0.012265
0.000000
0.001298
0.000000
0.026241
0.000000
0.000000
0.000000
0.016292
0.000000
0.000000
0.000000
Samara, N.L.
Yang, W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.000
96.040
90.000
81.530
38.108
61.723
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA 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
C9 H14 N3 O8 P
323.197
y
CYTIDINE-5'-MONOPHOSPHATE
RNA 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
C2 H6 O2
62.068
1,2-ETHANEDIOL
ETHYLENE GLYCOL
non-polymer
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA 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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
I -1
126.904
IODIDE ION
non-polymer
K 1
39.098
POTASSIUM ION
non-polymer
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
Mg 2
24.305
MAGNESIUM 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
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
O
N
2
N
P
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
C
N
7
R
C
N
8
N
O
N
9
S
C
N
10
N
O
N
11
R
C
N
12
N
O
N
13
R
C
Y
14
N
N
Y
15
N
C
Y
16
N
N
Y
17
N
C
Y
18
N
C
N
19
N
N
Y
20
N
N
Y
21
N
C
Y
22
N
N
Y
23
N
C
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
O
N
112
N
P
N
113
N
O
N
114
N
O
N
115
N
O
N
116
N
C
N
117
R
C
N
118
N
O
N
119
S
C
N
120
N
O
N
121
R
C
N
122
N
O
N
123
R
C
N
124
N
N
N
125
N
C
N
126
N
O
N
127
N
N
N
128
N
C
N
129
N
N
N
130
N
C
N
131
N
C
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
O
N
147
N
P
N
148
N
O
N
149
N
O
N
150
N
O
N
151
N
C
N
152
R
C
N
153
N
O
N
154
S
C
N
155
N
O
N
156
N
C
N
157
R
C
Y
158
N
N
Y
159
N
C
Y
160
N
N
Y
161
N
C
Y
162
N
C
N
163
N
N
Y
164
N
N
Y
165
N
C
Y
166
N
N
Y
167
N
C
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
O
N
183
N
P
N
184
N
O
N
185
N
O
N
186
N
O
N
187
N
C
N
188
R
C
N
189
N
O
N
190
S
C
N
191
N
O
N
192
N
C
N
193
R
C
N
194
N
N
N
195
N
C
N
196
N
O
N
197
N
N
N
198
N
C
N
199
N
N
N
200
N
C
N
201
N
C
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
O
N
217
N
P
N
218
N
O
N
219
N
O
N
220
N
O
N
221
N
C
N
222
R
C
N
223
N
O
N
224
S
C
N
225
N
O
N
226
N
C
N
227
R
C
Y
228
N
N
Y
229
N
C
Y
230
N
N
Y
231
N
C
N
232
N
C
N
233
N
O
N
234
N
N
N
235
N
C
N
236
N
N
N
237
N
N
Y
238
N
C
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
O
N
254
N
P
N
255
N
O
N
256
N
O
N
257
N
O
N
258
N
C
N
259
R
C
N
260
N
O
N
261
S
C
N
262
N
O
N
263
N
C
N
264
R
C
N
265
N
N
N
266
N
C
N
267
N
O
N
268
N
N
N
269
N
C
N
270
N
O
N
271
N
C
N
272
N
C
N
273
N
C
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
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
H
N
289
N
C
N
290
N
O
N
291
N
C
N
292
N
O
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
O
N
300
N
P
N
301
N
O
N
302
N
O
N
303
N
O
N
304
N
C
N
305
R
C
N
306
N
O
N
307
S
C
N
308
N
O
N
309
R
C
N
310
N
O
N
311
R
C
Y
312
N
N
Y
313
N
C
Y
314
N
N
Y
315
N
C
N
316
N
C
N
317
N
O
N
318
N
N
N
319
N
C
N
320
N
N
N
321
N
N
Y
322
N
C
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
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
N
N
338
S
C
N
339
N
C
N
340
N
O
N
341
N
C
N
342
N
C
N
343
N
C
N
344
N
O
N
345
N
N
N
346
N
O
N
347
N
H
N
348
N
H
N
349
N
H
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
N
N
358
S
C
N
359
N
C
N
360
N
O
N
361
N
C
N
362
N
C
N
363
N
C
N
364
N
O
N
365
N
O
N
366
N
O
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
N
N
377
N
C
N
378
N
C
N
379
N
O
N
380
N
O
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
C
N
387
N
O
N
388
N
C
N
389
N
O
N
390
N
C
N
391
N
O
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
N
N
401
S
C
N
402
N
C
N
403
N
O
N
404
N
C
Y
405
N
C
Y
406
N
N
Y
407
N
C
Y
408
N
C
Y
409
N
N
N
410
N
O
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
O
N
422
N
H
N
423
N
H
N
424
N
N
N
425
S
C
N
426
N
C
N
427
N
O
N
428
S
C
N
429
N
C
N
430
N
C
N
431
N
C
N
432
N
O
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
I
N
447
N
K
N
448
N
N
N
449
S
C
N
450
N
C
N
451
N
O
N
452
N
C
N
453
N
C
N
454
N
C
N
455
N
C
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
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
N
N
471
S
C
N
472
N
C
N
473
N
O
N
474
N
C
N
475
N
C
N
476
N
C
N
477
N
C
N
478
N
N
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
H
N
493
N
H
N
494
N
H
N
495
N
N
N
496
S
C
N
497
N
C
N
498
N
O
N
499
N
C
N
500
N
C
N
501
N
S
N
502
N
C
N
503
N
O
N
504
N
H
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
MG
N
516
N
N
N
517
S
C
N
518
N
C
N
519
N
O
N
520
N
C
Y
521
N
C
Y
522
N
C
Y
523
N
C
Y
524
N
C
Y
525
N
C
Y
526
N
C
N
527
N
O
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
535
N
H
N
536
N
H
N
537
N
H
N
538
N
H
N
539
N
N
N
540
S
C
N
541
N
C
N
542
N
O
N
543
N
C
N
544
N
C
N
545
N
C
N
546
N
O
N
547
N
H
N
548
N
H
N
549
N
H
N
550
N
H
N
551
N
H
N
552
N
H
N
553
N
H
N
554
N
H
N
555
N
H
N
556
N
N
N
557
S
C
N
558
N
C
N
559
N
O
N
560
N
C
N
561
N
O
N
562
N
O
N
563
N
H
N
564
N
H
N
565
N
H
N
566
N
H
N
567
N
H
N
568
N
H
N
569
N
H
N
570
N
N
N
571
S
C
N
572
N
C
N
573
N
O
N
574
R
C
N
575
N
O
N
576
N
C
N
577
N
O
N
578
N
H
N
579
N
H
N
580
N
H
N
581
N
H
N
582
N
H
N
583
N
H
N
584
N
H
N
585
N
H
N
586
N
H
N
587
N
N
N
588
S
C
N
589
N
C
N
590
N
O
N
591
N
C
Y
592
N
C
Y
593
N
C
Y
594
N
C
Y
595
N
N
Y
596
N
C
Y
597
N
C
Y
598
N
C
Y
599
N
C
Y
600
N
C
N
601
N
O
N
602
N
H
N
603
N
H
N
604
N
H
N
605
N
H
N
606
N
H
N
607
N
H
N
608
N
H
N
609
N
H
N
610
N
H
N
611
N
H
N
612
N
H
N
613
N
H
N
614
N
N
N
615
S
C
N
616
N
C
N
617
N
O
N
618
N
C
Y
619
N
C
Y
620
N
C
Y
621
N
C
Y
622
N
C
Y
623
N
C
Y
624
N
C
N
625
N
O
N
626
N
O
N
627
N
H
N
628
N
H
N
629
N
H
N
630
N
H
N
631
N
H
N
632
N
H
N
633
N
H
N
634
N
H
N
635
N
H
N
636
N
H
N
637
N
H
N
638
N
O
N
639
N
P
N
640
N
O
N
641
N
O
N
642
N
O
N
643
N
C
N
644
R
C
N
645
N
O
N
646
S
C
N
647
N
O
N
648
R
C
N
649
N
O
N
650
R
C
N
651
N
N
N
652
N
C
N
653
N
O
N
654
N
N
N
655
N
C
N
656
N
O
N
657
N
C
N
658
N
C
N
659
N
H
N
660
N
H
N
661
N
H
N
662
N
H
N
663
N
H
N
664
N
H
N
665
N
H
N
666
N
H
N
667
N
H
N
668
N
H
N
669
N
H
N
670
N
H
N
671
N
H
N
672
N
N
N
673
S
C
N
674
N
C
N
675
N
O
N
676
N
C
N
677
N
C
N
678
N
C
N
679
N
O
N
680
N
H
N
681
N
H
N
682
N
H
N
683
N
H
N
684
N
H
N
685
N
H
N
686
N
H
N
687
N
H
N
688
N
H
N
689
N
H
N
690
N
H
N
1
N
sing
N
2
N
sing
N
3
N
doub
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
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
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
Y
29
N
sing
Y
30
N
sing
Y
31
N
doub
N
32
N
sing
Y
33
N
doub
N
34
N
sing
N
35
N
sing
Y
36
N
sing
Y
37
N
doub
N
38
N
sing
Y
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
sing
N
46
N
doub
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
sing
N
58
N
doub
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
sing
N
72
N
doub
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
sing
N
84
N
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
doub
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
doub
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
doub
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
doub
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
doub
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
Y
168
N
sing
Y
169
N
sing
Y
170
N
doub
N
171
N
sing
Y
172
N
sing
Y
173
N
sing
Y
174
N
doub
N
175
N
sing
Y
176
N
doub
N
177
N
sing
N
178
N
sing
Y
179
N
sing
Y
180
N
doub
N
181
N
sing
Y
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
doub
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
doub
N
209
N
sing
N
210
N
doub
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
doub
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
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
Y
241
N
sing
Y
242
N
sing
Y
243
N
doub
N
244
N
sing
Y
245
N
sing
N
246
N
sing
Y
247
N
doub
N
248
N
doub
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
doub
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
doub
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
doub
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
doub
N
287
N
sing
N
288
N
sing
N
289
N
doub
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
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
doub
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
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
Y
327
N
sing
Y
328
N
sing
Y
329
N
doub
N
330
N
sing
Y
331
N
sing
N
332
N
sing
Y
333
N
doub
N
334
N
doub
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
doub
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
doub
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
doub
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
doub
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
doub
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
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
doub
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
Y
413
N
sing
Y
414
N
doub
Y
415
N
doub
N
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
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
doub
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
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
sing
N
452
N
doub
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
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
doub
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
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
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
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
sing
N
509
N
sing
N
510
N
sing
N
511
N
sing
N
512
N
sing
N
513
N
sing
N
514
N
sing
N
515
N
sing
N
516
N
doub
N
517
N
sing
N
518
N
sing
N
519
N
sing
N
520
N
sing
Y
521
N
doub
Y
522
N
sing
Y
523
N
sing
N
524
N
sing
Y
525
N
doub
N
526
N
sing
Y
527
N
doub
N
528
N
sing
Y
529
N
sing
N
530
N
sing
N
531
N
sing
N
532
N
sing
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
doub
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
sing
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
doub
N
557
N
sing
N
558
N
sing
N
559
N
sing
N
560
N
sing
N
561
N
sing
N
562
N
sing
N
563
N
sing
N
564
N
sing
N
565
N
sing
N
566
N
sing
N
567
N
sing
N
568
N
sing
N
569
N
doub
N
570
N
sing
N
571
N
sing
N
572
N
sing
N
573
N
sing
N
574
N
sing
N
575
N
sing
N
576
N
sing
N
577
N
sing
N
578
N
sing
N
579
N
sing
N
580
N
sing
N
581
N
sing
N
582
N
sing
N
583
N
sing
N
584
N
sing
N
585
N
doub
N
586
N
sing
N
587
N
sing
N
588
N
sing
N
589
N
sing
Y
590
N
doub
Y
591
N
sing
Y
592
N
sing
N
593
N
sing
Y
594
N
doub
Y
595
N
sing
Y
596
N
sing
N
597
N
sing
Y
598
N
sing
Y
599
N
doub
N
600
N
sing
Y
601
N
doub
N
602
N
sing
Y
603
N
sing
N
604
N
sing
N
605
N
sing
N
606
N
sing
N
607
N
sing
N
608
N
sing
N
609
N
sing
N
610
N
sing
N
611
N
sing
N
612
N
sing
N
613
N
doub
N
614
N
sing
N
615
N
sing
N
616
N
sing
N
617
N
sing
Y
618
N
doub
Y
619
N
sing
Y
620
N
sing
N
621
N
sing
Y
622
N
doub
N
623
N
sing
Y
624
N
doub
N
625
N
sing
Y
626
N
sing
N
627
N
sing
N
628
N
sing
N
629
N
sing
N
630
N
sing
N
631
N
sing
N
632
N
sing
N
633
N
doub
N
634
N
sing
N
635
N
sing
N
636
N
sing
N
637
N
sing
N
638
N
sing
N
639
N
sing
N
640
N
sing
N
641
N
sing
N
642
N
sing
N
643
N
sing
N
644
N
sing
N
645
N
sing
N
646
N
sing
N
647
N
sing
N
648
N
sing
N
649
N
sing
N
650
N
sing
N
651
N
sing
N
652
N
sing
N
653
N
sing
N
654
N
sing
N
655
N
sing
N
656
N
sing
N
657
N
doub
N
658
N
sing
N
659
N
sing
N
660
N
sing
N
661
N
doub
N
662
N
sing
N
663
N
doub
N
664
N
sing
N
665
N
sing
N
666
N
sing
N
667
N
sing
N
668
N
sing
N
669
N
sing
N
670
N
sing
N
671
N
sing
N
672
N
doub
N
673
N
sing
N
674
N
sing
N
675
N
sing
N
676
N
sing
N
677
N
sing
N
678
N
sing
N
679
N
sing
N
680
N
sing
N
681
N
sing
N
682
N
sing
N
683
N
sing
US
Nat. Struct. Mol. Biol.
1545-9985
25
715
721
10.1038/s41594-018-0099-4
30076410
Cation trafficking propels RNA hydrolysis.
2018
0000-0002-3591-2195
10.2210/pdb6dp3/pdb
pdb_00006dp3
100
1
CCD
2017-06-23
MARMOSAIC 225 mm CCD
SINGLE WAVELENGTH
M
x-ray
1
1
1.0
23-ID-B
APS
1
SYNCHROTRON
APS BEAMLINE 23-ID-B
16330.462
Ribonuclease H
3.1.26.4
Catalytic Domain residues 59-196
1
man
polymer
1224.802
5'-R(*AP*CP*AP*U)-3' portion of cleaved RNA 5'-R(*AP*CP*AP*UP*CP*G)-3'
1
syn
polymer
605.430
5'-R(P*CP*G)-3' portion of cleaved RNA 5'-R(*AP*CP*AP*UP*CP*G)-3'
1
syn
polymer
1824.228
DNA (5'-D(*CP*GP*AP*TP*GP*T)-3')
1
syn
polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
39.098
POTASSIUM ION
3
syn
non-polymer
126.904
IODIDE ION
3
syn
non-polymer
92.094
GLYCEROL
9
syn
non-polymer
62.068
1,2-ETHANEDIOL
6
syn
non-polymer
18.015
water
110
nat
water
RNase H
no
no
GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQ
TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQ
TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
A
polypeptide(L)
no
no
ACAU
ACAU
B
polyribonucleotide
no
no
CG
CG
b
polyribonucleotide
no
no
(DC)(DG)(DA)(DT)(DG)(DT)
CGATGT
C
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
ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125
sample
1
142
rnhA, BH0863
272558
Bacillus halodurans
469008
Escherichia coli BL21(DE3)
BL21(DE3)
plasmid
Biological sequence
pET15b
1
2.46
49.91
VAPOR DIFFUSION, HANGING DROP
14% PEG3350, 20% glycerol, 200 mM KI, and 25 mM CaCl2
294
-2.026
1
20
B
1
C
6
1.186
B_A1:DT6_C
1
-3.928
0.280
-0.228
-0.199
8.105
1
19
B
2
C
5
2.110
B_C2:DG5_C
2
-13.544
0.338
-0.009
-0.099
-3.356
1
20
B
3
C
4
1.341
B_A3:DT4_C
3
-7.633
0.089
-0.116
-0.113
3.660
1
20
B
4
C
3
4.570
B_U4:DA3_C
4
-11.491
0.099
-0.064
-0.136
-3.901
1
19
b
5
C
2
1.592
b_C5:DG2_C
5
-11.675
0.224
0.039
-0.155
-6.523
1
19
b
6
C
1
-1.845
b_G6:DC1_C
6
-5.958
-0.086
-0.140
-0.115
2.911
34.282
B
B
1
2
5.505
C
C
6
5
3.073
3.238
0.852
-0.969
BB_A1C2:DG5DT6_CC
1
-2.219
3.773
34.063
-2.111
-1.766
2.830
29.914
B
B
2
3
20.698
C
C
5
4
3.506
10.464
-0.674
-1.430
BB_C2A3:DT4DG5_CC
2
-1.377
2.725
28.030
-4.940
1.019
3.070
25.848
B
B
3
4
5.404
C
C
4
3
3.224
2.412
1.068
-2.261
BB_A3U4:DA3DT4_CC
3
1.840
-4.123
25.672
-5.702
-1.894
3.068
32.083
B
b
4
5
9.315
C
C
3
2
3.474
5.126
-0.615
-2.182
Bb_U4C5:DG2DA3_CC
4
1.125
-2.044
31.662
-4.876
1.316
3.135
24.645
b
b
5
6
10.029
C
C
2
1
3.454
4.229
0.741
-2.052
bb_C5G6:DC1DG2_CC
5
5.162
-12.242
23.738
-6.136
-0.113
citation
citation_author
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_conn_type
repository
Initial release
Data collection
Database references
Data collection
Database references
Derived calculations
Refinement description
1
0
2018-08-15
1
1
2018-08-22
1
2
2023-10-11
_citation.country
_citation.journal_abbrev
_citation.journal_id_CSD
_citation.journal_id_ISSN
_citation.journal_volume
_citation.page_first
_citation.page_last
_citation.pdbx_database_id_DOI
_citation.pdbx_database_id_PubMed
_citation.title
_citation.year
_citation_author.identifier_ORCID
_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_alt_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_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_alt_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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_value_order
_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
N
RCSB
Y
RCSB
2018-06-09
REL
REL
The structures represent different time points in the divalent and monovalent metal-dependent hydrolysis reaction of RNA by Ribonuclease H1, which is bound to an RNA/DNA hybrid in the crystal.
Cleavage of RNA by B. Halodurans Ribonuclease H1
undefined
K
K
SUBJECT OF INVESTIGATION
MG
MG
SUBJECT OF INVESTIGATION
MG
MAGNESIUM ION
K
POTASSIUM ION
IOD
IODIDE ION
GOL
GLYCEROL
EDO
1,2-ETHANEDIOL
HOH
water
32630
synthetic construct
sample
1
4
32630
synthetic construct
sample
1
2
32630
synthetic construct
sample
1
6
1ZBL
PDB
experimental model
MG
201
5
MG
MG
201
A
MG
202
5
MG
MG
202
A
K
211
6
K
K
203
A
K
212
6
K
K
204
A
IOD
2
7
IOD
IOD
205
A
IOD
3
7
IOD
IOD
206
A
IOD
4
7
IOD
IOD
207
A
GOL
5
8
GOL
GOL
208
A
GOL
10
8
GOL
GOL
209
A
GOL
11
8
GOL
GOL
210
A
GOL
12
8
GOL
GOL
211
A
EDO
1
9
EDO
EDO
212
A
EDO
3
9
EDO
EDO
213
A
EDO
4
9
EDO
EDO
214
A
EDO
5
9
EDO
EDO
215
A
EDO
6
9
EDO
EDO
216
A
GOL
1
8
GOL
GOL
217
A
GOL
2
8
GOL
GOL
218
A
GOL
4
8
GOL
GOL
219
A
GOL
5
8
GOL
GOL
220
A
K
213
6
K
K
101
C
EDO
7
9
EDO
EDO
102
C
GOL
3
8
GOL
GOL
103
C
HOH
205
10
HOH
HOH
301
A
HOH
88
10
HOH
HOH
302
A
HOH
204
10
HOH
HOH
303
A
HOH
195
10
HOH
HOH
304
A
HOH
188
10
HOH
HOH
305
A
HOH
66
10
HOH
HOH
306
A
HOH
64
10
HOH
HOH
307
A
HOH
131
10
HOH
HOH
308
A
HOH
85
10
HOH
HOH
309
A
HOH
58
10
HOH
HOH
310
A
HOH
116
10
HOH
HOH
311
A
HOH
105
10
HOH
HOH
312
A
HOH
34
10
HOH
HOH
313
A
HOH
15
10
HOH
HOH
314
A
HOH
127
10
HOH
HOH
315
A
HOH
35
10
HOH
HOH
316
A
HOH
36
10
HOH
HOH
317
A
HOH
20
10
HOH
HOH
318
A
HOH
43
10
HOH
HOH
319
A
HOH
59
10
HOH
HOH
320
A
HOH
207
10
HOH
HOH
321
A
HOH
40
10
HOH
HOH
322
A
HOH
38
10
HOH
HOH
323
A
HOH
60
10
HOH
HOH
324
A
HOH
117
10
HOH
HOH
325
A
HOH
200
10
HOH
HOH
326
A
HOH
51
10
HOH
HOH
327
A
HOH
114
10
HOH
HOH
328
A
HOH
199
10
HOH
HOH
329
A
HOH
1
10
HOH
HOH
330
A
HOH
94
10
HOH
HOH
331
A
HOH
173
10
HOH
HOH
332
A
HOH
82
10
HOH
HOH
333
A
HOH
95
10
HOH
HOH
334
A
HOH
52
10
HOH
HOH
335
A
HOH
53
10
HOH
HOH
336
A
HOH
61
10
HOH
HOH
337
A
HOH
19
10
HOH
HOH
338
A
HOH
10
10
HOH
HOH
339
A
HOH
55
10
HOH
HOH
340
A
HOH
75
10
HOH
HOH
341
A
HOH
193
10
HOH
HOH
342
A
HOH
32
10
HOH
HOH
343
A
HOH
21
10
HOH
HOH
344
A
HOH
177
10
HOH
HOH
345
A
HOH
185
10
HOH
HOH
346
A
HOH
181
10
HOH
HOH
347
A
HOH
180
10
HOH
HOH
348
A
HOH
31
10
HOH
HOH
349
A
HOH
50
10
HOH
HOH
350
A
HOH
92
10
HOH
HOH
351
A
HOH
13
10
HOH
HOH
352
A
HOH
72
10
HOH
HOH
353
A
HOH
142
10
HOH
HOH
354
A
HOH
149
10
HOH
HOH
355
A
HOH
8
10
HOH
HOH
356
A
HOH
202
10
HOH
HOH
357
A
HOH
45
10
HOH
HOH
358
A
HOH
141
10
HOH
HOH
359
A
HOH
81
10
HOH
HOH
360
A
HOH
57
10
HOH
HOH
361
A
HOH
17
10
HOH
HOH
362
A
HOH
37
10
HOH
HOH
363
A
HOH
93
10
HOH
HOH
364
A
HOH
14
10
HOH
HOH
365
A
HOH
179
10
HOH
HOH
366
A
HOH
48
10
HOH
HOH
367
A
HOH
7
10
HOH
HOH
368
A
HOH
206
10
HOH
HOH
369
A
HOH
9
10
HOH
HOH
370
A
HOH
96
10
HOH
HOH
371
A
HOH
146
10
HOH
HOH
372
A
HOH
2
10
HOH
HOH
373
A
HOH
91
10
HOH
HOH
374
A
HOH
133
10
HOH
HOH
375
A
HOH
197
10
HOH
HOH
376
A
HOH
198
10
HOH
HOH
377
A
HOH
24
10
HOH
HOH
378
A
HOH
74
10
HOH
HOH
379
A
HOH
90
10
HOH
HOH
380
A
HOH
121
10
HOH
HOH
381
A
HOH
125
10
HOH
HOH
382
A
HOH
77
10
HOH
HOH
383
A
HOH
76
10
HOH
HOH
384
A
HOH
143
10
HOH
HOH
385
A
HOH
196
10
HOH
HOH
386
A
HOH
194
10
HOH
HOH
101
B
HOH
201
10
HOH
HOH
102
B
HOH
16
10
HOH
HOH
103
B
HOH
190
10
HOH
HOH
104
B
HOH
69
10
HOH
HOH
105
B
HOH
169
10
HOH
HOH
106
B
HOH
110
10
HOH
HOH
107
B
HOH
119
10
HOH
HOH
101
b
HOH
104
10
HOH
HOH
102
b
HOH
112
10
HOH
HOH
103
b
HOH
100
10
HOH
HOH
104
b
HOH
18
10
HOH
HOH
201
C
HOH
171
10
HOH
HOH
202
C
HOH
109
10
HOH
HOH
203
C
HOH
191
10
HOH
HOH
204
C
HOH
186
10
HOH
HOH
205
C
HOH
172
10
HOH
HOH
206
C
HOH
12
10
HOH
HOH
207
C
HOH
168
10
HOH
HOH
208
C
HOH
203
10
HOH
HOH
209
C
HOH
136
10
HOH
HOH
210
C
HOH
73
10
HOH
HOH
211
C
HOH
187
10
HOH
HOH
212
C
HOH
170
10
HOH
HOH
213
C
n
1
55
A
n
2
56
A
n
3
57
A
n
4
58
A
n
5
59
A
n
6
60
A
GLU
61
n
7
GLU
61
A
GLU
62
n
8
GLU
62
A
ILE
63
n
9
ILE
63
A
ILE
64
n
10
ILE
64
A
TRP
65
n
11
TRP
65
A
GLU
66
n
12
GLU
66
A
SER
67
n
13
SER
67
A
LEU
68
n
14
LEU
68
A
SER
69
n
15
SER
69
A
VAL
70
n
16
VAL
70
A
ASP
71
n
17
ASP
71
A
VAL
72
n
18
VAL
72
A
GLY
73
n
19
GLY
73
A
SER
74
n
20
SER
74
A
GLN
75
n
21
GLN
75
A
GLY
76
n
22
GLY
76
A
ASN
77
n
23
ASN
77
A
PRO
78
n
24
PRO
78
A
GLY
79
n
25
GLY
79
A
ILE
80
n
26
ILE
80
A
VAL
81
n
27
VAL
81
A
GLU
82
n
28
GLU
82
A
TYR
83
n
29
TYR
83
A
LYS
84
n
30
LYS
84
A
GLY
85
n
31
GLY
85
A
VAL
86
n
32
VAL
86
A
ASP
87
n
33
ASP
87
A
THR
88
n
34
THR
88
A
LYS
89
n
35
LYS
89
A
THR
90
n
36
THR
90
A
GLY
91
n
37
GLY
91
A
GLU
92
n
38
GLU
92
A
VAL
93
n
39
VAL
93
A
LEU
94
n
40
LEU
94
A
PHE
95
n
41
PHE
95
A
GLU
96
n
42
GLU
96
A
ARG
97
n
43
ARG
97
A
GLU
98
n
44
GLU
98
A
PRO
99
n
45
PRO
99
A
ILE
100
n
46
ILE
100
A
PRO
101
n
47
PRO
101
A
ILE
102
n
48
ILE
102
A
GLY
103
n
49
GLY
103
A
THR
104
n
50
THR
104
A
ASN
105
n
51
ASN
105
A
ASN
106
n
52
ASN
106
A
MET
107
n
53
MET
107
A
GLY
108
n
54
GLY
108
A
GLU
109
n
55
GLU
109
A
PHE
110
n
56
PHE
110
A
LEU
111
n
57
LEU
111
A
ALA
112
n
58
ALA
112
A
ILE
113
n
59
ILE
113
A
VAL
114
n
60
VAL
114
A
HIS
115
n
61
HIS
115
A
GLY
116
n
62
GLY
116
A
LEU
117
n
63
LEU
117
A
ARG
118
n
64
ARG
118
A
TYR
119
n
65
TYR
119
A
LEU
120
n
66
LEU
120
A
LYS
121
n
67
LYS
121
A
GLU
122
n
68
GLU
122
A
ARG
123
n
69
ARG
123
A
ASN
124
n
70
ASN
124
A
SER
125
n
71
SER
125
A
ARG
126
n
72
ARG
126
A
LYS
127
n
73
LYS
127
A
PRO
128
n
74
PRO
128
A
ILE
129
n
75
ILE
129
A
TYR
130
n
76
TYR
130
A
SER
131
n
77
SER
131
A
ASP
132
n
78
ASP
132
A
SER
133
n
79
SER
133
A
GLN
134
n
80
GLN
134
A
THR
135
n
81
THR
135
A
ALA
136
n
82
ALA
136
A
ILE
137
n
83
ILE
137
A
LYS
138
n
84
LYS
138
A
TRP
139
n
85
TRP
139
A
VAL
140
n
86
VAL
140
A
LYS
141
n
87
LYS
141
A
ASP
142
n
88
ASP
142
A
LYS
143
n
89
LYS
143
A
LYS
144
n
90
LYS
144
A
ALA
145
n
91
ALA
145
A
LYS
146
n
92
LYS
146
A
SER
147
n
93
SER
147
A
THR
148
n
94
THR
148
A
LEU
149
n
95
LEU
149
A
VAL
150
n
96
VAL
150
A
ARG
151
n
97
ARG
151
A
ASN
152
n
98
ASN
152
A
GLU
153
n
99
GLU
153
A
GLU
154
n
100
GLU
154
A
THR
155
n
101
THR
155
A
ALA
156
n
102
ALA
156
A
LEU
157
n
103
LEU
157
A
ILE
158
n
104
ILE
158
A
TRP
159
n
105
TRP
159
A
LYS
160
n
106
LYS
160
A
LEU
161
n
107
LEU
161
A
VAL
162
n
108
VAL
162
A
ASP
163
n
109
ASP
163
A
GLU
164
n
110
GLU
164
A
ALA
165
n
111
ALA
165
A
GLU
166
n
112
GLU
166
A
GLU
167
n
113
GLU
167
A
TRP
168
n
114
TRP
168
A
LEU
169
n
115
LEU
169
A
ASN
170
n
116
ASN
170
A
THR
171
n
117
THR
171
A
HIS
172
n
118
HIS
172
A
THR
173
n
119
THR
173
A
TYR
174
n
120
TYR
174
A
GLU
175
n
121
GLU
175
A
THR
176
n
122
THR
176
A
PRO
177
n
123
PRO
177
A
ILE
178
n
124
ILE
178
A
LEU
179
n
125
LEU
179
A
LYS
180
n
126
LYS
180
A
TRP
181
n
127
TRP
181
A
GLN
182
n
128
GLN
182
A
THR
183
n
129
THR
183
A
ASP
184
n
130
ASP
184
A
LYS
185
n
131
LYS
185
A
TRP
186
n
132
TRP
186
A
GLY
187
n
133
GLY
187
A
GLU
188
n
134
GLU
188
A
ILE
189
n
135
ILE
189
A
LYS
190
n
136
LYS
190
A
ALA
191
n
137
ALA
191
A
ASP
192
n
138
ASP
192
A
TYR
193
n
139
TYR
193
A
GLY
194
n
140
GLY
194
A
ARG
195
n
141
ARG
195
A
LYS
196
n
142
LYS
196
A
A
1
n
1
A
1
B
C
2
n
2
C
2
B
A
3
n
3
A
3
B
U
4
n
4
U
4
B
C
5
n
1
C
5
b
G
6
n
2
G
6
b
DC
1
n
1
DC
1
C
DG
2
n
2
DG
2
C
DA
3
n
3
DA
3
C
DT
4
n
4
DT
4
C
DG
5
n
5
DG
5
C
DT
6
n
6
DT
6
C
8.0419
-1.9462
1.6142
1.8853
-1.1005
3.5163
0.1641
-0.0419
-0.2787
-0.1208
-0.0719
-0.0358
0.2249
0.2256
-0.1174
0.1584
0.0176
0.0225
0.1060
-0.0056
0.1197
refined
25.2912
-5.5831
17.3406
X-RAY DIFFRACTION
5.3516
-2.9591
-5.9838
2.4540
2.7949
7.3956
-0.1889
-0.3499
-0.9460
-0.1025
0.0273
-0.2331
0.8057
0.3862
0.2040
0.2253
0.0657
0.0444
0.1797
0.0699
0.2860
refined
27.9060
-11.5459
23.9589
X-RAY DIFFRACTION
4.7622
-0.1818
2.7640
0.8393
-0.1784
4.2495
0.1216
-0.2461
-0.1372
-0.0080
-0.0706
0.0311
0.1592
-0.1514
-0.0363
0.1306
0.0095
0.0193
0.0956
0.0109
0.1077
refined
21.7651
-1.1781
23.1848
X-RAY DIFFRACTION
8.8856
-3.1471
-0.4850
5.4896
4.7132
4.8794
-0.0128
0.0977
0.3602
-0.2843
-0.0132
-0.2852
-0.7135
0.1545
-0.0366
0.2565
-0.0072
0.0155
0.1524
0.0428
0.1734
refined
24.1290
9.2272
16.5008
X-RAY DIFFRACTION
7.2184
-0.2792
3.8594
2.8266
-0.5966
7.0139
-0.1067
0.0553
0.4938
-0.1912
-0.0261
0.5636
-0.2582
-0.4986
0.0957
0.1977
0.1197
0.0306
0.1586
-0.0558
0.1905
refined
8.7487
7.8561
15.8590
X-RAY DIFFRACTION
5.0111
3.4609
6.3000
2.8218
4.2171
8.1766
0.0709
-0.5576
0.1603
0.1022
-0.2481
0.1005
-0.0605
-0.5072
0.1624
0.1745
0.0467
0.0278
0.2092
-0.0334
0.1684
refined
12.6973
5.9057
24.7096
X-RAY DIFFRACTION
4.4790
-1.3893
-2.0348
3.5829
2.2953
5.3420
0.1673
0.1756
-0.1402
-0.4218
-0.0519
-0.2466
-0.0580
0.2907
-0.1537
0.1560
0.0692
0.0054
0.1544
0.0580
0.0951
refined
29.1087
-1.3851
17.2578
X-RAY DIFFRACTION
2.2577
-0.5501
2.0127
1.8464
-1.1763
2.3652
-0.0051
0.2538
-0.1748
-0.6727
-0.2842
-0.3572
0.3100
0.3146
0.3076
0.3368
0.0879
0.0783
0.2946
0.0275
0.1889
refined
23.9838
0.8360
4.9373
X-RAY DIFFRACTION
3.1737
-0.1236
-1.9363
7.9469
4.7417
6.3234
-0.0839
0.3008
0.0085
-0.8561
-0.2623
0.2023
-0.4096
-0.1568
0.3466
0.2628
0.0600
-0.0193
0.1931
0.0280
0.1359
refined
16.6219
3.4238
3.0843
X-RAY DIFFRACTION
A
61
A
87
X-RAY DIFFRACTION
1
chain 'A' and (resid 61 through 87 )
A
88
A
96
X-RAY DIFFRACTION
2
chain 'A' and (resid 88 through 96 )
A
97
A
133
X-RAY DIFFRACTION
3
chain 'A' and (resid 97 through 133 )
A
134
A
142
X-RAY DIFFRACTION
4
chain 'A' and (resid 134 through 142 )
A
143
A
155
X-RAY DIFFRACTION
5
chain 'A' and (resid 143 through 155 )
A
156
A
169
X-RAY DIFFRACTION
6
chain 'A' and (resid 156 through 169 )
A
170
A
196
X-RAY DIFFRACTION
7
chain 'A' and (resid 170 through 196 )
B
1
B
4
X-RAY DIFFRACTION
8
(chain 'B' and (resid 1 through 4 )) OR (chain 'b' and (resid 5 through 6 ))
C
1
C
6
X-RAY DIFFRACTION
9
chain 'C' and (resid 1 through 6 )
author_and_software_defined_assembly
PISA
4
tetrameric
none
7090
-33
8080
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
A
ASP
192
A
OD1
ASP
138
1_555
108.5
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
302
C
BA
O
HOH
1_555
166.4
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
302
C
BA
O
HOH
1_555
76.7
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
307
BA
O
HOH
1_555
88.4
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
307
BA
O
HOH
1_555
91.9
A
HOH
302
C
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
307
BA
O
HOH
1_555
104.2
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
317
BA
O
HOH
1_555
88.0
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
317
BA
O
HOH
1_555
83.4
A
HOH
302
C
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
317
BA
O
HOH
1_555
80.0
A
HOH
307
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
A
HOH
317
BA
O
HOH
1_555
172.9
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP3
C
1
1_555
156.0
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP3
C
1
1_555
95.5
A
HOH
302
C
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP3
C
1
1_555
21.7
A
HOH
307
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP3
C
1
1_555
92.9
A
HOH
317
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP3
C
1
1_555
92.8
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
94.2
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
156.9
A
HOH
302
C
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
82.1
A
HOH
307
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
84.3
A
HOH
317
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
102.0
b
C
5
B
C
OP3
C
1
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
62.1
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
92.0
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
159.4
A
HOH
302
C
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
83.7
A
HOH
307
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
87.0
A
HOH
317
BA
O
HOH
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
99.2
b
C
5
B
C
OP3
C
1
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
64.1
b
C
5
B
C
OP1
C
1
1_555
A
MG
201
E
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
3.5
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
A
GLU
109
A
OE1
GLU
55
1_555
97.9
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
A
ASP
132
A
OD1
ASP
78
1_555
136.8
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
A
ASP
132
A
OD1
ASP
78
1_555
95.6
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
A
ASP
132
A
OD2
ASP
78
1_555
101.4
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
A
ASP
132
A
OD2
ASP
78
1_555
152.8
A
ASP
132
A
OD1
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
A
ASP
132
A
OD2
ASP
78
1_555
57.3
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
B
U
4
C
B
O3'
U
4
1_555
146.2
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
B
U
4
C
B
O3'
U
4
1_555
85.4
A
ASP
132
A
OD1
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
B
U
4
C
B
O3'
U
4
1_555
75.6
A
ASP
132
A
OD2
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
B
U
4
C
B
O3'
U
4
1_555
89.0
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
90.5
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
107.0
A
ASP
132
A
OD1
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
124.1
A
ASP
132
A
OD2
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
91.8
B
U
4
C
B
O3'
U
4
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
B
C
OP1
C
1
1_555
56.9
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
84.4
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
108.3
A
ASP
132
A
OD1
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
129.1
A
ASP
132
A
OD2
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
92.5
B
U
4
C
B
O3'
U
4
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
62.9
b
C
5
B
C
OP1
C
1
1_555
A
MG
202
F
MG
MG
1_555
b
C
5
C
C
OP1
C
1
1_555
6.1
A
GLU
188
A
OE1
GLU
134
1_555
A
K
204
B
H
K
K
1_555
A
GLU
188
A
OE2
GLU
134
1_555
41.3
A
GLU
188
A
OE1
GLU
134
1_555
A
K
204
B
H
K
K
1_555
A
HOH
307
BA
O
HOH
1_555
84.6
A
GLU
188
A
OE2
GLU
134
1_555
A
K
204
B
H
K
K
1_555
A
HOH
307
BA
O
HOH
1_555
45.3
A
GLU
188
A
OE1
GLU
134
1_555
A
K
204
B
H
K
K
1_555
b
C
5
B
C
OP2
C
1
1_555
127.1
A
GLU
188
A
OE2
GLU
134
1_555
A
K
204
B
H
K
K
1_555
b
C
5
B
C
OP2
C
1
1_555
115.3
A
HOH
307
BA
O
HOH
1_555
A
K
204
B
H
K
K
1_555
b
C
5
B
C
OP2
C
1
1_555
78.8
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
ASP
192
A
OD2
ASP
138
1_555
40.6
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
302
C
BA
O
HOH
1_555
50.7
A
ASP
192
A
OD2
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
302
C
BA
O
HOH
1_555
84.4
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
317
BA
O
HOH
1_555
53.1
A
ASP
192
A
OD2
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
317
BA
O
HOH
1_555
91.4
A
HOH
302
C
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
A
HOH
317
BA
O
HOH
1_555
48.9
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
325
BA
O
HOH
1_555
80.5
A
ASP
192
A
OD2
ASP
138
1_555
A
K
203
C
G
K
K
1_555
A
HOH
325
BA
O
HOH
1_555
53.3
A
HOH
302
C
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
A
HOH
325
BA
O
HOH
1_555
89.3
A
HOH
317
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
A
HOH
325
BA
O
HOH
1_555
130.0
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
C
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
100.2
A
ASP
192
A
OD2
ASP
138
1_555
A
K
203
C
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
140.8
A
HOH
302
C
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
60.7
A
HOH
317
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
52.8
A
HOH
325
BA
O
HOH
1_555
A
K
203
C
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
135.5
C
DG
5
D
O6
DG
5
1_555
C
K
101
B
Y
K
K
1_555
C
HOH
203
B
EA
O
HOH
1_555
89.7
C
DG
5
D
O6
DG
5
1_555
C
K
101
B
Y
K
K
1_555
C
HOH
207
B
EA
O
HOH
1_555
94.3
C
HOH
203
B
EA
O
HOH
1_555
C
K
101
B
Y
K
K
1_555
C
HOH
207
B
EA
O
HOH
1_555
158.1
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
O
ILE
100
A
O
ILE
46
A
N
VAL
81
A
N
VAL
27
A
O
VAL
86
A
O
VAL
32
A
N
SER
69
A
N
SER
15
A
N
LEU
68
A
N
LEU
14
A
O
TYR
130
A
O
TYR
76
A
N
ILE
129
A
N
ILE
75
A
O
LEU
179
A
O
LEU
125
1
B
O2'
A
1
B
O2'
A
1
1
Y
1
b
O2'
G
6
C
O2'
G
2
1
Y
1
A
GLY
55
A
GLY
1
1
Y
1
A
SER
56
A
SER
2
1
Y
1
A
HIS
57
A
HIS
3
1
Y
1
A
MET
58
A
MET
4
1
Y
1
A
ALA
59
A
ALA
5
1
Y
1
A
LYS
60
A
LYS
6
1
Y
1
B
B
O3'
O
C
HOH
2
101
2.01
1
A
A
OH
O
TYR
HOH
83
301
2.14
A
1
8.48
1.20
120.80
129.28
B
B
B
C6
N1
C1'
C
C
C
2
2
2
N
1
-7.82
1.10
118.80
110.98
B
B
B
C2
N1
C1'
C
C
C
2
2
2
N
1
b
b
P
OP3
C
C
5
5
-0.163
0.012
1.607
1.444
B
B
N
184.620
32.2994
12.080
Structures refined in Phenix and nucleic acid and protein residues built in Coot
0.1980
0.1708
0.1721
1.4610
19.09
1646
32658
5.0400
99.3000
0.1600
1
THROUGHOUT
1.350
21.5100
0.9000
1.1100
1ZBL
1.4610
19.09
110
1550
72.54
42.06
86
244
1110
148
0.008
1528
1.085
2078
0.074
225
0.007
213
22.993
598
0.3243
0.0000
0.2898
1.5042
126
2490
2616
12
97.0000
0.2501
0.0000
0.2661
1.5527
137
2558
2695
12
99.0000
0.2937
0.0000
0.2352
1.6082
124
2582
2706
12
99.0000
0.2561
0.0000
0.2140
1.6726
148
2574
2722
12
100.0000
0.2089
0.0000
0.1991
1.7486
131
2563
2694
12
100.0000
0.2348
0.0000
0.1876
1.8407
131
2596
2727
12
100.0000
0.2067
0.0000
0.1735
1.9560
155
2614
2769
12
100.0000
0.1875
0.0000
0.1557
2.1068
144
2570
2714
12
100.0000
0.1838
0.0000
0.1559
2.3185
136
2601
2737
12
100.0000
0.2042
0.0000
0.1606
2.6532
145
2615
2760
12
100.0000
0.1773
0.0000
0.1558
3.3399
143
2618
2761
12
100.0000
0.1825
0.0000
0.1610
19.0933
126
2631
2757
12
97.0000
19.090
1.460
19.090
6DP3
32665
1
6.700
32665
1.000
99.300
1.460
1.490
1508
1
1.000
94.400
8.000
19.090
199
1
1.000
91.000
refinement
PHENIX
1.10.1_2155
data scaling
Aimless
0.5.31
data extraction
PDB_EXTRACT
3.24
data reduction
HKL-2000
phasing
PHENIX
N
Crystal Structure of Bacillus Halodurans Ribonuclease H1 in Complex with an RNA/DNA Hybrid: Reaction in 10 mM Mg2+ and 75 mM K+ for 40 s at 21 C
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
6
N
N
6
N
N
7
N
N
7
N
N
7
N
N
8
N
N
8
N
N
8
N
N
8
N
N
9
N
N
9
N
N
9
N
N
9
N
N
9
N
N
8
N
N
8
N
N
8
N
N
8
N
N
6
N
N
9
N
N
8
N
N
10
N
N
10
N
N
10
N
N
10
N
N
A
THR
104
A
THR
50
HELX_P
A
ARG
123
A
ARG
69
1
AA1
20
A
SER
133
A
SER
79
HELX_P
A
LYS
143
A
LYS
89
1
AA2
11
A
THR
155
A
THR
101
HELX_P
A
ASN
170
A
ASN
116
1
AA3
16
A
GLN
182
A
GLN
128
HELX_P
A
GLY
187
A
GLY
133
1
AA4
6
covale
1.377
none
A
EDO
213
Q
C1
EDO
1_555
A
GOL
218
V
O3
GOL
1_555
covale
1.590
both
C
C
sing
B
U
4
B
O3'
U
4
1_555
b
C
5
C
P
C
1
1_555
covale
1.375
none
A
C
EDO
102
Z
O2
EDO
1_555
C
GOL
103
AA
C1
GOL
1_555
metalc
1.992
A
ASP
71
A
OD2
ASP
17
1_555
A
MG
201
E
MG
MG
1_555
metalc
1.931
A
ASP
71
A
OD1
ASP
17
1_555
A
MG
202
F
MG
MG
1_555
metalc
2.085
A
GLU
109
A
OE1
GLU
55
1_555
A
MG
202
F
MG
MG
1_555
metalc
2.031
A
ASP
132
A
OD1
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
metalc
2.412
A
ASP
132
A
OD2
ASP
78
1_555
A
MG
202
F
MG
MG
1_555
metalc
2.829
B
A
GLU
188
A
OE1
GLU
134
1_555
A
K
204
H
K
K
1_555
metalc
3.274
B
A
GLU
188
A
OE2
GLU
134
1_555
A
K
204
H
K
K
1_555
metalc
2.055
A
ASP
192
A
OD1
ASP
138
1_555
A
MG
201
E
MG
MG
1_555
metalc
2.803
C
A
ASP
192
A
OD1
ASP
138
1_555
A
K
203
G
K
K
1_555
metalc
3.342
C
A
ASP
192
A
OD2
ASP
138
1_555
A
K
203
G
K
K
1_555
metalc
2.024
C
A
MG
201
E
MG
MG
1_555
A
HOH
302
BA
O
HOH
1_555
metalc
2.064
A
MG
201
E
MG
MG
1_555
A
HOH
307
BA
O
HOH
1_555
metalc
2.064
A
MG
201
E
MG
MG
1_555
A
HOH
317
BA
O
HOH
1_555
metalc
2.021
B
A
MG
201
E
MG
MG
1_555
b
C
5
C
OP3
C
1
1_555
metalc
2.438
B
A
MG
201
E
MG
MG
1_555
b
C
5
C
OP1
C
1
1_555
metalc
2.259
C
A
MG
201
E
MG
MG
1_555
b
C
5
C
OP1
C
1
1_555
metalc
2.621
C
A
MG
202
F
MG
MG
1_555
B
U
4
B
O3'
U
4
1_555
metalc
2.108
B
A
MG
202
F
MG
MG
1_555
b
C
5
C
OP1
C
1
1_555
metalc
2.150
C
A
MG
202
F
MG
MG
1_555
b
C
5
C
OP1
C
1
1_555
metalc
3.082
C
C
A
K
203
G
K
K
1_555
A
HOH
302
BA
O
HOH
1_555
metalc
3.260
C
A
K
203
G
K
K
1_555
A
HOH
317
BA
O
HOH
1_555
metalc
2.609
C
A
K
203
G
K
K
1_555
A
HOH
325
BA
O
HOH
1_555
metalc
2.856
C
A
K
203
G
K
K
1_555
b
G
6
C
OP2
G
2
1_555
metalc
3.242
B
A
K
204
H
K
K
1_555
A
HOH
307
BA
O
HOH
1_555
metalc
2.544
B
B
A
K
204
H
K
K
1_555
b
C
5
C
OP2
C
1
1_555
metalc
2.554
B
C
DG
5
D
O6
DG
5
1_555
C
K
101
Y
K
K
1_555
metalc
3.419
B
B
C
K
101
Y
K
K
1_555
C
HOH
203
EA
O
HOH
1_555
metalc
3.023
B
B
C
K
101
Y
K
K
1_555
C
HOH
207
EA
O
HOH
1_555
hydrog
WATSON-CRICK
B
A
1
B
N1
A
1
1_555
C
DT
6
D
N3
DT
6
1_555
hydrog
WATSON-CRICK
B
A
1
B
N6
A
1
1_555
C
DT
6
D
O4
DT
6
1_555
hydrog
WATSON-CRICK
B
C
2
B
N3
C
2
1_555
C
DG
5
D
N1
DG
5
1_555
hydrog
WATSON-CRICK
B
C
2
B
N4
C
2
1_555
C
DG
5
D
O6
DG
5
1_555
hydrog
WATSON-CRICK
B
C
2
B
O2
C
2
1_555
C
DG
5
D
N2
DG
5
1_555
hydrog
WATSON-CRICK
B
A
3
B
N1
A
3
1_555
C
DT
4
D
N3
DT
4
1_555
hydrog
WATSON-CRICK
B
A
3
B
N6
A
3
1_555
C
DT
4
D
O4
DT
4
1_555
hydrog
WATSON-CRICK
B
U
4
B
N3
U
4
1_555
C
DA
3
D
N1
DA
3
1_555
hydrog
WATSON-CRICK
B
U
4
B
O4
U
4
1_555
C
DA
3
D
N6
DA
3
1_555
hydrog
WATSON-CRICK
b
C
5
C
N3
C
1
1_555
C
DG
2
D
N1
DG
2
1_555
hydrog
WATSON-CRICK
b
C
5
C
N4
C
1
1_555
C
DG
2
D
O6
DG
2
1_555
hydrog
WATSON-CRICK
b
C
5
C
O2
C
1
1_555
C
DG
2
D
N2
DG
2
1_555
hydrog
WATSON-CRICK
b
G
6
C
N1
G
2
1_555
C
DC
1
D
N3
DC
1
1_555
hydrog
WATSON-CRICK
b
G
6
C
N2
G
2
1_555
C
DC
1
D
O2
DC
1
1_555
hydrog
WATSON-CRICK
b
G
6
C
O6
G
2
1_555
C
DC
1
D
N4
DC
1
1_555
HYDROLASE/DNA/RNA
protein-RNA-DNA complex, RNA hydrolysis, in crystallo catalysis, metal dependent catalysis, HYDROLASE-DNA-RNA complex
A
ASN
77
A
ASN
23
1
A
PRO
78
A
PRO
24
-0.41
RNH1_BACHD
UNP
1
59
Q9KEI9
AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQTAIK
WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
6DP3
PDB
2
1
6DP3
6DP3
PDB
3
1
6DP3
6DP3
PDB
4
1
6DP3
59
196
6DP3
59
196
Q9KEI9
A
1
5
142
1
4
6DP3
1
4
6DP3
B
2
1
4
5
6
6DP3
5
6
6DP3
b
3
1
2
1
6
6DP3
1
6
6DP3
C
4
1
6
1
expression tag
GLY
55
6DP3
A
Q9KEI9
UNP
1
1
expression tag
SER
56
6DP3
A
Q9KEI9
UNP
2
1
expression tag
HIS
57
6DP3
A
Q9KEI9
UNP
3
1
expression tag
MET
58
6DP3
A
Q9KEI9
UNP
4
5
anti-parallel
anti-parallel
parallel
parallel
A
VAL
93
A
VAL
39
A
GLY
103
A
GLY
49
A
GLY
79
A
GLY
25
A
ASP
87
A
ASP
33
A
LEU
68
A
LEU
14
A
GLN
75
A
GLN
21
A
ILE
129
A
ILE
75
A
SER
131
A
SER
77
A
ILE
178
A
ILE
124
A
LYS
180
A
LYS
126
binding site for residue MG A 201
A
MG
201
Software
6
binding site for residue MG A 202
A
MG
202
Software
5
binding site for residue K A 203
A
K
203
Software
8
binding site for residue K A 204
A
K
204
Software
2
binding site for residue GOL A 208
A
GOL
208
Software
6
binding site for residue GOL A 209
A
GOL
209
Software
8
binding site for residue GOL A 210
A
GOL
210
Software
8
binding site for residue GOL A 211
A
GOL
211
Software
7
binding site for residue EDO A 212
A
EDO
212
Software
3
binding site for residue EDO A 214
A
EDO
214
Software
3
binding site for residue EDO A 215
A
EDO
215
Software
5
binding site for residue EDO A 216
A
EDO
216
Software
2
binding site for residue GOL A 217
A
GOL
217
Software
5
binding site for residue GOL A 219
A
GOL
219
Software
6
binding site for residue GOL A 220
A
GOL
220
Software
4
binding site for residue K C 101
C
K
101
Software
3
binding site for residues EDO A 213 and GOL A 218
A
EDO
213
Software
8
binding site for residues EDO C 102 and GOL C 103
C
EDO
102
Software
6
A
ASP
71
A
ASP
17
6
1_555
A
ASP
192
A
ASP
138
6
1_555
A
HOH
302
BA
HOH
6
1_555
A
HOH
307
BA
HOH
6
1_555
A
HOH
317
BA
HOH
6
1_555
b
C
5
C
C
1
6
1_555
A
ASP
71
A
ASP
17
5
1_555
A
GLU
109
A
GLU
55
5
1_555
A
ASP
132
A
ASP
78
5
1_555
B
U
4
B
U
4
5
1_555
b
C
5
C
C
1
5
1_555
A
ASP
192
A
ASP
138
8
1_555
A
TYR
193
A
TYR
139
8
1_555
A
GLY
194
A
GLY
140
8
1_555
A
ARG
195
A
ARG
141
8
1_555
A
LYS
196
A
LYS
142
8
1_555
A
HOH
302
BA
HOH
8
1_555
A
HOH
325
BA
HOH
8
1_555
b
G
6
C
G
2
8
1_555
A
GLU
188
A
GLU
134
2
1_555
b
C
5
C
C
1
2
1_555
A
GLY
76
A
GLY
22
6
1_555
A
ASN
77
A
ASN
23
6
1_555
A
PRO
78
A
PRO
24
6
1_555
A
HOH
305
BA
HOH
6
1_555
C
DG
2
D
DG
2
6
1_555
C
DA
3
D
DA
3
6
1_555
A
TYR
83
A
TYR
29
8
1_555
A
LEU
111
A
LEU
57
8
1_555
A
VAL
114
A
VAL
60
8
1_555
A
HIS
115
A
HIS
61
8
1_555
A
ARG
118
A
ARG
64
8
1_555
A
ALA
165
A
ALA
111
8
1_555
A
HOH
301
BA
HOH
8
1_555
A
HOH
319
BA
HOH
8
1_555
A
HIS
115
A
HIS
61
8
1_555
A
TYR
119
A
TYR
65
8
1_555
A
GLU
122
A
GLU
68
8
1_555
A
ARG
123
A
ARG
69
8
1_555
A
GLU
167
A
GLU
113
8
4_546
A
ASN
170
A
ASN
116
8
4_546
A
HOH
334
BA
HOH
8
4_546
A
HOH
358
BA
HOH
8
1_555
A
ARG
97
A
ARG
43
7
4_556
A
LEU
169
A
LEU
115
7
1_555
A
ASN
170
A
ASN
116
7
1_555
A
HIS
172
A
HIS
118
7
1_555
A
THR
173
A
THR
119
7
1_555
A
GOL
219
W
GOL
7
1_555
A
HOH
328
BA
HOH
7
1_555
A
GLU
66
A
GLU
12
3
2_656
A
SER
125
A
SER
71
3
1_555
A
LYS
127
A
LYS
73
3
1_555
A
LYS
121
A
LYS
67
3
1_555
A
GLU
122
A
GLU
68
3
1_555
A
ASN
124
A
ASN
70
3
1_555
A
TRP
65
A
TRP
11
5
3_455
A
LYS
89
A
LYS
35
5
3_455
A
ARG
151
A
ARG
97
5
1_555
A
ASN
152
A
ASN
98
5
1_555
A
ALA
156
A
ALA
102
5
1_555
A
ASN
152
A
ASN
98
2
1_555
A
GLU
154
A
GLU
100
2
1_555
A
GLU
122
A
GLU
68
5
4_556
A
ARG
123
A
ARG
69
5
4_556
A
ASP
163
A
ASP
109
5
1_555
A
GLU
166
A
GLU
112
5
1_555
A
HOH
304
BA
HOH
5
1_555
A
LYS
143
A
LYS
89
6
1_555
A
HIS
172
A
HIS
118
6
1_555
A
THR
173
A
THR
119
6
1_555
A
TYR
174
A
TYR
120
6
1_555
A
GOL
211
O
GOL
6
1_555
A
HOH
364
BA
HOH
6
1_555
A
LYS
141
A
LYS
87
4
1_555
A
ILE
178
A
ILE
124
4
1_555
A
LEU
179
A
LEU
125
4
1_555
A
LYS
180
A
LYS
126
4
1_555
C
DG
5
D
DG
5
3
1_555
C
EDO
102
Z
EDO
3
1_555
C
HOH
207
EA
HOH
3
1_555
A
GLU
62
A
GLU
8
8
3_455
A
ILE
63
A
ILE
9
8
3_455
A
TRP
65
A
TRP
11
8
3_455
A
SER
147
A
SER
93
8
1_555
A
LEU
149
A
LEU
95
8
1_555
A
VAL
150
A
VAL
96
8
1_555
A
ARG
151
A
ARG
97
8
1_555
A
HOH
303
BA
HOH
8
1_555
A
THR
148
A
THR
94
6
1_555
A
LYS
196
A
LYS
142
6
4_555
C
DT
4
D
DT
4
6
1_555
C
DG
5
D
DG
5
6
1_555
C
K
101
Y
K
6
1_555
C
HOH
207
EA
HOH
6
1_555
5
C 1 2 1