0.010721
0.000000
0.000000
0.000000
0.009786
0.000000
0.000000
0.000000
0.018966
0.00000
0.00000
0.00000
Banerjee, S.
Shanmugam, G.
Stone, M.P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
93.274
102.183
52.727
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
Ca 2
40.078
CALCIUM ION
non-polymer
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 H16 N5 O13 P3
507.181
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE
non-polymer
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
C19 H30 N5 O9 P
503.443
n
(6S,8R)-3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-8-hydroxy-6-[(1S)-1-hydroxyhexyl]-4,6,7,8-tetrahydropyrimido[1,2-a]purin-10(3H)-one
DNA linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
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
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
CA
N
75
N
N
N
76
R
C
N
77
N
C
N
78
N
O
N
79
N
C
N
80
N
S
N
81
N
O
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
O
N
90
N
P
N
91
N
O
N
92
N
O
N
93
N
O
N
94
N
C
N
95
R
C
N
96
N
O
N
97
S
C
N
98
N
O
N
99
N
C
N
100
R
C
Y
101
N
N
Y
102
N
C
Y
103
N
N
Y
104
N
C
Y
105
N
C
N
106
N
N
Y
107
N
N
Y
108
N
C
Y
109
N
N
Y
110
N
C
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
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
N
137
N
N
N
138
N
C
N
139
N
O
N
140
N
N
N
141
N
C
N
142
N
N
N
143
N
C
N
144
N
C
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
O
N
160
N
P
N
161
N
O
N
162
N
O
N
163
N
O
N
164
N
C
N
165
R
C
N
166
N
O
N
167
S
C
N
168
N
O
N
169
N
C
N
170
R
C
Y
171
N
N
Y
172
N
C
Y
173
N
N
Y
174
N
C
N
175
N
C
N
176
N
O
N
177
N
N
N
178
N
C
N
179
N
N
N
180
N
N
Y
181
N
C
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
H
N
196
N
P
N
197
N
O
N
198
N
O
N
199
N
O
N
200
N
O
N
201
S
P
N
202
N
O
N
203
N
O
N
204
N
O
N
205
R
P
N
206
N
O
N
207
N
O
N
208
N
O
N
209
N
C
N
210
R
C
N
211
N
O
N
212
S
C
N
213
N
O
N
214
N
C
N
215
R
C
Y
216
N
N
Y
217
N
C
Y
218
N
N
Y
219
N
C
N
220
N
C
N
221
N
O
N
222
N
N
N
223
N
C
N
224
N
N
N
225
N
N
Y
226
N
C
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
O
N
244
N
P
N
245
N
O
N
246
N
O
N
247
N
O
N
248
N
C
N
249
R
C
N
250
N
O
N
251
S
C
N
252
N
O
N
253
N
C
N
254
R
C
N
255
N
N
N
256
N
C
N
257
N
O
N
258
N
N
N
259
N
C
N
260
N
O
N
261
N
C
N
262
N
C
N
263
N
C
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
N
N
280
S
C
N
281
N
C
N
282
N
O
N
283
N
C
N
284
N
C
N
285
N
C
N
286
N
O
N
287
N
N
N
288
N
O
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
N
N
300
S
C
N
301
N
C
N
302
N
O
N
303
N
C
N
304
N
C
N
305
N
C
N
306
N
O
N
307
N
O
N
308
N
O
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
N
N
319
N
C
N
320
N
C
N
321
N
O
N
322
N
O
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
N
N
329
S
C
N
330
N
C
N
331
N
O
N
332
N
C
Y
333
N
C
Y
334
N
N
Y
335
N
C
Y
336
N
C
Y
337
N
N
N
338
N
O
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
C
N
350
N
P
N
351
R
C
N
352
N
N
N
353
N
C
N
354
N
N
N
355
S
C
N
356
N
N
Y
357
N
C
Y
358
N
C
N
359
N
C
N
360
N
O
N
361
S
C
Y
362
N
N
Y
363
N
C
N
364
N
C
Y
365
N
N
N
366
R
C
N
367
N
C
N
368
N
O
N
369
N
C
N
370
N
O
N
371
N
C
N
372
N
C
N
373
N
O
N
374
N
C
N
375
N
O
N
376
S
C
N
377
N
O
N
378
R
C
N
379
N
O
N
380
N
C
N
381
N
O
N
382
N
O
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
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
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
H
N
411
N
H
N
412
N
H
N
413
N
O
N
414
N
H
N
415
N
H
N
416
N
N
N
417
S
C
N
418
N
C
N
419
N
O
N
420
S
C
N
421
N
C
N
422
N
C
N
423
N
C
N
424
N
O
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
N
N
439
S
C
N
440
N
C
N
441
N
O
N
442
N
C
N
443
N
C
N
444
N
C
N
445
N
C
N
446
N
O
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
N
H
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
N
N
461
S
C
N
462
N
C
N
463
N
O
N
464
N
C
N
465
N
C
N
466
N
C
N
467
N
C
N
468
N
N
N
469
N
O
N
470
N
H
N
471
N
H
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
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
N
N
486
S
C
N
487
N
C
N
488
N
O
N
489
N
C
N
490
N
C
N
491
N
S
N
492
N
C
N
493
N
O
N
494
N
H
N
495
N
H
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
N
N
506
S
C
N
507
N
C
N
508
N
O
N
509
N
C
Y
510
N
C
Y
511
N
C
Y
512
N
C
Y
513
N
C
Y
514
N
C
Y
515
N
C
N
516
N
O
N
517
N
H
N
518
N
H
N
519
N
H
N
520
N
H
N
521
N
H
N
522
N
H
N
523
N
H
N
524
N
H
N
525
N
H
N
526
N
H
N
527
N
H
N
528
N
N
N
529
S
C
N
530
N
C
N
531
N
O
N
532
N
C
N
533
N
C
N
534
N
C
N
535
N
O
N
536
N
H
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
H
N
545
N
N
N
546
S
C
N
547
N
C
N
548
N
O
N
549
N
C
N
550
N
O
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
N
N
560
S
C
N
561
N
C
N
562
N
O
N
563
R
C
N
564
N
O
N
565
N
C
N
566
N
O
N
567
N
H
N
568
N
H
N
569
N
H
N
570
N
H
N
571
N
H
N
572
N
H
N
573
N
H
N
574
N
H
N
575
N
H
N
576
N
N
N
577
S
C
N
578
N
C
N
579
N
O
N
580
N
C
Y
581
N
C
Y
582
N
C
Y
583
N
C
Y
584
N
C
Y
585
N
C
Y
586
N
C
N
587
N
O
N
588
N
O
N
589
N
H
N
590
N
H
N
591
N
H
N
592
N
H
N
593
N
H
N
594
N
H
N
595
N
H
N
596
N
H
N
597
N
H
N
598
N
H
N
599
N
H
N
600
N
N
N
601
S
C
N
602
N
C
N
603
N
O
N
604
N
C
N
605
N
C
N
606
N
C
N
607
N
O
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
H
N
615
N
H
N
616
N
H
N
617
N
H
N
618
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
doub
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
Y
106
N
sing
Y
107
N
sing
Y
108
N
doub
N
109
N
sing
Y
110
N
sing
Y
111
N
sing
Y
112
N
doub
N
113
N
sing
Y
114
N
doub
N
115
N
sing
N
116
N
sing
Y
117
N
sing
Y
118
N
doub
N
119
N
sing
Y
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
doub
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
doub
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
doub
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
Y
179
N
sing
Y
180
N
sing
Y
181
N
doub
N
182
N
sing
Y
183
N
sing
N
184
N
sing
Y
185
N
doub
N
186
N
doub
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
doub
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
doub
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
doub
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
doub
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
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
Y
228
N
sing
Y
229
N
sing
N
230
N
sing
Y
231
N
doub
Y
232
N
sing
N
233
N
sing
Y
234
N
doub
N
235
N
sing
N
236
N
doub
N
237
N
sing
N
238
N
doub
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
doub
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
doub
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
doub
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
sing
N
285
N
sing
N
286
N
sing
N
287
N
doub
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
sing
N
304
N
sing
N
305
N
sing
N
306
N
doub
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
doub
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
doub
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
doub
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
Y
338
N
sing
Y
339
N
doub
Y
340
N
doub
N
341
N
sing
Y
342
N
sing
N
343
N
sing
Y
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
doub
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
Y
361
N
sing
Y
362
N
doub
Y
363
N
sing
N
364
N
sing
N
365
N
doub
N
366
N
sing
Y
367
N
doub
Y
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
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
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
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
doub
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
doub
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
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
doub
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
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
N
486
N
sing
N
487
N
sing
N
488
N
sing
N
489
N
doub
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
N
497
N
sing
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
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
doub
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
sing
N
540
N
sing
N
541
N
sing
N
542
N
sing
N
543
N
sing
N
544
N
sing
N
545
N
sing
N
546
N
sing
N
547
N
sing
N
548
N
doub
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
doub
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
sing
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
doub
N
578
N
sing
N
579
N
sing
N
580
N
sing
N
581
N
sing
Y
582
N
doub
Y
583
N
sing
Y
584
N
sing
N
585
N
sing
Y
586
N
doub
N
587
N
sing
Y
588
N
doub
N
589
N
sing
Y
590
N
sing
N
591
N
sing
N
592
N
sing
N
593
N
sing
N
594
N
sing
N
595
N
sing
N
596
N
sing
N
597
N
sing
N
598
N
sing
N
599
N
sing
N
600
N
sing
N
601
N
doub
N
602
N
sing
N
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
US
Chem.Res.Toxicol.
CRTOEC
2140
0893-228X
26
1348
1360
10.1021/tx400200b
23947567
Ring-Opening of the gamma-OH-PdG Adduct Promotes Error-Free Bypass by the Sulfolobus solfataricus DNA Polymerase Dpo4.
2013
10.2210/pdb4jv1/pdb
pdb_00004jv1
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1
CCD
2009-10-15
MARMOSAIC 225 mm CCD
SINGLE WAVELENGTH
M
x-ray
1
0.979
1.0
21-ID-F
APS
0.979
SYNCHROTRON
APS BEAMLINE 21-ID-F
39848.398
DNA polymerase IV
2.7.7.7
1
man
polymer
4622.122
DNA (5'-D(P*CP*(HN1)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3')
1
syn
polymer
4096.670
DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3')
1
syn
polymer
507.181
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE
1
syn
non-polymer
40.078
CALCIUM ION
4
syn
non-polymer
18.015
water
84
nat
water
Pol IV
no
no
HHHHHHMIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYL
PMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIA
ADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN
EPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSE
SVKLLQKILEEDERKIRRIGVRFSKFI
HHHHHHMIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYL
PMRKEVYQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIA
ADMAKPNGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYN
EPIRTRVRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSE
SVKLLQKILEEDERKIRRIGVRFSKFI
A
polypeptide(L)
no
yes
(DC)(HN1)(DG)(DA)(DA)(DT)(DC)(DC)(DT)(DT)(DC)(DC)(DC)(DC)(DC)
CXGAATCCTTCCCCC
B
polydeoxyribonucleotide
no
no
(DG)(DG)(DG)(DG)(DG)(DA)(DA)(DG)(DG)(DA)(DT)(DT)(DC)
GGGGGAAGGATTC
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
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 35092 / DSM 1617 / JCM 11322 / P2
sample
dbh, dpo4, SSO2448
273057
Sulfolobus solfataricus
562
ESCHERICHIA COLI
1
2.59
52.54
VAPOR DIFFUSION, HANGING DROP
7.4
50 MM TRIS HCL, 15% PEG3350, 100MM CALCIUM DIACETATE, 2.5% GLYCEROL, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
-19.072
1
19
B
606
C
513
4.567
B_DG606:DC513_C
1
-7.361
-0.305
-0.310
0.010
-7.644
1
20
B
607
C
512
6.956
B_DA607:DT512_C
2
-8.193
0.505
-0.158
-0.145
-1.758
1
20
B
608
C
511
4.867
B_DA608:DT511_C
3
-9.378
-0.337
0.090
-0.014
8.396
1
20
B
609
C
510
1.885
B_DT609:DA510_C
4
-8.445
-0.697
0.107
-0.086
6.928
1
19
B
610
C
509
6.700
B_DC610:DG509_C
5
-10.407
0.299
0.011
-0.098
-7.851
1
19
B
611
C
508
0.418
B_DC611:DG508_C
6
-4.967
-0.431
0.061
-0.193
-4.930
1
20
B
612
C
507
3.237
B_DT612:DA507_C
7
-7.917
-0.643
0.025
-0.278
2.421
1
20
B
613
C
506
-0.695
B_DT613:DA506_C
8
-13.192
-0.391
-0.059
-0.160
1.184
1
19
B
614
C
505
-0.858
B_DC614:DG505_C
9
-8.277
-0.437
-0.461
-0.166
-11.296
1
19
B
615
C
504
3.507
B_DC615:DG504_C
10
-6.526
0.126
0.357
-0.007
1.356
1
19
B
616
C
503
-7.855
B_DC616:DG503_C
11
-4.405
-0.172
0.048
-0.139
-2.672
1
19
B
617
C
502
0.453
B_DC617:DG502_C
12
-1.970
0.031
0.016
-0.251
5.384
1
19
B
618
C
501
-1.291
B_DC618:DG501_C
13
-6.973
0.085
-0.153
-0.108
3.023
31.212
B
B
606
607
13.799
C
C
513
512
3.134
7.346
0.198
0.035
BB_DG606DA607:DT512DC513_CC
1
-3.169
5.953
30.194
-1.271
-0.944
3.281
32.137
B
B
607
608
2.643
C
C
512
511
3.239
1.460
-0.694
-0.209
BB_DA607DA608:DT511DT512_CC
2
-3.455
6.254
31.923
-0.640
0.634
2.974
25.047
B
B
608
609
5.059
C
C
511
510
3.041
2.189
-0.225
-0.752
BB_DA608DT609:DA510DT511_CC
3
-1.892
4.371
24.882
-2.331
0.003
3.393
40.117
B
B
609
610
-5.796
C
C
510
509
3.358
-3.970
0.711
-0.352
BB_DT609DC610:DG509DA510_CC
4
0.997
-1.455
39.917
-0.044
-0.919
3.270
32.883
B
B
610
611
13.691
C
C
509
508
3.574
7.682
-0.499
-0.961
BB_DC610DC611:DG508DG509_CC
5
-0.633
1.129
31.991
-3.092
0.766
3.127
32.898
B
B
611
612
10.650
C
C
508
507
3.208
5.999
-0.044
-0.167
BB_DC611DT612:DA507DG508_CC
6
0.323
-0.574
32.359
-1.296
0.131
3.017
33.519
B
B
612
613
5.717
C
C
507
506
3.063
3.292
0.111
-0.347
BB_DT612DT613:DA506DA507_CC
7
0.700
-1.216
33.354
-1.106
-0.086
3.277
32.589
B
B
613
614
4.817
C
C
506
505
3.294
2.698
0.409
-0.339
BB_DT613DC614:DG505DA506_CC
8
2.399
-4.284
32.394
-1.078
-0.308
3.218
33.990
B
B
614
615
16.174
C
C
505
504
3.623
9.300
0.359
-0.640
BB_DC614DC615:DG504DG505_CC
9
-5.506
9.576
32.274
-2.692
-1.560
2.793
30.635
B
B
615
616
10.512
C
C
504
503
3.013
5.513
-0.769
-0.389
BB_DC615DC616:DG503DG504_CC
10
3.473
-6.621
29.950
-1.714
2.070
3.441
31.840
B
B
616
617
15.362
C
C
503
502
3.444
8.306
1.662
-0.348
BB_DC616DC617:DG502DG503_CC
11
4.610
-8.526
30.425
-2.267
-2.123
3.063
32.971
B
B
617
618
6.237
C
C
502
501
3.080
3.533
-0.964
-0.121
BB_DC617DC618:DG501DG502_CC
12
-0.450
0.795
32.783
-0.779
1.626
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
1
0
2013-08-28
1
1
2013-10-09
1
2
2024-02-28
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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_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.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_seq_id
_struct_conn.ptnr2_label_asym_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
2013-03-25
REL
REL
DGT
2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE
CA
CALCIUM ION
HOH
water
DGT
7000
4
DGT
DGT
401
A
CA
1001
5
CA
CA
402
A
CA
1002
5
CA
CA
403
A
CA
1003
5
CA
CA
404
A
CA
1004
5
CA
CA
601
C
HOH
342
6
HOH
HOH
501
A
HOH
343
6
HOH
HOH
502
A
HOH
344
6
HOH
HOH
503
A
HOH
345
6
HOH
HOH
504
A
HOH
346
6
HOH
HOH
505
A
HOH
347
6
HOH
HOH
506
A
HOH
348
6
HOH
HOH
507
A
HOH
349
6
HOH
HOH
508
A
HOH
350
6
HOH
HOH
509
A
HOH
351
6
HOH
HOH
510
A
HOH
352
6
HOH
HOH
511
A
HOH
353
6
HOH
HOH
512
A
HOH
354
6
HOH
HOH
513
A
HOH
355
6
HOH
HOH
514
A
HOH
356
6
HOH
HOH
515
A
HOH
357
6
HOH
HOH
516
A
HOH
358
6
HOH
HOH
517
A
HOH
359
6
HOH
HOH
518
A
HOH
360
6
HOH
HOH
519
A
HOH
361
6
HOH
HOH
520
A
HOH
362
6
HOH
HOH
521
A
HOH
363
6
HOH
HOH
522
A
HOH
364
6
HOH
HOH
523
A
HOH
365
6
HOH
HOH
524
A
HOH
366
6
HOH
HOH
525
A
HOH
367
6
HOH
HOH
526
A
HOH
368
6
HOH
HOH
527
A
HOH
369
6
HOH
HOH
528
A
HOH
370
6
HOH
HOH
529
A
HOH
371
6
HOH
HOH
530
A
HOH
372
6
HOH
HOH
531
A
HOH
373
6
HOH
HOH
532
A
HOH
374
6
HOH
HOH
533
A
HOH
375
6
HOH
HOH
534
A
HOH
376
6
HOH
HOH
535
A
HOH
377
6
HOH
HOH
536
A
HOH
378
6
HOH
HOH
537
A
HOH
379
6
HOH
HOH
538
A
HOH
380
6
HOH
HOH
539
A
HOH
381
6
HOH
HOH
540
A
HOH
382
6
HOH
HOH
541
A
HOH
383
6
HOH
HOH
542
A
HOH
384
6
HOH
HOH
543
A
HOH
385
6
HOH
HOH
544
A
HOH
386
6
HOH
HOH
545
A
HOH
387
6
HOH
HOH
546
A
HOH
388
6
HOH
HOH
547
A
HOH
389
6
HOH
HOH
548
A
HOH
390
6
HOH
HOH
549
A
HOH
391
6
HOH
HOH
550
A
HOH
392
6
HOH
HOH
551
A
HOH
393
6
HOH
HOH
552
A
HOH
394
6
HOH
HOH
553
A
HOH
395
6
HOH
HOH
554
A
HOH
396
6
HOH
HOH
555
A
HOH
397
6
HOH
HOH
556
A
HOH
398
6
HOH
HOH
557
A
HOH
399
6
HOH
HOH
558
A
HOH
400
6
HOH
HOH
559
A
HOH
401
6
HOH
HOH
701
B
HOH
10
6
HOH
HOH
702
B
HOH
24
6
HOH
HOH
703
B
HOH
33
6
HOH
HOH
704
B
HOH
36
6
HOH
HOH
705
B
HOH
42
6
HOH
HOH
706
B
HOH
43
6
HOH
HOH
707
B
HOH
44
6
HOH
HOH
708
B
HOH
50
6
HOH
HOH
709
B
HOH
53
6
HOH
HOH
710
B
HOH
73
6
HOH
HOH
711
B
HOH
74
6
HOH
HOH
712
B
HOH
6
6
HOH
HOH
701
C
HOH
11
6
HOH
HOH
702
C
HOH
18
6
HOH
HOH
703
C
HOH
19
6
HOH
HOH
704
C
HOH
20
6
HOH
HOH
705
C
HOH
21
6
HOH
HOH
706
C
HOH
26
6
HOH
HOH
707
C
HOH
28
6
HOH
HOH
708
C
HOH
29
6
HOH
HOH
709
C
HOH
30
6
HOH
HOH
710
C
HOH
81
6
HOH
HOH
711
C
HOH
84
6
HOH
HOH
712
C
HOH
85
6
HOH
HOH
713
C
n
1
-5
A
n
2
-4
A
n
3
-3
A
n
4
-2
A
n
5
-1
A
n
6
0
A
MET
1
n
7
MET
1
A
ILE
2
n
8
ILE
2
A
VAL
3
n
9
VAL
3
A
LEU
4
n
10
LEU
4
A
PHE
5
n
11
PHE
5
A
VAL
6
n
12
VAL
6
A
ASP
7
n
13
ASP
7
A
PHE
8
n
14
PHE
8
A
ASP
9
n
15
ASP
9
A
TYR
10
n
16
TYR
10
A
PHE
11
n
17
PHE
11
A
TYR
12
n
18
TYR
12
A
ALA
13
n
19
ALA
13
A
GLN
14
n
20
GLN
14
A
VAL
15
n
21
VAL
15
A
GLU
16
n
22
GLU
16
A
GLU
17
n
23
GLU
17
A
VAL
18
n
24
VAL
18
A
LEU
19
n
25
LEU
19
A
ASN
20
n
26
ASN
20
A
PRO
21
n
27
PRO
21
A
SER
22
n
28
SER
22
A
LEU
23
n
29
LEU
23
A
LYS
24
n
30
LYS
24
A
GLY
25
n
31
GLY
25
A
LYS
26
n
32
LYS
26
A
PRO
27
n
33
PRO
27
A
VAL
28
n
34
VAL
28
A
VAL
29
n
35
VAL
29
A
VAL
30
n
36
VAL
30
A
CYS
31
n
37
CYS
31
A
VAL
32
n
38
VAL
32
A
PHE
33
n
39
PHE
33
A
SER
34
n
40
SER
34
A
GLY
35
n
41
GLY
35
A
ARG
36
n
42
ARG
36
A
PHE
37
n
43
PHE
37
A
GLU
38
n
44
GLU
38
A
ASP
39
n
45
ASP
39
A
SER
40
n
46
SER
40
A
GLY
41
n
47
GLY
41
A
ALA
42
n
48
ALA
42
A
VAL
43
n
49
VAL
43
A
ALA
44
n
50
ALA
44
A
THR
45
n
51
THR
45
A
ALA
46
n
52
ALA
46
A
ASN
47
n
53
ASN
47
A
TYR
48
n
54
TYR
48
A
GLU
49
n
55
GLU
49
A
ALA
50
n
56
ALA
50
A
ARG
51
n
57
ARG
51
A
LYS
52
n
58
LYS
52
A
PHE
53
n
59
PHE
53
A
GLY
54
n
60
GLY
54
A
VAL
55
n
61
VAL
55
A
LYS
56
n
62
LYS
56
A
ALA
57
n
63
ALA
57
A
GLY
58
n
64
GLY
58
A
ILE
59
n
65
ILE
59
A
PRO
60
n
66
PRO
60
A
ILE
61
n
67
ILE
61
A
VAL
62
n
68
VAL
62
A
GLU
63
n
69
GLU
63
A
ALA
64
n
70
ALA
64
A
LYS
65
n
71
LYS
65
A
LYS
66
n
72
LYS
66
A
ILE
67
n
73
ILE
67
A
LEU
68
n
74
LEU
68
A
PRO
69
n
75
PRO
69
A
ASN
70
n
76
ASN
70
A
ALA
71
n
77
ALA
71
A
VAL
72
n
78
VAL
72
A
TYR
73
n
79
TYR
73
A
LEU
74
n
80
LEU
74
A
PRO
75
n
81
PRO
75
A
MET
76
n
82
MET
76
A
ARG
77
n
83
ARG
77
A
LYS
78
n
84
LYS
78
A
GLU
79
n
85
GLU
79
A
VAL
80
n
86
VAL
80
A
TYR
81
n
87
TYR
81
A
GLN
82
n
88
GLN
82
A
GLN
83
n
89
GLN
83
A
VAL
84
n
90
VAL
84
A
SER
85
n
91
SER
85
A
SER
86
n
92
SER
86
A
ARG
87
n
93
ARG
87
A
ILE
88
n
94
ILE
88
A
MET
89
n
95
MET
89
A
ASN
90
n
96
ASN
90
A
LEU
91
n
97
LEU
91
A
LEU
92
n
98
LEU
92
A
ARG
93
n
99
ARG
93
A
GLU
94
n
100
GLU
94
A
TYR
95
n
101
TYR
95
A
SER
96
n
102
SER
96
A
GLU
97
n
103
GLU
97
A
LYS
98
n
104
LYS
98
A
ILE
99
n
105
ILE
99
A
GLU
100
n
106
GLU
100
A
ILE
101
n
107
ILE
101
A
ALA
102
n
108
ALA
102
A
SER
103
n
109
SER
103
A
ILE
104
n
110
ILE
104
A
ASP
105
n
111
ASP
105
A
GLU
106
n
112
GLU
106
A
ALA
107
n
113
ALA
107
A
TYR
108
n
114
TYR
108
A
LEU
109
n
115
LEU
109
A
ASP
110
n
116
ASP
110
A
ILE
111
n
117
ILE
111
A
SER
112
n
118
SER
112
A
ASP
113
n
119
ASP
113
A
LYS
114
n
120
LYS
114
A
VAL
115
n
121
VAL
115
A
ARG
116
n
122
ARG
116
A
ASP
117
n
123
ASP
117
A
TYR
118
n
124
TYR
118
A
ARG
119
n
125
ARG
119
A
GLU
120
n
126
GLU
120
A
ALA
121
n
127
ALA
121
A
TYR
122
n
128
TYR
122
A
ASN
123
n
129
ASN
123
A
LEU
124
n
130
LEU
124
A
GLY
125
n
131
GLY
125
A
LEU
126
n
132
LEU
126
A
GLU
127
n
133
GLU
127
A
ILE
128
n
134
ILE
128
A
LYS
129
n
135
LYS
129
A
ASN
130
n
136
ASN
130
A
LYS
131
n
137
LYS
131
A
ILE
132
n
138
ILE
132
A
LEU
133
n
139
LEU
133
A
GLU
134
n
140
GLU
134
A
LYS
135
n
141
LYS
135
A
GLU
136
n
142
GLU
136
A
LYS
137
n
143
LYS
137
A
ILE
138
n
144
ILE
138
A
THR
139
n
145
THR
139
A
VAL
140
n
146
VAL
140
A
THR
141
n
147
THR
141
A
VAL
142
n
148
VAL
142
A
GLY
143
n
149
GLY
143
A
ILE
144
n
150
ILE
144
A
SER
145
n
151
SER
145
A
LYS
146
n
152
LYS
146
A
ASN
147
n
153
ASN
147
A
LYS
148
n
154
LYS
148
A
VAL
149
n
155
VAL
149
A
PHE
150
n
156
PHE
150
A
ALA
151
n
157
ALA
151
A
LYS
152
n
158
LYS
152
A
ILE
153
n
159
ILE
153
A
ALA
154
n
160
ALA
154
A
ALA
155
n
161
ALA
155
A
ASP
156
n
162
ASP
156
A
MET
157
n
163
MET
157
A
ALA
158
n
164
ALA
158
A
LYS
159
n
165
LYS
159
A
PRO
160
n
166
PRO
160
A
ASN
161
n
167
ASN
161
A
GLY
162
n
168
GLY
162
A
ILE
163
n
169
ILE
163
A
LYS
164
n
170
LYS
164
A
VAL
165
n
171
VAL
165
A
ILE
166
n
172
ILE
166
A
ASP
167
n
173
ASP
167
A
ASP
168
n
174
ASP
168
A
GLU
169
n
175
GLU
169
A
GLU
170
n
176
GLU
170
A
VAL
171
n
177
VAL
171
A
LYS
172
n
178
LYS
172
A
ARG
173
n
179
ARG
173
A
LEU
174
n
180
LEU
174
A
ILE
175
n
181
ILE
175
A
ARG
176
n
182
ARG
176
A
GLU
177
n
183
GLU
177
A
LEU
178
n
184
LEU
178
A
ASP
179
n
185
ASP
179
A
ILE
180
n
186
ILE
180
A
ALA
181
n
187
ALA
181
A
ASP
182
n
188
ASP
182
A
VAL
183
n
189
VAL
183
A
PRO
184
n
190
PRO
184
A
GLY
185
n
191
GLY
185
A
ILE
186
n
192
ILE
186
A
GLY
187
n
193
GLY
187
A
ASN
188
n
194
ASN
188
A
ILE
189
n
195
ILE
189
A
THR
190
n
196
THR
190
A
ALA
191
n
197
ALA
191
A
GLU
192
n
198
GLU
192
A
LYS
193
n
199
LYS
193
A
LEU
194
n
200
LEU
194
A
LYS
195
n
201
LYS
195
A
LYS
196
n
202
LYS
196
A
LEU
197
n
203
LEU
197
A
GLY
198
n
204
GLY
198
A
ILE
199
n
205
ILE
199
A
ASN
200
n
206
ASN
200
A
LYS
201
n
207
LYS
201
A
LEU
202
n
208
LEU
202
A
VAL
203
n
209
VAL
203
A
ASP
204
n
210
ASP
204
A
THR
205
n
211
THR
205
A
LEU
206
n
212
LEU
206
A
SER
207
n
213
SER
207
A
ILE
208
n
214
ILE
208
A
GLU
209
n
215
GLU
209
A
PHE
210
n
216
PHE
210
A
ASP
211
n
217
ASP
211
A
LYS
212
n
218
LYS
212
A
LEU
213
n
219
LEU
213
A
LYS
214
n
220
LYS
214
A
GLY
215
n
221
GLY
215
A
MET
216
n
222
MET
216
A
ILE
217
n
223
ILE
217
A
GLY
218
n
224
GLY
218
A
GLU
219
n
225
GLU
219
A
ALA
220
n
226
ALA
220
A
LYS
221
n
227
LYS
221
A
ALA
222
n
228
ALA
222
A
LYS
223
n
229
LYS
223
A
TYR
224
n
230
TYR
224
A
LEU
225
n
231
LEU
225
A
ILE
226
n
232
ILE
226
A
SER
227
n
233
SER
227
A
LEU
228
n
234
LEU
228
A
ALA
229
n
235
ALA
229
A
ARG
230
n
236
ARG
230
A
ASP
231
n
237
ASP
231
A
GLU
232
n
238
GLU
232
A
TYR
233
n
239
TYR
233
A
ASN
234
n
240
ASN
234
A
GLU
235
n
241
GLU
235
A
PRO
236
n
242
PRO
236
A
ILE
237
n
243
ILE
237
A
ARG
238
n
244
ARG
238
A
THR
239
n
245
THR
239
A
ARG
240
n
246
ARG
240
A
VAL
241
n
247
VAL
241
A
ARG
242
n
248
ARG
242
A
LYS
243
n
249
LYS
243
A
SER
244
n
250
SER
244
A
ILE
245
n
251
ILE
245
A
GLY
246
n
252
GLY
246
A
ARG
247
n
253
ARG
247
A
ILE
248
n
254
ILE
248
A
VAL
249
n
255
VAL
249
A
THR
250
n
256
THR
250
A
MET
251
n
257
MET
251
A
LYS
252
n
258
LYS
252
A
ARG
253
n
259
ARG
253
A
ASN
254
n
260
ASN
254
A
SER
255
n
261
SER
255
A
ARG
256
n
262
ARG
256
A
ASN
257
n
263
ASN
257
A
LEU
258
n
264
LEU
258
A
GLU
259
n
265
GLU
259
A
GLU
260
n
266
GLU
260
A
ILE
261
n
267
ILE
261
A
LYS
262
n
268
LYS
262
A
PRO
263
n
269
PRO
263
A
TYR
264
n
270
TYR
264
A
LEU
265
n
271
LEU
265
A
PHE
266
n
272
PHE
266
A
ARG
267
n
273
ARG
267
A
ALA
268
n
274
ALA
268
A
ILE
269
n
275
ILE
269
A
GLU
270
n
276
GLU
270
A
GLU
271
n
277
GLU
271
A
SER
272
n
278
SER
272
A
TYR
273
n
279
TYR
273
A
TYR
274
n
280
TYR
274
A
LYS
275
n
281
LYS
275
A
LEU
276
n
282
LEU
276
A
ASP
277
n
283
ASP
277
A
LYS
278
n
284
LYS
278
A
ARG
279
n
285
ARG
279
A
ILE
280
n
286
ILE
280
A
PRO
281
n
287
PRO
281
A
LYS
282
n
288
LYS
282
A
ALA
283
n
289
ALA
283
A
ILE
284
n
290
ILE
284
A
HIS
285
n
291
HIS
285
A
VAL
286
n
292
VAL
286
A
VAL
287
n
293
VAL
287
A
ALA
288
n
294
ALA
288
A
VAL
289
n
295
VAL
289
A
THR
290
n
296
THR
290
A
GLU
291
n
297
GLU
291
A
ASP
292
n
298
ASP
292
A
LEU
293
n
299
LEU
293
A
ASP
294
n
300
ASP
294
A
ILE
295
n
301
ILE
295
A
VAL
296
n
302
VAL
296
A
SER
297
n
303
SER
297
A
ARG
298
n
304
ARG
298
A
GLY
299
n
305
GLY
299
A
ARG
300
n
306
ARG
300
A
THR
301
n
307
THR
301
A
PHE
302
n
308
PHE
302
A
PRO
303
n
309
PRO
303
A
HIS
304
n
310
HIS
304
A
GLY
305
n
311
GLY
305
A
ILE
306
n
312
ILE
306
A
SER
307
n
313
SER
307
A
LYS
308
n
314
LYS
308
A
GLU
309
n
315
GLU
309
A
THR
310
n
316
THR
310
A
ALA
311
n
317
ALA
311
A
TYR
312
n
318
TYR
312
A
SER
313
n
319
SER
313
A
GLU
314
n
320
GLU
314
A
SER
315
n
321
SER
315
A
VAL
316
n
322
VAL
316
A
LYS
317
n
323
LYS
317
A
LEU
318
n
324
LEU
318
A
LEU
319
n
325
LEU
319
A
GLN
320
n
326
GLN
320
A
LYS
321
n
327
LYS
321
A
ILE
322
n
328
ILE
322
A
LEU
323
n
329
LEU
323
A
GLU
324
n
330
GLU
324
A
GLU
325
n
331
GLU
325
A
ASP
326
n
332
ASP
326
A
GLU
327
n
333
GLU
327
A
ARG
328
n
334
ARG
328
A
LYS
329
n
335
LYS
329
A
ILE
330
n
336
ILE
330
A
ARG
331
n
337
ARG
331
A
ARG
332
n
338
ARG
332
A
ILE
333
n
339
ILE
333
A
GLY
334
n
340
GLY
334
A
VAL
335
n
341
VAL
335
A
ARG
336
n
342
ARG
336
A
PHE
337
n
343
PHE
337
A
SER
338
n
344
SER
338
A
LYS
339
n
345
LYS
339
A
PHE
340
n
346
PHE
340
A
ILE
341
n
347
ILE
341
A
DC
604
n
1
DC
604
B
HN1
605
n
2
HN1
605
B
DG
606
n
3
DG
606
B
DA
607
n
4
DA
607
B
DA
608
n
5
DA
608
B
DT
609
n
6
DT
609
B
DC
610
n
7
DC
610
B
DC
611
n
8
DC
611
B
DT
612
n
9
DT
612
B
DT
613
n
10
DT
613
B
DC
614
n
11
DC
614
B
DC
615
n
12
DC
615
B
DC
616
n
13
DC
616
B
DC
617
n
14
DC
617
B
DC
618
n
15
DC
618
B
DG
501
n
1
DG
501
C
DG
502
n
2
DG
502
C
DG
503
n
3
DG
503
C
DG
504
n
4
DG
504
C
DG
505
n
5
DG
505
C
DA
506
n
6
DA
506
C
DA
507
n
7
DA
507
C
DG
508
n
8
DG
508
C
DG
509
n
9
DG
509
C
DA
510
n
10
DA
510
C
DT
511
n
11
DT
511
C
DT
512
n
12
DT
512
C
DC
513
n
13
DC
513
C
author_and_software_defined_assembly
PISA
3
trimeric
5080
-73
20000
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
A
PHE
8
A
O
PHE
14
1_555
98.1
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
A
ASP
105
A
OD2
ASP
111
1_555
76.2
A
PHE
8
A
O
PHE
14
1_555
A
CA
402
E
CA
CA
1_555
A
ASP
105
A
OD2
ASP
111
1_555
84.3
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
95.9
A
PHE
8
A
O
PHE
14
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
155.1
A
ASP
105
A
OD2
ASP
111
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
79.2
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2B
DGT
1_555
150.1
A
PHE
8
A
O
PHE
14
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2B
DGT
1_555
90.5
A
ASP
105
A
OD2
ASP
111
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2B
DGT
1_555
76.3
A
DGT
401
D
O2A
DGT
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2B
DGT
1_555
67.7
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2G
DGT
1_555
115.0
A
PHE
8
A
O
PHE
14
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2G
DGT
1_555
132.9
A
ASP
105
A
OD2
ASP
111
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2G
DGT
1_555
133.9
A
DGT
401
D
O2A
DGT
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2G
DGT
1_555
55.9
A
DGT
401
D
O2B
DGT
1_555
A
CA
402
E
CA
CA
1_555
A
DGT
401
D
O2G
DGT
1_555
77.4
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
ASP
7
A
OD2
ASP
13
1_555
41.5
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
ASP
105
A
OD1
ASP
111
1_555
79.7
A
ASP
7
A
OD2
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
ASP
105
A
OD1
ASP
111
1_555
120.4
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
GLU
106
A
OE2
GLU
112
1_555
120.8
A
ASP
7
A
OD2
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
GLU
106
A
OE2
GLU
112
1_555
109.1
A
ASP
105
A
OD1
ASP
111
1_555
A
CA
403
F
CA
CA
1_555
A
GLU
106
A
OE2
GLU
112
1_555
90.9
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
87.9
A
ASP
7
A
OD2
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
91.8
A
ASP
105
A
OD1
ASP
111
1_555
A
CA
403
F
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
95.2
A
GLU
106
A
OE2
GLU
112
1_555
A
CA
403
F
CA
CA
1_555
A
DGT
401
D
O2A
DGT
1_555
151.3
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
141.0
A
ASP
7
A
OD2
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
164.1
A
ASP
105
A
OD1
ASP
111
1_555
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
62.5
A
GLU
106
A
OE2
GLU
112
1_555
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
55.2
A
DGT
401
D
O2A
DGT
1_555
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
103.6
A
ALA
181
A
O
ALA
187
1_555
A
CA
404
G
CA
CA
1_555
A
ILE
186
A
O
ILE
192
1_555
70.0
A
ALA
181
A
O
ALA
187
1_555
A
CA
404
G
CA
CA
1_555
A
HOH
506
I
O
HOH
1_555
70.0
A
ILE
186
A
O
ILE
192
1_555
A
CA
404
G
CA
CA
1_555
A
HOH
506
I
O
HOH
1_555
117.7
A
ALA
181
A
O
ALA
187
1_555
A
CA
404
G
CA
CA
1_555
C
HOH
701
K
O
HOH
1_555
57.3
A
ILE
186
A
O
ILE
192
1_555
A
CA
404
G
CA
CA
1_555
C
HOH
701
K
O
HOH
1_555
57.6
A
HOH
506
I
O
HOH
1_555
A
CA
404
G
CA
CA
1_555
C
HOH
701
K
O
HOH
1_555
60.9
B
HN1
605
B
HN1
2
DG
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
GLU
100
A
N
GLU
106
A
O
TYR
108
A
O
TYR
114
A
O
ALA
107
A
O
ALA
113
A
N
VAL
6
A
N
VAL
12
A
N
PHE
5
A
N
PHE
11
A
O
GLY
143
A
O
GLY
149
A
N
ILE
144
A
N
ILE
150
A
O
LYS
164
A
O
LYS
170
A
O
ALA
42
A
O
ALA
48
A
N
VAL
32
A
N
VAL
38
A
N
CYS
31
A
N
CYS
37
A
O
LEU
74
A
O
LEU
80
A
N
ILE
245
A
N
ILE
251
A
O
PHE
337
A
O
PHE
343
A
O
ARG
331
A
O
ARG
337
A
N
VAL
289
A
N
VAL
295
A
N
ALA
288
A
N
ALA
294
A
O
VAL
296
A
O
VAL
302
1
B
C7
HN1
605
B
C7
HN1
2
1
Y
1
B
C9
HN1
605
B
C9
HN1
2
1
Y
1
B
C10
HN1
605
B
C10
HN1
2
1
Y
1
B
O10
HN1
605
B
O10
HN1
2
1
Y
1
B
C11
HN1
605
B
C11
HN1
2
1
Y
1
B
C12
HN1
605
B
C12
HN1
2
1
Y
1
B
C13
HN1
605
B
C13
HN1
2
1
Y
1
A
HIS
-5
A
HIS
1
1
Y
1
A
HIS
-4
A
HIS
2
1
Y
1
A
HIS
-3
A
HIS
3
1
Y
1
A
HIS
-2
A
HIS
4
1
Y
1
A
HIS
-1
A
HIS
5
1
Y
1
A
HIS
0
A
HIS
6
1
Y
1
A
A
O
O
HOH
HOH
512
527
2.12
1
A
A
OE2
OH
GLU
TYR
270
312
2.17
1
-6.13
1.00
110.10
103.97
B
B
B
C1'
O4'
C4'
DA
DA
DA
607
607
607
N
1
3.42
0.30
108.30
111.72
B
B
B
O4'
C1'
N9
DA
DA
DA
607
607
607
N
1
3.93
0.60
119.90
123.83
B
B
B
N3
C4
O4
DT
DT
DT
612
612
612
N
1
6.40
0.30
108.30
114.70
B
B
B
O4'
C1'
N1
DC
DC
DC
617
617
617
N
1
1.82
0.30
108.30
110.12
C
C
C
O4'
C1'
N9
DG
DG
DG
502
502
502
N
1
3.36
0.30
108.30
111.66
C
C
C
O4'
C1'
N9
DG
DG
DG
504
504
504
N
1
2.74
0.30
108.30
111.04
C
C
C
O4'
C1'
N9
DG
DG
DG
509
509
509
N
1
3.24
0.30
108.30
111.54
C
C
C
O4'
C1'
N1
DC
DC
DC
513
513
513
N
1
A
A
O
O
HOH
HOH
513
542
1.96
1_555
1_556
1
A
TYR
10
30.20
53.14
1
A
ASN
20
-151.32
83.95
1
A
ARG
77
-114.82
73.33
1
A
ASP
105
-146.71
21.66
1
A
SER
145
-167.01
-165.90
1
A
ASP
167
-69.74
-100.35
1
A
ASP
168
-140.64
-32.81
1
A
ASN
234
-154.89
41.84
1
A
ASP
277
33.21
81.88
1
A
ASP
292
-96.24
32.25
53.80
2.58450
-0.00000
0.00000
-1.65850
-0.00000
-0.92600
0.269
0.213
0.218
2.30
41.87
2000
23031
8.680
98.8
1.000
0.000
0.740
1
1.360
MOLECULAR REPLACEMENT
29.100
0.86
1.10
ML
FLAT BULK SOLVENT MODEL
38.31
0.34
2.30
41.87
84
3438
35
575
2744
0.009
1.200
0.4305
0.3211
2.3491
125
1312
88.00
0.4031
0.3116
2.4126
137
1440
97.00
0.4002
0.2946
2.4836
141
1484
100.00
0.3592
0.2891
2.5637
143
1504
100.00
0.3767
0.2815
2.6554
143
1500
100.00
0.3209
0.2658
2.7617
143
1516
100.00
0.3147
0.2573
2.8873
141
1481
100.00
0.3486
0.2548
3.0395
144
1515
100.00
0.3025
0.2465
3.2299
143
1508
100.00
0.2844
0.2172
3.4791
146
1522
100.00
0.2610
0.2120
3.8290
145
1525
100.00
0.2122
0.1745
4.3826
147
1545
100.00
0.2222
0.1718
5.5196
147
1552
100.00
0.2327
0.1869
41.8773
155
1627
99.00
2.300
50.000
4JV1
23031
0.000
0.05900
1
0.49000
2.30
2.38
1
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.7.2_869
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data reduction
HKL-2000
data scaling
HKL-2000
phasing
CNS
Ternary complex of gamma-OHPDG adduct modified dna with dna (-1 primer) polymerase iv and incoming dgtp
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
5
N
N
5
N
N
5
N
N
6
N
N
6
N
N
6
N
N
A
TYR
10
A
TYR
16
HELX_P
A
ASN
20
A
ASN
26
1
1
11
A
PRO
21
A
PRO
27
HELX_P
A
LYS
24
A
LYS
30
5
2
4
A
ASN
47
A
ASN
53
HELX_P
A
LYS
52
A
LYS
58
1
3
6
A
PRO
60
A
PRO
66
HELX_P
A
LEU
68
A
LEU
74
1
4
9
A
ARG
77
A
ARG
83
HELX_P
A
ARG
93
A
ARG
99
1
5
17
A
ASP
117
A
ASP
123
HELX_P
A
LYS
137
A
LYS
143
1
6
21
A
ASN
147
A
ASN
153
HELX_P
A
LYS
159
A
LYS
165
1
7
13
A
ASP
168
A
ASP
174
HELX_P
A
LEU
178
A
LEU
184
1
8
11
A
ASP
179
A
ASP
185
HELX_P
A
VAL
183
A
VAL
189
5
9
5
A
GLY
187
A
GLY
193
HELX_P
A
LEU
197
A
LEU
203
1
10
11
A
LYS
201
A
LYS
207
HELX_P
A
SER
207
A
SER
213
5
11
7
A
GLU
209
A
GLU
215
HELX_P
A
GLY
218
A
GLY
224
1
12
10
A
GLY
218
A
GLY
224
HELX_P
A
ARG
230
A
ARG
236
1
13
13
A
ASN
257
A
ASN
263
HELX_P
A
ASP
277
A
ASP
283
1
14
21
A
SER
307
A
SER
313
HELX_P
A
ASP
326
A
ASP
332
1
15
20
covale
1.607
both
B
DC
604
B
O3'
DC
1
1_555
B
HN1
605
B
P
HN1
2
1_555
covale
1.611
both
B
HN1
605
B
O3'
HN1
2
1_555
B
DG
606
B
P
DG
3
1_555
metalc
2.646
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
402
E
CA
CA
1_555
metalc
2.957
A
ASP
7
A
OD1
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
metalc
3.174
A
ASP
7
A
OD2
ASP
13
1_555
A
CA
403
F
CA
CA
1_555
metalc
2.584
A
PHE
8
A
O
PHE
14
1_555
A
CA
402
E
CA
CA
1_555
metalc
2.725
A
ASP
105
A
OD2
ASP
111
1_555
A
CA
402
E
CA
CA
1_555
metalc
3.134
A
ASP
105
A
OD1
ASP
111
1_555
A
CA
403
F
CA
CA
1_555
metalc
3.178
A
GLU
106
A
OE2
GLU
112
1_555
A
CA
403
F
CA
CA
1_555
metalc
2.913
A
ALA
181
A
O
ALA
187
1_555
A
CA
404
G
CA
CA
1_555
metalc
2.958
A
ILE
186
A
O
ILE
192
1_555
A
CA
404
G
CA
CA
1_555
metalc
2.661
A
DGT
401
D
O2A
DGT
1_555
A
CA
402
E
CA
CA
1_555
metalc
2.740
A
DGT
401
D
O2B
DGT
1_555
A
CA
402
E
CA
CA
1_555
metalc
2.967
A
DGT
401
D
O2G
DGT
1_555
A
CA
402
E
CA
CA
1_555
metalc
2.715
A
DGT
401
D
O2A
DGT
1_555
A
CA
403
F
CA
CA
1_555
metalc
3.152
A
CA
403
F
CA
CA
1_555
A
HOH
502
I
O
HOH
1_555
metalc
2.983
A
CA
404
G
CA
CA
1_555
A
HOH
506
I
O
HOH
1_555
metalc
3.193
A
CA
404
G
CA
CA
1_555
C
HOH
701
K
O
HOH
1_555
metalc
3.188
C
CA
601
H
CA
CA
1_555
C
HOH
713
K
O
HOH
1_555
hydrog
WATSON-CRICK
B
DG
606
B
N1
DG
3
1_555
C
DC
513
C
N3
DC
13
1_555
hydrog
WATSON-CRICK
B
DG
606
B
N2
DG
3
1_555
C
DC
513
C
O2
DC
13
1_555
hydrog
WATSON-CRICK
B
DG
606
B
O6
DG
3
1_555
C
DC
513
C
N4
DC
13
1_555
hydrog
WATSON-CRICK
B
DA
607
B
N1
DA
4
1_555
C
DT
512
C
N3
DT
12
1_555
hydrog
WATSON-CRICK
B
DA
607
B
N6
DA
4
1_555
C
DT
512
C
O4
DT
12
1_555
hydrog
WATSON-CRICK
B
DA
608
B
N1
DA
5
1_555
C
DT
511
C
N3
DT
11
1_555
hydrog
WATSON-CRICK
B
DA
608
B
N6
DA
5
1_555
C
DT
511
C
O4
DT
11
1_555
hydrog
WATSON-CRICK
B
DT
609
B
N3
DT
6
1_555
C
DA
510
C
N1
DA
10
1_555
hydrog
WATSON-CRICK
B
DT
609
B
O4
DT
6
1_555
C
DA
510
C
N6
DA
10
1_555
hydrog
WATSON-CRICK
B
DC
610
B
N3
DC
7
1_555
C
DG
509
C
N1
DG
9
1_555
hydrog
WATSON-CRICK
B
DC
610
B
N4
DC
7
1_555
C
DG
509
C
O6
DG
9
1_555
hydrog
WATSON-CRICK
B
DC
610
B
O2
DC
7
1_555
C
DG
509
C
N2
DG
9
1_555
hydrog
WATSON-CRICK
B
DC
611
B
N3
DC
8
1_555
C
DG
508
C
N1
DG
8
1_555
hydrog
WATSON-CRICK
B
DC
611
B
N4
DC
8
1_555
C
DG
508
C
O6
DG
8
1_555
hydrog
WATSON-CRICK
B
DC
611
B
O2
DC
8
1_555
C
DG
508
C
N2
DG
8
1_555
hydrog
WATSON-CRICK
B
DT
612
B
N3
DT
9
1_555
C
DA
507
C
N1
DA
7
1_555
hydrog
WATSON-CRICK
B
DT
612
B
O4
DT
9
1_555
C
DA
507
C
N6
DA
7
1_555
hydrog
WATSON-CRICK
B
DT
613
B
N3
DT
10
1_555
C
DA
506
C
N1
DA
6
1_555
hydrog
WATSON-CRICK
B
DT
613
B
O4
DT
10
1_555
C
DA
506
C
N6
DA
6
1_555
hydrog
WATSON-CRICK
B
DC
614
B
N3
DC
11
1_555
C
DG
505
C
N1
DG
5
1_555
hydrog
WATSON-CRICK
B
DC
614
B
N4
DC
11
1_555
C
DG
505
C
O6
DG
5
1_555
hydrog
WATSON-CRICK
B
DC
614
B
O2
DC
11
1_555
C
DG
505
C
N2
DG
5
1_555
hydrog
WATSON-CRICK
B
DC
615
B
N3
DC
12
1_555
C
DG
504
C
N1
DG
4
1_555
hydrog
WATSON-CRICK
B
DC
615
B
N4
DC
12
1_555
C
DG
504
C
O6
DG
4
1_555
hydrog
WATSON-CRICK
B
DC
615
B
O2
DC
12
1_555
C
DG
504
C
N2
DG
4
1_555
hydrog
WATSON-CRICK
B
DC
616
B
N3
DC
13
1_555
C
DG
503
C
N1
DG
3
1_555
hydrog
WATSON-CRICK
B
DC
616
B
N4
DC
13
1_555
C
DG
503
C
O6
DG
3
1_555
hydrog
WATSON-CRICK
B
DC
616
B
O2
DC
13
1_555
C
DG
503
C
N2
DG
3
1_555
hydrog
WATSON-CRICK
B
DC
617
B
N3
DC
14
1_555
C
DG
502
C
N1
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
617
B
N4
DC
14
1_555
C
DG
502
C
O6
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
617
B
O2
DC
14
1_555
C
DG
502
C
N2
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
618
B
N3
DC
15
1_555
C
DG
501
C
N1
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
618
B
N4
DC
15
1_555
C
DG
501
C
O6
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
618
B
O2
DC
15
1_555
C
DG
501
C
N2
DG
1
1_555
TRANSFERASE/DNA
TERNARY COMPLEX OF DPO4-DNA-DGTP, DNA POLYMERASE, DNA ADDUCT, TRANSFERASE-DNA COMPLEX
A
LYS
159
A
LYS
165
1
A
PRO
160
A
PRO
166
5.07
DPO4_SULSO
UNP
1
1
Q97W02
MIVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPIVEAKKILPNAVYLPMRKEV
YQQVSSRIMNLLREYSEKIEIASIDEAYLDISDKVRDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKP
NGIKVIDDEEVKRLIRELDIADVPGIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEYNEPIRTR
VRKSIGRIVTMKRNSRNLEEIKPYLFRAIEESYYKLDKRIPKAIHVVAVTEDLDIVSRGRTFPHGISKETAYSESVKLLQ
KILEEDERKIRRIGVRFSKFI
4JV1
PDB
2
4JV1
4JV1
PDB
3
4JV1
1
341
4JV1
1
341
Q97W02
A
1
7
347
604
618
4JV1
604
618
4JV1
B
2
1
15
501
513
4JV1
501
513
4JV1
C
3
1
13
1
expression tag
HIS
-5
4JV1
A
Q97W02
UNP
1
1
expression tag
HIS
-4
4JV1
A
Q97W02
UNP
2
1
expression tag
HIS
-3
4JV1
A
Q97W02
UNP
3
1
expression tag
HIS
-2
4JV1
A
Q97W02
UNP
4
1
expression tag
HIS
-1
4JV1
A
Q97W02
UNP
5
1
expression tag
HIS
0
4JV1
A
Q97W02
UNP
6
5
3
4
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
A
ILE
99
A
ILE
105
A
SER
103
A
SER
109
A
GLU
106
A
GLU
112
A
ASP
110
A
ASP
116
A
VAL
3
A
VAL
9
A
PHE
8
A
PHE
14
A
VAL
140
A
VAL
146
A
SER
145
A
SER
151
A
ILE
163
A
ILE
169
A
VAL
165
A
VAL
171
A
GLY
41
A
GLY
47
A
ALA
46
A
ALA
52
A
VAL
28
A
VAL
34
A
PHE
33
A
PHE
39
A
VAL
72
A
VAL
78
A
PRO
75
A
PRO
81
A
SER
244
A
SER
250
A
SER
255
A
SER
261
A
ILE
330
A
ILE
336
A
PHE
340
A
PHE
346
A
PRO
281
A
PRO
287
A
THR
290
A
THR
296
A
ILE
295
A
ILE
301
A
THR
301
A
THR
307
BINDING SITE FOR RESIDUE DGT A 401
A
DGT
401
Software
17
BINDING SITE FOR RESIDUE CA A 402
A
CA
402
Software
4
BINDING SITE FOR RESIDUE CA A 403
A
CA
403
Software
4
BINDING SITE FOR RESIDUE CA A 404
A
CA
404
Software
3
A
TYR
10
A
TYR
16
17
1_555
A
PHE
11
A
PHE
17
17
1_555
A
TYR
12
A
TYR
18
17
1_555
A
ALA
44
A
ALA
50
17
1_555
A
THR
45
A
THR
51
17
1_555
A
TYR
48
A
TYR
54
17
1_555
A
ARG
51
A
ARG
57
17
1_555
A
ASP
105
A
ASP
111
17
1_555
A
LYS
159
A
LYS
165
17
1_555
A
CA
402
E
CA
17
1_555
A
CA
403
F
CA
17
1_555
A
HOH
501
I
HOH
17
1_555
A
HOH
503
I
HOH
17
1_555
A
HOH
504
I
HOH
17
1_555
A
HOH
558
I
HOH
17
1_555
B
DC
604
B
DC
1
17
1_555
B
HN1
605
B
HN1
2
17
1_555
A
ASP
7
A
ASP
13
4
1_555
A
PHE
8
A
PHE
14
4
1_555
A
ASP
105
A
ASP
111
4
1_555
A
DGT
401
D
DGT
4
1_555
A
ASP
7
A
ASP
13
4
1_555
A
ASP
105
A
ASP
111
4
1_555
A
GLU
106
A
GLU
112
4
1_555
A
DGT
401
D
DGT
4
1_555
A
ALA
181
A
ALA
187
3
1_555
A
ILE
186
A
ILE
192
3
1_555
A
HOH
506
I
HOH
3
1_555
18
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