0.019372
0.000000
0.000000
0.000000
0.019372
0.000000
0.000000
0.000000
0.005832
0.00000
0.00000
0.00000
Myers, J.C.
Moore, S.A.
Shamoo, Y.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
51.622
51.622
171.472
C12 H16 N5 O8 P
389.258
6-METHYL-8-(2-DEOXY-RIBOFURANOSYL)ISOXANTHOPTERIDINE
DNA linking
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
P
N
2
N
O
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
N
N
7
N
C
N
8
N
O
N
9
N
C
N
10
N
N
N
11
N
C
N
12
N
C
N
13
N
N
N
14
N
C
N
15
N
N
N
16
N
N
N
17
N
C
N
18
N
O
N
19
N
C
N
20
N
C
N
21
N
C
N
22
R
C
N
23
N
O
N
24
R
C
N
25
R
C
N
26
N
O
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
H
N
42
N
H
N
43
N
N
N
44
S
C
N
45
N
C
N
46
N
O
N
47
N
C
N
48
N
O
N
49
N
H
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
N
N
57
S
C
N
58
N
C
N
59
N
O
N
60
N
C
N
61
N
C
N
62
N
C
N
63
N
N
N
64
N
C
N
65
N
N
N
66
N
N
N
67
N
O
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
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
H
N
83
N
N
N
84
S
C
N
85
N
C
N
86
N
O
N
87
N
C
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
O
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
N
N
101
S
C
N
102
N
C
N
103
N
O
N
104
N
C
N
105
N
C
N
106
N
O
N
107
N
O
N
108
N
O
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
N
N
117
R
C
N
118
N
C
N
119
N
O
N
120
N
C
N
121
N
S
N
122
N
O
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
O
N
131
N
P
N
132
N
O
N
133
N
O
N
134
N
O
N
135
N
C
N
136
R
C
N
137
N
O
N
138
S
C
N
139
N
O
N
140
N
C
N
141
R
C
Y
142
N
N
Y
143
N
C
Y
144
N
N
Y
145
N
C
Y
146
N
C
N
147
N
N
Y
148
N
N
Y
149
N
C
Y
150
N
N
Y
151
N
C
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
O
N
167
N
P
N
168
N
O
N
169
N
O
N
170
N
O
N
171
N
C
N
172
R
C
N
173
N
O
N
174
S
C
N
175
N
O
N
176
N
C
N
177
R
C
Y
178
N
N
Y
179
N
C
Y
180
N
N
Y
181
N
C
N
182
N
C
N
183
N
O
N
184
N
N
N
185
N
C
N
186
N
N
N
187
N
N
Y
188
N
C
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
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
O
N
204
N
P
N
205
N
O
N
206
N
O
N
207
N
O
N
208
N
C
N
209
R
C
N
210
N
O
N
211
S
C
N
212
N
O
N
213
N
C
N
214
R
C
N
215
N
N
N
216
N
C
N
217
N
O
N
218
N
N
N
219
N
C
N
220
N
O
N
221
N
C
N
222
N
C
N
223
N
C
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
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
N
N
240
S
C
N
241
N
C
N
242
N
O
N
243
N
C
N
244
N
C
N
245
N
C
N
246
N
O
N
247
N
N
N
248
N
O
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
N
N
260
S
C
N
261
N
C
N
262
N
O
N
263
N
C
N
264
N
C
N
265
N
C
N
266
N
O
N
267
N
O
N
268
N
O
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
N
N
279
N
C
N
280
N
C
N
281
N
O
N
282
N
O
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
N
N
289
S
C
N
290
N
C
N
291
N
O
N
292
N
C
Y
293
N
C
Y
294
N
N
Y
295
N
C
Y
296
N
C
Y
297
N
N
N
298
N
O
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
O
N
310
N
H
N
311
N
H
N
312
N
N
N
313
S
C
N
314
N
C
N
315
N
O
N
316
S
C
N
317
N
C
N
318
N
C
N
319
N
C
N
320
N
O
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
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
N
N
335
S
C
N
336
N
C
N
337
N
O
N
338
N
C
N
339
N
C
N
340
N
C
N
341
N
C
N
342
N
O
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
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
N
N
357
S
C
N
358
N
C
N
359
N
O
N
360
N
C
N
361
N
C
N
362
N
C
N
363
N
C
N
364
N
N
N
365
N
O
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
N
N
382
S
C
N
383
N
C
N
384
N
O
N
385
N
C
N
386
N
C
N
387
N
S
N
388
N
C
N
389
N
O
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
N
N
402
S
C
N
403
N
C
N
404
N
O
N
405
N
C
Y
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
N
412
N
O
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
H
N
423
N
H
N
424
N
N
N
425
S
C
N
426
N
C
N
427
N
O
N
428
N
C
N
429
N
C
N
430
N
C
N
431
N
O
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
N
N
442
S
C
N
443
N
C
N
444
N
O
N
445
N
C
N
446
N
O
N
447
N
O
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
N
N
456
S
C
N
457
N
C
N
458
N
O
N
459
R
C
N
460
N
O
N
461
N
C
N
462
N
O
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
H
N
471
N
H
N
472
N
N
N
473
S
C
N
474
N
C
N
475
N
O
N
476
N
C
Y
477
N
C
Y
478
N
C
Y
479
N
C
Y
480
N
N
Y
481
N
C
Y
482
N
C
Y
483
N
C
Y
484
N
C
Y
485
N
C
N
486
N
O
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
H
N
496
N
H
N
497
N
H
N
498
N
H
N
499
N
N
N
500
S
C
N
501
N
C
N
502
N
O
N
503
N
C
Y
504
N
C
Y
505
N
C
Y
506
N
C
Y
507
N
C
Y
508
N
C
Y
509
N
C
N
510
N
O
N
511
N
O
N
512
N
H
N
513
N
H
N
514
N
H
N
515
N
H
N
516
N
H
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
N
N
524
S
C
N
525
N
C
N
526
N
O
N
527
N
C
N
528
N
C
N
529
N
C
N
530
N
O
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
H
N
540
N
H
N
541
N
H
N
1
N
doub
N
2
N
sing
N
3
N
sing
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
doub
N
12
N
sing
N
13
N
doub
N
14
N
sing
N
15
N
sing
N
16
N
doub
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
doub
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
doub
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
sing
N
34
N
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
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
doub
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
sing
N
62
N
sing
N
63
N
doub
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
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
doub
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
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
doub
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
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
N
111
N
sing
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
doub
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
doub
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
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
Y
150
N
sing
Y
151
N
sing
Y
152
N
doub
N
153
N
sing
Y
154
N
sing
Y
155
N
sing
Y
156
N
doub
N
157
N
sing
Y
158
N
doub
N
159
N
sing
N
160
N
sing
Y
161
N
sing
Y
162
N
doub
N
163
N
sing
Y
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
doub
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
Y
188
N
sing
Y
189
N
sing
Y
190
N
doub
N
191
N
sing
Y
192
N
sing
N
193
N
sing
Y
194
N
doub
N
195
N
doub
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
doub
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
doub
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
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
N
228
N
sing
N
229
N
doub
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
doub
N
234
N
sing
N
235
N
sing
N
236
N
doub
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
doub
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
doub
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
doub
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
doub
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
sing
N
283
N
sing
N
284
N
doub
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
doub
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
Y
298
N
sing
Y
299
N
doub
Y
300
N
doub
N
301
N
sing
Y
302
N
sing
N
303
N
sing
Y
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
doub
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
doub
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
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
doub
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
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
doub
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
doub
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
Y
406
N
doub
Y
407
N
sing
Y
408
N
sing
N
409
N
sing
Y
410
N
doub
N
411
N
sing
Y
412
N
doub
N
413
N
sing
Y
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
doub
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
doub
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
sing
N
453
N
sing
N
454
N
doub
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
doub
N
471
N
sing
N
472
N
sing
N
473
N
sing
N
474
N
sing
Y
475
N
doub
Y
476
N
sing
Y
477
N
sing
N
478
N
sing
Y
479
N
doub
Y
480
N
sing
Y
481
N
sing
N
482
N
sing
Y
483
N
sing
Y
484
N
doub
N
485
N
sing
Y
486
N
doub
N
487
N
sing
Y
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
sing
N
498
N
doub
N
499
N
sing
N
500
N
sing
N
501
N
sing
N
502
N
sing
Y
503
N
doub
Y
504
N
sing
Y
505
N
sing
N
506
N
sing
Y
507
N
doub
N
508
N
sing
Y
509
N
doub
N
510
N
sing
Y
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
sing
N
518
N
sing
N
519
N
sing
N
520
N
sing
N
521
N
sing
N
522
N
doub
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
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
278
42300
42306
10.1074/jbc.M306147200
12904298
Structure-based incorporation of 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine into the human telomeric repeat DNA as a probe for UP1 binding and destabilization of G-tetrad structures
2003
10.2210/pdb1pgz/pdb
pdb_00001pgz
103.0
1
osmic mirrors
IMAGE PLATE
2003-02-09
RIGAKU RAXIS IV++
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
3815.499
5'-D(*T*TP*AP*GP*GP*GP*TP*TP*AP*GP*(6MI)P*G)-3'
1
syn
polymer
22171.887
Heterogeneous nuclear ribonucleoprotein A1
Residues 1-195
1
man
polymer
18.015
water
46
nat
water
Helix-destabilizing protein; hnRNP A1; Single-strand binding protein;
hnRNP core protein A1; Unwinding protein 1; UP1
no
yes
(DT)(DT)(DA)(DG)(DG)(DG)(DT)(DT)(DA)(DG)(6MI)(DG)
TTAGGGTTAGNG
B
polydeoxyribonucleotide
no
no
SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG
RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK
IVIQKYHTVNGHNCEVRKALSKQEMASASSSQRGR
SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG
RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK
IVIQKYHTVNGHNCEVRKALSKQEMASASSSQRGR
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
human
Homo
Escherichia
Escherichia coli
sample
HNRPA1
9606
Homo sapiens
469008
Escherichia coli BL21(DE3)
BL21DE3
plasmid
pYS45
1
2.37
47.6
VAPOR DIFFUSION, HANGING DROP
8.1
ammonium phosphate, glycerol, Tris, sodium chloride, MES, EDTA, beta-mercaptoethanol, pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 283.0K
283.0
(NH4)3PO4
1
glycerol
1
Tris HCl
1
NaCl
1
MES
1
EDTA
1
beta-mercaptoethanol
1
(NH4)3PO4
2
glycerol
2
NaCl
2
EDTA
2
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2003-11-11
1
1
2008-04-29
1
2
2011-07-13
1
3
2023-08-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
RCSB
Y
RCSB
2003-05-28
REL
REL
HOH
water
sequence based on human telomeric repeat d(TTAGGG)n
sample
2UP1
PDB ENTRY 2UP1
PDB
experimental model
HOH
5
3
HOH
HOH
5
B
HOH
27
3
HOH
HOH
27
B
HOH
28
3
HOH
HOH
28
B
HOH
29
3
HOH
HOH
29
B
HOH
1
3
HOH
HOH
197
A
HOH
2
3
HOH
HOH
198
A
HOH
3
3
HOH
HOH
199
A
HOH
4
3
HOH
HOH
200
A
HOH
6
3
HOH
HOH
201
A
HOH
7
3
HOH
HOH
202
A
HOH
8
3
HOH
HOH
203
A
HOH
9
3
HOH
HOH
204
A
HOH
10
3
HOH
HOH
205
A
HOH
11
3
HOH
HOH
206
A
HOH
12
3
HOH
HOH
207
A
HOH
13
3
HOH
HOH
208
A
HOH
14
3
HOH
HOH
209
A
HOH
15
3
HOH
HOH
210
A
HOH
16
3
HOH
HOH
211
A
HOH
17
3
HOH
HOH
212
A
HOH
18
3
HOH
HOH
213
A
HOH
19
3
HOH
HOH
214
A
HOH
20
3
HOH
HOH
215
A
HOH
21
3
HOH
HOH
216
A
HOH
22
3
HOH
HOH
217
A
HOH
23
3
HOH
HOH
218
A
HOH
24
3
HOH
HOH
219
A
HOH
25
3
HOH
HOH
220
A
HOH
26
3
HOH
HOH
221
A
HOH
30
3
HOH
HOH
222
A
HOH
31
3
HOH
HOH
223
A
HOH
32
3
HOH
HOH
224
A
HOH
33
3
HOH
HOH
225
A
HOH
34
3
HOH
HOH
226
A
HOH
35
3
HOH
HOH
227
A
HOH
36
3
HOH
HOH
228
A
HOH
37
3
HOH
HOH
229
A
HOH
38
3
HOH
HOH
230
A
HOH
39
3
HOH
HOH
231
A
HOH
40
3
HOH
HOH
232
A
HOH
41
3
HOH
HOH
233
A
HOH
42
3
HOH
HOH
234
A
HOH
43
3
HOH
HOH
235
A
HOH
44
3
HOH
HOH
236
A
HOH
45
3
HOH
HOH
237
A
HOH
46
3
HOH
HOH
238
A
n
1
201
B
T
202
n
2
DT
202
B
A
203
n
3
DA
203
B
G
204
n
4
DG
204
B
G
205
n
5
DG
205
B
G
206
n
6
DG
206
B
T
207
n
7
DT
207
B
T
208
n
8
DT
208
B
A
209
n
9
DA
209
B
G
210
n
10
DG
210
B
6MI
211
n
11
6MI
211
B
n
12
212
B
n
1
2
A
n
2
3
A
n
3
4
A
n
4
5
A
n
5
6
A
n
6
7
A
LYS
8
n
7
LYS
8
A
GLU
9
n
8
GLU
9
A
PRO
10
n
9
PRO
10
A
GLU
11
n
10
GLU
11
A
GLN
12
n
11
GLN
12
A
LEU
13
n
12
LEU
13
A
ARG
14
n
13
ARG
14
A
LYS
15
n
14
LYS
15
A
LEU
16
n
15
LEU
16
A
PHE
17
n
16
PHE
17
A
ILE
18
n
17
ILE
18
A
GLY
19
n
18
GLY
19
A
GLY
20
n
19
GLY
20
A
LEU
21
n
20
LEU
21
A
SER
22
n
21
SER
22
A
PHE
23
n
22
PHE
23
A
GLU
24
n
23
GLU
24
A
THR
25
n
24
THR
25
A
THR
26
n
25
THR
26
A
ASP
27
n
26
ASP
27
A
GLU
28
n
27
GLU
28
A
SER
29
n
28
SER
29
A
LEU
30
n
29
LEU
30
A
ARG
31
n
30
ARG
31
A
SER
32
n
31
SER
32
A
HIS
33
n
32
HIS
33
A
PHE
34
n
33
PHE
34
A
GLU
35
n
34
GLU
35
A
GLN
36
n
35
GLN
36
A
TRP
37
n
36
TRP
37
A
GLY
38
n
37
GLY
38
A
THR
39
n
38
THR
39
A
LEU
40
n
39
LEU
40
A
THR
41
n
40
THR
41
A
ASP
42
n
41
ASP
42
A
CYS
43
n
42
CYS
43
A
VAL
44
n
43
VAL
44
A
VAL
45
n
44
VAL
45
A
MET
46
n
45
MET
46
A
ARG
47
n
46
ARG
47
A
ASP
48
n
47
ASP
48
A
PRO
49
n
48
PRO
49
A
ASN
50
n
49
ASN
50
A
THR
51
n
50
THR
51
A
LYS
52
n
51
LYS
52
A
ARG
53
n
52
ARG
53
A
SER
54
n
53
SER
54
A
ARG
55
n
54
ARG
55
A
GLY
56
n
55
GLY
56
A
PHE
57
n
56
PHE
57
A
GLY
58
n
57
GLY
58
A
PHE
59
n
58
PHE
59
A
VAL
60
n
59
VAL
60
A
THR
61
n
60
THR
61
A
TYR
62
n
61
TYR
62
A
ALA
63
n
62
ALA
63
A
THR
64
n
63
THR
64
A
VAL
65
n
64
VAL
65
A
GLU
66
n
65
GLU
66
A
GLU
67
n
66
GLU
67
A
VAL
68
n
67
VAL
68
A
ASP
69
n
68
ASP
69
A
ALA
70
n
69
ALA
70
A
ALA
71
n
70
ALA
71
A
MET
72
n
71
MET
72
A
ASN
73
n
72
ASN
73
A
ALA
74
n
73
ALA
74
A
ARG
75
n
74
ARG
75
A
PRO
76
n
75
PRO
76
A
HIS
77
n
76
HIS
77
A
LYS
78
n
77
LYS
78
A
VAL
79
n
78
VAL
79
A
ASP
80
n
79
ASP
80
A
GLY
81
n
80
GLY
81
A
ARG
82
n
81
ARG
82
A
VAL
83
n
82
VAL
83
A
VAL
84
n
83
VAL
84
A
GLU
85
n
84
GLU
85
A
PRO
86
n
85
PRO
86
A
LYS
87
n
86
LYS
87
A
ARG
88
n
87
ARG
88
A
ALA
89
n
88
ALA
89
A
VAL
90
n
89
VAL
90
A
SER
91
n
90
SER
91
A
ARG
92
n
91
ARG
92
A
GLU
93
n
92
GLU
93
A
ASP
94
n
93
ASP
94
A
SER
95
n
94
SER
95
A
GLN
96
n
95
GLN
96
A
ARG
97
n
96
ARG
97
A
PRO
98
n
97
PRO
98
A
GLY
99
n
98
GLY
99
A
ALA
100
n
99
ALA
100
A
HIS
101
n
100
HIS
101
A
LEU
102
n
101
LEU
102
A
THR
103
n
102
THR
103
A
VAL
104
n
103
VAL
104
A
LYS
105
n
104
LYS
105
A
LYS
106
n
105
LYS
106
A
ILE
107
n
106
ILE
107
A
PHE
108
n
107
PHE
108
A
VAL
109
n
108
VAL
109
A
GLY
110
n
109
GLY
110
A
GLY
111
n
110
GLY
111
A
ILE
112
n
111
ILE
112
A
LYS
113
n
112
LYS
113
A
GLU
114
n
113
GLU
114
A
ASP
115
n
114
ASP
115
A
THR
116
n
115
THR
116
A
GLU
117
n
116
GLU
117
A
GLU
118
n
117
GLU
118
A
HIS
119
n
118
HIS
119
A
HIS
120
n
119
HIS
120
A
LEU
121
n
120
LEU
121
A
ARG
122
n
121
ARG
122
A
ASP
123
n
122
ASP
123
A
TYR
124
n
123
TYR
124
A
PHE
125
n
124
PHE
125
A
GLU
126
n
125
GLU
126
A
GLN
127
n
126
GLN
127
A
TYR
128
n
127
TYR
128
A
GLY
129
n
128
GLY
129
A
LYS
130
n
129
LYS
130
A
ILE
131
n
130
ILE
131
A
GLU
132
n
131
GLU
132
A
VAL
133
n
132
VAL
133
A
ILE
134
n
133
ILE
134
A
GLU
135
n
134
GLU
135
A
ILE
136
n
135
ILE
136
A
MET
137
n
136
MET
137
A
THR
138
n
137
THR
138
A
ASP
139
n
138
ASP
139
A
ARG
140
n
139
ARG
140
A
GLY
141
n
140
GLY
141
A
SER
142
n
141
SER
142
A
GLY
143
n
142
GLY
143
A
LYS
144
n
143
LYS
144
A
LYS
145
n
144
LYS
145
A
ARG
146
n
145
ARG
146
A
GLY
147
n
146
GLY
147
A
PHE
148
n
147
PHE
148
A
ALA
149
n
148
ALA
149
A
PHE
150
n
149
PHE
150
A
VAL
151
n
150
VAL
151
A
THR
152
n
151
THR
152
A
PHE
153
n
152
PHE
153
A
ASP
154
n
153
ASP
154
A
ASP
155
n
154
ASP
155
A
HIS
156
n
155
HIS
156
A
ASP
157
n
156
ASP
157
A
SER
158
n
157
SER
158
A
VAL
159
n
158
VAL
159
A
ASP
160
n
159
ASP
160
A
LYS
161
n
160
LYS
161
A
ILE
162
n
161
ILE
162
A
VAL
163
n
162
VAL
163
A
ILE
164
n
163
ILE
164
A
GLN
165
n
164
GLN
165
A
LYS
166
n
165
LYS
166
A
TYR
167
n
166
TYR
167
A
HIS
168
n
167
HIS
168
A
THR
169
n
168
THR
169
A
VAL
170
n
169
VAL
170
A
ASN
171
n
170
ASN
171
A
GLY
172
n
171
GLY
172
A
HIS
173
n
172
HIS
173
A
ASN
174
n
173
ASN
174
A
CYS
175
n
174
CYS
175
A
GLU
176
n
175
GLU
176
A
VAL
177
n
176
VAL
177
A
ARG
178
n
177
ARG
178
A
LYS
179
n
178
LYS
179
A
ALA
180
n
179
ALA
180
A
LEU
181
n
180
LEU
181
A
SER
182
n
181
SER
182
A
LYS
183
n
182
LYS
183
A
GLN
184
n
183
GLN
184
A
GLU
185
n
184
GLU
185
A
MET
186
n
185
MET
186
A
ALA
187
n
186
ALA
187
A
SER
188
n
187
SER
188
A
ALA
189
n
188
ALA
189
A
SER
190
n
189
SER
190
A
n
190
191
A
n
191
192
A
n
192
193
A
n
193
194
A
n
194
195
A
n
195
196
A
author_defined_assembly
2
dimeric
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
MET
46
B
N
MET
45
A
O
ARG
55
B
O
ARG
54
A
O
GLY
58
B
O
GLY
57
A
N
ILE
18
B
N
ILE
17
A
N
GLY
19
B
N
GLY
18
A
O
GLU
85
B
O
GLU
84
A
O
VAL
84
B
O
VAL
83
A
N
HIS
77
B
N
HIS
76
A
N
VAL
133
B
N
VAL
132
A
O
THR
152
B
O
THR
151
A
O
ALA
149
B
O
ALA
148
A
N
VAL
109
B
N
VAL
108
A
N
PHE
108
B
N
PHE
107
A
O
ARG
178
B
O
ARG
177
A
N
VAL
170
B
N
VAL
169
A
O
HIS
173
B
O
HIS
172
1
B
P
DT
202
A
P
DT
2
1
Y
1
B
OP1
DT
202
A
OP1
DT
2
1
Y
1
B
OP2
DT
202
A
OP2
DT
2
1
Y
1
B
DT
201
A
DT
1
1
Y
1
B
DG
212
A
DG
12
1
Y
1
A
SER
2
B
SER
1
1
Y
1
A
LYS
3
B
LYS
2
1
Y
1
A
SER
4
B
SER
3
1
Y
1
A
GLU
5
B
GLU
4
1
Y
1
A
SER
6
B
SER
5
1
Y
1
A
PRO
7
B
PRO
6
1
Y
1
A
SER
191
B
SER
190
1
Y
1
A
SER
192
B
SER
191
1
Y
1
A
GLN
193
B
GLN
192
1
Y
1
A
ARG
194
B
ARG
193
1
Y
1
A
GLY
195
B
GLY
194
1
Y
1
A
ARG
196
B
ARG
195
1
Y
1
B
C4'
6MI
211
PLANAR
1
B
C3'
6MI
211
PLANAR
1
A
GLU
28
-47.01
-76.33
1
A
CYS
43
-169.09
104.34
1
A
ASN
50
-92.22
-63.74
1
A
LYS
52
55.27
10.18
1
A
ARG
82
-161.21
111.73
1
A
SER
91
-39.21
139.94
21.0
3.74
0.00
0.00
3.74
0.00
-7.48
0.269
0.235
0.237
0.237
2.60
19.80
607
13747
11985
5.1
83.6
Random
1
Restrained
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
PDB ENTRY 2UP1
Engh & Huber
0.41
0.46
5.00
0.49
0.58
2.60
19.80
46
1725
0
212
1467
0.007
1.5
23.7
1.02
0.302
0.036
0.324
2.76
69
96.1
22.3
2.60
20.0
1PGZ
13747
13747
0.0
0.0
0.093
0.093
1
15.2
5.9
94.9
0.325
2.60
2.64
4.4
357
0.325
5.4
96.1
data collection
Crystal
Clear
data scaling
SCALEPACK
refinement
CNS
data reduction
CrystalClear
(MSC/RIGAKU)
phasing
CNS
Crystal Structure of UP1 Complexed With d(TTAGGGTTAG(6-MI)G); A Human Telomeric Repeat Containing 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine (6-MI)
1
N
N
2
N
N
3
N
N
3
N
N
A
PRO
10
B
PRO
9
HELX_P
A
ARG
14
B
ARG
13
1
1
5
A
THR
26
B
THR
25
HELX_P
A
GLU
35
B
GLU
34
1
2
10
A
GLN
36
B
GLN
35
HELX_P
A
GLY
38
B
GLY
37
5
3
3
A
THR
64
B
THR
63
HELX_P
A
ASN
73
B
ASN
72
1
4
10
A
SER
91
B
SER
90
HELX_P
A
GLN
96
B
GLN
95
1
5
6
A
GLU
117
B
GLU
116
HELX_P
A
GLU
126
B
GLU
125
1
6
10
A
GLN
127
B
GLN
126
HELX_P
A
GLY
129
B
GLY
128
5
7
3
A
ASP
155
B
ASP
154
HELX_P
A
ILE
164
B
ILE
163
1
8
10
A
SER
182
B
SER
181
HELX_P
A
SER
190
B
SER
189
1
9
9
covale
1.611
both
B
DG
210
A
O3'
DG
10
1_555
B
6MI
211
A
P
6MI
11
1_555
DNA BINDING PROTEIN/DNA
protein-DNA complex; UP1; human telomeric repeat; hTR; TR2-11F; RRM; RNA Recognition Motif; 6-MI; 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine; hnRNP A1, DNA BINDING PROTEIN-DNA COMPLEX
A
ARG
75
B
ARG
74
1
A
PRO
76
B
PRO
75
-0.09
ROA1_HUMAN
UNP
2
1
P09651
SKSESPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDG
RVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK
IVIQKYHTVNGHNCEVRKALSKQEMASASSSQRGR
1PGZ
PDB
1
1PGZ
1
195
1PGZ
2
196
P09651
A
1
1
195
201
212
1PGZ
201
212
1PGZ
B
2
1
12
5
4
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
LEU
40
B
LEU
39
A
ARG
47
B
ARG
46
A
SER
54
B
SER
53
A
TYR
62
B
TYR
61
A
LYS
15
B
LYS
14
A
GLY
19
B
GLY
18
A
VAL
83
B
VAL
82
A
ARG
88
B
ARG
87
A
HIS
77
B
HIS
76
A
LYS
78
B
LYS
77
A
ILE
131
B
ILE
130
A
THR
138
B
THR
137
A
LYS
145
B
LYS
144
A
PHE
153
B
PHE
152
A
LYS
106
B
LYS
105
A
GLY
110
B
GLY
109
A
GLU
176
B
GLU
175
A
LYS
179
B
LYS
178
A
THR
169
B
THR
168
A
VAL
170
B
VAL
169
A
HIS
173
B
HIS
172
A
ASN
174
B
ASN
173
96
tetragonal
P 43 21 2