0.009727
0.005616
0.000000
0.000000
0.011232
0.000000
0.000000
0.000000
0.015554
0.00000
0.00000
0.00000
Bunting, K.A.
Roe, S.M.
Headley, A.
Brown, T.
Savva, R.
Pearl, L.H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
102.805
102.805
64.290
C10 H16 N3 O7 P
321.224
n
5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
DNA linking
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
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
Zn 2
65.409
ZINC ION
non-polymer
N
1
N
N
N
2
N
C
N
3
N
N
N
4
N
C
N
5
N
C
N
6
N
C
N
7
N
C
N
8
N
O
N
9
N
N
N
10
R
C
N
11
N
C
N
12
S
C
N
13
R
C
N
14
N
O
N
15
N
O
N
16
N
C
N
17
N
O
N
18
N
P
N
19
N
O
N
20
N
O
N
21
N
O
N
22
N
H
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
N
N
39
S
C
N
40
N
C
N
41
N
O
N
42
N
C
N
43
N
O
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
N
50
N
H
N
51
N
N
N
52
S
C
N
53
N
C
N
54
N
O
N
55
N
C
N
56
N
C
N
57
N
C
N
58
N
N
N
59
N
C
N
60
N
N
N
61
N
N
N
62
N
O
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
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
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
N
N
79
S
C
N
80
N
C
N
81
N
O
N
82
N
C
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
O
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
N
N
96
S
C
N
97
N
C
N
98
N
O
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
N
N
112
R
C
N
113
N
C
N
114
N
O
N
115
N
C
N
116
N
S
N
117
N
O
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
H
N
125
N
O
N
126
N
P
N
127
N
O
N
128
N
O
N
129
N
O
N
130
N
C
N
131
R
C
N
132
N
O
N
133
S
C
N
134
N
O
N
135
N
C
N
136
R
C
Y
137
N
N
Y
138
N
C
Y
139
N
N
Y
140
N
C
Y
141
N
C
N
142
N
N
Y
143
N
N
Y
144
N
C
Y
145
N
N
Y
146
N
C
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
H
N
159
N
H
N
160
N
H
N
161
N
O
N
162
N
P
N
163
N
O
N
164
N
O
N
165
N
O
N
166
N
C
N
167
R
C
N
168
N
O
N
169
S
C
N
170
N
O
N
171
N
C
N
172
R
C
N
173
N
N
N
174
N
C
N
175
N
O
N
176
N
N
N
177
N
C
N
178
N
N
N
179
N
C
N
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
Y
207
N
N
Y
208
N
C
Y
209
N
N
Y
210
N
C
N
211
N
C
N
212
N
O
N
213
N
N
N
214
N
C
N
215
N
N
N
216
N
N
Y
217
N
C
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
H
N
232
N
O
N
233
N
P
N
234
N
O
N
235
N
O
N
236
N
O
N
237
N
C
N
238
R
C
N
239
N
O
N
240
S
C
N
241
N
O
N
242
N
C
N
243
R
C
N
244
N
N
N
245
N
C
N
246
N
O
N
247
N
N
N
248
N
C
N
249
N
O
N
250
N
C
N
251
N
C
N
252
N
C
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
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
N
N
269
S
C
N
270
N
C
N
271
N
O
N
272
N
C
N
273
N
C
N
274
N
C
N
275
N
O
N
276
N
N
N
277
N
O
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
N
N
289
S
C
N
290
N
C
N
291
N
O
N
292
N
C
N
293
N
C
N
294
N
C
N
295
N
O
N
296
N
O
N
297
N
O
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
N
N
308
N
C
N
309
N
C
N
310
N
O
N
311
N
O
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
N
N
318
S
C
N
319
N
C
N
320
N
O
N
321
N
C
Y
322
N
C
Y
323
N
N
Y
324
N
C
Y
325
N
C
Y
326
N
N
N
327
N
O
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
O
N
339
N
H
N
340
N
H
N
341
N
N
N
342
S
C
N
343
N
C
N
344
N
O
N
345
S
C
N
346
N
C
N
347
N
C
N
348
N
C
N
349
N
O
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
N
N
364
S
C
N
365
N
C
N
366
N
O
N
367
N
C
N
368
N
C
N
369
N
C
N
370
N
C
N
371
N
O
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
N
N
386
S
C
N
387
N
C
N
388
N
O
N
389
N
C
N
390
N
C
N
391
N
C
N
392
N
C
N
393
N
N
N
394
N
O
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
H
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
N
N
411
S
C
N
412
N
C
N
413
N
O
N
414
N
C
Y
415
N
C
Y
416
N
C
Y
417
N
C
Y
418
N
C
Y
419
N
C
Y
420
N
C
N
421
N
O
N
422
N
H
N
423
N
H
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
C
N
439
N
C
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
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
O
N
456
N
O
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
N
N
465
S
C
N
466
N
C
N
467
N
O
N
468
R
C
N
469
N
O
N
470
N
C
N
471
N
O
N
472
N
H
N
473
N
H
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
N
C
Y
486
N
C
Y
487
N
C
Y
488
N
C
Y
489
N
N
Y
490
N
C
Y
491
N
C
Y
492
N
C
Y
493
N
C
Y
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
507
N
H
N
508
N
N
N
509
S
C
N
510
N
C
N
511
N
O
N
512
N
C
Y
513
N
C
Y
514
N
C
Y
515
N
C
Y
516
N
C
Y
517
N
C
Y
518
N
C
N
519
N
O
N
520
N
O
N
521
N
H
N
522
N
H
N
523
N
H
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
N
N
533
S
C
N
534
N
C
N
535
N
O
N
536
N
C
N
537
N
C
N
538
N
C
N
539
N
O
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
H
N
550
N
H
N
551
N
ZN
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
doub
N
6
N
doub
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
doub
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
sing
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
sing
N
34
N
doub
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
sing
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
doub
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
doub
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
doub
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
doub
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
doub
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
doub
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
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
Y
144
N
sing
Y
145
N
sing
Y
146
N
doub
N
147
N
sing
Y
148
N
sing
Y
149
N
sing
Y
150
N
doub
N
151
N
sing
Y
152
N
doub
N
153
N
sing
N
154
N
sing
Y
155
N
sing
Y
156
N
doub
N
157
N
sing
Y
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
doub
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
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
N
185
N
sing
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
doub
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
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
Y
217
N
sing
Y
218
N
sing
Y
219
N
doub
N
220
N
sing
Y
221
N
sing
N
222
N
sing
Y
223
N
doub
N
224
N
doub
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
doub
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
doub
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
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
sing
N
258
N
doub
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
doub
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
sing
N
276
N
doub
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
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
doub
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
doub
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
doub
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
doub
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
Y
327
N
sing
Y
328
N
doub
Y
329
N
doub
N
330
N
sing
Y
331
N
sing
N
332
N
sing
Y
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
doub
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
doub
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
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
doub
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
doub
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
Y
416
N
doub
Y
417
N
sing
Y
418
N
sing
N
419
N
sing
Y
420
N
doub
N
421
N
sing
Y
422
N
doub
N
423
N
sing
Y
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
doub
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
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
doub
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
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
doub
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
Y
485
N
doub
Y
486
N
sing
Y
487
N
sing
N
488
N
sing
Y
489
N
doub
Y
490
N
sing
Y
491
N
sing
N
492
N
sing
Y
493
N
sing
Y
494
N
doub
N
495
N
sing
Y
496
N
doub
N
497
N
sing
Y
498
N
sing
N
499
N
sing
N
500
N
sing
N
501
N
sing
N
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
doub
N
509
N
sing
N
510
N
sing
N
511
N
sing
N
512
N
sing
Y
513
N
doub
Y
514
N
sing
Y
515
N
sing
N
516
N
sing
Y
517
N
doub
N
518
N
sing
Y
519
N
doub
N
520
N
sing
Y
521
N
sing
N
522
N
sing
N
523
N
sing
N
524
N
sing
N
525
N
sing
N
526
N
sing
N
527
N
sing
N
528
N
sing
N
529
N
sing
N
530
N
sing
N
531
N
sing
N
532
N
doub
N
533
N
sing
N
534
N
sing
N
535
N
sing
N
536
N
sing
N
537
N
sing
N
538
N
sing
N
539
N
sing
N
540
N
sing
N
541
N
sing
N
542
N
sing
N
543
N
sing
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
31
1633
10.1093/NAR/GKG273
12626704
Crystal Structure of the Escherichia Coli Dcm Very-Short-Patch DNA Repair Endonuclease Bound to its Reaction Product-Site in a DNA Superhelix
2003
10.2210/pdb1odg/pdb
pdb_00001odg
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
2000-02-15
ADSC CCD
SINGLE WAVELENGTH
M
x-ray
1
0.933
1.0
ID14-2
ESRF
0.933
SYNCHROTRON
ESRF BEAMLINE ID14-2
15568.826
DNA MISMATCH ENDONUCLEASE
1
man
polymer
3692.430
5'-D(*TP*AP*GP*GP*CP*5CM*TP*GP*GP*AP*TP*CP)-3'
2
nat
polymer
65.409
ZINC ION
1
syn
non-polymer
18.015
water
81
nat
water
VERY SHORT PATCH REPAIR PROTEIN, VSR MISMATCH ENDONUCLEASE, V.ECOKDCM, VSR, B1960
no
no
AIEKRLASLLTGQGLAFRVQDASLPGRPDFVVDEYRCVIFTHGCFWHHHHCYLFKVPATRTEFWLEKIGKNVERDRRDIS
RLQELGWRVLIVWECALRGREKLTDEALTERLEEWICGEGASAQIDTQGIHLLA
AIEKRLASLLTGQGLAFRVQDASLPGRPDFVVDEYRCVIFTHGCFWHHHHCYLFKVPATRTEFWLEKIGKNVERDRRDIS
RLQELGWRVLIVWECALRGREKLTDEALTERLEEWICGEGASAQIDTQGIHLLA
A
polypeptide(L)
no
yes
(DT)(DA)(DG)(DG)(DC)(5CM)(DT)(DG)(DG)(DA)(DT)(DC)
TAGGCCTGGATC
F,W
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
sample
562
ESCHERICHIA COLI
562
ESCHERICHIA COLI
B834 (DE3)
PET28
sample
562
ESCHERICHIA COLI
1
4.20
70.70
6.50
25 MM HEPES PH7.0, 75 MM NACL, 15% PEG 8000, 50 MM SODIUM CACODYLATE PH 6.5, 75 MM AMMONIUM SULPHATE AND 10% GLYCEROL PROTEIN 2.5 MG/ML
-7.450
1
28
F
1
W
8
9.952
F_DT1:DG8_W
1
-10.118
1.554
0.386
-0.193
6.422
3
23
F
2
W
7
80.840
F_DA2:DT7_W
2
0.246
-0.104
-0.292
-2.331
-0.965
1
19
F
3
W
6
-2.869
F_DG3:5CM6_W
3
-3.328
0.188
-0.313
-0.257
-11.245
1
19
F
4
W
5
-3.955
F_DG4:DC5_W
4
0.221
-0.066
-0.636
-0.222
-11.620
1
19
F
5
W
4
-4.376
F_DC5:DG4_W
5
-3.061
-0.041
-0.188
-0.292
-12.545
1
19
F
6
W
3
0.756
F_5CM6:DG3_W
6
-3.145
0.186
0.250
-0.261
-1.498
3
23
F
7
W
2
-73.645
F_DT7:DA2_W
7
-9.764
0.172
0.095
2.699
0.444
1
28
F
8
W
1
-3.554
F_DG8:DT1_W
8
-5.310
-2.060
0.344
-0.598
0.766
-177.794
F
F
1
2
11.573
W
W
8
7
0.515
-23.105
-0.603
3.053
FF_DT1DA2:DT7DG8_WW
1
170.215
85.257
-148.858
-1.515
-0.215
-0.639
-179.256
F
F
2
3
-54.145
W
W
7
6
-0.371
108.251
0.842
3.711
FF_DA2DG3:5CM6DT7_WW
2
-138.241
-69.145
-160.600
-1.829
0.455
2.955
35.239
F
F
3
4
23.978
W
W
6
5
3.557
14.125
-0.636
-0.891
FF_DG3DG4:DC55CM6_WW
3
-1.874
3.181
32.314
-3.659
0.761
3.051
31.818
F
F
4
5
12.608
W
W
5
4
3.412
6.857
-0.116
-1.359
FF_DG4DC5:DG4DC5_WW
4
-1.796
3.302
31.039
-3.733
-0.117
3.246
34.891
F
F
5
6
14.432
W
W
4
3
3.454
8.569
0.802
-0.528
FF_DC55CM6:DG3DG4_WW
5
0.825
-1.390
33.844
-2.233
-1.208
3.089
76.666
F
F
6
7
1.821
W
W
3
2
2.995
2.258
2.348
-1.266
FF_5CM6DT7:DA2DG3_WW
6
5.040
-4.065
76.497
-1.082
-1.756
3.934
-58.333
F
F
7
8
56.024
W
W
2
1
7.355
-46.408
0.067
-0.073
FF_DT7DG8:DT1DA2_WW
7
-19.492
-23.530
-30.495
5.914
-2.383
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Other
Refinement description
1
0
2003-03-13
1
1
2011-05-08
1
2
2011-07-13
1
3
2023-12-13
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_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.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_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_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
CRYSTAL STRUCTURE ANALYSIS OF VERY SHORT PATCH REPAIR (VSR) ENDONUCLEASE IN COMPLEX WITH A DUPLEX DEOXYRIBONUCLEIC ACID
VERY SHORT PATCH REPAIR (VSR) ENDONUCLEASE FROM ESCHERICHIA COLI
PDBE
Y
PDBE
2003-02-19
REL
REL
ZN
ZINC ION
HOH
water
FUNCTIONS IN THE DEAMINATION OF 5-METHYLCYTOSINE IN
DNA CAUSING MISMATCHES IN T/G WHICH CAN LEAD TO C-TO-T
TRANSITION MUTATIONS IF UNREPAIRED.
1CW0
PDB ENTRY 1CW0
PDB
experimental model
ZN
200
3
ZN
ZN
200
A
HOH
2001
4
HOH
HOH
2001
A
HOH
2002
4
HOH
HOH
2002
A
HOH
2003
4
HOH
HOH
2003
A
HOH
2004
4
HOH
HOH
2004
A
HOH
2005
4
HOH
HOH
2005
A
HOH
2006
4
HOH
HOH
2006
A
HOH
2007
4
HOH
HOH
2007
A
HOH
2008
4
HOH
HOH
2008
A
HOH
2009
4
HOH
HOH
2009
A
HOH
2010
4
HOH
HOH
2010
A
HOH
2011
4
HOH
HOH
2011
A
HOH
2012
4
HOH
HOH
2012
A
HOH
2013
4
HOH
HOH
2013
A
HOH
2014
4
HOH
HOH
2014
A
HOH
2015
4
HOH
HOH
2015
A
HOH
2016
4
HOH
HOH
2016
A
HOH
2017
4
HOH
HOH
2017
A
HOH
2018
4
HOH
HOH
2018
A
HOH
2019
4
HOH
HOH
2019
A
HOH
2020
4
HOH
HOH
2020
A
HOH
2021
4
HOH
HOH
2021
A
HOH
2022
4
HOH
HOH
2022
A
HOH
2023
4
HOH
HOH
2023
A
HOH
2024
4
HOH
HOH
2024
A
HOH
2025
4
HOH
HOH
2025
A
HOH
2026
4
HOH
HOH
2026
A
HOH
2027
4
HOH
HOH
2027
A
HOH
2028
4
HOH
HOH
2028
A
HOH
2029
4
HOH
HOH
2029
A
HOH
2030
4
HOH
HOH
2030
A
HOH
2031
4
HOH
HOH
2031
A
HOH
2032
4
HOH
HOH
2032
A
HOH
2033
4
HOH
HOH
2033
A
HOH
2034
4
HOH
HOH
2034
A
HOH
2001
4
HOH
HOH
2001
F
HOH
2002
4
HOH
HOH
2002
F
HOH
2003
4
HOH
HOH
2003
F
HOH
2004
4
HOH
HOH
2004
F
HOH
2005
4
HOH
HOH
2005
F
HOH
2006
4
HOH
HOH
2006
F
HOH
2007
4
HOH
HOH
2007
F
HOH
2008
4
HOH
HOH
2008
F
HOH
2009
4
HOH
HOH
2009
F
HOH
2010
4
HOH
HOH
2010
F
HOH
2011
4
HOH
HOH
2011
F
HOH
2012
4
HOH
HOH
2012
F
HOH
2013
4
HOH
HOH
2013
F
HOH
2014
4
HOH
HOH
2014
F
HOH
2015
4
HOH
HOH
2015
F
HOH
2016
4
HOH
HOH
2016
F
HOH
2017
4
HOH
HOH
2017
F
HOH
2018
4
HOH
HOH
2018
F
HOH
2019
4
HOH
HOH
2019
F
HOH
2020
4
HOH
HOH
2020
F
HOH
2021
4
HOH
HOH
2021
F
HOH
2022
4
HOH
HOH
2022
F
HOH
2023
4
HOH
HOH
2023
F
HOH
2024
4
HOH
HOH
2024
F
HOH
2025
4
HOH
HOH
2025
F
HOH
2026
4
HOH
HOH
2026
F
HOH
2027
4
HOH
HOH
2027
F
HOH
2001
4
HOH
HOH
2001
W
HOH
2002
4
HOH
HOH
2002
W
HOH
2003
4
HOH
HOH
2003
W
HOH
2004
4
HOH
HOH
2004
W
HOH
2005
4
HOH
HOH
2005
W
HOH
2006
4
HOH
HOH
2006
W
HOH
2007
4
HOH
HOH
2007
W
HOH
2008
4
HOH
HOH
2008
W
HOH
2009
4
HOH
HOH
2009
W
HOH
2010
4
HOH
HOH
2010
W
HOH
2011
4
HOH
HOH
2011
W
HOH
2012
4
HOH
HOH
2012
W
HOH
2013
4
HOH
HOH
2013
W
HOH
2014
4
HOH
HOH
2014
W
HOH
2015
4
HOH
HOH
2015
W
HOH
2016
4
HOH
HOH
2016
W
HOH
2017
4
HOH
HOH
2017
W
HOH
2018
4
HOH
HOH
2018
W
HOH
2019
4
HOH
HOH
2019
W
HOH
2020
4
HOH
HOH
2020
W
ALA
23
n
1
ALA
23
A
ILE
24
n
2
ILE
24
A
GLU
25
n
3
GLU
25
A
LYS
26
n
4
LYS
26
A
ARG
27
n
5
ARG
27
A
LEU
28
n
6
LEU
28
A
ALA
29
n
7
ALA
29
A
SER
30
n
8
SER
30
A
LEU
31
n
9
LEU
31
A
LEU
32
n
10
LEU
32
A
THR
33
n
11
THR
33
A
GLY
34
n
12
GLY
34
A
GLN
35
n
13
GLN
35
A
GLY
36
n
14
GLY
36
A
LEU
37
n
15
LEU
37
A
ALA
38
n
16
ALA
38
A
PHE
39
n
17
PHE
39
A
ARG
40
n
18
ARG
40
A
VAL
41
n
19
VAL
41
A
GLN
42
n
20
GLN
42
A
ASP
43
n
21
ASP
43
A
ALA
44
n
22
ALA
44
A
SER
45
n
23
SER
45
A
LEU
46
n
24
LEU
46
A
PRO
47
n
25
PRO
47
A
GLY
48
n
26
GLY
48
A
ARG
49
n
27
ARG
49
A
PRO
50
n
28
PRO
50
A
ASP
51
n
29
ASP
51
A
PHE
52
n
30
PHE
52
A
VAL
53
n
31
VAL
53
A
VAL
54
n
32
VAL
54
A
ASP
55
n
33
ASP
55
A
GLU
56
n
34
GLU
56
A
TYR
57
n
35
TYR
57
A
ARG
58
n
36
ARG
58
A
CYS
59
n
37
CYS
59
A
VAL
60
n
38
VAL
60
A
ILE
61
n
39
ILE
61
A
PHE
62
n
40
PHE
62
A
THR
63
n
41
THR
63
A
HIS
64
n
42
HIS
64
A
GLY
65
n
43
GLY
65
A
CYS
66
n
44
CYS
66
A
PHE
67
n
45
PHE
67
A
TRP
68
n
46
TRP
68
A
HIS
69
n
47
HIS
69
A
HIS
70
n
48
HIS
70
A
HIS
71
n
49
HIS
71
A
HIS
72
n
50
HIS
72
A
CYS
73
n
51
CYS
73
A
TYR
74
n
52
TYR
74
A
LEU
75
n
53
LEU
75
A
PHE
76
n
54
PHE
76
A
LYS
77
n
55
LYS
77
A
VAL
78
n
56
VAL
78
A
PRO
79
n
57
PRO
79
A
ALA
80
n
58
ALA
80
A
THR
81
n
59
THR
81
A
ARG
82
n
60
ARG
82
A
THR
83
n
61
THR
83
A
GLU
84
n
62
GLU
84
A
PHE
85
n
63
PHE
85
A
TRP
86
n
64
TRP
86
A
LEU
87
n
65
LEU
87
A
GLU
88
n
66
GLU
88
A
LYS
89
n
67
LYS
89
A
ILE
90
n
68
ILE
90
A
GLY
91
n
69
GLY
91
A
LYS
92
n
70
LYS
92
A
ASN
93
n
71
ASN
93
A
VAL
94
n
72
VAL
94
A
GLU
95
n
73
GLU
95
A
ARG
96
n
74
ARG
96
A
ASP
97
n
75
ASP
97
A
ARG
98
n
76
ARG
98
A
ARG
99
n
77
ARG
99
A
ASP
100
n
78
ASP
100
A
ILE
101
n
79
ILE
101
A
SER
102
n
80
SER
102
A
ARG
103
n
81
ARG
103
A
LEU
104
n
82
LEU
104
A
GLN
105
n
83
GLN
105
A
GLU
106
n
84
GLU
106
A
LEU
107
n
85
LEU
107
A
GLY
108
n
86
GLY
108
A
TRP
109
n
87
TRP
109
A
ARG
110
n
88
ARG
110
A
VAL
111
n
89
VAL
111
A
LEU
112
n
90
LEU
112
A
ILE
113
n
91
ILE
113
A
VAL
114
n
92
VAL
114
A
TRP
115
n
93
TRP
115
A
GLU
116
n
94
GLU
116
A
CYS
117
n
95
CYS
117
A
ALA
118
n
96
ALA
118
A
LEU
119
n
97
LEU
119
A
ARG
120
n
98
ARG
120
A
GLY
121
n
99
GLY
121
A
ARG
122
n
100
ARG
122
A
GLU
123
n
101
GLU
123
A
LYS
124
n
102
LYS
124
A
LEU
125
n
103
LEU
125
A
THR
126
n
104
THR
126
A
ASP
127
n
105
ASP
127
A
GLU
128
n
106
GLU
128
A
ALA
129
n
107
ALA
129
A
LEU
130
n
108
LEU
130
A
THR
131
n
109
THR
131
A
GLU
132
n
110
GLU
132
A
ARG
133
n
111
ARG
133
A
LEU
134
n
112
LEU
134
A
GLU
135
n
113
GLU
135
A
GLU
136
n
114
GLU
136
A
TRP
137
n
115
TRP
137
A
ILE
138
n
116
ILE
138
A
CYS
139
n
117
CYS
139
A
GLY
140
n
118
GLY
140
A
GLU
141
n
119
GLU
141
A
GLY
142
n
120
GLY
142
A
ALA
143
n
121
ALA
143
A
SER
144
n
122
SER
144
A
ALA
145
n
123
ALA
145
A
GLN
146
n
124
GLN
146
A
ILE
147
n
125
ILE
147
A
ASP
148
n
126
ASP
148
A
THR
149
n
127
THR
149
A
GLN
150
n
128
GLN
150
A
GLY
151
n
129
GLY
151
A
ILE
152
n
130
ILE
152
A
HIS
153
n
131
HIS
153
A
LEU
154
n
132
LEU
154
A
LEU
155
n
133
LEU
155
A
ALA
156
n
134
ALA
156
A
DT
1
n
1
DT
1
F
DA
2
n
2
DA
2
F
DG
3
n
3
DG
3
F
DG
4
n
4
DG
4
F
DC
5
n
5
DC
5
F
5CM
6
n
6
5CM
6
F
DT
7
n
7
DT
7
F
DG
8
n
8
DG
8
F
DG
9
n
9
DG
9
F
DA
10
n
10
DA
10
F
DT
11
n
11
DT
11
F
DC
12
n
12
DC
12
F
DT
1
n
1
DT
1
W
DA
2
n
2
DA
2
W
DG
3
n
3
DG
3
W
DG
4
n
4
DG
4
W
DC
5
n
5
DC
5
W
5CM
6
n
6
5CM
6
W
DT
7
n
7
DT
7
W
DG
8
n
8
DG
8
W
DG
9
n
9
DG
9
W
DA
10
n
10
DA
10
W
DT
11
n
11
DT
11
W
DC
12
n
12
DC
12
W
author_and_software_defined_assembly
PQS
3
trimeric
A
CYS
66
A
SG
CYS
44
1_555
A
ZN
200
D
ZN
ZN
1_555
A
HIS
71
A
ND1
HIS
49
1_555
113.7
A
CYS
66
A
SG
CYS
44
1_555
A
ZN
200
D
ZN
ZN
1_555
A
CYS
73
A
SG
CYS
51
1_555
99.1
A
HIS
71
A
ND1
HIS
49
1_555
A
ZN
200
D
ZN
ZN
1_555
A
CYS
73
A
SG
CYS
51
1_555
124.2
A
CYS
66
A
SG
CYS
44
1_555
A
ZN
200
D
ZN
ZN
1_555
A
CYS
117
A
SG
CYS
95
1_555
104.2
A
HIS
71
A
ND1
HIS
49
1_555
A
ZN
200
D
ZN
ZN
1_555
A
CYS
117
A
SG
CYS
95
1_555
100.1
A
CYS
73
A
SG
CYS
51
1_555
A
ZN
200
D
ZN
ZN
1_555
A
CYS
117
A
SG
CYS
95
1_555
114.5
F
5CM
6
B
5CM
6
DC
W
5CM
6
C
5CM
6
DC
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
N
ARG
40
A
N
ARG
18
A
O
VAL
53
A
O
VAL
31
A
N
VAL
54
A
N
VAL
32
A
O
CYS
59
A
O
CYS
37
A
N
VAL
60
A
N
VAL
38
A
O
ARG
110
A
O
ARG
88
A
N
ILE
113
A
N
ILE
91
A
O
ALA
145
A
O
ALA
123
A
N
ASP
148
A
N
ASP
126
A
O
GLY
151
A
O
GLY
129
1
A
CG
LYS
77
A
CG
LYS
55
1
Y
1
A
CD
LYS
77
A
CD
LYS
55
1
Y
1
A
CE
LYS
77
A
CE
LYS
55
1
Y
1
A
NZ
LYS
77
A
NZ
LYS
55
1
Y
1
A
F
O
O
HOH
HOH
2014
2017
2.13
1
F
DG
8
0.065
SIDE CHAIN
1
F
DG
9
0.054
SIDE CHAIN
1
F
F
P
OP3
DT
DT
1
1
-0.085
0.012
1.607
1.522
N
1
W
W
P
OP3
DT
DT
1
1
-0.091
0.012
1.607
1.516
N
1
A
ILE
24
-152.07
-22.59
1
A
ARG
27
-31.57
-39.33
1
A
LEU
37
-4.33
117.32
1
A
GLN
42
20.72
85.71
1
A
PRO
47
-49.51
155.89
1
A
ARG
49
26.45
78.26
1
A
PRO
50
-47.20
169.74
1
A
TYR
57
-155.85
0.13
1
A
THR
63
-117.93
75.98
1
A
HIS
70
39.24
66.50
1
A
CYS
117
-46.86
-18.66
1
A
LEU
119
-148.53
-0.61
1
A
ARG
122
-76.05
47.95
1
A
GLU
123
-173.87
-3.81
1
A
ASP
127
-44.81
-15.26
1
A
ALA
129
-34.05
-35.64
1
A
LEU
130
-63.90
-70.74
1
A
TRP
137
-92.86
-99.98
1
A
ILE
138
-7.46
-63.26
1
A
GLU
141
47.60
174.26
PROTEIN_REP.PARAM
PROTEIN.TOP
LHP_DNA-RNA.PARAM
LHP_DNA-RNA.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
-15.190
-6.172
0.0
-15.190
0.0
30.380
0.3561
0.2873
0.2873
2.8
24.7
923
9535
10.0
98.7
RANDOM
1
RESTRAINED
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
PDB ENTRY 1CW0
FLAT MODEL
74.25
0.318
2.8
24.7
81
1672
1
498
1092
0.008265
1.30641
1.372
1.5
2.381
2.0
2.325
2.0
3.963
2.5
105
2.750
50.000
1ODG
10084
0.07000
1
6.9000
4.900
99.0
0.38400
2.75
2.90
2.000
1
5.00
100.0
refinement
CNS
1.0
data reduction
MOSFLM
data scaling
SCALA
phasing
AMoRE
Very-short-patch DNA repair endonuclease bound to its reaction product site
1
N
N
2
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
THE TRIMERIC ASSEMBLY DESCRIBED HERE IS
FORMED BYTHE COMPLEX OF PROTEIN CHAIN A WITH DNA
CHAINS F,W
A
ILE
24
A
ILE
2
HELX_P
A
THR
33
A
THR
11
1
1
10
A
GLY
34
A
GLY
12
HELX_P
A
GLY
36
A
GLY
14
5
2
3
A
ARG
82
A
ARG
60
HELX_P
A
LEU
107
A
LEU
85
1
3
26
A
GLU
116
A
GLU
94
HELX_P
A
LEU
119
A
LEU
97
5
4
4
A
THR
126
A
THR
104
HELX_P
A
CYS
139
A
CYS
117
1
5
14
covale
1.610
both
F
DC
5
B
O3'
DC
5
1_555
F
5CM
6
B
P
5CM
6
1_555
covale
1.615
both
F
5CM
6
B
O3'
5CM
6
1_555
F
DT
7
B
P
DT
7
1_555
covale
1.614
both
W
DC
5
C
O3'
DC
5
1_555
W
5CM
6
C
P
5CM
6
1_555
covale
1.620
both
W
5CM
6
C
O3'
5CM
6
1_555
W
DT
7
C
P
DT
7
1_555
metalc
2.145
A
CYS
66
A
SG
CYS
44
1_555
A
ZN
200
D
ZN
ZN
1_555
metalc
1.859
A
HIS
71
A
ND1
HIS
49
1_555
A
ZN
200
D
ZN
ZN
1_555
metalc
1.948
A
CYS
73
A
SG
CYS
51
1_555
A
ZN
200
D
ZN
ZN
1_555
metalc
2.508
A
CYS
117
A
SG
CYS
95
1_555
A
ZN
200
D
ZN
ZN
1_555
hydrog
TYPE_28_PAIR
F
DT
1
B
N3
DT
1
1_555
W
DG
8
C
O6
DG
8
1_555
hydrog
TYPE_28_PAIR
F
DT
1
B
O2
DT
1
1_555
W
DG
8
C
N1
DG
8
1_555
hydrog
HOOGSTEEN
F
DA
2
B
N6
DA
2
1_555
W
DT
7
C
O4
DT
7
1_555
hydrog
HOOGSTEEN
F
DA
2
B
N7
DA
2
1_555
W
DT
7
C
N3
DT
7
1_555
hydrog
WATSON-CRICK
F
DG
3
B
N1
DG
3
1_555
W
5CM
6
C
N3
5CM
6
1_555
hydrog
WATSON-CRICK
F
DG
3
B
N2
DG
3
1_555
W
5CM
6
C
O2
5CM
6
1_555
hydrog
WATSON-CRICK
F
DG
3
B
O6
DG
3
1_555
W
5CM
6
C
N4
5CM
6
1_555
hydrog
WATSON-CRICK
F
DG
4
B
N1
DG
4
1_555
W
DC
5
C
N3
DC
5
1_555
hydrog
WATSON-CRICK
F
DG
4
B
N2
DG
4
1_555
W
DC
5
C
O2
DC
5
1_555
hydrog
WATSON-CRICK
F
DG
4
B
O6
DG
4
1_555
W
DC
5
C
N4
DC
5
1_555
hydrog
WATSON-CRICK
F
DC
5
B
N3
DC
5
1_555
W
DG
4
C
N1
DG
4
1_555
hydrog
WATSON-CRICK
F
DC
5
B
N4
DC
5
1_555
W
DG
4
C
O6
DG
4
1_555
hydrog
WATSON-CRICK
F
DC
5
B
O2
DC
5
1_555
W
DG
4
C
N2
DG
4
1_555
hydrog
WATSON-CRICK
F
5CM
6
B
N3
5CM
6
1_555
W
DG
3
C
N1
DG
3
1_555
hydrog
WATSON-CRICK
F
5CM
6
B
N4
5CM
6
1_555
W
DG
3
C
O6
DG
3
1_555
hydrog
WATSON-CRICK
F
5CM
6
B
O2
5CM
6
1_555
W
DG
3
C
N2
DG
3
1_555
hydrog
HOOGSTEEN
F
DT
7
B
N3
DT
7
1_555
W
DA
2
C
N7
DA
2
1_555
hydrog
HOOGSTEEN
F
DT
7
B
O4
DT
7
1_555
W
DA
2
C
N6
DA
2
1_555
hydrog
TYPE_28_PAIR
F
DG
8
B
N1
DG
8
1_555
W
DT
1
C
O2
DT
1
1_555
hydrog
TYPE_28_PAIR
F
DG
8
B
O6
DG
8
1_555
W
DT
1
C
N3
DT
1
1_555
HYDROLASE
HYDROLASE, DNA REPAIR, ENDONUCLEASE, VERY SHORT PATCH REPAIR, DNA REPAI HYDROLASE, NUCLEASE, ZINC, METAL-BINDING
VSR_ECOLI
UNP
1
P09184
1ODG
PDB
2
1ODG
22
155
1ODG
23
156
P09184
A
1
1
134
1
12
1ODG
1
12
1ODG
F
2
1
12
1
12
1ODG
1
12
1ODG
W
2
1
12
6
anti-parallel
anti-parallel
parallel
parallel
anti-parallel
A
PHE
39
A
PHE
17
A
VAL
41
A
VAL
19
A
PHE
52
A
PHE
30
A
VAL
54
A
VAL
32
A
CYS
59
A
CYS
37
A
PHE
62
A
PHE
40
A
ARG
110
A
ARG
88
A
VAL
114
A
VAL
92
A
ALA
145
A
ALA
123
A
ASP
148
A
ASP
126
A
GLY
151
A
GLY
129
A
LEU
154
A
LEU
132
BINDING SITE FOR RESIDUE ZN A 200
A
ZN
200
Software
4
A
CYS
66
A
CYS
44
4
1_555
A
HIS
71
A
HIS
49
4
1_555
A
CYS
73
A
CYS
51
4
1_555
A
CYS
117
A
CYS
95
4
1_555
169
P 61