0.027640
-0.000000
0.000000
0.000000
0.015962
0.000000
0.000000
0.000000
0.010547
0.00000
0.00000
0.00000
Campbell, E.A.
Muzzin, O.
Chlenov, M.
Sun, J.L.
Olson, C.A.
Weinman, O.
Trester-Zedlitz, M.L.
Darst, S.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
36.180
62.650
94.810
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
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
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
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
O
N
288
N
H
N
289
N
H
N
290
N
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
S
C
N
295
N
C
N
296
N
C
N
297
N
C
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
H
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
N
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
N
N
343
N
O
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
H
N
357
N
H
N
358
N
H
N
359
N
N
N
360
S
C
N
361
N
C
N
362
N
O
N
363
N
C
N
364
N
C
N
365
N
S
N
366
N
C
N
367
N
O
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
N
N
380
S
C
N
381
N
C
N
382
N
O
N
383
N
C
Y
384
N
C
Y
385
N
C
Y
386
N
C
Y
387
N
C
Y
388
N
C
Y
389
N
C
N
390
N
O
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
N
N
403
S
C
N
404
N
C
N
405
N
O
N
406
N
C
N
407
N
O
N
408
N
O
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
N
N
417
S
C
N
418
N
C
N
419
N
O
N
420
R
C
N
421
N
O
N
422
N
C
N
423
N
O
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
H
N
431
N
H
N
432
N
H
N
433
N
N
N
434
S
C
N
435
N
C
N
436
N
O
N
437
N
C
Y
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
Y
442
N
C
Y
443
N
C
N
444
N
O
N
445
N
O
N
446
N
H
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
N
N
458
S
C
N
459
N
C
N
460
N
O
N
461
N
C
N
462
N
C
N
463
N
C
N
464
N
O
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
H
N
475
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
sing
N
293
N
sing
N
294
N
doub
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
sing
N
314
N
sing
N
315
N
doub
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
sing
N
335
N
sing
N
336
N
doub
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
sing
N
359
N
sing
N
360
N
doub
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
doub
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
Y
384
N
doub
Y
385
N
sing
Y
386
N
sing
N
387
N
sing
Y
388
N
doub
N
389
N
sing
Y
390
N
doub
N
391
N
sing
Y
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
doub
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
doub
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
doub
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
Y
436
N
doub
Y
437
N
sing
Y
438
N
sing
N
439
N
sing
Y
440
N
doub
N
441
N
sing
Y
442
N
doub
N
443
N
sing
Y
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
sing
N
455
N
doub
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
US
Mol.Cell
MOCEFL
2168
1097-2765
9
527
539
10.1016/S1097-2765(02)00470-7
11931761
Structure of the bacterial RNA polymerase promoter specificity sigma subunit.
2002
10.2210/pdb1ku7/pdb
pdb_00001ku7
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
93
1
CCD
2001-08-09
MARRESEARCH
Si 111
SINGLE WAVELENGTH
M
x-ray
1
0.979
1.0
X9A
NSLS
0.979
SYNCHROTRON
NSLS BEAMLINE X9A
-35 Element DNA
3342.212
5'-D(*CP*CP*TP*TP*GP*AP*CP*AP*AP*AP*G)-3'
1
syn
polymer
3324.184
5'-D(*CP*CP*TP*TP*TP*GP*TP*CP*AP*AP*G)-3'
1
syn
polymer
8737.127
sigma factor sigA
region 4 (residues 366-438)
L386M
2
man
polymer
18.015
water
67
nat
water
no
no
(DC)(DC)(DT)(DT)(DG)(DA)(DC)(DA)(DA)(DA)(DG)
CCTTGACAAAG
B
polydeoxyribonucleotide
no
no
(DC)(DC)(DT)(DT)(DT)(DG)(DT)(DC)(DA)(DA)(DG)
CCTTTGTCAAG
C
polydeoxyribonucleotide
no
no
SEELEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLE
SEELEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLE
A,D
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
Thermus
Escherichia
sample
271
Thermus aquaticus
562
Escherichia coli
2.20
44.15
VAPOR DIFFUSION, HANGING DROP
5.5
MES, PEG 4000, magnesium acetate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
MES
1
PEG 4000
1
magnesium acetate
1
-25.276
1
19
B
2
C
23
3.989
B_DC2:DG23_C
1
2.167
0.102
-0.092
0.052
-11.114
1
20
B
3
C
22
-2.403
B_DT3:DA22_C
2
6.242
-0.190
0.040
-0.038
1.438
1
20
B
4
C
21
-0.761
B_DT4:DA21_C
3
-8.250
-0.155
0.033
-0.101
8.167
1
19
B
5
C
20
1.339
B_DG5:DC20_C
4
4.028
-0.075
0.136
-0.108
5.587
1
20
B
6
C
19
2.947
B_DA6:DT19_C
5
-2.577
0.029
-0.051
0.001
4.352
1
19
B
7
C
18
0.534
B_DC7:DG18_C
6
-5.075
0.076
-0.217
-0.057
4.998
1
20
B
8
C
17
4.057
B_DA8:DT17_C
7
-13.609
-0.060
-0.169
-0.112
4.499
1
20
B
9
C
16
6.766
B_DA9:DT16_C
8
-12.348
0.059
-0.129
-0.200
8.067
1
20
B
10
C
15
3.228
B_DA10:DT15_C
9
-4.175
0.055
0.163
-0.079
7.415
1
19
B
11
C
14
-0.278
B_DG11:DC14_C
10
-4.735
-0.167
-0.205
-0.068
3.026
25.734
B
B
2
3
2.912
C
C
23
22
3.175
1.295
-1.026
-0.774
BB_DC2DT3:DA22DG23_CC
1
2.376
-5.345
25.593
-2.083
2.937
3.007
32.795
B
B
3
4
-0.746
C
C
22
21
3.003
-0.421
-0.271
-0.688
BB_DT3DT4:DA21DA22_CC
2
0.550
-0.975
32.788
-1.152
0.567
3.277
32.982
B
B
4
5
17.217
C
C
21
20
3.253
9.639
0.264
0.581
BB_DT4DG5:DC20DA21_CC
3
-0.820
1.464
31.570
-0.649
-0.607
3.309
34.909
B
B
5
6
13.581
C
C
20
19
3.428
8.078
-0.191
-0.134
BB_DG5DA6:DT19DC20_CC
4
0.248
-0.417
33.989
-1.500
0.358
3.007
30.496
B
B
6
7
13.023
C
C
19
18
3.314
6.795
-0.241
-1.041
BB_DA6DC7:DG18DT19_CC
5
0.002
-0.004
29.747
-3.304
0.458
3.488
34.074
B
B
7
8
12.378
C
C
18
17
3.416
7.201
-0.559
0.741
BB_DC7DA8:DT17DG18_CC
6
0.437
-0.752
33.324
0.042
1.029
3.186
35.459
B
B
8
9
11.767
C
C
17
16
3.236
7.118
0.139
0.116
BB_DA8DA9:DT16DT17_CC
7
-1.848
3.055
34.712
-0.845
-0.497
3.108
34.885
B
B
9
10
-0.808
C
C
16
15
3.137
-0.484
0.321
0.137
BB_DA9DA10:DT15DT16_CC
8
-2.289
3.820
34.809
0.298
-0.867
3.551
31.527
B
B
10
11
-2.537
C
C
15
14
3.493
-1.377
0.484
-0.821
BB_DA10DG11:DC14DT15_CC
9
2.310
-4.256
31.415
-1.234
-0.428
database_2
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Version format compliance
Database references
Data collection
1
0
2002-03-29
1
1
2008-04-27
1
2
2011-07-13
1
3
2021-10-27
1
4
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
1KU2 IS THE CRYSTAL STRUCTURE OF THERMUS AQUATICUS RNA POLYMERASE SIGMA SUBUNIT FRAGMENT CONTAINING REGIONS 1.2 TO 3.1.
1ku3 is the Crystal Structure of Thermus aquaticus RNA Polymerase Sigma Subunit Fragment, Region 4.
RCSB
Y
RCSB
2002-01-21
REL
HOH
water
TIP
504
4
HOH
HOH
504
B
TIP
508
4
HOH
HOH
508
B
TIP
516
4
HOH
HOH
516
B
TIP
519
4
HOH
HOH
519
B
TIP
520
4
HOH
HOH
520
B
TIP
524
4
HOH
HOH
524
B
TIP
534
4
HOH
HOH
534
B
TIP
539
4
HOH
HOH
539
B
TIP
551
4
HOH
HOH
551
B
TIP
553
4
HOH
HOH
553
B
TIP
561
4
HOH
HOH
561
B
TIP
500
4
HOH
HOH
500
C
TIP
506
4
HOH
HOH
506
C
TIP
509
4
HOH
HOH
509
C
TIP
514
4
HOH
HOH
514
C
TIP
518
4
HOH
HOH
518
C
TIP
522
4
HOH
HOH
522
C
TIP
523
4
HOH
HOH
523
C
TIP
529
4
HOH
HOH
529
C
TIP
532
4
HOH
HOH
532
C
TIP
533
4
HOH
HOH
533
C
TIP
542
4
HOH
HOH
542
C
TIP
543
4
HOH
HOH
543
C
TIP
548
4
HOH
HOH
548
C
TIP
549
4
HOH
HOH
549
C
TIP
550
4
HOH
HOH
550
C
TIP
552
4
HOH
HOH
552
C
TIP
554
4
HOH
HOH
554
C
TIP
559
4
HOH
HOH
559
C
TIP
562
4
HOH
HOH
562
C
TIP
566
4
HOH
HOH
566
C
TIP
502
4
HOH
HOH
502
A
TIP
503
4
HOH
HOH
503
A
TIP
505
4
HOH
HOH
505
A
TIP
507
4
HOH
HOH
507
A
TIP
510
4
HOH
HOH
510
A
TIP
511
4
HOH
HOH
511
A
TIP
512
4
HOH
HOH
512
A
TIP
513
4
HOH
HOH
513
A
TIP
515
4
HOH
HOH
515
A
TIP
517
4
HOH
HOH
517
A
TIP
521
4
HOH
HOH
521
A
TIP
525
4
HOH
HOH
525
A
TIP
526
4
HOH
HOH
526
A
TIP
527
4
HOH
HOH
527
A
TIP
528
4
HOH
HOH
528
A
TIP
530
4
HOH
HOH
530
A
TIP
531
4
HOH
HOH
531
A
TIP
535
4
HOH
HOH
535
A
TIP
537
4
HOH
HOH
537
A
TIP
538
4
HOH
HOH
538
A
TIP
541
4
HOH
HOH
541
A
TIP
544
4
HOH
HOH
544
A
TIP
546
4
HOH
HOH
546
A
TIP
556
4
HOH
HOH
556
A
TIP
557
4
HOH
HOH
557
A
TIP
558
4
HOH
HOH
558
A
TIP
560
4
HOH
HOH
560
A
TIP
563
4
HOH
HOH
563
A
TIP
564
4
HOH
HOH
564
A
TIP
565
4
HOH
HOH
565
A
TIP
501
4
HOH
HOH
501
D
TIP
536
4
HOH
HOH
536
D
TIP
540
4
HOH
HOH
540
D
TIP
545
4
HOH
HOH
545
D
TIP
547
4
HOH
HOH
547
D
TIP
555
4
HOH
HOH
555
D
CYT
1
n
1
DC
1
B
CYT
2
n
2
DC
2
B
THY
3
n
3
DT
3
B
THY
4
n
4
DT
4
B
GUA
5
n
5
DG
5
B
ADE
6
n
6
DA
6
B
CYT
7
n
7
DC
7
B
ADE
8
n
8
DA
8
B
ADE
9
n
9
DA
9
B
ADE
10
n
10
DA
10
B
GUA
11
n
11
DG
11
B
CYT
13
n
1
DC
13
C
CYT
14
n
2
DC
14
C
THY
15
n
3
DT
15
C
THY
16
n
4
DT
16
C
THY
17
n
5
DT
17
C
GUA
18
n
6
DG
18
C
THY
19
n
7
DT
19
C
CYT
20
n
8
DC
20
C
ADE
21
n
9
DA
21
C
ADE
22
n
10
DA
22
C
GUA
23
n
11
DG
23
C
ALA
366
n
1
SER
366
A
GLU
367
n
2
GLU
367
A
GLU
368
n
3
GLU
368
A
LEU
369
n
4
LEU
369
A
GLU
370
n
5
GLU
370
A
LYS
371
n
6
LYS
371
A
ALA
372
n
7
ALA
372
A
LEU
373
n
8
LEU
373
A
SER
374
n
9
SER
374
A
LYS
375
n
10
LYS
375
A
LEU
376
n
11
LEU
376
A
SER
377
n
12
SER
377
A
GLU
378
n
13
GLU
378
A
ARG
379
n
14
ARG
379
A
GLU
380
n
15
GLU
380
A
ALA
381
n
16
ALA
381
A
MET
382
n
17
MET
382
A
VAL
383
n
18
VAL
383
A
LEU
384
n
19
LEU
384
A
LYS
385
n
20
LYS
385
A
MET
386
n
21
MET
386
A
ARG
387
n
22
ARG
387
A
LYS
388
n
23
LYS
388
A
GLY
389
n
24
GLY
389
A
LEU
390
n
25
LEU
390
A
ILE
391
n
26
ILE
391
A
ASP
392
n
27
ASP
392
A
GLY
393
n
28
GLY
393
A
ARG
394
n
29
ARG
394
A
GLU
395
n
30
GLU
395
A
HIS
396
n
31
HIS
396
A
THR
397
n
32
THR
397
A
LEU
398
n
33
LEU
398
A
GLU
399
n
34
GLU
399
A
GLU
400
n
35
GLU
400
A
VAL
401
n
36
VAL
401
A
GLY
402
n
37
GLY
402
A
ALA
403
n
38
ALA
403
A
TYR
404
n
39
TYR
404
A
PHE
405
n
40
PHE
405
A
GLY
406
n
41
GLY
406
A
VAL
407
n
42
VAL
407
A
THR
408
n
43
THR
408
A
ARG
409
n
44
ARG
409
A
GLU
410
n
45
GLU
410
A
ARG
411
n
46
ARG
411
A
ILE
412
n
47
ILE
412
A
ARG
413
n
48
ARG
413
A
GLN
414
n
49
GLN
414
A
ILE
415
n
50
ILE
415
A
GLU
416
n
51
GLU
416
A
ASN
417
n
52
ASN
417
A
LYS
418
n
53
LYS
418
A
ALA
419
n
54
ALA
419
A
LEU
420
n
55
LEU
420
A
ARG
421
n
56
ARG
421
A
LYS
422
n
57
LYS
422
A
LEU
423
n
58
LEU
423
A
LYS
424
n
59
LYS
424
A
TYR
425
n
60
TYR
425
A
HIS
426
n
61
HIS
426
A
GLU
427
n
62
GLU
427
A
SER
428
n
63
SER
428
A
ARG
429
n
64
ARG
429
A
THR
430
n
65
THR
430
A
ARG
431
n
66
ARG
431
A
LYS
432
n
67
LYS
432
A
LEU
433
n
68
LEU
433
A
ARG
434
n
69
ARG
434
A
ASP
435
n
70
ASP
435
A
PHE
436
n
71
PHE
436
A
LEU
437
n
72
LEU
437
A
GLU
438
n
73
GLU
438
A
n
1
366
D
n
2
367
D
n
3
368
D
n
4
369
D
n
5
370
D
ALA
371
n
6
LYS
371
D
ALA
372
n
7
ALA
372
D
ALA
373
n
8
LEU
373
D
SER
374
n
9
SER
374
D
ALA
375
n
10
LYS
375
D
LEU
376
n
11
LEU
376
D
SER
377
n
12
SER
377
D
GLU
378
n
13
GLU
378
D
ARG
379
n
14
ARG
379
D
GLU
380
n
15
GLU
380
D
ALA
381
n
16
ALA
381
D
MET
382
n
17
MET
382
D
VAL
383
n
18
VAL
383
D
LEU
384
n
19
LEU
384
D
LYS
385
n
20
LYS
385
D
MET
386
n
21
MET
386
D
ARG
387
n
22
ARG
387
D
LYS
388
n
23
LYS
388
D
GLY
389
n
24
GLY
389
D
LEU
390
n
25
LEU
390
D
ILE
391
n
26
ILE
391
D
ASP
392
n
27
ASP
392
D
GLY
393
n
28
GLY
393
D
ARG
394
n
29
ARG
394
D
GLU
395
n
30
GLU
395
D
HIS
396
n
31
HIS
396
D
THR
397
n
32
THR
397
D
LEU
398
n
33
LEU
398
D
GLU
399
n
34
GLU
399
D
GLU
400
n
35
GLU
400
D
VAL
401
n
36
VAL
401
D
GLY
402
n
37
GLY
402
D
ALA
403
n
38
ALA
403
D
TYR
404
n
39
TYR
404
D
PHE
405
n
40
PHE
405
D
GLY
406
n
41
GLY
406
D
VAL
407
n
42
VAL
407
D
THR
408
n
43
THR
408
D
ARG
409
n
44
ARG
409
D
GLU
410
n
45
GLU
410
D
ARG
411
n
46
ARG
411
D
ILE
412
n
47
ILE
412
D
ARG
413
n
48
ARG
413
D
GLN
414
n
49
GLN
414
D
ILE
415
n
50
ILE
415
D
GLU
416
n
51
GLU
416
D
ASN
417
n
52
ASN
417
D
LYS
418
n
53
LYS
418
D
ALA
419
n
54
ALA
419
D
LEU
420
n
55
LEU
420
D
ARG
421
n
56
ARG
421
D
LYS
422
n
57
LYS
422
D
LEU
423
n
58
LEU
423
D
LYS
424
n
59
LYS
424
D
ALA
425
n
60
TYR
425
D
ALA
426
n
61
HIS
426
D
ALA
427
n
62
GLU
427
D
ALA
428
n
63
SER
428
D
ARG
429
n
64
ARG
429
D
ALA
430
n
65
THR
430
D
ARG
431
n
66
ARG
431
D
LYS
432
n
67
LYS
432
D
LEU
433
n
68
LEU
433
D
ALA
434
n
69
ARG
434
D
ALA
435
n
70
ASP
435
D
PHE
436
n
71
PHE
436
D
ALA
437
n
72
LEU
437
D
ALA
438
n
73
GLU
438
D
author_defined_assembly
4
tetrameric
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
OG
SER
366
C
OG
SER
1
1
Y
1
D
CG
LYS
371
D
CG
LYS
6
1
Y
1
D
CD
LYS
371
D
CD
LYS
6
1
Y
1
D
CE
LYS
371
D
CE
LYS
6
1
Y
1
D
NZ
LYS
371
D
NZ
LYS
6
1
Y
1
D
CG
LEU
373
D
CG
LEU
8
1
Y
1
D
CD1
LEU
373
D
CD1
LEU
8
1
Y
1
D
CD2
LEU
373
D
CD2
LEU
8
1
Y
1
D
CG
LYS
375
D
CG
LYS
10
1
Y
1
D
CD
LYS
375
D
CD
LYS
10
1
Y
1
D
CE
LYS
375
D
CE
LYS
10
1
Y
1
D
NZ
LYS
375
D
NZ
LYS
10
1
Y
1
D
CG
TYR
425
D
CG
TYR
60
1
Y
1
D
CD1
TYR
425
D
CD1
TYR
60
1
Y
1
D
CD2
TYR
425
D
CD2
TYR
60
1
Y
1
D
CE1
TYR
425
D
CE1
TYR
60
1
Y
1
D
CE2
TYR
425
D
CE2
TYR
60
1
Y
1
D
CZ
TYR
425
D
CZ
TYR
60
1
Y
1
D
OH
TYR
425
D
OH
TYR
60
1
Y
1
D
CG
HIS
426
D
CG
HIS
61
1
Y
1
D
ND1
HIS
426
D
ND1
HIS
61
1
Y
1
D
CD2
HIS
426
D
CD2
HIS
61
1
Y
1
D
CE1
HIS
426
D
CE1
HIS
61
1
Y
1
D
NE2
HIS
426
D
NE2
HIS
61
1
Y
1
D
CG
GLU
427
D
CG
GLU
62
1
Y
1
D
CD
GLU
427
D
CD
GLU
62
1
Y
1
D
OE1
GLU
427
D
OE1
GLU
62
1
Y
1
D
OE2
GLU
427
D
OE2
GLU
62
1
Y
1
D
OG
SER
428
D
OG
SER
63
1
Y
1
D
OG1
THR
430
D
OG1
THR
65
1
Y
1
D
CG2
THR
430
D
CG2
THR
65
1
Y
1
D
CG
ARG
434
D
CG
ARG
69
1
Y
1
D
CD
ARG
434
D
CD
ARG
69
1
Y
1
D
NE
ARG
434
D
NE
ARG
69
1
Y
1
D
CZ
ARG
434
D
CZ
ARG
69
1
Y
1
D
NH1
ARG
434
D
NH1
ARG
69
1
Y
1
D
NH2
ARG
434
D
NH2
ARG
69
1
Y
1
D
CG
ASP
435
D
CG
ASP
70
1
Y
1
D
OD1
ASP
435
D
OD1
ASP
70
1
Y
1
D
OD2
ASP
435
D
OD2
ASP
70
1
Y
1
D
CG
LEU
437
D
CG
LEU
72
1
Y
1
D
CD1
LEU
437
D
CD1
LEU
72
1
Y
1
D
CD2
LEU
437
D
CD2
LEU
72
1
Y
1
D
CG
GLU
438
D
CG
GLU
73
1
Y
1
D
CD
GLU
438
D
CD
GLU
73
1
Y
1
D
OE1
GLU
438
D
OE1
GLU
73
1
Y
1
D
OE2
GLU
438
D
OE2
GLU
73
1
Y
1
D
SER
366
D
SER
1
1
Y
1
D
GLU
367
D
GLU
2
1
Y
1
D
GLU
368
D
GLU
3
1
Y
1
D
LEU
369
D
LEU
4
1
Y
1
D
GLU
370
D
GLU
5
1
Y
1
B
DC
1
0.110
SIDE CHAIN
1
B
DC
2
0.130
SIDE CHAIN
1
C
DC
13
0.073
SIDE CHAIN
1
-11.76
1.90
112.60
100.84
B
B
B
N1
C1'
C2'
DC
DC
DC
1
1
1
N
1
2.18
0.30
108.30
110.48
C
C
C
O4'
C1'
N9
DG
DG
DG
23
23
23
N
1
D
D
CG
SD
MET
MET
382
382
0.166
0.026
1.807
1.973
N
1
A
ASP
392
-144.06
21.85
1
D
ALA
372
64.22
137.05
1
D
ASP
392
-140.99
10.86
1
D
LYS
424
-61.54
-74.90
1
D
HIS
426
-32.64
83.37
1
D
GLU
427
62.31
-48.28
1
D
LEU
437
171.16
-34.88
0.293
0.255
0.255
0.255
2.4
25
484
8898
8698
97.8
1
isotropic
THROUGHOUT
MAD
Engh & Huber
2.4
25
67
1645
0
442
1136
.00696
1.3
2.4
25
1KU7
8898
8698
0.0
0.0
1
3.8
97.7
0.253
2.4
2.49
2.9
79.7
data reduction
DENZO
data scaling
SCALEPACK
phasing
MLPHARE
refinement
CNS
1.0
Crystal Structure of Thermus aquatics RNA Polymerase SigmaA Subunit Region 4 Bound to-35 Element DNA
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
4
N
N
4
N
N
4
N
N
A
GLU
370
C
GLU
5
HELX_P
A
LYS
375
C
LYS
10
1
1
6
A
SER
377
C
SER
12
HELX_P
A
GLY
389
C
GLY
24
1
2
13
A
THR
397
C
THR
32
HELX_P
A
GLY
406
C
GLY
41
1
3
10
A
THR
408
C
THR
43
HELX_P
A
ARG
431
C
ARG
66
1
4
24
A
LEU
433
C
LEU
68
HELX_P
A
GLU
438
C
GLU
73
1
5
6
D
SER
377
D
SER
12
HELX_P
D
LYS
388
D
LYS
23
1
6
12
D
THR
397
D
THR
32
HELX_P
D
GLY
406
D
GLY
41
1
7
10
D
ARG
431
D
ARG
66
HELX_P
D
PHE
436
D
PHE
71
1
9
6
hydrog
WATSON-CRICK
B
DC
2
A
N3
DC
2
1_555
C
DG
23
B
N1
DG
11
1_555
hydrog
WATSON-CRICK
B
DC
2
A
N4
DC
2
1_555
C
DG
23
B
O6
DG
11
1_555
hydrog
WATSON-CRICK
B
DC
2
A
O2
DC
2
1_555
C
DG
23
B
N2
DG
11
1_555
hydrog
WATSON-CRICK
B
DT
3
A
N3
DT
3
1_555
C
DA
22
B
N1
DA
10
1_555
hydrog
WATSON-CRICK
B
DT
3
A
O4
DT
3
1_555
C
DA
22
B
N6
DA
10
1_555
hydrog
WATSON-CRICK
B
DT
4
A
N3
DT
4
1_555
C
DA
21
B
N1
DA
9
1_555
hydrog
WATSON-CRICK
B
DT
4
A
O4
DT
4
1_555
C
DA
21
B
N6
DA
9
1_555
hydrog
WATSON-CRICK
B
DG
5
A
N1
DG
5
1_555
C
DC
20
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
B
DG
5
A
N2
DG
5
1_555
C
DC
20
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
B
DG
5
A
O6
DG
5
1_555
C
DC
20
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
B
DA
6
A
N1
DA
6
1_555
C
DT
19
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
B
DA
6
A
N6
DA
6
1_555
C
DT
19
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
B
DC
7
A
N3
DC
7
1_555
C
DG
18
B
N1
DG
6
1_555
hydrog
WATSON-CRICK
B
DC
7
A
N4
DC
7
1_555
C
DG
18
B
O6
DG
6
1_555
hydrog
WATSON-CRICK
B
DC
7
A
O2
DC
7
1_555
C
DG
18
B
N2
DG
6
1_555
hydrog
WATSON-CRICK
B
DA
8
A
N1
DA
8
1_555
C
DT
17
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
B
DA
8
A
N6
DA
8
1_555
C
DT
17
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
B
DA
9
A
N1
DA
9
1_555
C
DT
16
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
B
DA
9
A
N6
DA
9
1_555
C
DT
16
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
B
DA
10
A
N1
DA
10
1_555
C
DT
15
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
B
DA
10
A
N6
DA
10
1_555
C
DT
15
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
B
DG
11
A
N1
DG
11
1_555
C
DC
14
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
B
DG
11
A
N2
DG
11
1_555
C
DC
14
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
B
DG
11
A
O6
DG
11
1_555
C
DC
14
B
N4
DC
2
1_555
TRANSCRIPTION/DNA
helix-turn-helix, double-helix, TRANSCRIPTION-DNA COMPLEX
Q9EZJ8_THEAQ
UNP
3
366
Q9EZJ8
SEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLE
1KU7
PDB
1
1KU7
1KU7
PDB
2
1KU7
366
438
1KU7
366
438
Q9EZJ8
A
1
1
73
366
438
1KU7
366
438
Q9EZJ8
D
1
1
73
1
11
1KU7
1
11
1KU7
B
2
1
11
13
23
1KU7
13
23
1KU7
C
3
1
11
1
LEU
engineered mutation
MET
386
1KU7
A
Q9EZJ8
UNP
386
21
2
LEU
engineered mutation
MET
386
1KU7
D
Q9EZJ8
UNP
386
21
19
P 21 21 21