
N
C
N
169
R
C
Y
170
N
N
Y
171
N
C
Y
172
N
N
Y
173
N
C
N
174
N
C
N
175
N
O
N
176
N
N
N
177
N
C
N
178
N
N
N
179
N
N
Y
180
N
C
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
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
O
N
196
N
P
N
197
N
O
N
198
N
O
N
199
N
O
N
200
N
C
N
201
R
C
N
202
N
O
N
203
S
C
N
204
N
O
N
205
N
C
N
206
R
C
N
207
N
N
N
208
N
C
N
209
N
O
N
210
N
N
N
211
N
C
N
212
N
O
N
213
N
C
N
214
N
C
N
215
N
C
N
216
N
H
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
H
N
231
N
N
N
232
S
C
N
233
N
C
N
234
N
O
N
235
N
C
N
236
N
C
N
237
N
C
N
238
N
O
N
239
N
N
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
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
C
N
258
N
O
N
259
N
O
N
260
N
O
N
261
N
H
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
N
N
271
N
C
N
272
N
C
N
273
N
O
N
274
N
O
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
N
N
281
S
C
N
282
N
C
N
283
N
O
N
284
N
C
Y
285
N
C
Y
286
N
N
Y
287
N
C
Y
288
N
C
Y
289
N
N
N
290
N
O
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
N
299
N
H
N
300
N
H
N
301
N
O
N
302
N
H
N
303
N
H
N
304
N
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
S
C
N
309
N
C
N
310
N
C
N
311
N
C
N
312
N
O
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
N
N
327
S
C
N
328
N
C
N
329
N
O
N
330
N
C
N
331
N
C
N
332
N
C
N
333
N
C
N
334
N
O
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
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
N
N
349
S
C
N
350
N
C
N
351
N
O
N
352
N
C
N
353
N
C
N
354
N
C
N
355
N
C
N
356
N
N
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
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
N
N
374
S
C
N
375
N
C
N
376
N
O
N
377
N
C
N
378
N
C
N
379
N
S
N
380
N
C
N
381
N
O
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
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
N
N
394
S
C
N
395
N
C
N
396
N
O
N
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
N
404
N
O
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
N
N
417
S
C
N
418
N
C
N
419
N
O
N
420
N
C
N
421
N
C
N
422
N
C
N
423
N
O
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
N
N
434
S
C
N
435
N
C
N
436
N
O
N
437
N
C
N
438
N
O
N
439
N
O
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
R
C
N
452
N
O
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
N
N
465
S
C
N
466
N
C
N
467
N
O
N
468
N
C
Y
469
N
C
Y
470
N
C
Y
471
N
C
Y
472
N
C
Y
473
N
C
Y
474
N
C
N
475
N
O
N
476
N
O
N
477
N
H
N
478
N
H
N
479
N
H
N
480
N
H
N
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
H
N
486
N
H
N
487
N
H
N
488
N
N
N
489
S
C
N
490
N
C
N
491
N
O
N
492
N
C
N
493
N
C
N
494
N
C
N
495
N
O
N
496
N
H
N
497
N
H
N
498
N
H
N
499
N
H
N
500
N
H
N
501
N
H
N
502
N
H
N
503
N
H
N
504
N
H
N
505
N
H
N
506
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
doub
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
Y
106
N
sing
Y
107
N
sing
Y
108
N
doub
N
109
N
sing
Y
110
N
sing
Y
111
N
sing
Y
112
N
doub
N
113
N
sing
Y
114
N
doub
N
115
N
sing
N
116
N
sing
Y
117
N
sing
Y
118
N
doub
N
119
N
sing
Y
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
doub
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
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
doub
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
doub
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
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
sing
N
177
N
sing
N
178
N
sing
Y
179
N
sing
Y
180
N
sing
Y
181
N
doub
N
182
N
sing
Y
183
N
sing
N
184
N
sing
Y
185
N
doub
N
186
N
doub
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
doub
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
doub
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
sing
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
doub
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
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
doub
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
doub
N
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
doub
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
doub
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
sing
N
273
N
sing
N
274
N
sing
N
275
N
doub
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
doub
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
Y
289
N
sing
Y
290
N
doub
Y
291
N
doub
N
292
N
sing
Y
293
N
sing
N
294
N
sing
Y
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
sing
N
307
N
doub
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
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
doub
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
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
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
doub
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
sing
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
doub
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
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
doub
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
Y
397
N
doub
Y
398
N
sing
Y
399
N
sing
N
400
N
sing
Y
401
N
doub
N
402
N
sing
Y
403
N
doub
N
404
N
sing
Y
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
sing
N
415
N
doub
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
doub
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
sing
N
443
N
sing
N
444
N
sing
N
445
N
doub
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
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
N
458
N
sing
N
459
N
sing
N
460
N
sing
N
461
N
doub
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
Y
466
N
doub
Y
467
N
sing
Y
468
N
sing
N
469
N
sing
Y
470
N
doub
N
471
N
sing
Y
472
N
doub
N
473
N
sing
Y
474
N
sing
N
475
N
sing
N
476
N
sing
N
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
doub
N
486
N
sing
N
487
N
sing
N
488
N
sing
N
489
N
sing
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
69
1995
2007
10.1107/S0907444913017320
24100318
The DNA-binding domain of BenM reveals the structural basis for the recognition of a T-N11-A sequence motif by LysR-type transcriptional regulators.
2013
UK
MOL.MICROBIOL.
MOMIEE
2007
0950-382X
72(4)
881
894
19400783
Inducer responses of BenM, a LysR-type transcriptional regulator from Acinetobacter baylyi ADP1.
2009
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
367(3)
616
629
17291527
Distinct effector-binding sites enable synergistic transcriptional activation by BenM, a LysR-type regulator
2007
DK
Acta Crystallogr.,Sect.F
1744-3091
63(Pt 5)
361
368
17565172
Oligomerization of BenM, a LysR-type transcriptional regulator: structural basis for the aggregation of proteins in this family.r
2007
10.2210/pdb4iht/pdb
pdb_00004iht
100
1
CCD
2009-04-10
MAR CCD 165 mm
SINGLE WAVELENGTH
M
x-ray
1
0.97934
1.0
19-ID
APS
0.97934
SYNCHROTRON
APS BEAMLINE 19-ID
10937.559
HTH-type transcriptional regulator BenM
UNP residues 1-87
4
man
polymer
7654.997
benA site 1 DNA
2
syn
polymer
7695.021
benA site 1 DNA - complement
2
syn
polymer
18.015
water
3
nat
water
Ben and cat operon transcriptional regulator, TRANSCRIPTIONAL REGULATOR BENM DNA BINDING DOMAIN
no
no
MELRHLRYFVAVVEEQSFTKAADKLCIAQPPLSRQIQNLEEELGIQLLERGSRPVKTTPEGHFFYQYAIKLLSNVDQMVS
MTKRIASGHHHHHH
MELRHLRYFVAVVEEQSFTKAADKLCIAQPPLSRQIQNLEEELGIQLLERGSRPVKTTPEGHFFYQYAIKLLSNVDQMVS
MTKRIASGHHHHHH
A,B,C,D
polypeptide(L)
no
no
(DT)(DA)(DA)(DA)(DA)(DA)(DT)(DA)(DC)(DT)(DC)(DC)(DA)(DT)(DA)(DG)(DG)(DT)(DA)(DT)
(DT)(DT)(DT)(DA)(DT)
TAAAAATACTCCATAGGTATTTTAT
E,G
polydeoxyribonucleotide
no
no
(DA)(DT)(DA)(DA)(DA)(DA)(DT)(DA)(DC)(DC)(DT)(DA)(DT)(DG)(DG)(DA)(DG)(DT)(DA)(DT)
(DT)(DT)(DT)(DT)(DA)
ATAAAATACCTATGGAGTATTTTTA
F,H
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
ADP1
sample
ACIAD1435, benM, benR
62977
Acinetobacter sp.
469008
Escherichia coli
BL21(DE3)RIL
plasmid
pET21B
1
2.73
55.02
MICROBATCH UNDER OIL
6.5
Equal volumes of precipitant, protein solution and DNA. Precipitant: Optimized index screen 79- 25 mM bis-tris, 25% PEG 3000, 50 mM ammonium acetate. Protein: 20 mM Tris base (pH 8.0), 0.5 M NaCl, 10% glycerol, 150 mM imidazole, 10 mM BME, MICROBATCH UNDER OIL, temperature 288K
288
-3.991
1
20
E
1
F
25
2.097
E_DT1:DA25_F
1
-20.138
-0.208
0.033
-0.191
-4.993
1
20
E
2
F
24
-7.283
E_DA2:DT24_F
2
-3.218
0.854
-0.686
-0.092
5.551
1
20
E
3
F
23
5.743
E_DA3:DT23_F
3
-17.564
0.270
0.638
-0.100
8.816
1
20
E
4
F
22
-3.524
E_DA4:DT22_F
4
-15.019
0.165
0.190
-0.051
4.684
1
20
E
5
F
21
1.417
E_DA5:DT21_F
5
-9.843
0.106
-0.085
0.158
-3.373
1
20
E
6
F
20
-0.266
E_DA6:DT20_F
6
-12.592
-0.363
0.486
-0.278
-1.315
1
20
E
7
F
19
-5.417
E_DT7:DA19_F
7
-10.077
-0.361
0.553
-0.139
8.294
1
20
E
8
F
18
-5.401
E_DA8:DT18_F
8
0.464
0.788
0.379
-0.180
9.886
1
E
9
F
17
7.623
E_DC9:DG17_F
9
-7.008
1.128
0.206
0.074
4.920
1
20
E
10
F
16
1.268
E_DT10:DA16_F
10
-13.338
-0.111
-0.199
-0.210
-0.230
1
19
E
11
F
15
6.499
E_DC11:DG15_F
11
-13.128
-0.103
0.332
-0.065
-1.465
1
19
E
12
F
14
4.122
E_DC12:DG14_F
12
1.504
-0.270
-0.112
-0.276
0.147
1
20
E
13
F
13
-1.353
E_DA13:DT13_F
13
-19.192
0.408
0.237
0.140
-1.596
1
20
E
14
F
12
0.890
E_DT14:DA12_F
14
-0.781
0.204
0.186
-0.558
15.169
1
20
E
15
F
11
-9.179
E_DA15:DT11_F
15
-14.238
0.108
0.490
-0.255
2.540
1
19
E
16
F
10
0.282
E_DG16:DC10_F
16
-3.881
0.001
0.217
-0.114
-7.823
1
19
E
17
F
9
-0.179
E_DG17:DC9_F
17
-12.168
-0.060
0.015
-0.210
0.803
1
20
E
18
F
8
-2.482
E_DT18:DA8_F
18
-4.546
0.189
-0.021
-0.302
-3.340
1
20
E
19
F
7
-6.283
E_DA19:DT7_F
19
-8.364
-0.075
-0.266
-0.246
-5.417
1
20
E
20
F
6
1.701
E_DT20:DA6_F
20
-9.797
0.023
0.426
-0.109
-15.551
1
20
E
21
F
5
-2.313
E_DT21:DA5_F
21
-20.558
-0.104
0.406
-0.128
-10.092
1
20
E
22
F
4
-4.572
E_DT22:DA4_F
22
-14.798
0.040
0.284
-0.178
-4.878
1
20
E
23
F
3
3.574
E_DT23:DA3_F
23
-14.382
-0.323
0.098
0.063
-3.639
1
20
E
24
F
2
2.010
E_DA24:DT2_F
24
-11.491
0.784
-0.449
-0.389
2.957
1
E
25
F
1
30.687
E_DT25:DA1_F
25
-10.643
0.152
0.109
0.623
5.643
1
20
G
1
H
25
0.947
G_DT1:DA25_H
26
-19.249
0.306
0.173
-0.196
2.611
1
20
G
2
H
24
-8.067
G_DA2:DT24_H
27
-17.093
1.144
0.555
0.164
9.560
1
20
G
3
H
23
7.263
G_DA3:DT23_H
28
-11.307
0.011
0.096
0.147
-0.309
1
20
G
4
H
22
-1.825
G_DA4:DT22_H
29
-19.143
0.386
0.315
0.366
2.310
1
20
G
5
H
21
-4.144
G_DA5:DT21_H
30
-9.796
0.675
0.163
-0.134
-0.995
1
20
G
6
H
20
1.318
G_DA6:DT20_H
31
-10.956
-0.035
0.433
-0.155
2.242
1
20
G
7
H
19
-1.156
G_DT7:DA19_H
32
-12.036
-0.333
-0.108
0.062
8.296
1
20
G
8
H
18
-2.499
G_DA8:DT18_H
33
5.329
0.120
0.349
-0.187
11.928
1
19
G
9
H
17
-0.532
G_DC9:DG17_H
34
3.999
0.511
-0.080
0.214
6.134
1
20
G
10
H
16
-2.678
G_DT10:DA16_H
35
-19.995
-0.273
-0.268
-0.249
-7.946
1
19
G
11
H
15
1.376
G_DC11:DG15_H
36
-9.928
-0.522
0.343
0.281
-9.835
1
19
G
12
H
14
4.527
G_DC12:DG14_H
37
-6.945
-0.204
-0.254
-0.344
-6.378
1
20
G
13
H
13
-4.702
G_DA13:DT13_H
38
-17.242
0.824
0.077
0.001
-0.330
1
20
G
14
H
12
-1.232
G_DT14:DA12_H
39
-5.610
0.117
-0.119
-0.448
6.992
1
20
G
15
H
11
-7.199
G_DA15:DT11_H
40
-13.520
0.309
0.469
-0.180
-3.621
1
19
G
16
H
10
2.801
G_DG16:DC10_H
41
-3.271
-0.272
-0.248
-0.146
-5.694
1
19
G
17
H
9
2.787
G_DG17:DC9_H
42
-4.729
0.015
0.199
-0.025
4.527
1
20
G
18
H
8
3.618
G_DT18:DA8_H
43
-1.522
-0.529
0.172
-0.159
1.267
1
20
G
19
H
7
-2.936
G_DA19:DT7_H
44
-14.087
-0.128
-0.091
-0.201
1.273
G
20
H
6
11.031
G_DT20:DA6_H
45
-16.301
0.248
0.353
0.361
0.363
1
20
G
21
H
5
3.031
G_DT21:DA5_H
46
-11.216
-0.067
-0.036
-0.034
-0.558
1
20
G
22
H
4
4.580
G_DT22:DA4_H
47
-14.067
-0.311
-0.118
-0.054
-1.328
1
20
G
23
H
3
5.481
G_DT23:DA3_H
48
-23.465
0.001
-0.075
0.136
-15.615
1
20
G
24
H
2
9.613
G_DA24:DT2_H
49
-11.871
0.487
-0.344
-0.161
-5.283
1
G
25
H
1
18.161
G_DT25:DA1_H
50
-3.751
0.126
0.955
0.087
3.299
43.784
E
E
1
2
0.649
F
F
25
24
3.360
0.482
-0.242
1.351
EE_DT1DA2:DT24DA25_FF
1
6.942
-9.345
43.254
1.764
1.002
2.815
40.173
E
E
2
3
1.703
F
F
24
23
3.019
1.157
0.511
0.896
EE_DA2DA3:DT23DT24_FF
2
-10.573
15.563
38.796
1.185
-1.836
3.174
33.535
E
E
3
4
-0.079
F
F
23
22
3.225
-0.046
-0.452
-0.755
EE_DA3DA4:DT22DT23_FF
3
3.047
-5.288
33.400
-1.302
1.274
3.403
37.877
E
E
4
5
-3.729
F
F
22
21
3.383
-2.419
-0.189
-0.427
EE_DA4DA5:DT21DT22_FF
4
-0.003
0.005
37.803
-0.336
0.291
3.418
36.251
E
E
5
6
-8.251
F
F
21
20
3.384
-5.093
-0.164
-0.634
EE_DA5DA6:DT20DT21_FF
5
-6.251
10.126
35.372
-0.266
-0.659
3.416
31.965
E
E
6
7
-6.462
F
F
20
19
3.259
-3.551
-0.751
-1.407
EE_DA6DT7:DA19DT20_FF
6
-1.122
2.042
31.753
-1.897
1.156
3.008
39.298
E
E
7
8
-2.146
F
F
19
18
2.997
-1.443
-0.181
-0.410
EE_DT7DA8:DT18DA19_FF
7
0.211
-0.314
39.272
-0.452
0.292
3.399
33.445
E
E
8
9
-0.963
F
F
18
17
3.343
-0.554
1.352
-0.465
EE_DA8DC9:DG17DT18_FF
8
1.329
-2.310
33.415
-0.713
-2.124
2.958
33.299
E
E
9
10
8.840
F
F
17
16
3.258
5.005
-0.138
-1.039
EE_DC9DT10:DA16DG17_FF
9
7.592
-13.410
32.067
-2.621
1.466
3.399
34.248
E
E
10
11
3.329
F
F
16
15
3.429
1.960
0.212
-0.451
EE_DT10DC11:DG15DA16_FF
10
-0.013
0.021
34.193
-1.088
-0.363
3.353
39.941
E
E
11
12
-5.109
F
F
15
14
3.375
-3.478
0.579
0.649
EE_DC11DC12:DG14DG15_FF
11
4.800
-7.051
39.517
1.364
-0.276
3.371
40.230
E
E
12
13
-2.206
F
F
14
13
3.343
-1.516
-1.081
1.134
EE_DC12DA13:DT13DG14_FF
12
-3.130
4.557
40.085
1.826
1.207
3.281
36.894
E
E
13
14
-7.067
F
F
13
12
3.383
-4.462
0.916
0.637
EE_DA13DT14:DA12DT13_FF
13
-0.183
0.290
36.632
1.624
-1.473
2.782
41.435
E
E
14
15
-15.377
F
F
12
11
2.994
-10.749
-1.139
0.844
EE_DT14DA15:DT11DA12_FF
14
-4.021
5.753
39.881
2.228
1.224
3.409
35.742
E
E
15
16
7.623
F
F
11
10
3.542
4.666
0.850
-0.805
EE_DA15DG16:DC10DT11_FF
15
-0.128
0.209
35.446
-2.030
-1.405
3.640
36.462
E
E
16
17
-0.424
F
F
10
9
3.635
-0.265
-0.308
-0.818
EE_DG16DG17:DC9DC10_FF
16
0.008
-0.012
36.461
-1.266
0.493
3.048
35.108
E
E
17
18
-3.476
F
F
9
8
3.029
-2.096
-0.627
-0.521
EE_DG17DT18:DA8DC9_FF
17
0.363
-0.602
35.046
-0.572
1.091
3.249
32.130
E
E
18
19
13.290
F
F
8
7
3.522
7.284
-0.197
-0.690
EE_DT18DA19:DT7DA8_FF
18
2.984
-5.444
31.176
-2.618
0.917
3.099
31.287
E
E
19
20
1.650
F
F
7
6
3.261
0.887
0.871
-0.947
EE_DA19DT20:DA6DT7_FF
19
-3.999
7.435
31.024
-1.921
-2.353
3.483
38.157
E
E
20
21
-7.506
F
F
6
5
3.452
-4.889
-0.138
-0.630
EE_DT20DT21:DA5DA6_FF
20
3.063
-4.703
37.735
-0.305
0.623
3.051
41.057
E
E
21
22
-6.777
F
F
5
4
3.038
-4.744
-0.103
-0.290
EE_DT21DT22:DA4DA5_FF
21
-0.051
0.073
40.794
0.068
0.141
3.047
35.402
E
E
22
23
1.101
F
F
4
3
3.038
0.670
0.363
-0.201
EE_DT22DT23:DA3DA4_FF
22
1.761
-2.897
35.353
-0.422
-0.357
3.259
42.353
E
E
23
24
-5.697
F
F
3
2
3.399
-4.095
0.207
1.294
EE_DT23DA24:DT2DA3_FF
23
6.510
-9.056
41.680
2.219
0.395
2.912
29.691
E
E
24
25
12.293
F
F
2
1
3.013
6.252
1.265
0.135
EE_DA24DT25:DA1DT2_FF
24
-1.475
2.899
29.004
-0.941
-2.753
3.370
45.667
G
G
1
2
-5.368
H
H
25
24
3.455
-4.158
-0.357
1.020
GG_DT1DA2:DT24DA25_HH
25
-3.185
4.112
45.382
1.694
0.169
3.320
34.793
G
G
2
3
-3.492
H
H
24
23
3.266
-2.082
0.989
0.590
GG_DA2DA3:DT23DT24_HH
26
4.243
-7.117
34.481
1.308
-0.999
3.594
35.115
G
G
3
4
-3.456
H
H
23
22
3.551
-2.082
-0.586
-0.278
GG_DA3DA4:DT22DT23_HH
27
-2.627
4.361
34.960
-0.121
0.542
3.109
41.796
G
G
4
5
-2.138
H
H
22
21
3.107
-1.524
-0.390
-0.591
GG_DA4DA5:DT21DT22_HH
28
1.636
-2.294
41.738
-0.677
0.709
3.291
35.321
G
G
5
6
-7.286
H
H
21
20
3.235
-4.404
0.243
-0.956
GG_DA5DA6:DT20DT21_HH
29
-3.363
5.564
34.897
-0.922
-0.899
3.216
32.373
G
G
6
7
-5.455
H
H
20
19
3.183
-3.033
-0.445
-1.088
GG_DA6DT7:DA19DT20_HH
30
2.996
-5.388
32.099
-1.426
1.318
3.105
38.207
G
G
7
8
5.346
H
H
19
18
3.125
3.484
-0.386
-0.356
GG_DT7DA8:DT18DA19_HH
31
-5.396
8.281
37.683
-0.964
-0.062
3.370
30.578
G
G
8
9
-5.883
H
H
18
17
3.274
-3.096
0.891
-0.717
GG_DA8DC9:DG17DT18_HH
32
1.599
-3.039
30.383
-0.735
-1.366
3.447
35.737
G
G
9
10
-5.550
H
H
17
16
3.351
-3.375
0.451
-0.996
GG_DC9DT10:DA16DG17_HH
33
7.866
-12.936
34.729
-1.109
0.462
3.297
33.939
G
G
10
11
15.700
H
H
16
15
3.594
9.056
0.478
-0.738
GG_DT10DC11:DG15DA16_HH
34
1.549
-2.685
32.707
-2.823
-0.552
3.407
42.110
G
G
11
12
-0.910
H
H
15
14
3.361
-0.651
0.611
0.522
GG_DC11DC12:DG14DG15_HH
35
6.965
-9.735
41.551
0.796
-0.101
3.356
44.885
G
G
12
13
-3.907
H
H
14
13
3.321
-2.971
-1.268
1.669
GG_DC12DA13:DT13DG14_HH
36
-6.694
8.803
44.314
2.463
1.038
3.087
31.502
G
G
13
14
-7.581
H
H
13
12
3.136
-4.101
0.473
0.395
GG_DA13DT14:DA12DT13_HH
37
2.440
-4.510
31.148
1.459
-0.436
3.074
45.023
G
G
14
15
-7.722
H
H
12
11
3.166
-5.868
-0.622
1.031
GG_DT14DA15:DT11DA12_HH
38
-8.194
10.784
43.937
1.856
0.099
3.558
34.880
G
G
15
16
4.693
H
H
11
10
3.560
2.808
0.783
-0.541
GG_DA15DG16:DC10DT11_HH
39
2.833
-4.736
34.658
-1.366
-0.838
3.214
37.620
G
G
16
17
4.577
H
H
10
9
3.232
2.938
-0.485
-0.587
GG_DG16DG17:DC9DC10_HH
40
-5.792
9.024
37.075
-1.290
0.004
3.070
28.449
G
G
17
18
1.359
H
H
9
8
3.066
0.667
-0.564
-0.763
GG_DG17DT18:DA8DC9_HH
41
-1.332
2.711
28.411
-1.697
0.861
3.450
36.852
G
G
18
19
-0.118
H
H
8
7
3.492
-0.074
-0.045
-0.262
GG_DT18DA19:DT7DA8_HH
42
5.458
-8.664
36.459
-0.404
0.862
2.966
32.377
G
G
19
20
6.394
H
H
7
6
3.108
3.558
1.029
-0.823
GG_DA19DT20:DA6DT7_HH
43
-1.114
2.003
32.168
-2.060
-2.028
3.229
39.653
G
G
20
21
-16.676
H
H
6
5
3.347
-11.143
-0.053
-0.138
GG_DT20DT21:DA5DA6_HH
44
4.896
-7.326
37.810
1.139
0.667
3.228
38.872
G
G
21
22
3.156
H
H
5
4
3.202
2.097
0.615
-0.180
GG_DT21DT22:DA4DA5_HH
45
3.314
-4.987
38.681
-0.521
-0.528
3.146
37.268
G
G
22
23
0.836
H
H
4
3
3.142
0.534
0.190
0.019
GG_DT22DT23:DA3DA4_HH
46
0.917
-1.435
37.253
-0.038
-0.180
3.740
37.476
G
G
23
24
12.485
H
H
3
2
3.636
7.956
0.311
0.820
GG_DT23DA24:DT2DA3_HH
47
2.977
-4.671
36.535
0.085
-0.038
2.827
33.875
G
G
24
25
6.540
H
H
2
1
3.176
3.747
0.533
-0.314
GG_DA24DT25:DA1DT2_HH
48
-10.187
17.780
32.137
-1.108
-2.461
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_ref_seq_dif
repository
Initial release
Database references
Database references
Refinement description
Data collection
Database references
Refinement description
1
0
2013-07-10
1
1
2013-10-02
1
2
2014-01-15
1
3
2017-11-15
1
4
2023-09-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
BenM DNA Binding Domain
Crystal Structure of BenM_DBD/catB site 1 DNA Complex
RCSB
Y
RCSB
2012-12-19
REL
REL
HOH
water
Synthetic DNA purchased from IDT
sample
Synthetic DNA purchased from IDT
sample
3M1E
PDB entry 3M1E
PDB
experimental model
HOH
1
4
HOH
HOH
101
A
HOH
2
4
HOH
HOH
102
A
HOH
3
4
HOH
HOH
103
A
MET
1
n
1
MET
1
A
GLU
2
n
2
GLU
2
A
LEU
3
n
3
LEU
3
A
ARG
4
n
4
ARG
4
A
HIS
5
n
5
HIS
5
A
LEU
6
n
6
LEU
6
A
ARG
7
n
7
ARG
7
A
TYR
8
n
8
TYR
8
A
PHE
9
n
9
PHE
9
A
VAL
10
n
10
VAL
10
A
ALA
11
n
11
ALA
11
A
VAL
12
n
12
VAL
12
A
VAL
13
n
13
VAL
13
A
GLU
14
n
14
GLU
14
A
GLU
15
n
15
GLU
15
A
GLN
16
n
16
GLN
16
A
SER
17
n
17
SER
17
A
PHE
18
n
18
PHE
18
A
THR
19
n
19
THR
19
A
LYS
20
n
20
LYS
20
A
ALA
21
n
21
ALA
21
A
ALA
22
n
22
ALA
22
A
ASP
23
n
23
ASP
23
A
LYS
24
n
24
LYS
24
A
LEU
25
n
25
LEU
25
A
CYS
26
n
26
CYS
26
A
ILE
27
n
27
ILE
27
A
ALA
28
n
28
ALA
28
A
GLN
29
n
29
GLN
29
A
PRO
30
n
30
PRO
30
A
PRO
31
n
31
PRO
31
A
LEU
32
n
32
LEU
32
A
SER
33
n
33
SER
33
A
ARG
34
n
34
ARG
34
A
GLN
35
n
35
GLN
35
A
ILE
36
n
36
ILE
36
A
GLN
37
n
37
GLN
37
A
ASN
38
n
38
ASN
38
A
LEU
39
n
39
LEU
39
A
GLU
40
n
40
GLU
40
A
GLU
41
n
41
GLU
41
A
GLU
42
n
42
GLU
42
A
LEU
43
n
43
LEU
43
A
GLY
44
n
44
GLY
44
A
ILE
45
n
45
ILE
45
A
GLN
46
n
46
GLN
46
A
LEU
47
n
47
LEU
47
A
LEU
48
n
48
LEU
48
A
GLU
49
n
49
GLU
49
A
ARG
50
n
50
ARG
50
A
GLY
51
n
51
GLY
51
A
SER
52
n
52
SER
52
A
ARG
53
n
53
ARG
53
A
PRO
54
n
54
PRO
54
A
VAL
55
n
55
VAL
55
A
LYS
56
n
56
LYS
56
A
THR
57
n
57
THR
57
A
THR
58
n
58
THR
58
A
PRO
59
n
59
PRO
59
A
GLU
60
n
60
GLU
60
A
GLY
61
n
61
GLY
61
A
HIS
62
n
62
HIS
62
A
PHE
63
n
63
PHE
63
A
PHE
64
n
64
PHE
64
A
TYR
65
n
65
TYR
65
A
GLN
66
n
66
GLN
66
A
TYR
67
n
67
TYR
67
A
ALA
68
n
68
ALA
68
A
ILE
69
n
69
ILE
69
A
LYS
70
n
70
LYS
70
A
LEU
71
n
71
LEU
71
A
LEU
72
n
72
LEU
72
A
SER
73
n
73
SER
73
A
ASN
74
n
74
ASN
74
A
VAL
75
n
75
VAL
75
A
ASP
76
n
76
ASP
76
A
GLN
77
n
77
GLN
77
A
MET
78
n
78
MET
78
A
VAL
79
n
79
VAL
79
A
SER
80
n
80
SER
80
A
MET
81
n
81
MET
81
A
THR
82
n
82
THR
82
A
LYS
83
n
83
LYS
83
A
ARG
84
n
84
ARG
84
A
ILE
85
n
85
ILE
85
A
ALA
86
n
86
ALA
86
A
SER
87
n
87
SER
87
A
GLY
88
n
88
GLY
88
A
HIS
89
n
89
HIS
89
A
n
90
90
A
n
91
91
A
n
92
92
A
n
93
93
A
n
94
94
A
MET
1
n
1
MET
1
B
GLU
2
n
2
GLU
2
B
LEU
3
n
3
LEU
3
B
ARG
4
n
4
ARG
4
B
HIS
5
n
5
HIS
5
B
LEU
6
n
6
LEU
6
B
ARG
7
n
7
ARG
7
B
TYR
8
n
8
TYR
8
B
PHE
9
n
9
PHE
9
B
VAL
10
n
10
VAL
10
B
ALA
11
n
11
ALA
11
B
VAL
12
n
12
VAL
12
B
VAL
13
n
13
VAL
13
B
GLU
14
n
14
GLU
14
B
GLU
15
n
15
GLU
15
B
GLN
16
n
16
GLN
16
B
SER
17
n
17
SER
17
B
PHE
18
n
18
PHE
18
B
THR
19
n
19
THR
19
B
LYS
20
n
20
LYS
20
B
ALA
21
n
21
ALA
21
B
ALA
22
n
22
ALA
22
B
ASP
23
n
23
ASP
23
B
LYS
24
n
24
LYS
24
B
LEU
25
n
25
LEU
25
B
CYS
26
n
26
CYS
26
B
ILE
27
n
27
ILE
27
B
ALA
28
n
28
ALA
28
B
GLN
29
n
29
GLN
29
B
PRO
30
n
30
PRO
30
B
PRO
31
n
31
PRO
31
B
LEU
32
n
32
LEU
32
B
SER
33
n
33
SER
33
B
ARG
34
n
34
ARG
34
B
GLN
35
n
35
GLN
35
B
ILE
36
n
36
ILE
36
B
GLN
37
n
37
GLN
37
B
ASN
38
n
38
ASN
38
B
LEU
39
n
39
LEU
39
B
GLU
40
n
40
GLU
40
B
GLU
41
n
41
GLU
41
B
GLU
42
n
42
GLU
42
B
LEU
43
n
43
LEU
43
B
GLY
44
n
44
GLY
44
B
ILE
45
n
45
ILE
45
B
GLN
46
n
46
GLN
46
B
LEU
47
n
47
LEU
47
B
LEU
48
n
48
LEU
48
B
GLU
49
n
49
GLU
49
B
ARG
50
n
50
ARG
50
B
GLY
51
n
51
GLY
51
B
SER
52
n
52
SER
52
B
ARG
53
n
53
ARG
53
B
PRO
54
n
54
PRO
54
B
VAL
55
n
55
VAL
55
B
LYS
56
n
56
LYS
56
B
THR
57
n
57
THR
57
B
THR
58
n
58
THR
58
B
PRO
59
n
59
PRO
59
B
GLU
60
n
60
GLU
60
B
GLY
61
n
61
GLY
61
B
HIS
62
n
62
HIS
62
B
PHE
63
n
63
PHE
63
B
PHE
64
n
64
PHE
64
B
TYR
65
n
65
TYR
65
B
GLN
66
n
66
GLN
66
B
TYR
67
n
67
TYR
67
B
ALA
68
n
68
ALA
68
B
ILE
69
n
69
ILE
69
B
LYS
70
n
70
LYS
70
B
LEU
71
n
71
LEU
71
B
LEU
72
n
72
LEU
72
B
SER
73
n
73
SER
73
B
ASN
74
n
74
ASN
74
B
VAL
75
n
75
VAL
75
B
ASP
76
n
76
ASP
76
B
GLN
77
n
77
GLN
77
B
MET
78
n
78
MET
78
B
VAL
79
n
79
VAL
79
B
SER
80
n
80
SER
80
B
MET
81
n
81
MET
81
B
THR
82
n
82
THR
82
B
LYS
83
n
83
LYS
83
B
ARG
84
n
84
ARG
84
B
ILE
85
n
85
ILE
85
B
ALA
86
n
86
ALA
86
B
SER
87
n
87
SER
87
B
GLY
88
n
88
GLY
88
B
HIS
89
n
89
HIS
89
B
HIS
90
n
90
HIS
90
B
n
91
91
B
n
92
92
B
n
93
93
B
n
94
94
B
MET
1
n
1
MET
1
C
GLU
2
n
2
GLU
2
C
LEU
3
n
3
LEU
3
C
ARG
4
n
4
ARG
4
C
HIS
5
n
5
HIS
5
C
LEU
6
n
6
LEU
6
C
ARG
7
n
7
ARG
7
C
TYR
8
n
8
TYR
8
C
PHE
9
n
9
PHE
9
C
VAL
10
n
10
VAL
10
C
ALA
11
n
11
ALA
11
C
VAL
12
n
12
VAL
12
C
VAL
13
n
13
VAL
13
C
GLU
14
n
14
GLU
14
C
GLU
15
n
15
GLU
15
C
GLN
16
n
16
GLN
16
C
SER
17
n
17
SER
17
C
PHE
18
n
18
PHE
18
C
THR
19
n
19
THR
19
C
LYS
20
n
20
LYS
20
C
ALA
21
n
21
ALA
21
C
ALA
22
n
22
ALA
22
C
ASP
23
n
23
ASP
23
C
LYS
24
n
24
LYS
24
C
LEU
25
n
25
LEU
25
C
CYS
26
n
26
CYS
26
C
ILE
27
n
27
ILE
27
C
ALA
28
n
28
ALA
28
C
GLN
29
n
29
GLN
29
C
PRO
30
n
30
PRO
30
C
PRO
31
n
31
PRO
31
C
LEU
32
n
32
LEU
32
C
SER
33
n
33
SER
33
C
ARG
34
n
34
ARG
34
C
GLN
35
n
35
GLN
35
C
ILE
36
n
36
ILE
36
C
GLN
37
n
37
GLN
37
C
ASN
38
n
38
ASN
38
C
LEU
39
n
39
LEU
39
C
GLU
40
n
40
GLU
40
C
GLU
41
n
41
GLU
41
C
GLU
42
n
42
GLU
42
C
LEU
43
n
43
LEU
43
C
GLY
44
n
44
GLY
44
C
ILE
45
n
45
ILE
45
C
GLN
46
n
46
GLN
46
C
LEU
47
n
47
LEU
47
C
LEU
48
n
48
LEU
48
C
GLU
49
n
49
GLU
49
C
ARG
50
n
50
ARG
50
C
GLY
51
n
51
GLY
51
C
SER
52
n
52
SER
52
C
ARG
53
n
53
ARG
53
C
PRO
54
n
54
PRO
54
C
VAL
55
n
55
VAL
55
C
LYS
56
n
56
LYS
56
C
THR
57
n
57
THR
57
C
THR
58
n
58
THR
58
C
PRO
59
n
59
PRO
59
C
GLU
60
n
60
GLU
60
C
GLY
61
n
61
GLY
61
C
HIS
62
n
62
HIS
62
C
PHE
63
n
63
PHE
63
C
PHE
64
n
64
PHE
64
C
TYR
65
n
65
TYR
65
C
GLN
66
n
66
GLN
66
C
TYR
67
n
67
TYR
67
C
ALA
68
n
68
ALA
68
C
ILE
69
n
69
ILE
69
C
LYS
70
n
70
LYS
70
C
LEU
71
n
71
LEU
71
C
LEU
72
n
72
LEU
72
C
SER
73
n
73
SER
73
C
ASN
74
n
74
ASN
74
C
VAL
75
n
75
VAL
75
C
ASP
76
n
76
ASP
76
C
GLN
77
n
77
GLN
77
C
MET
78
n
78
MET
78
C
VAL
79
n
79
VAL
79
C
SER
80
n
80
SER
80
C
MET
81
n
81
MET
81
C
THR
82
n
82
THR
82
C
LYS
83
n
83
LYS
83
C
ARG
84
n
84
ARG
84
C
ILE
85
n
85
ILE
85
C
ALA
86
n
86
ALA
86
C
n
87
87
C
n
88
88
C
n
89
89
C
n
90
90
C
n
91
91
C
n
92
92
C
n
93
93
C
n
94
94
C
MET
1
n
1
MET
1
D
GLU
2
n
2
GLU
2
D
LEU
3
n
3
LEU
3
D
ARG
4
n
4
ARG
4
D
HIS
5
n
5
HIS
5
D
LEU
6
n
6
LEU
6
D
ARG
7
n
7
ARG
7
D
TYR
8
n
8
TYR
8
D
PHE
9
n
9
PHE
9
D
VAL
10
n
10
VAL
10
D
ALA
11
n
11
ALA
11
D
VAL
12
n
12
VAL
12
D
VAL
13
n
13
VAL
13
D
GLU
14
n
14
GLU
14
D
GLU
15
n
15
GLU
15
D
GLN
16
n
16
GLN
16
D
SER
17
n
17
SER
17
D
PHE
18
n
18
PHE
18
D
THR
19
n
19
THR
19
D
LYS
20
n
20
LYS
20
D
ALA
21
n
21
ALA
21
D
ALA
22
n
22
ALA
22
D
ASP
23
n
23
ASP
23
D
LYS
24
n
24
LYS
24
D
LEU
25
n
25
LEU
25
D
CYS
26
n
26
CYS
26
D
ILE
27
n
27
ILE
27
D
ALA
28
n
28
ALA
28
D
GLN
29
n
29
GLN
29
D
PRO
30
n
30
PRO
30
D
PRO
31
n
31
PRO
31
D
LEU
32
n
32
LEU
32
D
SER
33
n
33
SER
33
D
ARG
34
n
34
ARG
34
D
GLN
35
n
35
GLN
35
D
ILE
36
n
36
ILE
36
D
GLN
37
n
37
GLN
37
D
ASN
38
n
38
ASN
38
D
LEU
39
n
39
LEU
39
D
GLU
40
n
40
GLU
40
D
GLU
41
n
41
GLU
41
D
GLU
42
n
42
GLU
42
D
LEU
43
n
43
LEU
43
D
GLY
44
n
44
GLY
44
D
ILE
45
n
45
ILE
45
D
GLN
46
n
46
GLN
46
D
LEU
47
n
47
LEU
47
D
LEU
48
n
48
LEU
48
D
GLU
49
n
49
GLU
49
D
ARG
50
n
50
ARG
50
D
GLY
51
n
51
GLY
51
D
SER
52
n
52
SER
52
D
ARG
53
n
53
ARG
53
D
PRO
54
n
54
PRO
54
D
VAL
55
n
55
VAL
55
D
LYS
56
n
56
LYS
56
D
THR
57
n
57
THR
57
D
THR
58
n
58
THR
58
D
PRO
59
n
59
PRO
59
D
GLU
60
n
60
GLU
60
D
GLY
61
n
61
GLY
61
D
HIS
62
n
62
HIS
62
D
PHE
63
n
63
PHE
63
D
PHE
64
n
64
PHE
64
D
TYR
65
n
65
TYR
65
D
GLN
66
n
66
GLN
66
D
TYR
67
n
67
TYR
67
D
ALA
68
n
68
ALA
68
D
ILE
69
n
69
ILE
69
D
LYS
70
n
70
LYS
70
D
LEU
71
n
71
LEU
71
D
LEU
72
n
72
LEU
72
D
SER
73
n
73
SER
73
D
ASN
74
n
74
ASN
74
D
VAL
75
n
75
VAL
75
D
ASP
76
n
76
ASP
76
D
GLN
77
n
77
GLN
77
D
MET
78
n
78
MET
78
D
VAL
79
n
79
VAL
79
D
SER
80
n
80
SER
80
D
MET
81
n
81
MET
81
D
THR
82
n
82
THR
82
D
LYS
83
n
83
LYS
83
D
ARG
84
n
84
ARG
84
D
ILE
85
n
85
ILE
85
D
ALA
86
n
86
ALA
86
D
SER
87
n
87
SER
87
D
GLY
88
n
88
GLY
88
D
HIS
89
n
89
HIS
89
D
HIS
90
n
90
HIS
90
D
n
91
91
D
n
92
92
D
n
93
93
D
n
94
94
D
DT
1
n
1
DT
1
E
DA
2
n
2
DA
2
E
DA
3
n
3
DA
3
E
DA
4
n
4
DA
4
E
DA
5
n
5
DA
5
E
DA
6
n
6
DA
6
E
DT
7
n
7
DT
7
E
DA
8
n
8
DA
8
E
DC
9
n
9
DC
9
E
DT
10
n
10
DT
10
E
DC
11
n
11
DC
11
E
DC
12
n
12
DC
12
E
DA
13
n
13
DA
13
E
DT
14
n
14
DT
14
E
DA
15
n
15
DA
15
E
DG
16
n
16
DG
16
E
DG
17
n
17
DG
17
E
DT
18
n
18
DT
18
E
DA
19
n
19
DA
19
E
DT
20
n
20
DT
20
E
DT
21
n
21
DT
21
E
DT
22
n
22
DT
22
E
DT
23
n
23
DT
23
E
DA
24
n
24
DA
24
E
DT
25
n
25
DT
25
E
DA
1
n
1
DA
1
F
DT
2
n
2
DT
2
F
DA
3
n
3
DA
3
F
DA
4
n
4
DA
4
F
DA
5
n
5
DA
5
F
DA
6
n
6
DA
6
F
DT
7
n
7
DT
7
F
DA
8
n
8
DA
8
F
DC
9
n
9
DC
9
F
DC
10
n
10
DC
10
F
DT
11
n
11
DT
11
F
DA
12
n
12
DA
12
F
DT
13
n
13
DT
13
F
DG
14
n
14
DG
14
F
DG
15
n
15
DG
15
F
DA
16
n
16
DA
16
F
DG
17
n
17
DG
17
F
DT
18
n
18
DT
18
F
DA
19
n
19
DA
19
F
DT
20
n
20
DT
20
F
DT
21
n
21
DT
21
F
DT
22
n
22
DT
22
F
DT
23
n
23
DT
23
F
DT
24
n
24
DT
24
F
DA
25
n
25
DA
25
F
DT
1
n
1
DT
1
G
DA
2
n
2
DA
2
G
DA
3
n
3
DA
3
G
DA
4
n
4
DA
4
G
DA
5
n
5
DA
5
G
DA
6
n
6
DA
6
G
DT
7
n
7
DT
7
G
DA
8
n
8
DA
8
G
DC
9
n
9
DC
9
G
DT
10
n
10
DT
10
G
DC
11
n
11
DC
11
G
DC
12
n
12
DC
12
G
DA
13
n
13
DA
13
G
DT
14
n
14
DT
14
G
DA
15
n
15
DA
15
G
DG
16
n
16
DG
16
G
DG
17
n
17
DG
17
G
DT
18
n
18
DT
18
G
DA
19
n
19
DA
19
G
DT
20
n
20
DT
20
G
DT
21
n
21
DT
21
G
DT
22
n
22
DT
22
G
DT
23
n
23
DT
23
G
DA
24
n
24
DA
24
G
DT
25
n
25
DT
25
G
DA
1
n
1
DA
1
H
DT
2
n
2
DT
2
H
DA
3
n
3
DA
3
H
DA
4
n
4
DA
4
H
DA
5
n
5
DA
5
H
DA
6
n
6
DA
6
H
DT
7
n
7
DT
7
H
DA
8
n
8
DA
8
H
DC
9
n
9
DC
9
H
DC
10
n
10
DC
10
H
DT
11
n
11
DT
11
H
DA
12
n
12
DA
12
H
DT
13
n
13
DT
13
H
DG
14
n
14
DG
14
H
DG
15
n
15
DG
15
H
DA
16
n
16
DA
16
H
DG
17
n
17
DG
17
H
DT
18
n
18
DT
18
H
DA
19
n
19
DA
19
H
DT
20
n
20
DT
20
H
DT
21
n
21
DT
21
H
DT
22
n
22
DT
22
H
DT
23
n
23
DT
23
H
DT
24
n
24
DT
24
H
DA
25
n
25
DA
25
H
5.6548
-2.2208
1.3676
6.3136
3.4975
7.3772
0.1346
0.2736
-0.0773
-0.0559
-0.1205
0.5428
0.5104
-0.2462
-0.0141
0.1274
-0.0134
-0.1079
0.1280
-0.0097
0.1438
refined
22.0757
-53.1580
-8.0770
X-RAY DIFFRACTION
5.0011
-1.9164
0.4835
2.5041
-1.3762
2.1362
-0.4121
-0.4847
-0.0129
0.1891
0.2870
0.1694
0.6962
-0.1413
0.1251
0.5104
0.0049
0.0540
0.2858
-0.0210
0.3160
refined
20.0832
-51.1380
3.1155
X-RAY DIFFRACTION
4.3146
-1.8395
-2.9097
7.1268
0.9846
4.6060
0.4181
-0.0779
0.7229
-0.7317
-0.1181
-0.2819
-0.4149
-0.1062
-0.3000
0.1234
0.0628
-0.0036
0.2476
-0.0846
0.5123
refined
21.4248
-28.4645
-2.1059
X-RAY DIFFRACTION
17.1778
20.4123
-7.2593
27.5226
-1.1983
20.1542
0.1092
1.2134
1.4981
-0.3926
1.5980
1.4001
-1.7283
0.0414
-1.7072
0.6512
0.2131
0.1537
0.6629
0.0041
0.9066
refined
13.0842
-21.7004
4.0527
X-RAY DIFFRACTION
10.1158
-7.2540
-0.2884
10.0513
1.2019
1.2507
-0.2845
-1.2468
0.2127
0.3730
0.4606
-0.1287
0.0377
-0.0189
-0.1762
0.0339
0.0164
-0.0546
0.3225
-0.0534
0.1668
refined
25.9942
-42.4278
8.8393
X-RAY DIFFRACTION
8.8201
2.8689
0.9814
7.7750
-2.0901
8.5838
-0.3241
0.5027
-0.4233
0.1101
0.4842
-0.6975
0.0717
0.5404
-0.1601
0.0457
0.0834
-0.0290
0.3543
-0.1412
0.0954
refined
57.8006
-47.3098
5.9597
X-RAY DIFFRACTION
29.2203
-3.2151
20.5968
8.0909
-0.3718
15.1781
0.6490
0.3188
0.0102
0.5422
-0.5473
0.3800
0.6984
0.1052
-0.1018
0.1329
0.0599
-0.0583
0.2912
-0.0413
0.2125
refined
49.1669
-48.2990
9.9322
X-RAY DIFFRACTION
6.5113
-2.0734
-0.8461
9.0758
-2.9276
6.4641
-0.2288
-0.4727
-0.8647
0.1320
0.9183
0.6521
1.2628
0.1902
-0.6896
0.5708
0.1149
-0.1244
0.5494
-0.1779
0.5313
refined
51.2661
-58.7667
4.0548
X-RAY DIFFRACTION
5.4622
9.5520
-0.4100
28.2262
-2.7814
4.5222
-0.8105
1.2331
0.5073
-1.9384
0.9095
-0.5539
-0.2760
0.6981
-0.0990
0.1955
-0.1578
0.0153
0.9326
0.0757
0.3036
refined
56.9484
-39.9588
-7.4953
X-RAY DIFFRACTION
0.7027
-0.4445
-1.9733
9.5933
1.3020
9.6626
-0.2814
0.2394
0.2766
-0.1331
0.2221
0.8538
-0.8043
-0.3966
0.0594
0.6246
-0.1648
-0.4358
0.3540
0.3015
0.5925
refined
44.5063
-24.8723
0.2092
X-RAY DIFFRACTION
4.7765
-0.3686
-5.7306
6.3863
3.6664
8.7725
0.1107
0.1564
0.3310
-0.5353
0.1209
-0.3887
-0.7845
0.1388
-0.2316
0.6208
-0.2045
-0.3734
0.5232
0.4051
0.7668
refined
52.1342
-18.4126
0.3128
X-RAY DIFFRACTION
3.8009
7.7951
-1.1570
24.5688
-3.4296
2.1446
-1.1184
1.0926
0.0013
-2.2654
1.1371
-0.3201
-0.2078
0.2952
-0.0186
0.7422
-0.3285
-0.0664
0.7851
0.0203
0.2981
refined
47.0149
-38.5346
-9.3561
X-RAY DIFFRACTION
5.4256
-3.6571
-1.8155
12.5870
-0.1902
9.5716
-0.1483
-0.1473
0.6199
0.2861
-0.0032
-0.0045
-0.8897
0.1877
0.1514
0.8434
0.2473
0.1529
0.2151
-0.0547
0.7959
refined
19.0254
-12.4118
-7.4369
X-RAY DIFFRACTION
2.5039
-0.7781
-0.6486
13.2228
1.2385
2.7913
0.1491
0.3748
-0.0950
-0.8482
-0.3213
-0.6808
-0.1514
-0.3637
0.1722
0.2814
0.0550
-0.0037
0.3592
-0.0139
0.1303
refined
24.9780
-49.4125
-21.3488
X-RAY DIFFRACTION
3.3621
0.2617
-0.8029
5.4351
2.0522
2.0279
0.4176
0.2681
-0.1184
-0.1933
-0.5094
-0.3324
-0.1392
-0.4688
0.0918
0.2857
0.0691
-0.0849
0.3167
-0.0020
0.1330
refined
24.1297
-50.3686
-20.4227
X-RAY DIFFRACTION
11.3702
-5.3841
-7.0740
15.3354
7.4846
11.8293
0.2599
0.1884
0.8050
-0.9320
-0.4334
0.3605
-0.9713
-0.5205
0.1735
0.7851
0.1293
0.0475
0.2050
0.0583
0.8163
refined
18.2789
-12.0365
-10.0309
X-RAY DIFFRACTION
2.7536
-3.2165
1.6174
15.2102
-4.1169
2.7904
-0.3969
0.1640
0.7827
1.5932
-0.0536
0.1542
-1.1681
0.0392
0.4505
0.5817
0.1237
-0.1282
0.2985
0.0125
0.3646
refined
47.8960
-23.6410
15.3403
X-RAY DIFFRACTION
2.7173
2.5150
-1.9609
15.9487
3.8068
4.2486
-0.4689
-0.3573
-0.9735
1.2733
0.0584
-0.3721
1.1844
0.3450
0.4104
0.6165
0.2948
-0.0798
0.2405
0.1191
0.8836
refined
53.0361
-62.9564
20.4606
X-RAY DIFFRACTION
18.2765
-11.8512
-1.5368
18.9925
-8.9001
17.0571
-0.1819
-0.2523
-0.7185
0.6008
-0.3933
-1.0849
1.0303
1.3330
0.5752
0.5028
0.1523
-0.3711
0.2925
-0.0641
0.6681
refined
58.2589
-62.5187
18.6356
X-RAY DIFFRACTION
1.9775
-0.5794
0.9895
8.2254
-3.7442
3.7752
0.0569
0.0578
0.7699
1.1512
-0.6080
0.4718
-1.1836
0.2836
0.5511
0.6438
0.1244
-0.0440
0.2753
-0.0189
0.5088
refined
47.5796
-24.3280
16.0554
X-RAY DIFFRACTION
A
1
A
43
X-RAY DIFFRACTION
1
A
44
A
89
X-RAY DIFFRACTION
2
B
1
B
43
X-RAY DIFFRACTION
3
B
44
B
58
X-RAY DIFFRACTION
4
B
59
B
90
X-RAY DIFFRACTION
5
C
1
C
28
X-RAY DIFFRACTION
6
C
29
C
43
X-RAY DIFFRACTION
7
C
44
C
58
X-RAY DIFFRACTION
8
C
59
C
86
X-RAY DIFFRACTION
9
D
1
D
28
X-RAY DIFFRACTION
10
D
29
D
58
X-RAY DIFFRACTION
11
D
59
D
90
X-RAY DIFFRACTION
12
E
1
E
8
X-RAY DIFFRACTION
13
E
9
E
25
X-RAY DIFFRACTION
14
F
1
F
17
X-RAY DIFFRACTION
15
F
18
F
25
X-RAY DIFFRACTION
16
G
1
G
19
X-RAY DIFFRACTION
17
G
20
G
25
X-RAY DIFFRACTION
18
H
1
H
6
X-RAY DIFFRACTION
19
H
7
H
25
X-RAY DIFFRACTION
20
author_and_software_defined_assembly
PISA
4
tetrameric
author_and_software_defined_assembly
PISA
4
tetrameric
7910
-58
16030
8050
-57
15610
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
C
N
GLU
49
C
N
GLU
49
C
O
LYS
56
C
O
LYS
56
1
A
HIS
90
A
HIS
90
1
Y
1
A
HIS
91
A
HIS
91
1
Y
1
A
HIS
92
A
HIS
92
1
Y
1
A
HIS
93
A
HIS
93
1
Y
1
A
HIS
94
A
HIS
94
1
Y
1
B
HIS
91
B
HIS
91
1
Y
1
B
HIS
92
B
HIS
92
1
Y
1
B
HIS
93
B
HIS
93
1
Y
1
B
HIS
94
B
HIS
94
1
Y
1
C
SER
87
C
SER
87
1
Y
1
C
GLY
88
C
GLY
88
1
Y
1
C
HIS
89
C
HIS
89
1
Y
1
C
HIS
90
C
HIS
90
1
Y
1
C
HIS
91
C
HIS
91
1
Y
1
C
HIS
92
C
HIS
92
1
Y
1
C
HIS
93
C
HIS
93
1
Y
1
C
HIS
94
C
HIS
94
1
Y
1
D
HIS
91
D
HIS
91
1
Y
1
D
HIS
92
D
HIS
92
1
Y
1
D
HIS
93
D
HIS
93
1
Y
1
D
HIS
94
D
HIS
94
1
Y
1
E
F
H3
N1
DT
DA
14
12
1.49
1
G
H
H3
N1
DT
DA
14
12
1.59
1
-9.08
1.50
119.30
110.22
C
C
C
C
N
CA
ARG
PRO
PRO
53
54
54
Y
1
A
SER
17
-169.01
119.17
1
A
ALA
86
-70.50
40.54
1
A
SER
87
-150.76
43.10
1
B
SER
52
-170.05
128.79
1
D
CYS
26
76.10
50.65
1
D
SER
52
-170.59
114.57
1
D
PRO
54
-65.75
91.17
212.280
95.0928
49.940
8.5400
0.0000
0.0000
-2.5400
0.0000
-6.0000
0.9590
0.9260
HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT U VALUES: WITH TLS ADDED
0.2452
0.1845
0.1877
3.0000
31.66
820
15998
5.1000
92.5200
1.000
1.000
42.2650
0.3480
RANDOM
1
THROUGHOUT
0.000
MOLECULAR REPLACEMENT
0.4370
0.8000
0.8000
1.2000
PDB entry 3M1E
MAXIMUM LIKELIHOOD
MASK
3.0000
31.66
3
4913
0
2038
2872
0.006
0.016
5209
0.001
0.020
4088
1.143
1.658
7840
0.842
3.001
9412
5.289
5.000
351
33.475
23.688
141
17.601
15.000
552
16.114
15.000
24
0.069
0.200
836
0.006
0.020
4425
0.001
0.020
1003
1
A
1
1417
X-RAY DIFFRACTION
MEDIUM POSITIONAL
0.320
0.500
1
A
1
1417
X-RAY DIFFRACTION
MEDIUM THERMAL
8.320
2.000
1
B
2
1453
X-RAY DIFFRACTION
MEDIUM POSITIONAL
0.330
0.500
1
B
2
1453
X-RAY DIFFRACTION
MEDIUM THERMAL
7.490
2.000
1
E
3
795
X-RAY DIFFRACTION
MEDIUM POSITIONAL
0.360
0.500
1
E
3
795
X-RAY DIFFRACTION
MEDIUM THERMAL
5.560
2.000
1
F
4
798
X-RAY DIFFRACTION
MEDIUM POSITIONAL
0.320
0.500
1
F
4
798
X-RAY DIFFRACTION
MEDIUM THERMAL
5.440
2.000
0.3740
0.2720
3.0780
61
1039
1100
20
96.3200
99.4
2.900
50.000
4IHT
17712
0.065
3.411
1
21.100
3.700
92.700
0.503
2.900
2.950
875
1.842
1
3.300
92.900
0.396
2.950
3.000
887
1.788
1
4.100
96.000
0.318
3.000
3.060
887
2.035
1
4.100
96.500
0.274
3.060
3.120
925
2.297
1
3.900
96.800
0.214
3.120
3.190
854
2.883
1
3.900
95.000
0.153
3.190
3.270
930
2.872
1
3.900
95.100
0.143
3.270
3.350
847
3.119
1
3.800
95.100
0.131
3.350
3.440
897
3.510
1
3.700
94.300
0.119
3.440
3.540
909
3.796
1
3.800
94.300
0.111
3.540
3.650
868
3.873
1
3.600
94.200
0.090
3.650
3.780
877
4.145
1
3.700
93.000
0.084
3.780
3.940
899
4.120
1
3.500
93.100
0.075
3.940
4.110
865
4.235
1
3.500
94.100
0.064
4.110
4.330
886
4.421
1
3.500
93.200
0.059
4.330
4.600
898
4.196
1
3.500
91.600
0.056
4.600
4.960
879
4.148
1
3.500
91.400
0.055
4.960
5.460
871
4.157
1
3.500
91.000
0.053
5.460
6.240
903
4.198
1
3.600
91.000
0.043
6.240
7.860
893
3.715
1
3.500
88.900
0.039
7.860
50.000
862
3.671
1
3.500
78.600
data reduction
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
DENZO
program
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
program
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.6.0117
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data reduction
HKL-2000
data scaling
HKL-2000
Crystal Structure of BenM_DBD/benA site 1 DNA Complex
1
N
N
1
N
N
1
N
N
1
N
N
2
N
N
3
N
N
2
N
N
3
N
N
4
N
N
A
GLU
2
A
GLU
2
HELX_P
A
GLN
16
A
GLN
16
1
1
15
A
SER
17
A
SER
17
HELX_P
A
CYS
26
A
CYS
26
1
2
10
A
ALA
28
A
ALA
28
HELX_P
A
GLY
44
A
GLY
44
1
3
17
A
THR
58
A
THR
58
HELX_P
A
ALA
86
A
ALA
86
1
4
29
B
GLU
2
B
GLU
2
HELX_P
B
GLN
16
B
GLN
16
1
5
15
B
SER
17
B
SER
17
HELX_P
B
LEU
25
B
LEU
25
1
6
9
B
ALA
28
B
ALA
28
HELX_P
B
GLY
44
B
GLY
44
1
7
17
B
THR
58
B
THR
58
HELX_P
B
SER
87
B
SER
87
1
8
30
C
GLU
2
C
GLU
2
HELX_P
C
GLN
16
C
GLN
16
1
9
15
C
SER
17
C
SER
17
HELX_P
C
CYS
26
C
CYS
26
1
10
10
C
ALA
28
C
ALA
28
HELX_P
C
GLY
44
C
GLY
44
1
11
17
C
THR
58
C
THR
58
HELX_P
C
ALA
86
C
ALA
86
1
12
29
D
GLU
2
D
GLU
2
HELX_P
D
GLN
16
D
GLN
16
1
13
15
D
SER
17
D
SER
17
HELX_P
D
CYS
26
D
CYS
26
1
14
10
D
ALA
28
D
ALA
28
HELX_P
D
GLY
44
D
GLY
44
1
15
17
D
THR
58
D
THR
58
HELX_P
D
SER
87
D
SER
87
1
16
30
hydrog
WATSON-CRICK
E
DT
1
E
N3
DT
1
1_555
F
DA
25
F
N1
DA
25
1_555
hydrog
WATSON-CRICK
E
DT
1
E
O4
DT
1
1_555
F
DA
25
F
N6
DA
25
1_555
hydrog
WATSON-CRICK
E
DA
2
E
N1
DA
2
1_555
F
DT
24
F
N3
DT
24
1_555
hydrog
WATSON-CRICK
E
DA
2
E
N6
DA
2
1_555
F
DT
24
F
O4
DT
24
1_555
hydrog
WATSON-CRICK
E
DA
3
E
N1
DA
3
1_555
F
DT
23
F
N3
DT
23
1_555
hydrog
WATSON-CRICK
E
DA
3
E
N6
DA
3
1_555
F
DT
23
F
O4
DT
23
1_555
hydrog
WATSON-CRICK
E
DA
4
E
N1
DA
4
1_555
F
DT
22
F
N3
DT
22
1_555
hydrog
WATSON-CRICK
E
DA
4
E
N6
DA
4
1_555
F
DT
22
F
O4
DT
22
1_555
hydrog
WATSON-CRICK
E
DA
5
E
N1
DA
5
1_555
F
DT
21
F
N3
DT
21
1_555
hydrog
WATSON-CRICK
E
DA
5
E
N6
DA
5
1_555
F
DT
21
F
O4
DT
21
1_555
hydrog
WATSON-CRICK
E
DA
6
E
N1
DA
6
1_555
F
DT
20
F
N3
DT
20
1_555
hydrog
WATSON-CRICK
E
DA
6
E
N6
DA
6
1_555
F
DT
20
F
O4
DT
20
1_555
hydrog
WATSON-CRICK
E
DT
7
E
N3
DT
7
1_555
F
DA
19
F
N1
DA
19
1_555
hydrog
WATSON-CRICK
E
DT
7
E
O4
DT
7
1_555
F
DA
19
F
N6
DA
19
1_555
hydrog
WATSON-CRICK
E
DA
8
E
N1
DA
8
1_555
F
DT
18
F
N3
DT
18
1_555
hydrog
WATSON-CRICK
E
DA
8
E
N6
DA
8
1_555
F
DT
18
F
O4
DT
18
1_555
hydrog
DC-DG PAIR
E
DC
9
E
O2
DC
9
1_555
F
DG
17
F
N1
DG
17
1_555
hydrog
WATSON-CRICK
E
DT
10
E
N3
DT
10
1_555
F
DA
16
F
N1
DA
16
1_555
hydrog
WATSON-CRICK
E
DT
10
E
O4
DT
10
1_555
F
DA
16
F
N6
DA
16
1_555
hydrog
WATSON-CRICK
E
DC
11
E
N3
DC
11
1_555
F
DG
15
F
N1
DG
15
1_555
hydrog
WATSON-CRICK
E
DC
11
E
N4
DC
11
1_555
F
DG
15
F
O6
DG
15
1_555
hydrog
WATSON-CRICK
E
DC
11
E
O2
DC
11
1_555
F
DG
15
F
N2
DG
15
1_555
hydrog
WATSON-CRICK
E
DC
12
E
N3
DC
12
1_555
F
DG
14
F
N1
DG
14
1_555
hydrog
WATSON-CRICK
E
DC
12
E
N4
DC
12
1_555
F
DG
14
F
O6
DG
14
1_555
hydrog
WATSON-CRICK
E
DC
12
E
O2
DC
12
1_555
F
DG
14
F
N2
DG
14
1_555
hydrog
WATSON-CRICK
E
DA
13
E
N1
DA
13
1_555
F
DT
13
F
N3
DT
13
1_555
hydrog
WATSON-CRICK
E
DA
13
E
N6
DA
13
1_555
F
DT
13
F
O4
DT
13
1_555
hydrog
WATSON-CRICK
E
DT
14
E
N3
DT
14
1_555
F
DA
12
F
N1
DA
12
1_555
hydrog
WATSON-CRICK
E
DT
14
E
O4
DT
14
1_555
F
DA
12
F
N6
DA
12
1_555
hydrog
WATSON-CRICK
E
DA
15
E
N1
DA
15
1_555
F
DT
11
F
N3
DT
11
1_555
hydrog
WATSON-CRICK
E
DA
15
E
N6
DA
15
1_555
F
DT
11
F
O4
DT
11
1_555
hydrog
WATSON-CRICK
E
DG
16
E
N1
DG
16
1_555
F
DC
10
F
N3
DC
10
1_555
hydrog
WATSON-CRICK
E
DG
16
E
N2
DG
16
1_555
F
DC
10
F
O2
DC
10
1_555
hydrog
WATSON-CRICK
E
DG
16
E
O6
DG
16
1_555
F
DC
10
F
N4
DC
10
1_555
hydrog
WATSON-CRICK
E
DG
17
E
N1
DG
17
1_555
F
DC
9
F
N3
DC
9
1_555
hydrog
WATSON-CRICK
E
DG
17
E
N2
DG
17
1_555
F
DC
9
F
O2
DC
9
1_555
hydrog
WATSON-CRICK
E
DG
17
E
O6
DG
17
1_555
F
DC
9
F
N4
DC
9
1_555
hydrog
WATSON-CRICK
E
DT
18
E
N3
DT
18
1_555
F
DA
8
F
N1
DA
8
1_555
hydrog
WATSON-CRICK
E
DT
18
E
O4
DT
18
1_555
F
DA
8
F
N6
DA
8
1_555
hydrog
WATSON-CRICK
E
DA
19
E
N1
DA
19
1_555
F
DT
7
F
N3
DT
7
1_555
hydrog
WATSON-CRICK
E
DA
19
E
N6
DA
19
1_555
F
DT
7
F
O4
DT
7
1_555
hydrog
WATSON-CRICK
E
DT
20
E
N3
DT
20
1_555
F
DA
6
F
N1
DA
6
1_555
hydrog
WATSON-CRICK
E
DT
20
E
O4
DT
20
1_555
F
DA
6
F
N6
DA
6
1_555
hydrog
WATSON-CRICK
E
DT
21
E
N3
DT
21
1_555
F
DA
5
F
N1
DA
5
1_555
hydrog
WATSON-CRICK
E
DT
21
E
O4
DT
21
1_555
F
DA
5
F
N6
DA
5
1_555
hydrog
WATSON-CRICK
E
DT
22
E
N3
DT
22
1_555
F
DA
4
F
N1
DA
4
1_555
hydrog
WATSON-CRICK
E
DT
22
E
O4
DT
22
1_555
F
DA
4
F
N6
DA
4
1_555
hydrog
WATSON-CRICK
E
DT
23
E
N3
DT
23
1_555
F
DA
3
F
N1
DA
3
1_555
hydrog
WATSON-CRICK
E
DT
23
E
O4
DT
23
1_555
F
DA
3
F
N6
DA
3
1_555
hydrog
WATSON-CRICK
E
DA
24
E
N1
DA
24
1_555
F
DT
2
F
N3
DT
2
1_555
hydrog
WATSON-CRICK
E
DA
24
E
N6
DA
24
1_555
F
DT
2
F
O4
DT
2
1_555
hydrog
DT-DA PAIR
E
DT
25
E
N3
DT
25
1_555
F
DA
1
F
N1
DA
1
1_555
hydrog
WATSON-CRICK
G
DT
1
G
N3
DT
1
1_555
H
DA
25
H
N1
DA
25
1_555
hydrog
WATSON-CRICK
G
DT
1
G
O4
DT
1
1_555
H
DA
25
H
N6
DA
25
1_555
hydrog
WATSON-CRICK
G
DA
2
G
N1
DA
2
1_555
H
DT
24
H
N3
DT
24
1_555
hydrog
WATSON-CRICK
G
DA
2
G
N6
DA
2
1_555
H
DT
24
H
O4
DT
24
1_555
hydrog
WATSON-CRICK
G
DA
3
G
N1
DA
3
1_555
H
DT
23
H
N3
DT
23
1_555
hydrog
WATSON-CRICK
G
DA
3
G
N6
DA
3
1_555
H
DT
23
H
O4
DT
23
1_555
hydrog
WATSON-CRICK
G
DA
4
G
N1
DA
4
1_555
H
DT
22
H
N3
DT
22
1_555
hydrog
WATSON-CRICK
G
DA
4
G
N6
DA
4
1_555
H
DT
22
H
O4
DT
22
1_555
hydrog
WATSON-CRICK
G
DA
5
G
N1
DA
5
1_555
H
DT
21
H
N3
DT
21
1_555
hydrog
WATSON-CRICK
G
DA
5
G
N6
DA
5
1_555
H
DT
21
H
O4
DT
21
1_555
hydrog
WATSON-CRICK
G
DA
6
G
N1
DA
6
1_555
H
DT
20
H
N3
DT
20
1_555
hydrog
WATSON-CRICK
G
DA
6
G
N6
DA
6
1_555
H
DT
20
H
O4
DT
20
1_555
hydrog
WATSON-CRICK
G
DT
7
G
N3
DT
7
1_555
H
DA
19
H
N1
DA
19
1_555
hydrog
WATSON-CRICK
G
DT
7
G
O4
DT
7
1_555
H
DA
19
H
N6
DA
19
1_555
hydrog
WATSON-CRICK
G
DA
8
G
N1
DA
8
1_555
H
DT
18
H
N3
DT
18
1_555
hydrog
WATSON-CRICK
G
DA
8
G
N6
DA
8
1_555
H
DT
18
H
O4
DT
18
1_555
hydrog
WATSON-CRICK
G
DC
9
G
N3
DC
9
1_555
H
DG
17
H
N1
DG
17
1_555
hydrog
WATSON-CRICK
G
DC
9
G
N4
DC
9
1_555
H
DG
17
H
O6
DG
17
1_555
hydrog
WATSON-CRICK
G
DC
9
G
O2
DC
9
1_555
H
DG
17
H
N2
DG
17
1_555
hydrog
WATSON-CRICK
G
DT
10
G
N3
DT
10
1_555
H
DA
16
H
N1
DA
16
1_555
hydrog
WATSON-CRICK
G
DT
10
G
O4
DT
10
1_555
H
DA
16
H
N6
DA
16
1_555
hydrog
WATSON-CRICK
G
DC
11
G
N3
DC
11
1_555
H
DG
15
H
N1
DG
15
1_555
hydrog
WATSON-CRICK
G
DC
11
G
N4
DC
11
1_555
H
DG
15
H
O6
DG
15
1_555
hydrog
WATSON-CRICK
G
DC
11
G
O2
DC
11
1_555
H
DG
15
H
N2
DG
15
1_555
hydrog
WATSON-CRICK
G
DC
12
G
N3
DC
12
1_555
H
DG
14
H
N1
DG
14
1_555
hydrog
WATSON-CRICK
G
DC
12
G
N4
DC
12
1_555
H
DG
14
H
O6
DG
14
1_555
hydrog
WATSON-CRICK
G
DC
12
G
O2
DC
12
1_555
H
DG
14
H
N2
DG
14
1_555
hydrog
WATSON-CRICK
G
DA
13
G
N1
DA
13
1_555
H
DT
13
H
N3
DT
13
1_555
hydrog
WATSON-CRICK
G
DA
13
G
N6
DA
13
1_555
H
DT
13
H
O4
DT
13
1_555
hydrog
WATSON-CRICK
G
DT
14
G
N3
DT
14
1_555
H
DA
12
H
N1
DA
12
1_555
hydrog
WATSON-CRICK
G
DT
14
G
O4
DT
14
1_555
H
DA
12
H
N6
DA
12
1_555
hydrog
WATSON-CRICK
G
DA
15
G
N1
DA
15
1_555
H
DT
11
H
N3
DT
11
1_555
hydrog
WATSON-CRICK
G
DA
15
G
N6
DA
15
1_555
H
DT
11
H
O4
DT
11
1_555
hydrog
WATSON-CRICK
G
DG
16
G
N1
DG
16
1_555
H
DC
10
H
N3
DC
10
1_555
hydrog
WATSON-CRICK
G
DG
16
G
N2
DG
16
1_555
H
DC
10
H
O2
DC
10
1_555
hydrog
WATSON-CRICK
G
DG
16
G
O6
DG
16
1_555
H
DC
10
H
N4
DC
10
1_555
hydrog
WATSON-CRICK
G
DG
17
G
N1
DG
17
1_555
H
DC
9
H
N3
DC
9
1_555
hydrog
WATSON-CRICK
G
DG
17
G
N2
DG
17
1_555
H
DC
9
H
O2
DC
9
1_555
hydrog
WATSON-CRICK
G
DG
17
G
O6
DG
17
1_555
H
DC
9
H
N4
DC
9
1_555
hydrog
WATSON-CRICK
G
DT
18
G
N3
DT
18
1_555
H
DA
8
H
N1
DA
8
1_555
hydrog
WATSON-CRICK
G
DT
18
G
O4
DT
18
1_555
H
DA
8
H
N6
DA
8
1_555
hydrog
WATSON-CRICK
G
DA
19
G
N1
DA
19
1_555
H
DT
7
H
N3
DT
7
1_555
hydrog
WATSON-CRICK
G
DA
19
G
N6
DA
19
1_555
H
DT
7
H
O4
DT
7
1_555
hydrog
DT-DA PAIR
G
DT
20
G
N3
DT
20
1_555
H
DA
6
H
N1
DA
6
1_555
hydrog
WATSON-CRICK
G
DT
21
G
N3
DT
21
1_555
H
DA
5
H
N1
DA
5
1_555
hydrog
WATSON-CRICK
G
DT
21
G
O4
DT
21
1_555
H
DA
5
H
N6
DA
5
1_555
hydrog
WATSON-CRICK
G
DT
22
G
N3
DT
22
1_555
H
DA
4
H
N1
DA
4
1_555
hydrog
WATSON-CRICK
G
DT
22
G
O4
DT
22
1_555
H
DA
4
H
N6
DA
4
1_555
hydrog
WATSON-CRICK
G
DT
23
G
N3
DT
23
1_555
H
DA
3
H
N1
DA
3
1_555
hydrog
WATSON-CRICK
G
DT
23
G
O4
DT
23
1_555
H
DA
3
H
N6
DA
3
1_555
hydrog
WATSON-CRICK
G
DA
24
G
N1
DA
24
1_555
H
DT
2
H
N3
DT
2
1_555
hydrog
WATSON-CRICK
G
DA
24
G
N6
DA
24
1_555
H
DT
2
H
O4
DT
2
1_555
hydrog
DT-DA PAIR
G
DT
25
G
N3
DT
25
1_555
H
DA
1
H
N1
DA
1
1_555
Transcription/DNA
wHTH, HTH, Transcriptional Regulator, benA promoter site 1, Transcription-DNA complex
A
ARG
53
A
ARG
53
1
A
PRO
54
A
PRO
54
3.92
A
C
B
D
E
G
F
H
BENM_ACIAD
UNP
1
1
O68014
MELRHLRYFVAVVEEQSFTKAADKLCIAQPPLSRQIQNLEEELGIQLLERGSRPVKTTPEGHFFYQYAIKLLSNVDQMVS
MTKRIAS
4IHT
PDB
2
4IHT
TAAAAATACTCCATAGGTATTTTAT
4IHT
PDB
3
4IHT
ATAAAATACCTATGGAGTATTTTTA
1
87
4IHT
1
87
O68014
A
1
1
87
1
87
4IHT
1
87
O68014
B
1
1
87
1
87
4IHT
1
87
O68014
C
1
1
87
1
87
4IHT
1
87
O68014
D
1
1
87
1
25
4IHT
1
25
4IHT
E
2
1
25
1
25
4IHT
1
25
4IHT
G
2
1
25
1
25
4IHT
1
25
4IHT
F
3
1
25
1
25
4IHT
1
25
4IHT
H
3
1
25
1
expression tag
GLY
88
4IHT
A
O68014
UNP
88
1
expression tag
HIS
89
4IHT
A
O68014
UNP
89
1
expression tag
HIS
90
4IHT
A
O68014
UNP
90
1
expression tag
HIS
91
4IHT
A
O68014
UNP
91
1
expression tag
HIS
92
4IHT
A
O68014
UNP
92
1
expression tag
HIS
93
4IHT
A
O68014
UNP
93
1
expression tag
HIS
94
4IHT
A
O68014
UNP
94
2
expression tag
GLY
88
4IHT
B
O68014
UNP
88
2
expression tag
HIS
89
4IHT
B
O68014
UNP
89
2
expression tag
HIS
90
4IHT
B
O68014
UNP
90
2
expression tag
HIS
91
4IHT
B
O68014
UNP
91
2
expression tag
HIS
92
4IHT
B
O68014
UNP
92
2
expression tag
HIS
93
4IHT
B
O68014
UNP
93
2
expression tag
HIS
94
4IHT
B
O68014
UNP
94
3
expression tag
GLY
88
4IHT
C
O68014
UNP
88
3
expression tag
HIS
89
4IHT
C
O68014
UNP
89
3
expression tag
HIS
90
4IHT
C
O68014
UNP
90
3
expression tag
HIS
91
4IHT
C
O68014
UNP
91
3
expression tag
HIS
92
4IHT
C
O68014
UNP
92
3
expression tag
HIS
93
4IHT
C
O68014
UNP
93
3
expression tag
HIS
94
4IHT
C
O68014
UNP
94
4
expression tag
GLY
88
4IHT
D
O68014
UNP
88
4
expression tag
HIS
89
4IHT
D
O68014
UNP
89
4
expression tag
HIS
90
4IHT
D
O68014
UNP
90
4
expression tag
HIS
91
4IHT
D
O68014
UNP
91
4
expression tag
HIS
92
4IHT
D
O68014
UNP
92
4
expression tag
HIS
93
4IHT
D
O68014
UNP
93
4
expression tag
HIS
94
4IHT
D
O68014
UNP
94
2
anti-parallel
C
LEU
48
C
LEU
48
C
GLU
49
C
GLU
49
C
LYS
56
C
LYS
56
C
THR
57
C
THR
57
18
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