0.008486
0.004900
0.000000
0.000000
0.009799
0.000000
0.000000
0.000000
0.020413
0.00000
0.00000
0.00000
Horvath, M.
Rosenberg, J.M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
117.833
117.833
48.989
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
C10 H13 N4 O6 P
316.207
n
PURINE 2'-DEOXYRIBO-5'-MONOPHOSPHATE
DNA 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
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
Y
416
N
N
Y
417
N
C
Y
418
N
N
Y
419
N
C
Y
420
N
C
Y
421
N
C
Y
422
N
N
Y
423
N
C
Y
424
N
N
N
425
R
C
N
426
N
C
N
427
S
C
N
428
N
O
N
429
R
C
N
430
N
O
N
431
N
C
N
432
N
O
N
433
N
P
N
434
N
O
N
435
N
O
N
436
N
O
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
H
N
448
N
H
N
449
N
H
N
450
N
N
N
451
S
C
N
452
N
C
N
453
N
O
N
454
N
C
N
455
N
C
N
456
N
C
N
457
N
O
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
N
N
468
S
C
N
469
N
C
N
470
N
O
N
471
N
C
N
472
N
O
N
473
N
O
N
474
N
H
N
475
N
H
N
476
N
H
N
477
N
H
N
478
N
H
N
479
N
H
N
480
N
H
N
481
N
N
N
482
S
C
N
483
N
C
N
484
N
O
N
485
R
C
N
486
N
O
N
487
N
C
N
488
N
O
N
489
N
H
N
490
N
H
N
491
N
H
N
492
N
H
N
493
N
H
N
494
N
H
N
495
N
H
N
496
N
H
N
497
N
H
N
498
N
N
N
499
S
C
N
500
N
C
N
501
N
O
N
502
N
C
Y
503
N
C
Y
504
N
C
Y
505
N
C
Y
506
N
N
Y
507
N
C
Y
508
N
C
Y
509
N
C
Y
510
N
C
Y
511
N
C
N
512
N
O
N
513
N
H
N
514
N
H
N
515
N
H
N
516
N
H
N
517
N
H
N
518
N
H
N
519
N
H
N
520
N
H
N
521
N
H
N
522
N
H
N
523
N
H
N
524
N
H
N
525
N
N
N
526
S
C
N
527
N
C
N
528
N
O
N
529
N
C
Y
530
N
C
Y
531
N
C
Y
532
N
C
Y
533
N
C
Y
534
N
C
Y
535
N
C
N
536
N
O
N
537
N
O
N
538
N
H
N
539
N
H
N
540
N
H
N
541
N
H
N
542
N
H
N
543
N
H
N
544
N
H
N
545
N
H
N
546
N
H
N
547
N
H
N
548
N
H
N
549
N
N
N
550
S
C
N
551
N
C
N
552
N
O
N
553
N
C
N
554
N
C
N
555
N
C
N
556
N
O
N
557
N
H
N
558
N
H
N
559
N
H
N
560
N
H
N
561
N
H
N
562
N
H
N
563
N
H
N
564
N
H
N
565
N
H
N
566
N
H
N
567
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
Y
409
N
sing
Y
410
N
doub
Y
411
N
doub
N
412
N
sing
Y
413
N
sing
Y
414
N
doub
Y
415
N
sing
Y
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
419
N
doub
Y
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
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
doub
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
N
450
N
sing
N
451
N
doub
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
sing
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
doub
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
sing
N
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
doub
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
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
N
497
N
doub
N
498
N
sing
N
499
N
sing
N
500
N
sing
N
501
N
sing
Y
502
N
doub
Y
503
N
sing
Y
504
N
sing
N
505
N
sing
Y
506
N
doub
Y
507
N
sing
Y
508
N
sing
N
509
N
sing
Y
510
N
sing
Y
511
N
doub
N
512
N
sing
Y
513
N
doub
N
514
N
sing
Y
515
N
sing
N
516
N
sing
N
517
N
sing
N
518
N
sing
N
519
N
sing
N
520
N
sing
N
521
N
sing
N
522
N
sing
N
523
N
sing
N
524
N
sing
N
525
N
doub
N
526
N
sing
N
527
N
sing
N
528
N
sing
N
529
N
sing
Y
530
N
doub
Y
531
N
sing
Y
532
N
sing
N
533
N
sing
Y
534
N
doub
N
535
N
sing
Y
536
N
doub
N
537
N
sing
Y
538
N
sing
N
539
N
sing
N
540
N
sing
N
541
N
sing
N
542
N
sing
N
543
N
sing
N
544
N
sing
N
545
N
sing
N
546
N
sing
N
547
N
sing
N
548
N
sing
N
549
N
doub
N
550
N
sing
N
551
N
sing
N
552
N
sing
N
553
N
sing
N
554
N
sing
N
555
N
sing
N
556
N
sing
N
557
N
sing
N
558
N
sing
N
559
N
sing
N
560
N
sing
To be Published
0353
Iap (Inner-Adenine to Purine): A Cognate EcoRI-DNA Base Analog Complex
10.2210/pdb1cl8/pdb
pdb_00001cl8
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
MIRRORS
IMAGE PLATE
1998-04-15
SINGLE WAVELENGTH
M
x-ray
1
1.1
1.0
F1
CHESS
1.1
SYNCHROTRON
CHESS BEAMLINE F1
3952.570
DNA (5'-D(*TP*CP*GP*CP*GP*AP*(PRN)P*TP*TP*CP*GP*CP*G)-3')
1
syn
polymer
30970.184
PROTEIN (ENDONUCLEASE)
1
nat
polymer
18.015
water
155
nat
water
no
yes
(DT)(DC)(DG)(DC)(DG)(DA)(PRN)(DT)(DT)(DC)(DG)(DC)(DG)
TCGCGAATTCGCG
B
polydeoxyribonucleotide
no
no
SNKKQSNRLTEQHKLSQGVIGIFGDYAKAHDLAVGEVSKLVKKALSNEYPQLSFRYRDSIKKTEINEALKKIDPDLGGTL
FVSNSSIKPDGGIVEVKDDYGEWRVVLVAEAKHQGKDIINIRNGLLVGKRGDQDLMAAGNAIERSHKNISEIANFMLSES
HFPYVLFLEGSNFLTENISITRPDGRVVNLEYNSGILNRLDRLTAANYGMPINSNLCINKFVNHKDKSIMLQAASIYTQG
DGREWDSKIMFEIMFDISTTSLRVLGRDLFEQLTSK
SNKKQSNRLTEQHKLSQGVIGIFGDYAKAHDLAVGEVSKLVKKALSNEYPQLSFRYRDSIKKTEINEALKKIDPDLGGTL
FVSNSSIKPDGGIVEVKDDYGEWRVVLVAEAKHQGKDIINIRNGLLVGKRGDQDLMAAGNAIERSHKNISEIANFMLSES
HFPYVLFLEGSNFLTENISITRPDGRVVNLEYNSGILNRLDRLTAANYGMPINSNLCINKFVNHKDKSIMLQAASIYTQG
DGREWDSKIMFEIMFDISTTSLRVLGRDLFEQLTSK
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
sample
562
Escherichia coli
1
2.80
58
VAPOR DIFFUSION, HANGING DROP
7.5
pH 7.5, VAPOR DIFFUSION, HANGING DROP
-26.879
1
19
B
2
B
13
3.080
B_DC2:DG13_B
1
0.983
0.050
0.439
0.029
-4.079
1
19
B
3
B
12
0.110
B_DG3:DC12_B
2
-1.376
-0.170
0.159
-0.097
-0.201
1
19
B
4
B
11
-5.502
B_DC4:DG11_B
3
-3.250
0.193
-0.197
0.039
-15.627
1
19
B
5
B
10
-1.865
B_DG5:DC10_B
4
-2.966
-0.323
-0.665
-0.137
1.062
1
20
B
6
B
9
-3.180
B_DA6:DT9_B
5
-4.243
0.256
-0.040
-0.013
4.064
B
7
B
8
3.057
B_PRN7:DT8_B
6
0.351
0.226
0.521
0.128
-4.063
B
8
B
7
3.057
B_DT8:PRN7_B
7
0.351
-0.226
0.521
0.128
-1.062
1
20
B
9
B
6
-3.180
B_DT9:DA6_B
8
-4.243
-0.256
-0.040
-0.013
15.627
1
19
B
10
B
5
-1.865
B_DC10:DG5_B
9
-2.966
0.323
-0.665
-0.137
0.201
1
19
B
11
B
4
-5.502
B_DG11:DC4_B
10
-3.250
-0.193
-0.197
0.039
4.079
1
19
B
12
B
3
0.110
B_DC12:DG3_B
11
-1.376
0.170
0.159
-0.097
26.879
1
19
B
13
B
2
3.080
B_DG13:DC2_B
12
0.983
-0.050
0.439
0.029
2.774
28.194
B
B
2
3
18.867
B
B
13
12
2.871
9.034
0.101
0.151
BB_DC2DG3:DC12DG13_BB
1
0.566
-1.183
26.729
-1.561
-0.091
3.328
36.474
B
B
3
4
1.243
B
B
12
11
3.397
0.777
-0.582
-0.386
BB_DG3DC4:DG11DC12_BB
2
3.149
-5.038
36.335
-0.727
1.379
3.972
35.802
B
B
4
5
1.026
B
B
11
10
3.905
0.629
0.830
-0.187
BB_DC4DG5:DC10DG11_BB
3
4.416
-7.201
35.532
-0.414
-0.582
3.164
32.386
B
B
5
6
-2.300
B
B
10
9
3.077
-1.280
-0.979
-0.084
BB_DG5DA6:DT9DC10_BB
4
-3.508
6.303
32.175
0.065
1.164
2.333
38.853
B
B
6
7
56.407
B
B
9
8
3.764
32.018
0.947
0.417
BB_DA6PRN7:DT8DT9_BB
5
-5.400
9.513
21.630
-4.144
-2.228
2.739
68.800
B
B
7
8
-55.269
B
B
8
7
5.045
-55.332
0.000
0.662
BB_PRN7DT8:PRN7DT8_BB
6
0.000
0.000
42.621
3.795
0.000
2.333
38.853
B
B
8
9
56.407
B
B
7
6
3.764
32.018
-0.947
0.417
BB_DT8DT9:DA6PRN7_BB
7
5.400
-9.513
21.630
-4.144
2.228
3.164
32.386
B
B
9
10
-2.300
B
B
6
5
3.077
-1.280
0.979
-0.084
BB_DT9DC10:DG5DA6_BB
8
3.508
-6.303
32.175
0.065
-1.164
3.972
35.802
B
B
10
11
1.026
B
B
5
4
3.905
0.629
-0.830
-0.187
BB_DC10DG11:DC4DG5_BB
9
-4.416
7.201
35.532
-0.414
0.582
3.328
36.474
B
B
11
12
1.243
B
B
4
3
3.397
0.777
0.582
-0.386
BB_DG11DC12:DG3DC4_BB
10
-3.149
5.038
36.335
-0.727
-1.379
2.774
28.194
B
B
12
13
18.867
B
B
3
2
2.871
9.034
-0.101
0.151
BB_DC12DG13:DC2DG3_BB
11
-0.566
1.183
26.729
-1.561
0.091
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
1999-05-19
1
1
2007-10-16
1
2
2011-07-13
1
3
2023-08-09
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
BNL
Y
RCSB
1999-05-06
REL
HOH
water
PRN IS ADENINE WITH THE N6 AMINO GROUP REMOVED
1CKQ
PDB ENTRY 1CKQ
PDB
experimental model
HOH
5
3
HOH
HOH
14
B
HOH
14
3
HOH
HOH
15
B
HOH
17
3
HOH
HOH
16
B
HOH
30
3
HOH
HOH
17
B
HOH
31
3
HOH
HOH
18
B
HOH
37
3
HOH
HOH
19
B
HOH
40
3
HOH
HOH
20
B
HOH
41
3
HOH
HOH
21
B
HOH
45
3
HOH
HOH
22
B
HOH
55
3
HOH
HOH
23
B
HOH
59
3
HOH
HOH
24
B
HOH
65
3
HOH
HOH
25
B
HOH
66
3
HOH
HOH
26
B
HOH
67
3
HOH
HOH
27
B
HOH
97
3
HOH
HOH
28
B
HOH
102
3
HOH
HOH
29
B
HOH
108
3
HOH
HOH
30
B
HOH
112
3
HOH
HOH
31
B
HOH
126
3
HOH
HOH
32
B
HOH
148
3
HOH
HOH
33
B
HOH
149
3
HOH
HOH
34
B
HOH
153
3
HOH
HOH
35
B
HOH
154
3
HOH
HOH
36
B
HOH
1
3
HOH
HOH
278
A
HOH
2
3
HOH
HOH
279
A
HOH
3
3
HOH
HOH
280
A
HOH
4
3
HOH
HOH
281
A
HOH
6
3
HOH
HOH
282
A
HOH
7
3
HOH
HOH
283
A
HOH
8
3
HOH
HOH
284
A
HOH
9
3
HOH
HOH
285
A
HOH
10
3
HOH
HOH
286
A
HOH
11
3
HOH
HOH
287
A
HOH
12
3
HOH
HOH
288
A
HOH
13
3
HOH
HOH
289
A
HOH
15
3
HOH
HOH
290
A
HOH
16
3
HOH
HOH
291
A
HOH
18
3
HOH
HOH
292
A
HOH
19
3
HOH
HOH
293
A
HOH
20
3
HOH
HOH
294
A
HOH
21
3
HOH
HOH
295
A
HOH
22
3
HOH
HOH
296
A
HOH
23
3
HOH
HOH
297
A
HOH
24
3
HOH
HOH
298
A
HOH
25
3
HOH
HOH
299
A
HOH
26
3
HOH
HOH
300
A
HOH
27
3
HOH
HOH
301
A
HOH
28
3
HOH
HOH
302
A
HOH
29
3
HOH
HOH
303
A
HOH
32
3
HOH
HOH
304
A
HOH
33
3
HOH
HOH
305
A
HOH
34
3
HOH
HOH
306
A
HOH
35
3
HOH
HOH
307
A
HOH
36
3
HOH
HOH
308
A
HOH
38
3
HOH
HOH
309
A
HOH
39
3
HOH
HOH
310
A
HOH
42
3
HOH
HOH
311
A
HOH
43
3
HOH
HOH
312
A
HOH
44
3
HOH
HOH
313
A
HOH
46
3
HOH
HOH
314
A
HOH
47
3
HOH
HOH
315
A
HOH
48
3
HOH
HOH
316
A
HOH
49
3
HOH
HOH
317
A
HOH
50
3
HOH
HOH
318
A
HOH
51
3
HOH
HOH
319
A
HOH
52
3
HOH
HOH
320
A
HOH
53
3
HOH
HOH
321
A
HOH
54
3
HOH
HOH
322
A
HOH
56
3
HOH
HOH
323
A
HOH
57
3
HOH
HOH
324
A
HOH
58
3
HOH
HOH
325
A
HOH
60
3
HOH
HOH
326
A
HOH
61
3
HOH
HOH
327
A
HOH
62
3
HOH
HOH
328
A
HOH
63
3
HOH
HOH
329
A
HOH
64
3
HOH
HOH
330
A
HOH
68
3
HOH
HOH
331
A
HOH
69
3
HOH
HOH
332
A
HOH
70
3
HOH
HOH
333
A
HOH
71
3
HOH
HOH
334
A
HOH
72
3
HOH
HOH
335
A
HOH
73
3
HOH
HOH
336
A
HOH
74
3
HOH
HOH
337
A
HOH
75
3
HOH
HOH
338
A
HOH
76
3
HOH
HOH
339
A
HOH
77
3
HOH
HOH
340
A
HOH
78
3
HOH
HOH
341
A
HOH
79
3
HOH
HOH
342
A
HOH
80
3
HOH
HOH
343
A
HOH
81
3
HOH
HOH
344
A
HOH
82
3
HOH
HOH
345
A
HOH
83
3
HOH
HOH
346
A
HOH
84
3
HOH
HOH
347
A
HOH
85
3
HOH
HOH
348
A
HOH
86
3
HOH
HOH
349
A
HOH
87
3
HOH
HOH
350
A
HOH
88
3
HOH
HOH
351
A
HOH
89
3
HOH
HOH
352
A
HOH
90
3
HOH
HOH
353
A
HOH
91
3
HOH
HOH
354
A
HOH
92
3
HOH
HOH
355
A
HOH
93
3
HOH
HOH
356
A
HOH
94
3
HOH
HOH
357
A
HOH
95
3
HOH
HOH
358
A
HOH
96
3
HOH
HOH
359
A
HOH
98
3
HOH
HOH
360
A
HOH
99
3
HOH
HOH
361
A
HOH
100
3
HOH
HOH
362
A
HOH
101
3
HOH
HOH
363
A
HOH
103
3
HOH
HOH
364
A
HOH
104
3
HOH
HOH
365
A
HOH
105
3
HOH
HOH
366
A
HOH
106
3
HOH
HOH
367
A
HOH
107
3
HOH
HOH
368
A
HOH
109
3
HOH
HOH
369
A
HOH
110
3
HOH
HOH
370
A
HOH
111
3
HOH
HOH
371
A
HOH
113
3
HOH
HOH
372
A
HOH
114
3
HOH
HOH
373
A
HOH
115
3
HOH
HOH
374
A
HOH
116
3
HOH
HOH
375
A
HOH
117
3
HOH
HOH
376
A
HOH
118
3
HOH
HOH
377
A
HOH
119
3
HOH
HOH
378
A
HOH
120
3
HOH
HOH
379
A
HOH
121
3
HOH
HOH
380
A
HOH
122
3
HOH
HOH
381
A
HOH
123
3
HOH
HOH
382
A
HOH
124
3
HOH
HOH
383
A
HOH
125
3
HOH
HOH
384
A
HOH
127
3
HOH
HOH
385
A
HOH
128
3
HOH
HOH
386
A
HOH
129
3
HOH
HOH
387
A
HOH
130
3
HOH
HOH
388
A
HOH
131
3
HOH
HOH
389
A
HOH
132
3
HOH
HOH
390
A
HOH
133
3
HOH
HOH
391
A
HOH
134
3
HOH
HOH
392
A
HOH
135
3
HOH
HOH
393
A
HOH
136
3
HOH
HOH
394
A
HOH
137
3
HOH
HOH
395
A
HOH
138
3
HOH
HOH
396
A
HOH
139
3
HOH
HOH
397
A
HOH
140
3
HOH
HOH
398
A
HOH
141
3
HOH
HOH
399
A
HOH
142
3
HOH
HOH
400
A
HOH
143
3
HOH
HOH
401
A
HOH
144
3
HOH
HOH
402
A
HOH
145
3
HOH
HOH
403
A
HOH
146
3
HOH
HOH
404
A
HOH
147
3
HOH
HOH
405
A
HOH
150
3
HOH
HOH
406
A
HOH
151
3
HOH
HOH
407
A
HOH
152
3
HOH
HOH
408
A
HOH
155
3
HOH
HOH
409
A
T
1
n
1
DT
1
B
C
2
n
2
DC
2
B
G
3
n
3
DG
3
B
C
4
n
4
DC
4
B
G
5
n
5
DG
5
B
A
6
n
6
DA
6
B
PRN
7
n
7
PRN
7
B
T
8
n
8
DT
8
B
T
9
n
9
DT
9
B
C
10
n
10
DC
10
B
G
11
n
11
DG
11
B
C
12
n
12
DC
12
B
G
13
n
13
DG
13
B
n
1
2
A
n
2
3
A
n
3
4
A
n
4
5
A
n
5
6
A
n
6
7
A
n
7
8
A
n
8
9
A
n
9
10
A
n
10
11
A
n
11
12
A
n
12
13
A
n
13
14
A
n
14
15
A
n
15
16
A
SER
17
n
16
SER
17
A
GLN
18
n
17
GLN
18
A
GLY
19
n
18
GLY
19
A
VAL
20
n
19
VAL
20
A
ILE
21
n
20
ILE
21
A
GLY
22
n
21
GLY
22
A
ILE
23
n
22
ILE
23
A
PHE
24
n
23
PHE
24
A
GLY
25
n
24
GLY
25
A
ASP
26
n
25
ASP
26
A
TYR
27
n
26
TYR
27
A
ALA
28
n
27
ALA
28
A
LYS
29
n
28
LYS
29
A
ALA
30
n
29
ALA
30
A
HIS
31
n
30
HIS
31
A
ASP
32
n
31
ASP
32
A
LEU
33
n
32
LEU
33
A
ALA
34
n
33
ALA
34
A
VAL
35
n
34
VAL
35
A
GLY
36
n
35
GLY
36
A
GLU
37
n
36
GLU
37
A
VAL
38
n
37
VAL
38
A
SER
39
n
38
SER
39
A
LYS
40
n
39
LYS
40
A
LEU
41
n
40
LEU
41
A
VAL
42
n
41
VAL
42
A
LYS
43
n
42
LYS
43
A
LYS
44
n
43
LYS
44
A
ALA
45
n
44
ALA
45
A
LEU
46
n
45
LEU
46
A
SER
47
n
46
SER
47
A
ASN
48
n
47
ASN
48
A
GLU
49
n
48
GLU
49
A
TYR
50
n
49
TYR
50
A
PRO
51
n
50
PRO
51
A
GLN
52
n
51
GLN
52
A
LEU
53
n
52
LEU
53
A
SER
54
n
53
SER
54
A
PHE
55
n
54
PHE
55
A
ARG
56
n
55
ARG
56
A
TYR
57
n
56
TYR
57
A
ARG
58
n
57
ARG
58
A
ASP
59
n
58
ASP
59
A
SER
60
n
59
SER
60
A
ILE
61
n
60
ILE
61
A
LYS
62
n
61
LYS
62
A
LYS
63
n
62
LYS
63
A
THR
64
n
63
THR
64
A
GLU
65
n
64
GLU
65
A
ILE
66
n
65
ILE
66
A
ASN
67
n
66
ASN
67
A
GLU
68
n
67
GLU
68
A
ALA
69
n
68
ALA
69
A
LEU
70
n
69
LEU
70
A
LYS
71
n
70
LYS
71
A
LYS
72
n
71
LYS
72
A
ILE
73
n
72
ILE
73
A
ASP
74
n
73
ASP
74
A
PRO
75
n
74
PRO
75
A
ASP
76
n
75
ASP
76
A
LEU
77
n
76
LEU
77
A
GLY
78
n
77
GLY
78
A
GLY
79
n
78
GLY
79
A
THR
80
n
79
THR
80
A
LEU
81
n
80
LEU
81
A
PHE
82
n
81
PHE
82
A
VAL
83
n
82
VAL
83
A
SER
84
n
83
SER
84
A
ASN
85
n
84
ASN
85
A
SER
86
n
85
SER
86
A
SER
87
n
86
SER
87
A
ILE
88
n
87
ILE
88
A
LYS
89
n
88
LYS
89
A
PRO
90
n
89
PRO
90
A
ASP
91
n
90
ASP
91
A
GLY
92
n
91
GLY
92
A
GLY
93
n
92
GLY
93
A
ILE
94
n
93
ILE
94
A
VAL
95
n
94
VAL
95
A
GLU
96
n
95
GLU
96
A
VAL
97
n
96
VAL
97
A
LYS
98
n
97
LYS
98
A
ASP
99
n
98
ASP
99
A
ASP
100
n
99
ASP
100
A
TYR
101
n
100
TYR
101
A
GLY
102
n
101
GLY
102
A
GLU
103
n
102
GLU
103
A
TRP
104
n
103
TRP
104
A
ARG
105
n
104
ARG
105
A
VAL
106
n
105
VAL
106
A
VAL
107
n
106
VAL
107
A
LEU
108
n
107
LEU
108
A
VAL
109
n
108
VAL
109
A
ALA
110
n
109
ALA
110
A
GLU
111
n
110
GLU
111
A
ALA
112
n
111
ALA
112
A
LYS
113
n
112
LYS
113
A
HIS
114
n
113
HIS
114
A
GLN
115
n
114
GLN
115
A
GLY
116
n
115
GLY
116
A
LYS
117
n
116
LYS
117
A
ASP
118
n
117
ASP
118
A
ILE
119
n
118
ILE
119
A
ILE
120
n
119
ILE
120
A
ASN
121
n
120
ASN
121
A
ILE
122
n
121
ILE
122
A
ARG
123
n
122
ARG
123
A
ASN
124
n
123
ASN
124
A
GLY
125
n
124
GLY
125
A
LEU
126
n
125
LEU
126
A
LEU
127
n
126
LEU
127
A
VAL
128
n
127
VAL
128
A
GLY
129
n
128
GLY
129
A
LYS
130
n
129
LYS
130
A
ARG
131
n
130
ARG
131
A
GLY
132
n
131
GLY
132
A
ASP
133
n
132
ASP
133
A
GLN
134
n
133
GLN
134
A
ASP
135
n
134
ASP
135
A
LEU
136
n
135
LEU
136
A
MET
137
n
136
MET
137
A
ALA
138
n
137
ALA
138
A
ALA
139
n
138
ALA
139
A
GLY
140
n
139
GLY
140
A
ASN
141
n
140
ASN
141
A
ALA
142
n
141
ALA
142
A
ILE
143
n
142
ILE
143
A
GLU
144
n
143
GLU
144
A
ARG
145
n
144
ARG
145
A
SER
146
n
145
SER
146
A
HIS
147
n
146
HIS
147
A
LYS
148
n
147
LYS
148
A
ASN
149
n
148
ASN
149
A
ILE
150
n
149
ILE
150
A
SER
151
n
150
SER
151
A
GLU
152
n
151
GLU
152
A
ILE
153
n
152
ILE
153
A
ALA
154
n
153
ALA
154
A
ASN
155
n
154
ASN
155
A
PHE
156
n
155
PHE
156
A
MET
157
n
156
MET
157
A
LEU
158
n
157
LEU
158
A
SER
159
n
158
SER
159
A
GLU
160
n
159
GLU
160
A
SER
161
n
160
SER
161
A
HIS
162
n
161
HIS
162
A
PHE
163
n
162
PHE
163
A
PRO
164
n
163
PRO
164
A
TYR
165
n
164
TYR
165
A
VAL
166
n
165
VAL
166
A
LEU
167
n
166
LEU
167
A
PHE
168
n
167
PHE
168
A
LEU
169
n
168
LEU
169
A
GLU
170
n
169
GLU
170
A
GLY
171
n
170
GLY
171
A
SER
172
n
171
SER
172
A
ASN
173
n
172
ASN
173
A
PHE
174
n
173
PHE
174
A
LEU
175
n
174
LEU
175
A
THR
176
n
175
THR
176
A
GLU
177
n
176
GLU
177
A
ASN
178
n
177
ASN
178
A
ILE
179
n
178
ILE
179
A
SER
180
n
179
SER
180
A
ILE
181
n
180
ILE
181
A
THR
182
n
181
THR
182
A
ARG
183
n
182
ARG
183
A
PRO
184
n
183
PRO
184
A
ASP
185
n
184
ASP
185
A
GLY
186
n
185
GLY
186
A
ARG
187
n
186
ARG
187
A
VAL
188
n
187
VAL
188
A
VAL
189
n
188
VAL
189
A
ASN
190
n
189
ASN
190
A
LEU
191
n
190
LEU
191
A
GLU
192
n
191
GLU
192
A
TYR
193
n
192
TYR
193
A
ASN
194
n
193
ASN
194
A
SER
195
n
194
SER
195
A
GLY
196
n
195
GLY
196
A
ILE
197
n
196
ILE
197
A
LEU
198
n
197
LEU
198
A
ASN
199
n
198
ASN
199
A
ARG
200
n
199
ARG
200
A
LEU
201
n
200
LEU
201
A
ASP
202
n
201
ASP
202
A
ARG
203
n
202
ARG
203
A
LEU
204
n
203
LEU
204
A
THR
205
n
204
THR
205
A
ALA
206
n
205
ALA
206
A
ALA
207
n
206
ALA
207
A
ASN
208
n
207
ASN
208
A
TYR
209
n
208
TYR
209
A
GLY
210
n
209
GLY
210
A
MET
211
n
210
MET
211
A
PRO
212
n
211
PRO
212
A
ILE
213
n
212
ILE
213
A
ASN
214
n
213
ASN
214
A
SER
215
n
214
SER
215
A
ASN
216
n
215
ASN
216
A
LEU
217
n
216
LEU
217
A
CYS
218
n
217
CYS
218
A
ILE
219
n
218
ILE
219
A
ASN
220
n
219
ASN
220
A
LYS
221
n
220
LYS
221
A
PHE
222
n
221
PHE
222
A
VAL
223
n
222
VAL
223
A
ASN
224
n
223
ASN
224
A
HIS
225
n
224
HIS
225
A
LYS
226
n
225
LYS
226
A
ASP
227
n
226
ASP
227
A
LYS
228
n
227
LYS
228
A
SER
229
n
228
SER
229
A
ILE
230
n
229
ILE
230
A
MET
231
n
230
MET
231
A
LEU
232
n
231
LEU
232
A
GLN
233
n
232
GLN
233
A
ALA
234
n
233
ALA
234
A
ALA
235
n
234
ALA
235
A
SER
236
n
235
SER
236
A
ILE
237
n
236
ILE
237
A
TYR
238
n
237
TYR
238
A
THR
239
n
238
THR
239
A
GLN
240
n
239
GLN
240
A
GLY
241
n
240
GLY
241
A
ASP
242
n
241
ASP
242
A
GLY
243
n
242
GLY
243
A
ARG
244
n
243
ARG
244
A
GLU
245
n
244
GLU
245
A
TRP
246
n
245
TRP
246
A
ASP
247
n
246
ASP
247
A
SER
248
n
247
SER
248
A
LYS
249
n
248
LYS
249
A
ILE
250
n
249
ILE
250
A
MET
251
n
250
MET
251
A
PHE
252
n
251
PHE
252
A
GLU
253
n
252
GLU
253
A
ILE
254
n
253
ILE
254
A
MET
255
n
254
MET
255
A
PHE
256
n
255
PHE
256
A
ASP
257
n
256
ASP
257
A
ILE
258
n
257
ILE
258
A
SER
259
n
258
SER
259
A
THR
260
n
259
THR
260
A
THR
261
n
260
THR
261
A
SER
262
n
261
SER
262
A
LEU
263
n
262
LEU
263
A
ARG
264
n
263
ARG
264
A
VAL
265
n
264
VAL
265
A
LEU
266
n
265
LEU
266
A
GLY
267
n
266
GLY
267
A
ARG
268
n
267
ARG
268
A
ASP
269
n
268
ASP
269
A
LEU
270
n
269
LEU
270
A
PHE
271
n
270
PHE
271
A
GLU
272
n
271
GLU
272
A
GLN
273
n
272
GLN
273
A
LEU
274
n
273
LEU
274
A
THR
275
n
274
THR
275
A
SER
276
n
275
SER
276
A
LYS
277
n
276
LYS
277
A
author_defined_assembly
4
tetrameric
B
PRN
7
PURINE 2'-DEOXYRIBO-5'-MONOPHOSPHATE
A
PRN
7
DA
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
-0.5000000000
0.8660254038
0.0000000000
0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
4_555
y,x,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
O
ARG
56
B
O
ARG
55
A
N
GLU
96
B
N
GLU
95
A
O
VAL
95
B
O
VAL
94
A
N
LEU
108
B
N
LEU
107
A
O
VAL
109
B
O
VAL
108
A
N
VAL
166
B
N
VAL
165
A
O
LEU
167
B
O
LEU
166
A
N
SER
236
B
N
SER
235
A
O
ILE
179
B
O
ILE
178
A
N
LEU
191
B
N
LEU
190
A
O
LYS
221
B
O
LYS
220
A
N
LEU
232
B
N
LEU
231
1
A
SER
2
B
SER
1
1
Y
1
A
ASN
3
B
ASN
2
1
Y
1
A
LYS
4
B
LYS
3
1
Y
1
A
LYS
5
B
LYS
4
1
Y
1
A
GLN
6
B
GLN
5
1
Y
1
A
SER
7
B
SER
6
1
Y
1
A
ASN
8
B
ASN
7
1
Y
1
A
ARG
9
B
ARG
8
1
Y
1
A
LEU
10
B
LEU
9
1
Y
1
A
THR
11
B
THR
10
1
Y
1
A
GLU
12
B
GLU
11
1
Y
1
A
GLN
13
B
GLN
12
1
Y
1
A
HIS
14
B
HIS
13
1
Y
1
A
LYS
15
B
LYS
14
1
Y
1
A
LEU
16
B
LEU
15
1
Y
1
A
LEU
81
-169.11
98.06
1
A
GLN
115
-170.88
132.93
1
A
ASP
133
-144.20
-11.43
1
A
PRO
164
-79.07
48.50
1
A
ASN
224
176.81
143.23
1
A
ASP
227
-69.19
86.31
1
A
LYS
228
-134.77
-58.89
1
A
SER
229
77.61
118.09
1
A
THR
275
-99.32
-68.49
PARHCSDX.PRO
TOPHCSDX.PRO
PARAM11.WAT
TOPH19.PEP
MODIFIED DNA-RNA.PARAM
TOPH11.WAT
DNA-RNA.TOP
36.1
DNA-RNA.PARAM WAS MODIFIED TO CONTAIN A MODIFIED RESIDUE PRN
0.2870000
0.2430000
0.2430000
1.80
8
3528
35192
10
98.3
RANDOM
10000000
0.001
1
RESTRAINED
RFREE
2
OTHER
PDB ENTRY 1CKQ
.37
.34
8
.30
.28
1.80
8
158
2471
0
262
2051
0.004
1.067
0.805
0.3576000
0.3568000
1.88
326
2898
8
10.1
91
1.80
8
1CL8
35192
2
0.1050000
1
19.3
10.3
98.3
0.4320000
1.80
1.85
2.6
4.0
91.0
model building
X-PLOR
refinement
X-PLOR
3.851
data reduction
DENZO
data scaling
SCALEPACK
phasing
X-PLOR
A PRE-TRANSITION STATE ECO RI ENDONUCLEASE/COGNATE DNA (TCGCGAPTTCGCG) COMPLEX WITH DNA BASE ANALOG PURINE (P)
1
N
N
2
N
N
3
N
N
3
N
N
A
GLY
19
B
GLY
18
HELX_P
A
HIS
31
B
HIS
30
5
1
13
A
VAL
35
B
VAL
34
HELX_P
A
GLU
49
B
GLU
48
1
2
15
A
LYS
63
B
LYS
62
HELX_P
A
ILE
73
B
ILE
72
1
3
11
A
ASP
118
B
ASP
117
HELX_P
A
ARG
123
B
ARG
122
1
4
6
A
ALA
142
B
ALA
141
HELX_P
A
PHE
156
B
PHE
155
5
5
15
A
LEU
201
B
LEU
200
HELX_P
A
ARG
203
B
ARG
202
5
6
3
A
THR
205
B
THR
204
HELX_P
A
ASN
208
B
ASN
207
5
7
4
A
SER
248
B
SER
247
HELX_P
A
VAL
265
B
VAL
264
1
8
18
A
GLY
267
B
GLY
266
HELX_P
A
ASP
269
B
ASP
268
5
9
3
A
PHE
271
B
PHE
270
HELX_P
A
THR
275
B
THR
274
1
10
5
covale
1.604
both
B
DA
6
A
O3'
DA
6
1_555
B
PRN
7
A
P
PRN
7
1_555
covale
1.609
both
B
PRN
7
A
O3'
PRN
7
1_555
B
DT
8
A
P
DT
8
1_555
hydrog
WATSON-CRICK
B
DC
2
A
N3
DC
2
1_555
B
DG
13
A
N1
DG
13
4_555
hydrog
WATSON-CRICK
B
DC
2
A
N4
DC
2
1_555
B
DG
13
A
O6
DG
13
4_555
hydrog
WATSON-CRICK
B
DC
2
A
O2
DC
2
1_555
B
DG
13
A
N2
DG
13
4_555
hydrog
WATSON-CRICK
B
DG
3
A
N1
DG
3
1_555
B
DC
12
A
N3
DC
12
4_555
hydrog
WATSON-CRICK
B
DG
3
A
N2
DG
3
1_555
B
DC
12
A
O2
DC
12
4_555
hydrog
WATSON-CRICK
B
DG
3
A
O6
DG
3
1_555
B
DC
12
A
N4
DC
12
4_555
hydrog
WATSON-CRICK
B
DC
4
A
N3
DC
4
1_555
B
DG
11
A
N1
DG
11
4_555
hydrog
WATSON-CRICK
B
DC
4
A
N4
DC
4
1_555
B
DG
11
A
O6
DG
11
4_555
hydrog
WATSON-CRICK
B
DC
4
A
O2
DC
4
1_555
B
DG
11
A
N2
DG
11
4_555
hydrog
WATSON-CRICK
B
DG
5
A
N1
DG
5
1_555
B
DC
10
A
N3
DC
10
4_555
hydrog
WATSON-CRICK
B
DG
5
A
N2
DG
5
1_555
B
DC
10
A
O2
DC
10
4_555
hydrog
WATSON-CRICK
B
DG
5
A
O6
DG
5
1_555
B
DC
10
A
N4
DC
10
4_555
hydrog
WATSON-CRICK
B
DA
6
A
N1
DA
6
1_555
B
DT
9
A
N3
DT
9
4_555
hydrog
WATSON-CRICK
B
DA
6
A
N6
DA
6
1_555
B
DT
9
A
O4
DT
9
4_555
hydrog
PRN-DT PAIR
B
PRN
7
A
N1
PRN
7
1_555
B
DT
8
A
N3
DT
8
4_555
hydrog
DT-PRN PAIR
B
DT
8
A
N3
DT
8
1_555
B
PRN
7
A
N1
PRN
7
4_555
hydrog
WATSON-CRICK
B
DT
9
A
N3
DT
9
1_555
B
DA
6
A
N1
DA
6
4_555
hydrog
WATSON-CRICK
B
DT
9
A
O4
DT
9
1_555
B
DA
6
A
N6
DA
6
4_555
hydrog
WATSON-CRICK
B
DC
10
A
N3
DC
10
1_555
B
DG
5
A
N1
DG
5
4_555
hydrog
WATSON-CRICK
B
DC
10
A
N4
DC
10
1_555
B
DG
5
A
O6
DG
5
4_555
hydrog
WATSON-CRICK
B
DC
10
A
O2
DC
10
1_555
B
DG
5
A
N2
DG
5
4_555
hydrog
WATSON-CRICK
B
DG
11
A
N1
DG
11
1_555
B
DC
4
A
N3
DC
4
4_555
hydrog
WATSON-CRICK
B
DG
11
A
N2
DG
11
1_555
B
DC
4
A
O2
DC
4
4_555
hydrog
WATSON-CRICK
B
DG
11
A
O6
DG
11
1_555
B
DC
4
A
N4
DC
4
4_555
hydrog
WATSON-CRICK
B
DC
12
A
N3
DC
12
1_555
B
DG
3
A
N1
DG
3
4_555
hydrog
WATSON-CRICK
B
DC
12
A
N4
DC
12
1_555
B
DG
3
A
O6
DG
3
4_555
hydrog
WATSON-CRICK
B
DC
12
A
O2
DC
12
1_555
B
DG
3
A
N2
DG
3
4_555
hydrog
WATSON-CRICK
B
DG
13
A
N1
DG
13
1_555
B
DC
2
A
N3
DC
2
4_555
hydrog
WATSON-CRICK
B
DG
13
A
N2
DG
13
1_555
B
DC
2
A
O2
DC
2
4_555
hydrog
WATSON-CRICK
B
DG
13
A
O6
DG
13
1_555
B
DC
2
A
N4
DC
2
4_555
PROTEIN/DNA
ENDONUCLEASE/DNA, DNA BASE ANALOG, PROTEIN-DNA COMPLEX
T2E1_ECOLI
UNP
2
P00642
1CL8
PDB
1
1CL8
1
276
1CL8
2
277
P00642
A
1
1
276
1
13
1CL8
1
13
1CL8
B
2
1
13
5
2
2
anti-parallel
anti-parallel
parallel
parallel
anti-parallel
anti-parallel
A
PHE
55
B
PHE
54
A
ARG
58
B
ARG
57
A
ILE
94
B
ILE
93
A
LYS
98
B
LYS
97
A
TRP
104
B
TRP
103
A
HIS
114
B
HIS
113
A
TYR
165
B
TYR
164
A
GLU
170
B
GLU
169
A
SER
236
B
SER
235
A
GLN
240
B
GLN
239
A
ILE
179
B
ILE
178
A
THR
182
B
THR
181
A
VAL
188
B
VAL
187
A
LEU
191
B
LEU
190
A
LYS
221
B
LYS
220
A
VAL
223
B
VAL
222
A
ILE
230
B
ILE
229
A
LEU
232
B
LEU
231
PROTEIN RECOGNTION RESIDUES INVOLVED IN HYDROGEN BONDING CONTACTS AT THE SITE OF PERTURBATION
Author
6
DNA RECOGNITION SEQUENCE
Author
6
A
ALA
142
B
ALA
141
6
1_555
A
ASN
141
B
ASN
140
6
1_555
B
DA
6
A
DA
6
6
1_555
B
PRN
7
A
PRN
7
6
1_555
B
DT
8
A
DT
8
6
1_555
B
DT
9
A
DT
9
6
1_555
B
DG
5
A
DG
5
6
1_555
B
DA
6
A
DA
6
6
1_555
B
PRN
7
A
PRN
7
6
1_555
B
DT
8
A
DT
8
6
1_555
B
DT
9
A
DT
9
6
1_555
B
DC
10
A
DC
10
6
1_555
150
trigonal
P 3 2 1