1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Clore, G.M.
Murphy, E.C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
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
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
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
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
O
N
75
N
P
N
76
N
O
N
77
N
O
N
78
N
O
N
79
N
C
N
80
R
C
N
81
N
O
N
82
S
C
N
83
N
O
N
84
N
C
N
85
R
C
Y
86
N
N
Y
87
N
C
Y
88
N
N
Y
89
N
C
Y
90
N
C
N
91
N
N
Y
92
N
N
Y
93
N
C
Y
94
N
N
Y
95
N
C
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
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
O
N
111
N
P
N
112
N
O
N
113
N
O
N
114
N
O
N
115
N
C
N
116
R
C
N
117
N
O
N
118
S
C
N
119
N
O
N
120
N
C
N
121
R
C
N
122
N
N
N
123
N
C
N
124
N
O
N
125
N
N
N
126
N
C
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
H
N
131
N
H
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
O
N
145
N
P
N
146
N
O
N
147
N
O
N
148
N
O
N
149
N
C
N
150
R
C
N
151
N
O
N
152
S
C
N
153
N
O
N
154
N
C
N
155
R
C
Y
156
N
N
Y
157
N
C
Y
158
N
N
Y
159
N
C
N
160
N
C
N
161
N
O
N
162
N
N
N
163
N
C
N
164
N
N
N
165
N
N
Y
166
N
C
N
167
N
H
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
O
N
182
N
P
N
183
N
O
N
184
N
O
N
185
N
O
N
186
N
C
N
187
R
C
N
188
N
O
N
189
S
C
N
190
N
O
N
191
N
C
N
192
R
C
N
193
N
N
N
194
N
C
N
195
N
O
N
196
N
N
N
197
N
C
N
198
N
O
N
199
N
C
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
H
N
217
N
N
N
218
S
C
N
219
N
C
N
220
N
O
N
221
N
C
N
222
N
C
N
223
N
C
N
224
N
O
N
225
N
N
N
226
N
O
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
N
N
238
S
C
N
239
N
C
N
240
N
O
N
241
N
C
N
242
N
C
N
243
N
C
N
244
N
O
N
245
N
O
N
246
N
O
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
H
N
254
N
H
N
255
N
H
N
256
N
N
N
257
N
C
N
258
N
C
N
259
N
O
N
260
N
O
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
N
N
267
S
C
N
268
N
C
N
269
N
O
N
270
N
C
Y
271
N
C
Y
272
N
N
Y
273
N
C
Y
274
N
C
Y
275
N
N
N
276
N
O
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
N
N
288
S
C
N
289
N
C
N
290
N
O
N
291
S
C
N
292
N
C
N
293
N
C
N
294
N
C
N
295
N
O
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
H
N
300
N
H
N
301
N
H
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
N
N
310
S
C
N
311
N
C
N
312
N
O
N
313
N
C
N
314
N
C
N
315
N
C
N
316
N
C
N
317
N
O
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
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
N
N
332
S
C
N
333
N
C
N
334
N
O
N
335
N
C
N
336
N
C
N
337
N
C
N
338
N
C
N
339
N
N
N
340
N
O
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
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
S
N
363
N
C
N
364
N
O
N
365
N
H
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
N
N
377
S
C
N
378
N
C
N
379
N
O
N
380
N
C
Y
381
N
C
Y
382
N
C
Y
383
N
C
Y
384
N
C
Y
385
N
C
Y
386
N
C
N
387
N
O
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
N
N
400
S
C
N
401
N
C
N
402
N
O
N
403
N
C
N
404
N
C
N
405
N
C
N
406
N
O
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
H
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
N
C
N
421
N
O
N
422
N
O
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
N
N
431
S
C
N
432
N
C
N
433
N
O
N
434
R
C
N
435
N
O
N
436
N
C
N
437
N
O
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
N
N
448
S
C
N
449
N
C
N
450
N
O
N
451
N
C
Y
452
N
C
Y
453
N
C
Y
454
N
C
Y
455
N
N
Y
456
N
C
Y
457
N
C
Y
458
N
C
Y
459
N
C
Y
460
N
C
N
461
N
O
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
N
N
475
S
C
N
476
N
C
N
477
N
O
N
478
N
C
Y
479
N
C
Y
480
N
C
Y
481
N
C
Y
482
N
C
Y
483
N
C
Y
484
N
C
N
485
N
O
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
N
N
499
S
C
N
500
N
C
N
501
N
O
N
502
N
C
N
503
N
C
N
504
N
C
N
505
N
O
N
506
N
H
N
507
N
H
N
508
N
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
513
N
H
N
514
N
H
N
515
N
H
N
516
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
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
sing
N
85
N
sing
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
Y
93
N
sing
Y
94
N
sing
Y
95
N
doub
N
96
N
sing
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
doub
N
102
N
sing
N
103
N
sing
Y
104
N
sing
Y
105
N
doub
N
106
N
sing
Y
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
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
doub
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
doub
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
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
Y
166
N
sing
Y
167
N
sing
Y
168
N
doub
N
169
N
sing
Y
170
N
sing
N
171
N
sing
Y
172
N
doub
N
173
N
doub
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
doub
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
N
185
N
sing
N
186
N
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
doub
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
doub
N
212
N
sing
N
213
N
sing
N
214
N
doub
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
doub
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
doub
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
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
doub
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
doub
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
doub
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
doub
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
Y
276
N
sing
Y
277
N
doub
Y
278
N
doub
N
279
N
sing
Y
280
N
sing
N
281
N
sing
Y
282
N
sing
N
283
N
sing
N
284
N
sing
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
doub
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
doub
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
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
doub
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
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
doub
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
Y
382
N
doub
Y
383
N
sing
Y
384
N
sing
N
385
N
sing
Y
386
N
doub
N
387
N
sing
Y
388
N
doub
N
389
N
sing
Y
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
doub
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
doub
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
doub
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
Y
451
N
doub
Y
452
N
sing
Y
453
N
sing
N
454
N
sing
Y
455
N
doub
Y
456
N
sing
Y
457
N
sing
N
458
N
sing
Y
459
N
sing
Y
460
N
doub
N
461
N
sing
Y
462
N
doub
N
463
N
sing
Y
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
doub
N
475
N
sing
N
476
N
sing
N
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
doub
N
484
N
sing
Y
485
N
doub
N
486
N
sing
Y
487
N
sing
N
488
N
sing
N
489
N
sing
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
N
497
N
sing
N
498
N
doub
N
499
N
sing
N
500
N
sing
N
501
N
sing
N
502
N
sing
N
503
N
sing
N
504
N
sing
N
505
N
sing
N
506
N
sing
N
507
N
sing
N
508
N
sing
N
509
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
312
481
499
10.1006/jmbi.2001.4977
11563911
Structural basis for SRY-dependent 46-X,Y sex reversal: modulation of DNA bending by a naturally occurring point mutation.
2001
10.2210/pdb1j46/pdb
pdb_00001j46
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
4178.747
5'-D(*CP*CP*TP*GP*CP*AP*CP*AP*AP*AP*CP*AP*CP*C)-3'
1
syn
polymer
4382.835
5'-D(*GP*GP*TP*GP*TP*TP*TP*GP*TP*GP*CP*AP*GP*G)-3'
1
syn
polymer
10654.570
SEX-DETERMINING REGION Y PROTEIN
HMG-BOX DOMAIN
1
man
polymer
SRY
no
no
(DC)(DC)(DT)(DG)(DC)(DA)(DC)(DA)(DA)(DA)(DC)(DA)(DC)(DC)
CCTGCACAAACACC
B
polydeoxyribonucleotide
no
no
(DG)(DG)(DT)(DG)(DT)(DT)(DT)(DG)(DT)(DG)(DC)(DA)(DG)(DG)
GGTGTTTGTGCAGG
C
polydeoxyribonucleotide
no
no
MQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKA
KMLPK
MQDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKA
KMLPK
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
human
Homo
Escherichia
Escherichia coli
sample
9606
Homo sapiens
469008
Escherichia coli BL21(DE3)
BL21(DE3)
pET21a
-6.087
1
19
B
101
C
128
-1.785
B_DC101:DG128_C
1
-2.247
0.048
0.104
-0.177
-2.740
1
19
B
102
C
127
-0.829
B_DC102:DG127_C
2
-13.302
0.100
0.129
-0.212
-4.489
1
20
B
103
C
126
-2.309
B_DT103:DA126_C
3
-12.784
-0.011
0.228
-0.123
7.852
1
19
B
104
C
125
-2.125
B_DG104:DC125_C
4
-7.993
-0.034
0.030
-0.193
4.444
1
19
B
105
C
124
-1.681
B_DC105:DG124_C
5
-10.713
0.098
-0.081
-0.168
2.095
1
20
B
106
C
123
-2.813
B_DA106:DT123_C
6
-13.890
0.014
-0.020
-0.110
-2.016
1
19
B
107
C
122
-2.620
B_DC107:DG122_C
7
-5.733
0.017
-0.012
-0.163
-15.097
1
20
B
108
C
121
0.050
B_DA108:DT121_C
8
-15.911
0.003
-0.353
-0.122
14.750
1
20
B
109
C
120
-1.418
B_DA109:DT120_C
9
7.729
0.031
0.873
-0.124
10.401
1
20
B
110
C
119
1.783
B_DA110:DT119_C
10
16.878
0.044
0.556
-0.104
8.661
1
19
B
111
C
118
2.987
B_DC111:DG118_C
11
17.362
0.034
0.169
-0.173
15.784
1
20
B
112
C
117
5.218
B_DA112:DT117_C
12
-23.497
0.052
-0.261
-0.172
-3.040
1
19
B
113
C
116
0.867
B_DC113:DG116_C
13
-19.802
0.081
-0.030
-0.205
-9.686
1
19
B
114
C
115
-0.601
B_DC114:DG115_C
14
-3.333
0.150
0.107
-0.170
3.534
32.421
B
B
101
102
11.491
C
C
128
127
3.597
6.375
-0.238
0.052
BB_DC101DC102:DG127DG128_CC
1
0.712
-1.284
31.796
-1.141
0.565
3.637
34.943
B
B
102
103
6.759
C
C
127
126
3.664
4.049
-0.100
-0.038
BB_DC102DT103:DA126DG127_CC
2
-1.095
1.827
34.699
-0.748
-0.019
3.299
33.626
B
B
103
104
1.186
C
C
126
125
3.293
0.686
0.204
0.032
BB_DT103DG104:DC125DA126_CC
3
2.466
-4.266
33.531
-0.057
0.054
3.746
37.881
B
B
104
105
-2.614
C
C
125
124
3.762
-1.696
0.054
0.278
BB_DG104DC105:DG124DC125_CC
4
1.365
-2.104
37.821
0.678
0.117
3.705
33.067
B
B
105
106
12.739
C
C
124
123
3.723
7.195
0.136
0.304
BB_DC105DA106:DT123DG124_CC
5
0.969
-1.716
32.282
-0.865
-0.051
3.372
33.999
B
B
106
107
15.900
C
C
123
122
3.660
9.188
0.656
-0.644
BB_DA106DC107:DG122DT123_CC
6
0.518
-0.896
32.765
-2.711
-1.031
3.820
38.957
B
B
107
108
16.104
C
C
122
121
3.886
10.611
-0.739
0.170
BB_DC107DA108:DT121DG122_CC
7
-1.586
2.406
37.506
-1.290
0.878
2.617
32.751
B
B
108
109
42.926
C
C
121
120
3.279
21.627
-0.375
0.385
BB_DA108DA109:DT120DT121_CC
8
-10.862
21.559
22.233
-3.365
-1.368
4.316
28.354
B
B
109
110
13.200
C
C
120
119
4.501
6.411
0.180
-0.289
BB_DA109DA110:DT119DT120_CC
9
-1.044
2.150
27.615
-2.612
-0.697
3.051
29.371
B
B
110
111
29.248
C
C
119
118
3.923
14.200
0.095
-0.808
BB_DA110DC111:DG118DT119_CC
10
3.225
-6.644
25.576
-5.085
0.606
3.049
36.609
B
B
111
112
17.794
C
C
118
117
3.214
10.939
-0.858
0.723
BB_DC111DA112:DT117DG118_CC
11
7.487
-12.178
34.202
-0.342
2.388
3.608
37.706
B
B
112
113
13.942
C
C
117
116
3.803
8.928
-0.118
-0.418
BB_DA112DC113:DG116DT117_CC
12
-1.733
2.707
36.632
-1.976
-0.075
3.619
35.223
B
B
113
114
13.177
C
C
116
115
3.656
7.904
-0.283
0.180
BB_DC113DC114:DG115DG116_CC
13
-2.406
4.011
34.271
-1.027
0.065
database_2
pdbx_struct_assembly
pdbx_struct_oper_list
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Data collection
1
0
2001-10-03
1
1
2008-04-26
1
2
2011-07-13
1
3
2022-02-23
1
4
2023-12-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
M9I MUTANT OF THE HMG-BOX DOMAIN OF THE HUMAN MALE SEX DETERMINING FACTOR SRY COMPLEXED TO DNA
RCSB
Y
RCSB
2001-07-23
REL
THE FOLLOWING EXPERIMENTS WERE CONDUCTED: (1)
DOUBLE AND TRIPLE RESONANCE FOR ASSIGNMENT OF PROTEIN; (2)
DOUBLE RESONANCE AND HETERONUCLEAR FILTERED FOR DNA; (3)
QUANTITATIVE J CORRELATION FOR COUPLING CONSTANTS; (4) 2D,
3D AND 4D HETERONUCLEAR SEPARATED AND FILTERED
NOE EXPERIMENTS; (4) 2D and 3D DOUBLE AND TRIPLE
RESONANCE EXPERIMENTS FOR DIPOLAR COUPLING MEASUREMENTS
IN LIQUID CRYSTALLINE MEDIUM OF 4.5-5% 3:1 DMPC:DHPC
RESTRAINED REGULARIZED MEAN STRUCTURE
400
1
50 mM SODIUM PHOSPHATE
7.2
308.00
K
THE STRUCTURE WAS CALCULATED BY SIMULATED ANNEALING IN
TORSION ANGLE SPACE (C. SCHWIETERS AND G.M. CLORE. J. MAGN.
RESON., IN PRESS). THE TARGET FUNCTION COMPRISES TERMS FOR
NOE RESTRAINTS, TORSION ANGLE RESTRAINTS, CARBON CHEMICAL
SHIFT RESTRAINTS (KUSZWESKI ET AL. J. MAGN. RESON. SERIES B
106, 92-96 (1995), J COUPLING RESTRAINTS (GARRETT ET AL. J.
MAGN. RESON. SERIES B 104, 99, 103 (1994); DIPOLAR COUPLING
RESTRAINTS (CLORE ET AL. J.MAGN.RESON. 131, 159-162 (1998);
J.MAGN.RESON. 133, 216-221(1998)), AND RADIUS OF GYRATION
(KUSZEWSKI ET AL. JACS 121, 2337 (1999)). THE NON-BONDED
CONTACTS ARE REPRESENTED BY A QUARTIC VAN DER WAALS
REPULSION TERM (NILGES ET AL. (1988) FEBS LETT. 229,
129-136); THE DELPHIC TORSION ANGLE DATABASE POTENTIAL
(KUSZEWSKI & C J. MAGN. RESON. 146, 249 (2000)); AND THE
DELPHIC BASE-BASE POSITIONAL DATABASE POTENTIAL (KUSZEWSKI
ET AL. JACS 123, 3903 (2001)). IN THIS ENTRY THE SECOND TO
LAST COLUMN REPRESENTS THE AVERAGE RMS DIFFERENCE BETWEEN
THE INDIVIDUAL SIMULATED ANNEALING STRUCTURES (400 FOR THE
WILD TYPE COMPLEX) AND THE MEAN COORDINATE POSITIONS
(OBTAINED BY BEST FITTING TO RESIDUES 4-81 OF THE PROTEIN
AND 101-128 OF THE DNA).
WILD TYPE M9I MUTANT
PDB ID: 1J46 1J47
DEVIATIONS FROM IDEALIZED GEOMETRY:
BONDS 0.003 A 0.003 A
ANGLES 0.81 DEG 0.80 DEG
IMPROPERS 0.79 DEG 0.79 DEG
DEVIATIONS FROM EXPT RESTRAINTS
NOES (1795/1693) 0.04 A 0.03 A
TORSION ANGLES (433/429) 0.29 DEG 0.30 DEG
3JHNA COUPLINGS (70/66) 0.84 HZ 0.90 HZ
13C CHEMICAL SHIFTS (165/165) 0.99 PPM 0.95 PPM
HETERONUCLEAR DIPOLAR COUPLING R-FACTORS
(CLORE AND GARRETT J. AM. CHEM. SOC. 121, 9008-9012):
PROTEIN 1DNH (71/66) 5.5% 7.6%
PROTEIN 1DCH (67/67) 6.3% 10.0%
PROTEIN 1DNC' (68/62) 18.9% 28.9%
PROTEIN 2DHNC'(68/62) 18.8% 21.6%
DNA 1DNH (9/10) 10.2% 16.1%
DNA 1DCH (37/33) 11.2% 10.7%
DNA 1H-1H DIPOLAR
COUPLINGS (55/53) 0.56 HZ 0.75 HZ
% RESIDUES IN MOST FAVORABLE
REGION OF RAMACHADRAN MAP 94.7% 94.7%
CLORE, KUSZEWSKI, SCHWIETERS
refinement
X-PLOR NIH VERSION (HTTP://NMR.CIT.NIH.GOV)
(HTTP://NMR.CIT.NIH.GOV)
500
Bruker
DMX500
600
Bruker
DRX600
750
Bruker
DRX750
C
101
n
1
DC
101
B
C
102
n
2
DC
102
B
T
103
n
3
DT
103
B
G
104
n
4
DG
104
B
C
105
n
5
DC
105
B
A
106
n
6
DA
106
B
C
107
n
7
DC
107
B
A
108
n
8
DA
108
B
A
109
n
9
DA
109
B
A
110
n
10
DA
110
B
C
111
n
11
DC
111
B
A
112
n
12
DA
112
B
C
113
n
13
DC
113
B
C
114
n
14
DC
114
B
G
115
n
1
DG
115
C
G
116
n
2
DG
116
C
T
117
n
3
DT
117
C
G
118
n
4
DG
118
C
T
119
n
5
DT
119
C
T
120
n
6
DT
120
C
T
121
n
7
DT
121
C
G
122
n
8
DG
122
C
T
123
n
9
DT
123
C
G
124
n
10
DG
124
C
C
125
n
11
DC
125
C
A
126
n
12
DA
126
C
G
127
n
13
DG
127
C
G
128
n
14
DG
128
C
MET
1
n
1
MET
1
A
GLN
2
n
2
GLN
2
A
ASP
3
n
3
ASP
3
A
ARG
4
n
4
ARG
4
A
VAL
5
n
5
VAL
5
A
LYS
6
n
6
LYS
6
A
ARG
7
n
7
ARG
7
A
PRO
8
n
8
PRO
8
A
MET
9
n
9
MET
9
A
ASN
10
n
10
ASN
10
A
ALA
11
n
11
ALA
11
A
PHE
12
n
12
PHE
12
A
ILE
13
n
13
ILE
13
A
VAL
14
n
14
VAL
14
A
TRP
15
n
15
TRP
15
A
SER
16
n
16
SER
16
A
ARG
17
n
17
ARG
17
A
ASP
18
n
18
ASP
18
A
GLN
19
n
19
GLN
19
A
ARG
20
n
20
ARG
20
A
ARG
21
n
21
ARG
21
A
LYS
22
n
22
LYS
22
A
MET
23
n
23
MET
23
A
ALA
24
n
24
ALA
24
A
LEU
25
n
25
LEU
25
A
GLU
26
n
26
GLU
26
A
ASN
27
n
27
ASN
27
A
PRO
28
n
28
PRO
28
A
ARG
29
n
29
ARG
29
A
MET
30
n
30
MET
30
A
ARG
31
n
31
ARG
31
A
ASN
32
n
32
ASN
32
A
SER
33
n
33
SER
33
A
GLU
34
n
34
GLU
34
A
ILE
35
n
35
ILE
35
A
SER
36
n
36
SER
36
A
LYS
37
n
37
LYS
37
A
GLN
38
n
38
GLN
38
A
LEU
39
n
39
LEU
39
A
GLY
40
n
40
GLY
40
A
TYR
41
n
41
TYR
41
A
GLN
42
n
42
GLN
42
A
TRP
43
n
43
TRP
43
A
LYS
44
n
44
LYS
44
A
MET
45
n
45
MET
45
A
LEU
46
n
46
LEU
46
A
THR
47
n
47
THR
47
A
GLU
48
n
48
GLU
48
A
ALA
49
n
49
ALA
49
A
GLU
50
n
50
GLU
50
A
LYS
51
n
51
LYS
51
A
TRP
52
n
52
TRP
52
A
PRO
53
n
53
PRO
53
A
PHE
54
n
54
PHE
54
A
PHE
55
n
55
PHE
55
A
GLN
56
n
56
GLN
56
A
GLU
57
n
57
GLU
57
A
ALA
58
n
58
ALA
58
A
GLN
59
n
59
GLN
59
A
LYS
60
n
60
LYS
60
A
LEU
61
n
61
LEU
61
A
GLN
62
n
62
GLN
62
A
ALA
63
n
63
ALA
63
A
MET
64
n
64
MET
64
A
HIS
65
n
65
HIS
65
A
ARG
66
n
66
ARG
66
A
GLU
67
n
67
GLU
67
A
LYS
68
n
68
LYS
68
A
TYR
69
n
69
TYR
69
A
PRO
70
n
70
PRO
70
A
ASN
71
n
71
ASN
71
A
TYR
72
n
72
TYR
72
A
LYS
73
n
73
LYS
73
A
TYR
74
n
74
TYR
74
A
ARG
75
n
75
ARG
75
A
PRO
76
n
76
PRO
76
A
ARG
77
n
77
ARG
77
A
ARG
78
n
78
ARG
78
A
LYS
79
n
79
LYS
79
A
ALA
80
n
80
ALA
80
A
LYS
81
n
81
LYS
81
A
MET
82
n
82
MET
82
A
LEU
83
n
83
LEU
83
A
PRO
84
n
84
PRO
84
A
LYS
85
n
85
LYS
85
A
author_defined_assembly
3
trimeric
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
1
A
A
O
H
SER
ARG
16
20
1.50
1
-4.11
0.60
122.90
118.79
C
C
C
C6
C5
C7
DT
DT
DT
119
119
119
N
1
-4.53
0.60
122.90
118.37
C
C
C
C6
C5
C7
DT
DT
DT
121
121
121
N
3D Solution NMR Structure of the Wild Type HMG-BOX Domain of the Human Male Sex Determining Factor Sry Complexed to DNA
1
N
N
2
N
N
3
N
N
A
ASN
10
C
ASN
10
HELX_P
A
ASN
27
C
ASN
27
1
1
18
A
ARG
31
C
ARG
31
HELX_P
A
LYS
44
C
LYS
44
1
2
14
A
THR
47
C
THR
47
HELX_P
A
TYR
69
C
TYR
69
1
3
23
hydrog
WATSON-CRICK
B
DC
101
A
N3
DC
1
1_555
C
DG
128
B
N1
DG
14
1_555
hydrog
WATSON-CRICK
B
DC
101
A
N4
DC
1
1_555
C
DG
128
B
O6
DG
14
1_555
hydrog
WATSON-CRICK
B
DC
101
A
O2
DC
1
1_555
C
DG
128
B
N2
DG
14
1_555
hydrog
WATSON-CRICK
B
DC
102
A
N3
DC
2
1_555
C
DG
127
B
N1
DG
13
1_555
hydrog
WATSON-CRICK
B
DC
102
A
N4
DC
2
1_555
C
DG
127
B
O6
DG
13
1_555
hydrog
WATSON-CRICK
B
DC
102
A
O2
DC
2
1_555
C
DG
127
B
N2
DG
13
1_555
hydrog
WATSON-CRICK
B
DT
103
A
N3
DT
3
1_555
C
DA
126
B
N1
DA
12
1_555
hydrog
WATSON-CRICK
B
DT
103
A
O4
DT
3
1_555
C
DA
126
B
N6
DA
12
1_555
hydrog
WATSON-CRICK
B
DG
104
A
N1
DG
4
1_555
C
DC
125
B
N3
DC
11
1_555
hydrog
WATSON-CRICK
B
DG
104
A
N2
DG
4
1_555
C
DC
125
B
O2
DC
11
1_555
hydrog
WATSON-CRICK
B
DG
104
A
O6
DG
4
1_555
C
DC
125
B
N4
DC
11
1_555
hydrog
WATSON-CRICK
B
DC
105
A
N3
DC
5
1_555
C
DG
124
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
B
DC
105
A
N4
DC
5
1_555
C
DG
124
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
B
DC
105
A
O2
DC
5
1_555
C
DG
124
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
B
DA
106
A
N1
DA
6
1_555
C
DT
123
B
N3
DT
9
1_555
hydrog
WATSON-CRICK
B
DA
106
A
N6
DA
6
1_555
C
DT
123
B
O4
DT
9
1_555
hydrog
WATSON-CRICK
B
DC
107
A
N3
DC
7
1_555
C
DG
122
B
N1
DG
8
1_555
hydrog
WATSON-CRICK
B
DC
107
A
N4
DC
7
1_555
C
DG
122
B
O6
DG
8
1_555
hydrog
WATSON-CRICK
B
DC
107
A
O2
DC
7
1_555
C
DG
122
B
N2
DG
8
1_555
hydrog
WATSON-CRICK
B
DA
108
A
N1
DA
8
1_555
C
DT
121
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
B
DA
108
A
N6
DA
8
1_555
C
DT
121
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
B
DA
109
A
N1
DA
9
1_555
C
DT
120
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
B
DA
109
A
N6
DA
9
1_555
C
DT
120
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
B
DA
110
A
N1
DA
10
1_555
C
DT
119
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
B
DA
110
A
N6
DA
10
1_555
C
DT
119
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
B
DC
111
A
N3
DC
11
1_555
C
DG
118
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
B
DC
111
A
N4
DC
11
1_555
C
DG
118
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
B
DC
111
A
O2
DC
11
1_555
C
DG
118
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
B
DA
112
A
N1
DA
12
1_555
C
DT
117
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
B
DA
112
A
N6
DA
12
1_555
C
DT
117
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
B
DC
113
A
N3
DC
13
1_555
C
DG
116
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
113
A
N4
DC
13
1_555
C
DG
116
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
113
A
O2
DC
13
1_555
C
DG
116
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
B
DC
114
A
N3
DC
14
1_555
C
DG
115
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
114
A
N4
DC
14
1_555
C
DG
115
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
B
DC
114
A
O2
DC
14
1_555
C
DG
115
B
N2
DG
1
1_555
TRANSCRIPTION/DNA
MALE SEX DETERMINING FACTOR, SRY, SEX-REVERSAL MUTATION, DNA BENDING MUTANT, DIPOLAR COUPLINGS, MULTIDIMENSIONAL NMR, TRANSCRIPTION-DNA COMPLEX
SRY_HUMAN
UNP
3
57
Q05066
QDRVKRPMNAFIVWSRDQRRKMALENPRMRNSEISKQLGYQWKMLTEAEKWPFFQEAQKLQAMHREKYPNYKYRPRRKAK
MLPK
1J46
PDB
1
1J46
1J46
PDB
2
1J46
57
140
1J46
2
85
Q05066
A
1
2
85
101
114
1J46
101
114
1J46
B
2
1
14
115
128
1J46
115
128
1J46
C
3
1
14
1
cloning artifact
MET
1
1J46
A
Q05066
UNP
1