0.011922
0.000000
0.001816
0.000000
0.028239
0.000000
0.000000
0.000000
0.015845
0.00000
0.00000
0.00000
Nowotny, M.
Yang, W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
98.66
90.00
83.878
35.412
63.839
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
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
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
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
O
N
290
N
P
N
291
N
O
N
292
N
O
N
293
N
O
N
294
N
C
N
295
R
C
N
296
N
O
N
297
S
C
N
298
N
O
N
299
R
C
N
300
N
O
N
301
R
C
Y
302
N
N
Y
303
N
C
Y
304
N
N
Y
305
N
C
N
306
N
C
N
307
N
O
N
308
N
N
N
309
N
C
N
310
N
N
N
311
N
N
Y
312
N
C
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
H
N
327
N
N
N
328
S
C
N
329
N
C
N
330
N
O
N
331
N
C
N
332
N
C
N
333
N
C
N
334
N
O
N
335
N
N
N
336
N
O
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
N
N
348
S
C
N
349
N
C
N
350
N
O
N
351
N
C
N
352
N
C
N
353
N
C
N
354
N
O
N
355
N
O
N
356
N
O
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
H
N
364
N
H
N
365
N
H
N
366
N
N
N
367
N
C
N
368
N
C
N
369
N
O
N
370
N
O
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
S
C
N
378
N
C
N
379
N
O
N
380
N
C
Y
381
N
C
Y
382
N
N
Y
383
N
C
Y
384
N
C
Y
385
N
N
N
386
N
O
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
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
O
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
S
C
N
405
N
C
N
406
N
C
N
407
N
C
N
408
N
O
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
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
N
N
423
S
C
N
424
N
C
N
425
N
O
N
426
N
C
N
427
N
C
N
428
N
C
N
429
N
C
N
430
N
O
N
431
N
H
N
432
N
H
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
N
N
445
S
C
N
446
N
C
N
447
N
O
N
448
N
C
N
449
N
C
N
450
N
C
N
451
N
C
N
452
N
N
N
453
N
O
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
N
N
470
S
C
N
471
N
C
N
472
N
O
N
473
N
C
N
474
N
C
N
475
N
S
N
476
N
C
N
477
N
O
N
478
N
H
N
479
N
H
N
480
N
H
N
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
H
N
486
N
H
N
487
N
H
N
488
N
H
N
489
N
MG
N
490
N
N
N
491
S
C
N
492
N
C
N
493
N
O
N
494
N
C
Y
495
N
C
Y
496
N
C
Y
497
N
C
Y
498
N
C
Y
499
N
C
Y
500
N
C
N
501
N
O
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
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
513
N
N
N
514
S
C
N
515
N
C
N
516
N
O
N
517
N
C
N
518
N
C
N
519
N
C
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
N
N
531
S
C
N
532
N
C
N
533
N
O
N
534
N
C
N
535
N
O
N
536
N
O
N
537
N
H
N
538
N
H
N
539
N
H
N
540
N
H
N
541
N
H
N
542
N
H
N
543
N
H
N
544
N
N
N
545
S
C
N
546
N
C
N
547
N
O
N
548
R
C
N
549
N
O
N
550
N
C
N
551
N
O
N
552
N
H
N
553
N
H
N
554
N
H
N
555
N
H
N
556
N
H
N
557
N
H
N
558
N
H
N
559
N
H
N
560
N
H
N
561
N
N
N
562
S
C
N
563
N
C
N
564
N
O
N
565
N
C
Y
566
N
C
Y
567
N
C
Y
568
N
C
Y
569
N
N
Y
570
N
C
Y
571
N
C
Y
572
N
C
Y
573
N
C
Y
574
N
C
N
575
N
O
N
576
N
H
N
577
N
H
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
H
N
588
N
N
N
589
S
C
N
590
N
C
N
591
N
O
N
592
N
C
Y
593
N
C
Y
594
N
C
Y
595
N
C
Y
596
N
C
Y
597
N
C
Y
598
N
C
N
599
N
O
N
600
N
O
N
601
N
H
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
O
N
613
N
P
N
614
N
O
N
615
N
O
N
616
N
O
N
617
N
C
N
618
R
C
N
619
N
O
N
620
S
C
N
621
N
O
N
622
R
C
N
623
N
O
N
624
R
C
N
625
N
N
N
626
N
C
N
627
N
O
N
628
N
N
N
629
N
C
N
630
N
O
N
631
N
C
N
632
N
C
N
633
N
H
N
634
N
H
N
635
N
H
N
636
N
H
N
637
N
H
N
638
N
H
N
639
N
H
N
640
N
H
N
641
N
H
N
642
N
H
N
643
N
H
N
644
N
H
N
645
N
H
N
646
N
N
N
647
S
C
N
648
N
C
N
649
N
O
N
650
N
C
N
651
N
C
N
652
N
C
N
653
N
O
N
654
N
H
N
655
N
H
N
656
N
H
N
657
N
H
N
658
N
H
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
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
doub
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
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
Y
318
N
sing
Y
319
N
sing
Y
320
N
doub
N
321
N
sing
Y
322
N
sing
N
323
N
sing
Y
324
N
doub
N
325
N
doub
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
doub
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
doub
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
doub
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
doub
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
doub
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
doub
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
Y
391
N
sing
Y
392
N
doub
Y
393
N
doub
N
394
N
sing
Y
395
N
sing
N
396
N
sing
Y
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
doub
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
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
doub
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
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
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
sing
N
474
N
sing
N
475
N
doub
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
doub
N
495
N
sing
N
496
N
sing
N
497
N
sing
N
498
N
sing
Y
499
N
doub
Y
500
N
sing
Y
501
N
sing
N
502
N
sing
Y
503
N
doub
N
504
N
sing
Y
505
N
doub
N
506
N
sing
Y
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
sing
N
517
N
doub
N
518
N
sing
N
519
N
sing
N
520
N
sing
N
521
N
sing
N
522
N
sing
N
523
N
sing
N
524
N
sing
N
525
N
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
sing
N
533
N
sing
N
534
N
doub
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
N
544
N
sing
N
545
N
sing
N
546
N
sing
N
547
N
doub
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
sing
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
doub
N
564
N
sing
N
565
N
sing
N
566
N
sing
N
567
N
sing
Y
568
N
doub
Y
569
N
sing
Y
570
N
sing
N
571
N
sing
Y
572
N
doub
Y
573
N
sing
Y
574
N
sing
N
575
N
sing
Y
576
N
sing
Y
577
N
doub
N
578
N
sing
Y
579
N
doub
N
580
N
sing
Y
581
N
sing
N
582
N
sing
N
583
N
sing
N
584
N
sing
N
585
N
sing
N
586
N
sing
N
587
N
sing
N
588
N
sing
N
589
N
sing
N
590
N
sing
N
591
N
doub
N
592
N
sing
N
593
N
sing
N
594
N
sing
N
595
N
sing
Y
596
N
doub
Y
597
N
sing
Y
598
N
sing
N
599
N
sing
Y
600
N
doub
N
601
N
sing
Y
602
N
doub
N
603
N
sing
Y
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
doub
N
612
N
sing
N
613
N
sing
N
614
N
sing
N
615
N
sing
N
616
N
sing
N
617
N
sing
N
618
N
sing
N
619
N
sing
N
620
N
sing
N
621
N
sing
N
622
N
sing
N
623
N
sing
N
624
N
sing
N
625
N
sing
N
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
sing
N
634
N
sing
N
635
N
doub
N
636
N
sing
N
637
N
sing
N
638
N
sing
N
639
N
doub
N
640
N
sing
N
641
N
doub
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
doub
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
sing
N
658
N
sing
N
659
N
sing
N
660
N
sing
N
661
N
sing
UK
Embo J.
EMJODG
0897
0261-4189
25
1924
1933
10.1038/sj.emboj.7601076
16601679
Stepwise analyses of metal ions in RNase H catalysis from substrate destabilization to product release.
2006
10.2210/pdb2g8u/pdb
pdb_00002g8u
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
95
1
IMAGE PLATE
2005-06-06
RIGAKU RAXIS IV
SINGLE WAVELENGTH
M
x-ray
1
1.0
ROTATING ANODE
RIGAKU
1875.189
5'-R(*UP*CP*GP*AP*CP*A)-3'
1
syn
polymer
1824.228
5'-D(*AP*TP*GP*TP*CP*G)-3'
1
syn
polymer
16329.478
Ribonuclease H
3.1.26.4
Bh-RNase HC
D132N
1
man
polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
18.015
water
20
nat
water
RNase H
no
no
UCGACA
UCGACA
B
polyribonucleotide
no
no
(DA)(DT)(DG)(DT)(DC)(DG)
ATGTCG
C
polydeoxyribonucleotide
no
no
GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQ
TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
GSHMAKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSNSQ
TAIKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Bacillus
Escherichia
sample
rnhA
86665
Bacillus halodurans
562
Escherichia coli
BL21 pLysS
pET15b
plasmid
1
2.33
47.25
VAPOR DIFFUSION, SITTING DROP
7.5
25% MPD, 0.2M NaCl, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 278K
278
MPD
1
NaCl
1
HEPES
1
H2O
1
MPD
2
NaCl
2
HEPES
2
5.270
1
19
B
2
C
6
-1.200
B_C2:DG6_C
1
-11.738
-0.027
-0.347
0.124
-2.967
1
19
B
3
C
5
4.513
B_G3:DC5_C
2
-11.085
0.711
0.160
-0.199
-8.759
1
20
B
4
C
4
3.885
B_A4:DT4_C
3
-14.629
0.596
0.089
-0.154
-3.816
1
19
B
5
C
3
0.029
B_C5:DG3_C
4
-11.138
-0.767
-0.052
-0.040
-12.764
1
20
B
6
C
2
2.047
B_A6:DT2_C
5
-7.496
0.542
-0.590
-0.100
3.243
40.669
B
B
2
3
10.551
C
C
6
5
3.439
7.296
0.620
-0.784
BB_C2G3:DC5DG6_CC
1
-0.653
0.944
40.031
-1.961
-0.966
3.100
32.414
B
B
3
4
7.861
C
C
5
4
3.315
4.365
0.031
-1.259
BB_G3A4:DT4DC5_CC
2
4.038
-7.273
31.879
-3.016
0.647
1.900
24.872
B
B
4
5
31.960
C
C
4
3
3.082
13.090
-0.666
-1.421
BB_A4C5:DG3DT4_CC
3
-0.303
0.740
21.193
-6.546
1.472
3.471
36.677
B
B
5
6
8.585
C
C
3
2
3.613
5.344
0.843
-1.431
BB_C5A6:DT2DG3_CC
4
7.891
-12.676
35.458
-3.081
-0.148
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Data collection
Refinement description
1
0
2006-04-25
1
1
2008-05-01
1
2
2011-07-13
1
3
2021-10-20
1
4
2023-08-30
_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.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
RCSB
2006-03-03
REL
REL
MG
MAGNESIUM ION
HOH
water
1ZBI
PDB ENTRY 1ZBI
PDB
experimental model
MG2
1
4
MG
MG
401
A
MG2
2
4
MG
MG
402
A
HOH
6
5
HOH
HOH
7
B
HOH
10
5
HOH
HOH
8
B
HOH
12
5
HOH
HOH
12
C
HOH
15
5
HOH
HOH
15
C
HOH
1
5
HOH
HOH
1
A
HOH
2
5
HOH
HOH
2
A
HOH
3
5
HOH
HOH
3
A
HOH
4
5
HOH
HOH
4
A
HOH
5
5
HOH
HOH
5
A
HOH
7
5
HOH
HOH
7
A
HOH
8
5
HOH
HOH
8
A
HOH
9
5
HOH
HOH
9
A
HOH
11
5
HOH
HOH
11
A
HOH
13
5
HOH
HOH
13
A
HOH
14
5
HOH
HOH
14
A
HOH
16
5
HOH
HOH
16
A
HOH
17
5
HOH
HOH
17
A
HOH
18
5
HOH
HOH
18
A
HOH
19
5
HOH
HOH
19
A
HOH
20
5
HOH
HOH
20
A
URI
1
n
1
U
1
B
CYT
2
n
2
C
2
B
GUA
3
n
3
G
3
B
ADE
4
n
4
A
4
B
CYT
5
n
5
C
5
B
ADE
6
n
6
A
6
B
ADE
1
n
1
DA
1
C
THY
2
n
2
DT
2
C
GUA
3
n
3
DG
3
C
THY
4
n
4
DT
4
C
CYT
5
n
5
DC
5
C
GUA
6
n
6
DG
6
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
n
7
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
ASN
132
n
78
ASN
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
n
140
194
A
n
141
195
A
n
142
196
A
author_defined_assembly
3
trimeric
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
A
HOH
4
H
O
HOH
1_555
155.8
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
A
ASP
71
C
OD1
ASP
17
1_555
103.7
A
HOH
4
H
O
HOH
1_555
A
MG
401
D
MG
MG
1_555
A
ASP
71
C
OD1
ASP
17
1_555
78.7
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE1
GLU
55
1_555
134.3
A
HOH
4
H
O
HOH
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE1
GLU
55
1_555
68.4
A
ASP
71
C
OD1
ASP
17
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE1
GLU
55
1_555
95.0
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE2
GLU
55
1_555
88.3
A
HOH
4
H
O
HOH
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE2
GLU
55
1_555
112.0
A
ASP
71
C
OD1
ASP
17
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE2
GLU
55
1_555
119.1
A
GLU
109
C
OE1
GLU
55
1_555
A
MG
401
D
MG
MG
1_555
A
GLU
109
C
OE2
GLU
55
1_555
46.6
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
A
ASN
132
C
OD1
ASN
78
1_555
97.1
A
HOH
4
H
O
HOH
1_555
A
MG
401
D
MG
MG
1_555
A
ASN
132
C
OD1
ASN
78
1_555
61.7
A
ASP
71
C
OD1
ASP
17
1_555
A
MG
401
D
MG
MG
1_555
A
ASN
132
C
OD1
ASN
78
1_555
116.9
A
GLU
109
C
OE1
GLU
55
1_555
A
MG
401
D
MG
MG
1_555
A
ASN
132
C
OD1
ASN
78
1_555
111.0
A
GLU
109
C
OE2
GLU
55
1_555
A
MG
401
D
MG
MG
1_555
A
ASN
132
C
OD1
ASN
78
1_555
120.5
A
HOH
1
H
O
HOH
1_555
A
MG
402
E
MG
MG
1_555
A
ASP
71
C
OD2
ASP
17
1_555
112.3
A
HOH
1
H
O
HOH
1_555
A
MG
402
E
MG
MG
1_555
A
ASP
192
C
OD2
ASP
138
1_555
68.5
A
ASP
71
C
OD2
ASP
17
1_555
A
MG
402
E
MG
MG
1_555
A
ASP
192
C
OD2
ASP
138
1_555
90.8
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
PHE
95
C
O
PHE
41
A
N
GLY
85
C
N
GLY
31
A
N
VAL
81
C
N
VAL
27
A
O
ILE
100
C
O
ILE
46
A
O
PHE
95
C
O
PHE
41
A
N
GLY
85
C
N
GLY
31
A
O
GLU
82
C
O
GLU
28
A
N
GLY
73
C
N
GLY
19
A
N
LEU
68
C
N
LEU
14
A
O
TYR
130
C
O
TYR
76
A
N
ILE
129
C
N
ILE
75
A
O
LEU
179
C
O
LEU
125
1
A
GLY
55
C
GLY
1
1
Y
1
A
SER
56
C
SER
2
1
Y
1
A
HIS
57
C
HIS
3
1
Y
1
A
MET
58
C
MET
4
1
Y
1
A
ALA
59
C
ALA
5
1
Y
1
A
LYS
60
C
LYS
6
1
Y
1
A
GLU
61
C
GLU
7
1
Y
1
A
GLY
194
C
GLY
140
1
Y
1
A
ARG
195
C
ARG
141
1
Y
1
A
LYS
196
C
LYS
142
1
Y
1
A
A
O
O
HOH
HOH
18
19
2.08
1
C
DA
1
0.064
SIDE CHAIN
1
C
DT
4
0.079
SIDE CHAIN
1
A
THR
88
-49.62
-19.70
1
A
LYS
89
-108.37
-61.95
1
A
PRO
99
-33.71
113.18
1
A
PRO
101
-51.73
-70.36
1
A
LYS
143
43.23
25.34
1
A
LYS
146
-96.39
48.98
1
A
GLU
153
-43.05
-16.21
1
A
THR
155
-97.31
47.03
1
A
TYR
174
175.54
142.77
1
A
THR
176
-39.87
115.80
0.288
0.223
2.7
30
512
5252
4718
RANDOM
1
2.4
MOLECULAR REPLACEMENT
PDB ENTRY 1ZBI
Engh & Huber
2.7
30
20
1343
2
245
1076
1.3
0.007
2.7
30
2G8U
5252
4718
2.4
1
89.8
2.7
2.82
data collection
HKL-2000
data scaling
SCALEPACK
refinement
CNS
data reduction
HKL-2000
phasing
CNS
B. halodurans RNase H catalytic domain D132N mutant in complex with Mg2+ and RNA/DNA hybrid (non-P nick at the active site)
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
5
N
N
5
N
N
5
N
N
A
THR
104
C
THR
50
HELX_P
A
GLU
122
C
GLU
68
1
1
19
A
SER
133
C
SER
79
HELX_P
A
ASP
142
C
ASP
88
1
2
10
A
ALA
156
C
ALA
102
HELX_P
A
ASN
170
C
ASN
116
1
3
15
A
GLN
182
C
GLN
128
HELX_P
A
GLY
187
C
GLY
133
1
4
6
metalc
2.971
B
A
6
A
O3'
A
6
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.381
A
HOH
1
H
O
HOH
1_555
A
MG
402
E
MG
MG
1_555
metalc
2.876
A
HOH
4
H
O
HOH
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.428
A
ASP
71
C
OD1
ASP
17
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.853
A
ASP
71
C
OD2
ASP
17
1_555
A
MG
402
E
MG
MG
1_555
metalc
3.034
A
GLU
109
C
OE1
GLU
55
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.041
A
GLU
109
C
OE2
GLU
55
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.345
A
ASN
132
C
OD1
ASN
78
1_555
A
MG
401
D
MG
MG
1_555
metalc
2.352
A
ASP
192
C
OD2
ASP
138
1_555
A
MG
402
E
MG
MG
1_555
hydrog
WATSON-CRICK
B
C
2
A
N3
C
2
1_555
C
DG
6
B
N1
DG
6
1_555
hydrog
WATSON-CRICK
B
C
2
A
N4
C
2
1_555
C
DG
6
B
O6
DG
6
1_555
hydrog
WATSON-CRICK
B
C
2
A
O2
C
2
1_555
C
DG
6
B
N2
DG
6
1_555
hydrog
WATSON-CRICK
B
G
3
A
N1
G
3
1_555
C
DC
5
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
B
G
3
A
N2
G
3
1_555
C
DC
5
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
B
G
3
A
O6
G
3
1_555
C
DC
5
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
B
A
4
A
N1
A
4
1_555
C
DT
4
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
B
A
4
A
N6
A
4
1_555
C
DT
4
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
B
C
5
A
N3
C
5
1_555
C
DG
3
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
B
C
5
A
N4
C
5
1_555
C
DG
3
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
B
C
5
A
O2
C
5
1_555
C
DG
3
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
B
A
6
A
N1
A
6
1_555
C
DT
2
B
N3
DT
2
1_555
hydrog
WATSON-CRICK
B
A
6
A
N6
A
6
1_555
C
DT
2
B
O4
DT
2
1_555
HYDROLASE/RNA/DNA
RNase H, Ribonuclease H, RNA/DNA hybrid, HYDROLASE-RNA-DNA COMPLEX
A
ASN
77
C
ASN
23
1
A
PRO
78
C
PRO
24
-0.11
RNH1_BACHD
UNP
3
59
Q9KEI9
AKEEIIWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKERNSRKPIYSDSQTAIK
WVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKADYGRK
2G8U
PDB
1
2G8U
2G8U
PDB
2
2G8U
59
196
2G8U
59
196
Q9KEI9
A
1
5
142
1
6
2G8U
1
6
2G8U
B
2
1
6
1
6
2G8U
1
6
2G8U
C
3
1
6
1
cloning artifact
GLY
55
2G8U
A
Q9KEI9
UNP
1
1
cloning artifact
SER
56
2G8U
A
Q9KEI9
UNP
2
1
cloning artifact
HIS
57
2G8U
A
Q9KEI9
UNP
3
1
cloning artifact
MET
58
2G8U
A
Q9KEI9
UNP
4
1
ASP
engineered mutation
ASN
132
2G8U
A
Q9KEI9
UNP
132
78
3
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
parallel
A
VAL
93
C
VAL
39
A
GLU
96
C
GLU
42
A
GLY
79
C
GLY
25
A
ASP
87
C
ASP
33
A
ILE
100
C
ILE
46
A
GLY
103
C
GLY
49
A
VAL
93
C
VAL
39
A
GLU
96
C
GLU
42
A
GLY
79
C
GLY
25
A
ASP
87
C
ASP
33
A
LEU
68
C
LEU
14
A
GLN
75
C
GLN
21
A
ILE
129
C
ILE
75
A
SER
131
C
SER
77
A
ILE
178
C
ILE
124
A
LYS
180
C
LYS
126
BINDING SITE FOR RESIDUE MG A 401
A
MG
401
Software
5
BINDING SITE FOR RESIDUE MG A 402
A
MG
402
Software
3
A
HOH
4
H
HOH
5
1_555
A
ASP
71
C
ASP
17
5
1_555
A
GLU
109
C
GLU
55
5
1_555
A
ASN
132
C
ASN
78
5
1_555
B
A
6
A
A
6
5
1_555
A
HOH
1
H
HOH
3
1_555
A
ASP
71
C
ASP
17
3
1_555
A
ASP
192
C
ASP
138
3
1_555
5
C 1 2 1