0.026823
0.000000
0.000000
0.000000
0.012676
0.000000
0.000000
0.000000
0.006818
0.00000
0.00000
0.00000
Wang, T.
Sun, H.
Cheng, F.
Bi, L.
Jiang, T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
37.282
78.887
146.668
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
Na 1
22.990
SODIUM ION
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
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
NA
N
394
N
N
N
395
S
C
N
396
N
C
N
397
N
O
N
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
Y
404
N
C
N
405
N
O
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
H
N
417
N
N
N
418
S
C
N
419
N
C
N
420
N
O
N
421
N
C
N
422
N
C
N
423
N
C
N
424
N
O
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
H
N
434
N
N
N
435
S
C
N
436
N
C
N
437
N
O
N
438
N
C
N
439
N
O
N
440
N
O
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
N
N
449
S
C
N
450
N
C
N
451
N
O
N
452
R
C
N
453
N
O
N
454
N
C
N
455
N
O
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
N
N
466
S
C
N
467
N
C
N
468
N
O
N
469
N
C
Y
470
N
C
Y
471
N
C
Y
472
N
C
Y
473
N
N
Y
474
N
C
Y
475
N
C
Y
476
N
C
Y
477
N
C
Y
478
N
C
N
479
N
O
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
H
N
489
N
H
N
490
N
H
N
491
N
H
N
492
N
N
N
493
S
C
N
494
N
C
N
495
N
O
N
496
N
C
Y
497
N
C
Y
498
N
C
Y
499
N
C
Y
500
N
C
Y
501
N
C
Y
502
N
C
N
503
N
O
N
504
N
O
N
505
N
H
N
506
N
H
N
507
N
H
N
508
N
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
513
N
H
N
514
N
H
N
515
N
H
N
516
N
N
N
517
S
C
N
518
N
C
N
519
N
O
N
520
N
C
N
521
N
C
N
522
N
C
N
523
N
O
N
524
N
H
N
525
N
H
N
526
N
H
N
527
N
H
N
528
N
H
N
529
N
H
N
530
N
H
N
531
N
H
N
532
N
H
N
533
N
H
N
534
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
Y
471
N
sing
Y
472
N
sing
N
473
N
sing
Y
474
N
sing
Y
475
N
doub
N
476
N
sing
Y
477
N
doub
N
478
N
sing
Y
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
sing
N
486
N
sing
N
487
N
sing
N
488
N
sing
N
489
N
doub
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
Y
494
N
doub
Y
495
N
sing
Y
496
N
sing
N
497
N
sing
Y
498
N
doub
N
499
N
sing
Y
500
N
doub
N
501
N
sing
Y
502
N
sing
N
503
N
sing
N
504
N
sing
N
505
N
sing
N
506
N
sing
N
507
N
sing
N
508
N
sing
N
509
N
sing
N
510
N
sing
N
511
N
sing
N
512
N
sing
N
513
N
doub
N
514
N
sing
N
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
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
41
7556
7565
10.1093/nar/gkt495
23771145
Recognition and processing of double-stranded DNA by ExoX, a distributive 3'-5' exonuclease
2013
10.2210/pdb4fzy/pdb
pdb_00004fzy
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
CCD
2011-07-12
MARMOSAIC 225 mm CCD
GRAPHITE
SINGLE WAVELENGTH
M
x-ray
1
1.0000
1.0
BL17U
SSRF
1.0000
SYNCHROTRON
SSRF BEAMLINE BL17U
3717.439
DNA (5'-D(*TP*GP*TP*AP*GP*AP*TP*TP*CP*GP*AP*G)-3')
1
syn
polymer
20065.205
Exodeoxyribonuclease 10
3.1.11.-
UNP residues 1-167
2
man
polymer
3606.381
DNA (5'-D(P*CP*TP*CP*GP*AP*AP*TP*CP*TP*AP*CP*A)-3')
1
syn
polymer
22.990
SODIUM ION
4
syn
non-polymer
18.015
water
22
nat
water
Exodeoxyribonuclease X, Exo X, Exonuclease X
no
no
(DT)(DG)(DT)(DA)(DG)(DA)(DT)(DT)(DC)(DG)(DA)(DG)
TGTAGATTCGAG
C
polydeoxyribonucleotide
no
no
MLRIIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH
NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEQ
MADITGRLEHHHHHH
MLRIIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH
NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEQ
MADITGRLEHHHHHH
A,B
polypeptide(L)
no
no
(DC)(DT)(DC)(DG)(DA)(DA)(DT)(DC)(DT)(DA)(DC)(DA)
CTCGAATCTACA
D
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
K12
sample
exoX
83333
Escherichia coli
562
Escherichia coli
1
2.27
45.87
THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS
VAPOR DIFFUSION, HANGING DROP
6.3
0.1M MES, 17% PEG6000, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 289K
289
-35.912
1
C
2
D
11
8.572
C_DG2:DC11_D
1
-8.930
-0.636
-0.904
0.400
-10.740
1
C
3
D
10
13.720
C_DT3:DA10_D
2
-7.563
0.167
0.058
0.001
4.145
1
20
C
4
D
9
-1.259
C_DA4:DT9_D
3
-1.935
0.389
0.219
-0.168
4.601
1
19
C
5
D
8
-1.947
C_DG5:DC8_D
4
-8.892
0.773
-0.059
-0.393
-2.574
1
20
C
6
D
7
1.876
C_DA6:DT7_D
5
-17.920
0.447
-0.074
0.179
-3.060
1
20
C
7
D
6
0.682
C_DT7:DA6_D
6
-12.469
0.087
0.136
0.123
-10.691
1
20
C
8
D
5
3.222
C_DT8:DA5_D
7
-19.013
0.084
-0.069
0.077
0.467
1
19
C
9
D
4
12.181
C_DC9:DG4_D
8
-5.451
0.192
0.352
0.092
-6.133
1
19
C
10
D
3
8.378
C_DG10:DC3_D
9
-8.880
-0.480
-0.339
0.056
29.317
1
20
C
11
D
2
1.254
C_DA11:DT2_D
10
-14.092
0.269
0.089
-0.023
-9.324
1
19
C
12
D
1
-4.586
C_DG12:DC1_D
11
-8.610
0.230
0.010
-0.108
2.822
34.501
C
C
2
3
14.561
D
D
11
10
2.916
8.425
-0.400
0.014
CC_DG2DT3:DA10DC11_DD
1
-10.282
17.769
31.909
-1.170
-0.783
3.132
30.386
C
C
3
4
9.389
D
D
10
9
3.009
4.899
-0.175
0.987
CC_DT3DA4:DT9DA10_DD
2
-1.377
2.640
29.967
0.953
0.073
3.296
35.224
C
C
4
5
10.817
D
D
9
8
3.390
6.510
-0.428
-0.236
CC_DA4DG5:DC8DT9_DD
3
-0.232
0.385
34.635
-1.387
0.672
3.284
34.498
C
C
5
6
4.954
D
D
8
7
3.346
2.935
-0.298
-0.592
CC_DG5DA6:DT7DC8_DD
4
0.224
-0.379
34.376
-1.461
0.538
3.353
32.601
C
C
6
7
-6.443
D
D
7
6
3.271
-3.603
-0.173
-0.946
CC_DA6DT7:DA6DT7_DD
5
-3.637
6.504
32.208
-1.047
-0.337
3.297
36.812
C
C
7
8
2.974
D
D
6
5
3.322
1.874
0.150
-0.370
CC_DT7DT8:DA5DA6_DD
6
4.056
-6.438
36.549
-0.845
0.322
3.163
33.349
C
C
8
9
6.501
D
D
5
4
3.141
3.721
0.668
0.856
CC_DT8DC9:DG4DA5_DD
7
-2.300
4.019
33.069
0.894
-1.535
3.520
37.493
C
C
9
10
-1.474
D
D
4
3
3.590
-0.944
0.086
1.711
CC_DC9DG10:DC3DG4_DD
8
5.781
-9.029
37.049
2.797
0.694
2.707
28.589
C
C
10
11
13.331
D
D
3
2
2.599
6.524
-0.444
0.914
CC_DG10DA11:DT2DC3_DD
9
1.715
-3.505
27.798
0.633
1.219
2.917
55.931
C
C
11
12
57.137
D
D
2
1
5.898
46.348
0.259
-0.661
CC_DA11DG12:DC1DT2_DD
10
-3.653
4.503
31.997
-5.479
-0.652
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Refinement description
1
0
2013-07-03
1
1
2013-10-09
1
2
2023-11-08
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
PDBJ
2012-07-08
REL
REL
NA
SODIUM ION
HOH
water
4FZX
PDB
experimental model
NA
3
4
NA
NA
101
C
NA
2
4
NA
NA
201
A
NA
4
4
NA
NA
101
D
NA
1
4
NA
NA
201
B
HOH
6
5
HOH
HOH
201
C
HOH
9
5
HOH
HOH
202
C
HOH
5
5
HOH
HOH
301
A
HOH
7
5
HOH
HOH
302
A
HOH
8
5
HOH
HOH
303
A
HOH
10
5
HOH
HOH
304
A
HOH
11
5
HOH
HOH
305
A
HOH
12
5
HOH
HOH
306
A
HOH
13
5
HOH
HOH
307
A
HOH
14
5
HOH
HOH
308
A
HOH
17
5
HOH
HOH
309
A
HOH
16
5
HOH
HOH
201
D
HOH
19
5
HOH
HOH
202
D
HOH
1
5
HOH
HOH
301
B
HOH
2
5
HOH
HOH
302
B
HOH
3
5
HOH
HOH
303
B
HOH
4
5
HOH
HOH
304
B
HOH
18
5
HOH
HOH
305
B
HOH
20
5
HOH
HOH
306
B
HOH
21
5
HOH
HOH
307
B
HOH
22
5
HOH
HOH
308
B
HOH
24
5
HOH
HOH
309
B
n
1
1
C
DG
2
n
2
DG
2
C
DT
3
n
3
DT
3
C
DA
4
n
4
DA
4
C
DG
5
n
5
DG
5
C
DA
6
n
6
DA
6
C
DT
7
n
7
DT
7
C
DT
8
n
8
DT
8
C
DC
9
n
9
DC
9
C
DG
10
n
10
DG
10
C
DA
11
n
11
DA
11
C
DG
12
n
12
DG
12
C
MET
1
n
1
MET
1
A
LEU
2
n
2
LEU
2
A
ARG
3
n
3
ARG
3
A
ILE
4
n
4
ILE
4
A
ILE
5
n
5
ILE
5
A
ASP
6
n
6
ASP
6
A
THR
7
n
7
THR
7
A
GLU
8
n
8
GLU
8
A
THR
9
n
9
THR
9
A
CYS
10
n
10
CYS
10
A
GLY
11
n
11
GLY
11
A
LEU
12
n
12
LEU
12
A
GLN
13
n
13
GLN
13
A
GLY
14
n
14
GLY
14
A
GLY
15
n
15
GLY
15
A
ILE
16
n
16
ILE
16
A
VAL
17
n
17
VAL
17
A
GLU
18
n
18
GLU
18
A
ILE
19
n
19
ILE
19
A
ALA
20
n
20
ALA
20
A
SER
21
n
21
SER
21
A
VAL
22
n
22
VAL
22
A
ASP
23
n
23
ASP
23
A
VAL
24
n
24
VAL
24
A
ILE
25
n
25
ILE
25
A
ASP
26
n
26
ASP
26
A
GLY
27
n
27
GLY
27
A
LYS
28
n
28
LYS
28
A
ILE
29
n
29
ILE
29
A
VAL
30
n
30
VAL
30
A
ASN
31
n
31
ASN
31
A
PRO
32
n
32
PRO
32
A
MET
33
n
33
MET
33
A
SER
34
n
34
SER
34
A
HIS
35
n
35
HIS
35
A
LEU
36
n
36
LEU
36
A
VAL
37
n
37
VAL
37
A
ARG
38
n
38
ARG
38
A
PRO
39
n
39
PRO
39
A
ASP
40
n
40
ASP
40
A
ARG
41
n
41
ARG
41
A
PRO
42
n
42
PRO
42
A
ILE
43
n
43
ILE
43
A
SER
44
n
44
SER
44
A
PRO
45
n
45
PRO
45
A
GLN
46
n
46
GLN
46
A
ALA
47
n
47
ALA
47
A
MET
48
n
48
MET
48
A
ALA
49
n
49
ALA
49
A
ILE
50
n
50
ILE
50
A
HIS
51
n
51
HIS
51
A
ARG
52
n
52
ARG
52
A
ILE
53
n
53
ILE
53
A
THR
54
n
54
THR
54
A
GLU
55
n
55
GLU
55
A
ALA
56
n
56
ALA
56
A
MET
57
n
57
MET
57
A
VAL
58
n
58
VAL
58
A
ALA
59
n
59
ALA
59
A
ASP
60
n
60
ASP
60
A
LYS
61
n
61
LYS
61
A
PRO
62
n
62
PRO
62
A
TRP
63
n
63
TRP
63
A
ILE
64
n
64
ILE
64
A
GLU
65
n
65
GLU
65
A
ASP
66
n
66
ASP
66
A
VAL
67
n
67
VAL
67
A
ILE
68
n
68
ILE
68
A
PRO
69
n
69
PRO
69
A
HIS
70
n
70
HIS
70
A
TYR
71
n
71
TYR
71
A
TYR
72
n
72
TYR
72
A
GLY
73
n
73
GLY
73
A
SER
74
n
74
SER
74
A
GLU
75
n
75
GLU
75
A
TRP
76
n
76
TRP
76
A
TYR
77
n
77
TYR
77
A
VAL
78
n
78
VAL
78
A
ALA
79
n
79
ALA
79
A
HIS
80
n
80
HIS
80
A
ASN
81
n
81
ASN
81
A
ALA
82
n
82
ALA
82
A
SER
83
n
83
SER
83
A
PHE
84
n
84
PHE
84
A
ASP
85
n
85
ASP
85
A
ARG
86
n
86
ARG
86
A
ARG
87
n
87
ARG
87
A
VAL
88
n
88
VAL
88
A
LEU
89
n
89
LEU
89
A
PRO
90
n
90
PRO
90
A
GLU
91
n
91
GLU
91
A
MET
92
n
92
MET
92
A
PRO
93
n
93
PRO
93
A
GLY
94
n
94
GLY
94
A
GLU
95
n
95
GLU
95
A
TRP
96
n
96
TRP
96
A
ILE
97
n
97
ILE
97
A
CYS
98
n
98
CYS
98
A
THR
99
n
99
THR
99
A
MET
100
n
100
MET
100
A
LYS
101
n
101
LYS
101
A
LEU
102
n
102
LEU
102
A
ALA
103
n
103
ALA
103
A
ARG
104
n
104
ARG
104
A
ARG
105
n
105
ARG
105
A
LEU
106
n
106
LEU
106
A
TRP
107
n
107
TRP
107
A
PRO
108
n
108
PRO
108
A
GLY
109
n
109
GLY
109
A
ILE
110
n
110
ILE
110
A
LYS
111
n
111
LYS
111
A
TYR
112
n
112
TYR
112
A
SER
113
n
113
SER
113
A
ASN
114
n
114
ASN
114
A
MET
115
n
115
MET
115
A
ALA
116
n
116
ALA
116
A
LEU
117
n
117
LEU
117
A
TYR
118
n
118
TYR
118
A
LYS
119
n
119
LYS
119
A
THR
120
n
120
THR
120
A
ARG
121
n
121
ARG
121
A
LYS
122
n
122
LYS
122
A
LEU
123
n
123
LEU
123
A
ASN
124
n
124
ASN
124
A
VAL
125
n
125
VAL
125
A
GLN
126
n
126
GLN
126
A
THR
127
n
127
THR
127
A
PRO
128
n
128
PRO
128
A
PRO
129
n
129
PRO
129
A
GLY
130
n
130
GLY
130
A
LEU
131
n
131
LEU
131
A
HIS
132
n
132
HIS
132
A
HIS
133
n
133
HIS
133
A
HIS
134
n
134
HIS
134
A
ARG
135
n
135
ARG
135
A
ALA
136
n
136
ALA
136
A
LEU
137
n
137
LEU
137
A
TYR
138
n
138
TYR
138
A
ASP
139
n
139
ASP
139
A
CYS
140
n
140
CYS
140
A
TYR
141
n
141
TYR
141
A
ILE
142
n
142
ILE
142
A
THR
143
n
143
THR
143
A
ALA
144
n
144
ALA
144
A
ALA
145
n
145
ALA
145
A
LEU
146
n
146
LEU
146
A
LEU
147
n
147
LEU
147
A
ILE
148
n
148
ILE
148
A
ASP
149
n
149
ASP
149
A
ILE
150
n
150
ILE
150
A
MET
151
n
151
MET
151
A
ASN
152
n
152
ASN
152
A
THR
153
n
153
THR
153
A
SER
154
n
154
SER
154
A
GLY
155
n
155
GLY
155
A
TRP
156
n
156
TRP
156
A
THR
157
n
157
THR
157
A
ALA
158
n
158
ALA
158
A
GLU
159
n
159
GLU
159
A
GLN
160
n
160
GLN
160
A
MET
161
n
161
MET
161
A
ALA
162
n
162
ALA
162
A
ASP
163
n
163
ASP
163
A
ILE
164
n
164
ILE
164
A
THR
165
n
165
THR
165
A
GLY
166
n
166
GLY
166
A
ARG
167
n
167
ARG
167
A
n
168
168
A
n
169
169
A
n
170
170
A
n
171
171
A
n
172
172
A
n
173
173
A
n
174
174
A
n
175
175
A
DC
1
n
1
DC
1
D
DT
2
n
2
DT
2
D
DC
3
n
3
DC
3
D
DG
4
n
4
DG
4
D
DA
5
n
5
DA
5
D
DA
6
n
6
DA
6
D
DT
7
n
7
DT
7
D
DC
8
n
8
DC
8
D
DT
9
n
9
DT
9
D
DA
10
n
10
DA
10
D
DC
11
n
11
DC
11
D
DA
12
n
12
DA
12
D
MET
1
n
1
MET
1
B
LEU
2
n
2
LEU
2
B
ARG
3
n
3
ARG
3
B
ILE
4
n
4
ILE
4
B
ILE
5
n
5
ILE
5
B
ASP
6
n
6
ASP
6
B
THR
7
n
7
THR
7
B
GLU
8
n
8
GLU
8
B
THR
9
n
9
THR
9
B
CYS
10
n
10
CYS
10
B
GLY
11
n
11
GLY
11
B
LEU
12
n
12
LEU
12
B
GLN
13
n
13
GLN
13
B
GLY
14
n
14
GLY
14
B
GLY
15
n
15
GLY
15
B
ILE
16
n
16
ILE
16
B
VAL
17
n
17
VAL
17
B
GLU
18
n
18
GLU
18
B
ILE
19
n
19
ILE
19
B
ALA
20
n
20
ALA
20
B
SER
21
n
21
SER
21
B
VAL
22
n
22
VAL
22
B
ASP
23
n
23
ASP
23
B
VAL
24
n
24
VAL
24
B
ILE
25
n
25
ILE
25
B
ASP
26
n
26
ASP
26
B
GLY
27
n
27
GLY
27
B
LYS
28
n
28
LYS
28
B
ILE
29
n
29
ILE
29
B
VAL
30
n
30
VAL
30
B
ASN
31
n
31
ASN
31
B
PRO
32
n
32
PRO
32
B
MET
33
n
33
MET
33
B
SER
34
n
34
SER
34
B
HIS
35
n
35
HIS
35
B
LEU
36
n
36
LEU
36
B
VAL
37
n
37
VAL
37
B
ARG
38
n
38
ARG
38
B
PRO
39
n
39
PRO
39
B
ASP
40
n
40
ASP
40
B
ARG
41
n
41
ARG
41
B
PRO
42
n
42
PRO
42
B
ILE
43
n
43
ILE
43
B
SER
44
n
44
SER
44
B
PRO
45
n
45
PRO
45
B
GLN
46
n
46
GLN
46
B
ALA
47
n
47
ALA
47
B
MET
48
n
48
MET
48
B
ALA
49
n
49
ALA
49
B
ILE
50
n
50
ILE
50
B
HIS
51
n
51
HIS
51
B
ARG
52
n
52
ARG
52
B
ILE
53
n
53
ILE
53
B
THR
54
n
54
THR
54
B
GLU
55
n
55
GLU
55
B
ALA
56
n
56
ALA
56
B
MET
57
n
57
MET
57
B
VAL
58
n
58
VAL
58
B
ALA
59
n
59
ALA
59
B
ASP
60
n
60
ASP
60
B
LYS
61
n
61
LYS
61
B
PRO
62
n
62
PRO
62
B
TRP
63
n
63
TRP
63
B
ILE
64
n
64
ILE
64
B
GLU
65
n
65
GLU
65
B
ASP
66
n
66
ASP
66
B
VAL
67
n
67
VAL
67
B
ILE
68
n
68
ILE
68
B
PRO
69
n
69
PRO
69
B
HIS
70
n
70
HIS
70
B
TYR
71
n
71
TYR
71
B
TYR
72
n
72
TYR
72
B
GLY
73
n
73
GLY
73
B
SER
74
n
74
SER
74
B
GLU
75
n
75
GLU
75
B
TRP
76
n
76
TRP
76
B
TYR
77
n
77
TYR
77
B
VAL
78
n
78
VAL
78
B
ALA
79
n
79
ALA
79
B
HIS
80
n
80
HIS
80
B
ASN
81
n
81
ASN
81
B
ALA
82
n
82
ALA
82
B
SER
83
n
83
SER
83
B
PHE
84
n
84
PHE
84
B
ASP
85
n
85
ASP
85
B
ARG
86
n
86
ARG
86
B
ARG
87
n
87
ARG
87
B
VAL
88
n
88
VAL
88
B
LEU
89
n
89
LEU
89
B
PRO
90
n
90
PRO
90
B
GLU
91
n
91
GLU
91
B
MET
92
n
92
MET
92
B
PRO
93
n
93
PRO
93
B
GLY
94
n
94
GLY
94
B
GLU
95
n
95
GLU
95
B
TRP
96
n
96
TRP
96
B
ILE
97
n
97
ILE
97
B
CYS
98
n
98
CYS
98
B
THR
99
n
99
THR
99
B
MET
100
n
100
MET
100
B
LYS
101
n
101
LYS
101
B
LEU
102
n
102
LEU
102
B
ALA
103
n
103
ALA
103
B
ARG
104
n
104
ARG
104
B
ARG
105
n
105
ARG
105
B
LEU
106
n
106
LEU
106
B
TRP
107
n
107
TRP
107
B
PRO
108
n
108
PRO
108
B
GLY
109
n
109
GLY
109
B
ILE
110
n
110
ILE
110
B
LYS
111
n
111
LYS
111
B
TYR
112
n
112
TYR
112
B
SER
113
n
113
SER
113
B
ASN
114
n
114
ASN
114
B
MET
115
n
115
MET
115
B
ALA
116
n
116
ALA
116
B
LEU
117
n
117
LEU
117
B
TYR
118
n
118
TYR
118
B
LYS
119
n
119
LYS
119
B
THR
120
n
120
THR
120
B
ARG
121
n
121
ARG
121
B
LYS
122
n
122
LYS
122
B
LEU
123
n
123
LEU
123
B
ASN
124
n
124
ASN
124
B
VAL
125
n
125
VAL
125
B
GLN
126
n
126
GLN
126
B
THR
127
n
127
THR
127
B
PRO
128
n
128
PRO
128
B
PRO
129
n
129
PRO
129
B
GLY
130
n
130
GLY
130
B
LEU
131
n
131
LEU
131
B
HIS
132
n
132
HIS
132
B
HIS
133
n
133
HIS
133
B
HIS
134
n
134
HIS
134
B
ARG
135
n
135
ARG
135
B
ALA
136
n
136
ALA
136
B
LEU
137
n
137
LEU
137
B
TYR
138
n
138
TYR
138
B
ASP
139
n
139
ASP
139
B
CYS
140
n
140
CYS
140
B
TYR
141
n
141
TYR
141
B
ILE
142
n
142
ILE
142
B
THR
143
n
143
THR
143
B
ALA
144
n
144
ALA
144
B
ALA
145
n
145
ALA
145
B
LEU
146
n
146
LEU
146
B
LEU
147
n
147
LEU
147
B
ILE
148
n
148
ILE
148
B
ASP
149
n
149
ASP
149
B
ILE
150
n
150
ILE
150
B
MET
151
n
151
MET
151
B
ASN
152
n
152
ASN
152
B
THR
153
n
153
THR
153
B
SER
154
n
154
SER
154
B
GLY
155
n
155
GLY
155
B
TRP
156
n
156
TRP
156
B
THR
157
n
157
THR
157
B
ALA
158
n
158
ALA
158
B
GLU
159
n
159
GLU
159
B
GLN
160
n
160
GLN
160
B
MET
161
n
161
MET
161
B
ALA
162
n
162
ALA
162
B
ASP
163
n
163
ASP
163
B
ILE
164
n
164
ILE
164
B
THR
165
n
165
THR
165
B
GLY
166
n
166
GLY
166
B
n
167
167
B
n
168
168
B
n
169
169
B
n
170
170
B
n
171
171
B
n
172
172
B
n
173
173
B
n
174
174
B
n
175
175
B
author_and_software_defined_assembly
PISA
4
tetrameric
4870
-68
18070
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
C
DG
12
A
OP1
DG
12
1_555
56.6
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
C
HOH
202
I
O
HOH
1_555
79.5
C
DG
12
A
OP1
DG
12
1_555
C
NA
101
E
NA
NA
1_555
C
HOH
202
I
O
HOH
1_555
74.6
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
A
ASP
6
B
OD1
ASP
6
1_555
156.3
C
DG
12
A
OP1
DG
12
1_555
C
NA
101
E
NA
NA
1_555
A
ASP
6
B
OD1
ASP
6
1_555
99.7
C
HOH
202
I
O
HOH
1_555
C
NA
101
E
NA
NA
1_555
A
ASP
6
B
OD1
ASP
6
1_555
94.6
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
303
J
O
HOH
1_555
91.1
C
DG
12
A
OP1
DG
12
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
303
J
O
HOH
1_555
110.6
C
HOH
202
I
O
HOH
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
303
J
O
HOH
1_555
164.4
A
ASP
6
B
OD1
ASP
6
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
303
J
O
HOH
1_555
98.8
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
101.0
C
DG
12
A
OP1
DG
12
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
145.9
C
HOH
202
I
O
HOH
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
76.2
A
ASP
6
B
OD1
ASP
6
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
99.9
A
HOH
303
J
O
HOH
1_555
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
93.6
C
DG
12
A
OP1
DG
12
1_555
A
NA
201
F
NA
NA
1_555
A
ASP
6
B
OD2
ASP
6
1_555
115.7
C
DG
12
A
OP1
DG
12
1_555
A
NA
201
F
NA
NA
1_555
A
GLU
8
B
OE2
GLU
8
1_555
125.0
A
ASP
6
B
OD2
ASP
6
1_555
A
NA
201
F
NA
NA
1_555
A
GLU
8
B
OE2
GLU
8
1_555
80.1
C
DG
12
A
OP1
DG
12
1_555
A
NA
201
F
NA
NA
1_555
A
ASP
139
B
OD2
ASP
139
1_555
122.9
A
ASP
6
B
OD2
ASP
6
1_555
A
NA
201
F
NA
NA
1_555
A
ASP
139
B
OD2
ASP
139
1_555
96.7
A
GLU
8
B
OE2
GLU
8
1_555
A
NA
201
F
NA
NA
1_555
A
ASP
139
B
OD2
ASP
139
1_555
105.0
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
D
DA
12
C
OP1
DA
12
1_555
54.9
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
D
HOH
202
K
O
HOH
1_555
84.9
D
DA
12
C
OP1
DA
12
1_555
D
NA
101
G
NA
NA
1_555
D
HOH
202
K
O
HOH
1_555
79.5
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
B
ASP
6
D
OD1
ASP
6
1_555
161.6
D
DA
12
C
OP1
DA
12
1_555
D
NA
101
G
NA
NA
1_555
B
ASP
6
D
OD1
ASP
6
1_555
106.8
D
HOH
202
K
O
HOH
1_555
D
NA
101
G
NA
NA
1_555
B
ASP
6
D
OD1
ASP
6
1_555
94.1
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
306
L
O
HOH
1_555
96.6
D
DA
12
C
OP1
DA
12
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
306
L
O
HOH
1_555
113.4
D
HOH
202
K
O
HOH
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
306
L
O
HOH
1_555
165.2
B
ASP
6
D
OD1
ASP
6
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
306
L
O
HOH
1_555
89.0
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
104.1
D
DA
12
C
OP1
DA
12
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
148.1
D
HOH
202
K
O
HOH
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
74.5
B
ASP
6
D
OD1
ASP
6
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
93.3
B
HOH
306
L
O
HOH
1_555
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
90.9
D
DA
12
C
OP1
DA
12
1_555
B
NA
201
H
NA
NA
1_555
B
ASP
6
D
OD2
ASP
6
1_555
115.5
D
DA
12
C
OP1
DA
12
1_555
B
NA
201
H
NA
NA
1_555
B
GLU
8
D
OE2
GLU
8
1_555
130.5
B
ASP
6
D
OD2
ASP
6
1_555
B
NA
201
H
NA
NA
1_555
B
GLU
8
D
OE2
GLU
8
1_555
78.3
D
DA
12
C
OP1
DA
12
1_555
B
NA
201
H
NA
NA
1_555
B
ASP
139
D
OD2
ASP
139
1_555
119.2
B
ASP
6
D
OD2
ASP
6
1_555
B
NA
201
H
NA
NA
1_555
B
ASP
139
D
OD2
ASP
139
1_555
99.9
B
GLU
8
D
OE2
GLU
8
1_555
B
NA
201
H
NA
NA
1_555
B
ASP
139
D
OD2
ASP
139
1_555
103.0
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
VAL
30
B
O
VAL
30
A
N
ASP
23
B
N
ASP
23
A
O
VAL
24
B
O
VAL
24
A
N
LEU
2
B
N
LEU
2
A
N
ILE
5
B
N
ILE
5
A
O
VAL
78
B
O
VAL
78
A
N
TYR
77
B
N
TYR
77
A
O
GLU
95
B
O
GLU
95
B
O
VAL
30
D
O
VAL
30
B
N
ASP
23
D
N
ASP
23
B
O
VAL
24
D
O
VAL
24
B
N
LEU
2
D
N
LEU
2
B
N
ILE
5
D
N
ILE
5
B
O
VAL
78
D
O
VAL
78
B
N
TYR
77
D
N
TYR
77
B
O
GLU
95
D
O
GLU
95
1
C
DT
1
A
DT
1
1
Y
1
A
LEU
168
B
LEU
168
1
Y
1
A
GLU
169
B
GLU
169
1
Y
1
A
HIS
170
B
HIS
170
1
Y
1
A
HIS
171
B
HIS
171
1
Y
1
A
HIS
172
B
HIS
172
1
Y
1
A
HIS
173
B
HIS
173
1
Y
1
A
HIS
174
B
HIS
174
1
Y
1
A
HIS
175
B
HIS
175
1
Y
1
B
ARG
167
D
ARG
167
1
Y
1
B
LEU
168
D
LEU
168
1
Y
1
B
GLU
169
D
GLU
169
1
Y
1
B
HIS
170
D
HIS
170
1
Y
1
B
HIS
171
D
HIS
171
1
Y
1
B
HIS
172
D
HIS
172
1
Y
1
B
HIS
173
D
HIS
173
1
Y
1
B
HIS
174
D
HIS
174
1
Y
1
B
HIS
175
D
HIS
175
1
Y
1
A
LEU
131
-116.87
-159.63
1
A
HIS
134
72.20
36.41
1
A
ARG
135
-117.65
76.56
1
A
ALA
136
21.95
-75.96
1
B
PRO
90
-66.17
-179.59
24.068
-1.66
0.00
0.00
-2.46
0.00
4.12
0.918
0.895
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS.
0.24076
0.21918
0.22025
0.22023
2.50
20.00
768
14545
14545
5.0
97.62
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.710
0.287
0.80
0.80
1.40
4FZX
MAXIMUM LIKELIHOOD
MASK
2.50
20.00
22
3145
4
472
2647
0.009
0.021
3245
0.842
2.137
4510
7.094
5.000
331
34.951
22.870
115
21.438
15.000
459
23.103
15.000
21
0.060
0.200
503
0.014
0.021
2285
1.202
1.500
1665
2.228
2.000
2710
3.381
3.000
1580
5.186
4.500
1800
0.377
0.300
2.561
58
1009
20
97.00
2.5
30
4FZY
15314
1
99.8
2.50
2.59
1
97.8
data collection
MAR345dtb
phasing
MOLREP
refinement
REFMAC
5.5.0109
data reduction
HKL-2000
data scaling
HKL-2000
Exonuclease X in complex with 12bp blunt-ended dsDNA
1
N
N
2
N
N
3
N
N
2
N
N
4
N
N
4
N
N
4
N
N
4
N
N
5
N
N
5
N
N
5
N
N
5
N
N
A
SER
44
B
SER
44
HELX_P
A
ARG
52
B
ARG
52
1
1
9
A
THR
54
B
THR
54
HELX_P
A
VAL
58
B
VAL
58
5
2
5
A
TRP
63
B
TRP
63
HELX_P
A
TYR
71
B
TYR
71
5
3
9
A
ALA
82
B
ALA
82
HELX_P
A
LEU
89
B
LEU
89
1
4
8
A
THR
99
B
THR
99
HELX_P
A
TRP
107
B
TRP
107
1
5
9
A
SER
113
B
SER
113
HELX_P
A
ARG
121
B
ARG
121
1
6
9
A
ALA
136
B
ALA
136
HELX_P
A
GLY
155
B
GLY
155
1
7
20
A
THR
157
B
THR
157
HELX_P
A
GLY
166
B
GLY
166
1
8
10
B
SER
44
D
SER
44
HELX_P
B
ARG
52
D
ARG
52
1
9
9
B
THR
54
D
THR
54
HELX_P
B
ALA
59
D
ALA
59
1
10
6
B
TRP
63
D
TRP
63
HELX_P
B
ILE
68
D
ILE
68
1
11
6
B
PRO
69
D
PRO
69
HELX_P
B
TYR
72
D
TYR
72
5
12
4
B
ALA
82
D
ALA
82
HELX_P
B
LEU
89
D
LEU
89
1
13
8
B
THR
99
D
THR
99
HELX_P
B
TRP
107
D
TRP
107
1
14
9
B
SER
113
D
SER
113
HELX_P
B
ARG
121
D
ARG
121
1
15
9
B
ARG
135
D
ARG
135
HELX_P
B
GLY
155
D
GLY
155
1
16
21
B
THR
157
D
THR
157
HELX_P
B
GLY
166
D
GLY
166
1
17
10
metalc
2.767
C
DA
11
A
O3'
DA
11
1_555
C
NA
101
E
NA
NA
1_555
metalc
2.425
C
DG
12
A
OP1
DG
12
1_555
C
NA
101
E
NA
NA
1_555
metalc
2.223
C
DG
12
A
OP1
DG
12
1_555
A
NA
201
F
NA
NA
1_555
metalc
2.221
C
NA
101
E
NA
NA
1_555
C
HOH
202
I
O
HOH
1_555
metalc
2.218
C
NA
101
E
NA
NA
1_555
A
ASP
6
B
OD1
ASP
6
1_555
metalc
2.233
C
NA
101
E
NA
NA
1_555
A
HOH
303
J
O
HOH
1_555
metalc
2.379
C
NA
101
E
NA
NA
1_555
A
HOH
304
J
O
HOH
1_555
metalc
2.613
A
ASP
6
B
OD2
ASP
6
1_555
A
NA
201
F
NA
NA
1_555
metalc
2.636
A
GLU
8
B
OE2
GLU
8
1_555
A
NA
201
F
NA
NA
1_555
metalc
2.106
A
ASP
139
B
OD2
ASP
139
1_555
A
NA
201
F
NA
NA
1_555
metalc
2.757
D
DC
11
C
O3'
DC
11
1_555
D
NA
101
G
NA
NA
1_555
metalc
2.616
D
DA
12
C
OP1
DA
12
1_555
D
NA
101
G
NA
NA
1_555
metalc
2.281
D
DA
12
C
OP1
DA
12
1_555
B
NA
201
H
NA
NA
1_555
metalc
2.129
D
NA
101
G
NA
NA
1_555
D
HOH
202
K
O
HOH
1_555
metalc
2.181
D
NA
101
G
NA
NA
1_555
B
ASP
6
D
OD1
ASP
6
1_555
metalc
2.199
D
NA
101
G
NA
NA
1_555
B
HOH
306
L
O
HOH
1_555
metalc
2.347
D
NA
101
G
NA
NA
1_555
B
HOH
307
L
O
HOH
1_555
metalc
2.768
B
ASP
6
D
OD2
ASP
6
1_555
B
NA
201
H
NA
NA
1_555
metalc
2.737
B
GLU
8
D
OE2
GLU
8
1_555
B
NA
201
H
NA
NA
1_555
metalc
2.293
B
ASP
139
D
OD2
ASP
139
1_555
B
NA
201
H
NA
NA
1_555
hydrog
DG-DC PAIR
C
DG
2
A
N1
DG
2
1_555
D
DC
11
C
N3
DC
11
1_555
hydrog
DT-DA PAIR
C
DT
3
A
N3
DT
3
1_555
D
DA
10
C
N1
DA
10
1_555
hydrog
WATSON-CRICK
C
DA
4
A
N1
DA
4
1_555
D
DT
9
C
N3
DT
9
1_555
hydrog
WATSON-CRICK
C
DA
4
A
N6
DA
4
1_555
D
DT
9
C
O4
DT
9
1_555
hydrog
WATSON-CRICK
C
DG
5
A
N1
DG
5
1_555
D
DC
8
C
N3
DC
8
1_555
hydrog
WATSON-CRICK
C
DG
5
A
N2
DG
5
1_555
D
DC
8
C
O2
DC
8
1_555
hydrog
WATSON-CRICK
C
DG
5
A
O6
DG
5
1_555
D
DC
8
C
N4
DC
8
1_555
hydrog
WATSON-CRICK
C
DA
6
A
N1
DA
6
1_555
D
DT
7
C
N3
DT
7
1_555
hydrog
WATSON-CRICK
C
DA
6
A
N6
DA
6
1_555
D
DT
7
C
O4
DT
7
1_555
hydrog
WATSON-CRICK
C
DT
7
A
N3
DT
7
1_555
D
DA
6
C
N1
DA
6
1_555
hydrog
WATSON-CRICK
C
DT
7
A
O4
DT
7
1_555
D
DA
6
C
N6
DA
6
1_555
hydrog
WATSON-CRICK
C
DT
8
A
N3
DT
8
1_555
D
DA
5
C
N1
DA
5
1_555
hydrog
WATSON-CRICK
C
DT
8
A
O4
DT
8
1_555
D
DA
5
C
N6
DA
5
1_555
hydrog
WATSON-CRICK
C
DC
9
A
N3
DC
9
1_555
D
DG
4
C
N1
DG
4
1_555
hydrog
WATSON-CRICK
C
DC
9
A
N4
DC
9
1_555
D
DG
4
C
O6
DG
4
1_555
hydrog
WATSON-CRICK
C
DC
9
A
O2
DC
9
1_555
D
DG
4
C
N2
DG
4
1_555
hydrog
WATSON-CRICK
C
DG
10
A
N1
DG
10
1_555
D
DC
3
C
N3
DC
3
1_555
hydrog
WATSON-CRICK
C
DG
10
A
N2
DG
10
1_555
D
DC
3
C
O2
DC
3
1_555
hydrog
WATSON-CRICK
C
DG
10
A
O6
DG
10
1_555
D
DC
3
C
N4
DC
3
1_555
hydrog
WATSON-CRICK
C
DA
11
A
N1
DA
11
1_555
D
DT
2
C
N3
DT
2
1_555
hydrog
WATSON-CRICK
C
DA
11
A
N6
DA
11
1_555
D
DT
2
C
O4
DT
2
1_555
hydrog
WATSON-CRICK
C
DG
12
A
N1
DG
12
1_555
D
DC
1
C
N3
DC
1
1_555
hydrog
WATSON-CRICK
C
DG
12
A
N2
DG
12
1_555
D
DC
1
C
O2
DC
1
1_555
hydrog
WATSON-CRICK
C
DG
12
A
O6
DG
12
1_555
D
DC
1
C
N4
DC
1
1_555
Hydrolase/DNA
Exo, DnaQ family, DEDDh, Exonuclease, Nuclease, Mismatch repair, UV repair, homologous recombination, stabilization of tandem repeat, Hydrolase-DNA complex
EXOX_ECOLI
UNP
2
1
P0AEK0
MLRIIDTETCGLQGGIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPHYYGSEWYVAH
NASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALYKTRKLNVQTPPGLHHHRALYDCYITAALLIDIMNTSGWTAEQ
MADITGR
4FZY
PDB
1
4FZY
4FZY
PDB
3
4FZY
1
167
4FZY
1
167
P0AEK0
A
1
1
167
1
167
4FZY
1
167
P0AEK0
B
1
1
167
1
12
4FZY
1
12
4FZY
C
2
1
12
1
12
4FZY
1
12
4FZY
D
3
1
12
1
expression tag
LEU
168
4FZY
A
P0AEK0
UNP
168
1
expression tag
GLU
169
4FZY
A
P0AEK0
UNP
169
1
expression tag
HIS
170
4FZY
A
P0AEK0
UNP
170
1
expression tag
HIS
171
4FZY
A
P0AEK0
UNP
171
1
expression tag
HIS
172
4FZY
A
P0AEK0
UNP
172
1
expression tag
HIS
173
4FZY
A
P0AEK0
UNP
173
1
expression tag
HIS
174
4FZY
A
P0AEK0
UNP
174
1
expression tag
HIS
175
4FZY
A
P0AEK0
UNP
175
2
expression tag
LEU
168
4FZY
B
P0AEK0
UNP
168
2
expression tag
GLU
169
4FZY
B
P0AEK0
UNP
169
2
expression tag
HIS
170
4FZY
B
P0AEK0
UNP
170
2
expression tag
HIS
171
4FZY
B
P0AEK0
UNP
171
2
expression tag
HIS
172
4FZY
B
P0AEK0
UNP
172
2
expression tag
HIS
173
4FZY
B
P0AEK0
UNP
173
2
expression tag
HIS
174
4FZY
B
P0AEK0
UNP
174
2
expression tag
HIS
175
4FZY
B
P0AEK0
UNP
175
5
5
anti-parallel
anti-parallel
parallel
parallel
anti-parallel
anti-parallel
parallel
parallel
A
LYS
28
B
LYS
28
A
LEU
36
B
LEU
36
A
ILE
16
B
ILE
16
A
ILE
25
B
ILE
25
A
LEU
2
B
LEU
2
A
THR
9
B
THR
9
A
TRP
76
B
TRP
76
A
ALA
79
B
ALA
79
A
GLU
95
B
GLU
95
A
CYS
98
B
CYS
98
B
LYS
28
D
LYS
28
B
LEU
36
D
LEU
36
B
GLU
18
D
GLU
18
B
ILE
25
D
ILE
25
B
LEU
2
D
LEU
2
B
GLU
8
D
GLU
8
B
TRP
76
D
TRP
76
B
ALA
79
D
ALA
79
B
GLU
95
D
GLU
95
B
CYS
98
D
CYS
98
BINDING SITE FOR RESIDUE NA C 101
C
NA
101
Software
7
BINDING SITE FOR RESIDUE NA A 201
A
NA
201
Software
5
BINDING SITE FOR RESIDUE NA D 101
D
NA
101
Software
6
BINDING SITE FOR RESIDUE NA B 201
B
NA
201
Software
4
A
ASP
6
B
ASP
6
7
1_555
A
NA
201
F
NA
7
1_555
A
HOH
303
J
HOH
7
1_555
A
HOH
304
J
HOH
7
1_555
C
DA
11
A
DA
11
7
1_555
C
DG
12
A
DG
12
7
1_555
C
HOH
202
I
HOH
7
1_555
A
ASP
6
B
ASP
6
5
1_555
A
GLU
8
B
GLU
8
5
1_555
A
ASP
139
B
ASP
139
5
1_555
C
DG
12
A
DG
12
5
1_555
C
NA
101
E
NA
5
1_555
B
ASP
6
D
ASP
6
6
1_555
B
HOH
306
L
HOH
6
1_555
B
HOH
307
L
HOH
6
1_555
D
DC
11
C
DC
11
6
1_555
D
DA
12
C
DA
12
6
1_555
D
HOH
202
K
HOH
6
1_555
B
ASP
6
D
ASP
6
4
1_555
B
GLU
8
D
GLU
8
4
1_555
B
ASP
139
D
ASP
139
4
1_555
D
DA
12
C
DA
12
4
1_555
19
P 21 21 21