0.016788
0.000000
0.000000
0.000000
0.016788
0.000000
0.000000
0.000000
0.003434
0.000000
0.000000
0.000000
Dolan, K.T.
Duguid, E.M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.000
90.000
90.000
59.566
59.566
291.177
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
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
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
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
N
N
75
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
N
81
N
H
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
O
N
89
N
P
N
90
N
O
N
91
N
O
N
92
N
O
N
93
N
C
N
94
R
C
N
95
N
O
N
96
S
C
N
97
N
O
N
98
N
C
N
99
R
C
Y
100
N
N
Y
101
N
C
Y
102
N
N
Y
103
N
C
Y
104
N
C
N
105
N
N
Y
106
N
N
Y
107
N
C
Y
108
N
N
Y
109
N
C
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
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
O
N
125
N
P
N
126
N
O
N
127
N
O
N
128
N
O
N
129
N
C
N
130
R
C
N
131
N
O
N
132
S
C
N
133
N
O
N
134
N
C
N
135
R
C
N
136
N
N
N
137
N
C
N
138
N
O
N
139
N
N
N
140
N
C
N
141
N
N
N
142
N
C
N
143
N
C
N
144
N
H
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
O
N
159
N
P
N
160
N
O
N
161
N
O
N
162
N
O
N
163
N
C
N
164
R
C
N
165
N
O
N
166
S
C
N
167
N
O
N
168
N
C
N
169
R
C
Y
170
N
N
Y
171
N
C
Y
172
N
N
Y
173
N
C
N
174
N
C
N
175
N
O
N
176
N
N
N
177
N
C
N
178
N
N
N
179
N
N
Y
180
N
C
N
181
N
H
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
O
N
196
N
P
N
197
N
O
N
198
N
O
N
199
N
O
N
200
N
C
N
201
R
C
N
202
N
O
N
203
S
C
N
204
N
O
N
205
N
C
N
206
R
C
N
207
N
N
N
208
N
C
N
209
N
O
N
210
N
N
N
211
N
C
N
212
N
O
N
213
N
C
N
214
N
C
N
215
N
C
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
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
N
N
232
S
C
N
233
N
C
N
234
N
O
N
235
N
C
N
236
N
C
N
237
N
C
N
238
N
O
N
239
N
N
N
240
N
O
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
C
N
258
N
O
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
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
N
N
271
N
C
N
272
N
C
N
273
N
O
N
274
N
O
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
N
N
281
S
C
N
282
N
C
N
283
N
O
N
284
N
C
Y
285
N
C
Y
286
N
N
Y
287
N
C
Y
288
N
C
Y
289
N
N
N
290
N
O
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
H
N
300
N
H
N
301
N
N
N
302
S
C
N
303
N
C
N
304
N
O
N
305
S
C
N
306
N
C
N
307
N
C
N
308
N
C
N
309
N
O
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
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
N
N
324
S
C
N
325
N
C
N
326
N
O
N
327
N
C
N
328
N
C
N
329
N
C
N
330
N
C
N
331
N
O
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
N
350
N
C
N
351
N
C
N
352
N
C
N
353
N
N
N
354
N
O
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
N
N
371
S
C
N
372
N
C
N
373
N
O
N
374
N
C
N
375
N
C
N
376
N
S
N
377
N
C
N
378
N
O
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
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
N
N
391
S
C
N
392
N
C
N
393
N
O
N
394
N
C
N
395
N
C
N
396
N
C
N
397
N
O
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
N
N
408
S
C
N
409
N
C
N
410
N
O
N
411
N
C
N
412
N
O
N
413
N
O
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
N
N
422
S
C
N
423
N
C
N
424
N
O
N
425
R
C
N
426
N
O
N
427
N
C
N
428
N
O
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
Y
443
N
C
Y
444
N
C
Y
445
N
C
Y
446
N
N
Y
447
N
C
Y
448
N
C
Y
449
N
C
Y
450
N
C
Y
451
N
C
N
452
N
O
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
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
N
N
466
S
C
N
467
N
C
N
468
N
O
N
469
N
C
N
470
N
C
N
471
N
C
N
472
N
O
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
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
doub
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
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
doub
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
N
225
N
sing
N
226
N
sing
N
227
N
doub
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
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
doub
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
doub
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
doub
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
Y
289
N
sing
Y
290
N
doub
Y
291
N
doub
N
292
N
sing
Y
293
N
sing
N
294
N
sing
Y
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
doub
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
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
doub
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
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
doub
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
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
doub
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
doub
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
doub
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
doub
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
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
doub
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
Y
441
N
doub
Y
442
N
sing
Y
443
N
sing
N
444
N
sing
Y
445
N
doub
Y
446
N
sing
Y
447
N
sing
N
448
N
sing
Y
449
N
sing
Y
450
N
doub
N
451
N
sing
Y
452
N
doub
N
453
N
sing
Y
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
doub
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
sing
N
474
N
sing
N
475
N
sing
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
286
22178
22185
10.1074/jbc.M111.245258
21550983
Crystal Structures of SlyA Protein, a Master Virulence Regulator of Salmonella, in Free and DNA-bound States.
2011
10.2210/pdb3q5f/pdb
pdb_00003q5f
1
CCD
2010-03-18
MARMOSAIC 300 mm CCD
MAD
M
x-ray
1
1.20610
1.0
1.25494
1.0
1.25525
1.0
35.32
123915
0.111
2.02
4.000
50.000
8323
98.80
14.90
23-ID-B
APS
1.20610, 1.25494, 1.25525
SYNCHROTRON
APS BEAMLINE 23-ID-B
16761.391
Transcriptional regulator slyA
2
man
polymer
7055.625
DNA (5'-D(*AP*AP*TP*AP*AP*CP*TP*TP*AP*GP*CP*AP*AP*GP*CP*TP*AP*AP*TP*TP*AP*TP*A)-3')
1
syn
polymer
7059.592
DNA (5'-D(*TP*TP*AP*TP*AP*AP*TP*TP*AP*GP*CP*TP*TP*GP*CP*TP*AP*AP*GP*TP*TP*AP*T)-3')
1
syn
polymer
Cytolysin slyA, Salmolysin
no
no
SNAMESPLGSDLARLVRIWRALIDHRLKPLELTQTHWVTLHNIHQLPPDQSQIQLAKAIGIEQPSLVRTLDQLEDKGLIS
RQTCASDRRAKRIKLTEKAEPLIAEMEEVIHKTRGEILAGISSEEIELLIKLIAKLEHNIMELHSHD
SNAMESPLGSDLARLVRIWRALIDHRLKPLELTQTHWVTLHNIHQLPPDQSQIQLAKAIGIEQPSLVRTLDQLEDKGLIS
RQTCASDRRAKRIKLTEKAEPLIAEMEEVIHKTRGEILAGISSEEIELLIKLIAKLEHNIMELHSHD
A,B
polypeptide(L)
no
no
(DA)(DA)(DT)(DA)(DA)(DC)(DT)(DT)(DA)(DG)(DC)(DA)(DA)(DG)(DC)(DT)(DA)(DA)(DT)(DT)
(DA)(DT)(DA)
AATAACTTAGCAAGCTAATTATA
C
polydeoxyribonucleotide
no
no
(DT)(DT)(DA)(DT)(DA)(DA)(DT)(DT)(DA)(DG)(DC)(DT)(DT)(DG)(DC)(DT)(DA)(DA)(DG)(DT)
(DT)(DA)(DT)
TTATAATTAGCTTGCTAAGTTAT
D
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
enterica serovar Typhimurium
sample
slyA, STM1444
90371
Salmonella enterica
562
Escherichia coli
BL21(DE3)
plasmid
pMCSG19
1
2.71
54.63
VAPOR DIFFUSION, HANGING DROP
6.74
20% PEG 4000, 0.1M sodium chloride, 0.05M magnesium chloride, 0.1M cacodylate, 2% benzamidine hydrochloride, pH 6.74, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
PEG 4000
1
sodium chloride
1
magnesium chloride
1
cacodylate
1
benzamidine hydrochloride
1
PEG 4000
2
sodium chloride
2
magnesium chloride
2
cacodylate
2
benzamidine hydrochloride
2
0.013
1
20
C
2
D
23
12.409
C_DA2:DT23_D
1
-11.055
1.153
-0.001
-0.308
5.614
1
20
C
3
D
22
-8.200
C_DT3:DA22_D
2
-4.881
-1.023
0.173
-0.248
4.688
1
20
C
4
D
21
4.676
C_DA4:DT21_D
3
-9.316
0.907
0.023
-0.299
5.599
1
20
C
5
D
20
8.694
C_DA5:DT20_D
4
-6.059
-0.217
0.118
-0.343
9.847
1
19
C
6
D
19
5.320
C_DC6:DG19_D
5
-12.357
-0.266
0.056
-0.140
-3.396
1
20
C
7
D
18
-1.256
C_DT7:DA18_D
6
-16.090
-0.181
0.216
-0.217
-2.399
1
20
C
8
D
17
1.960
C_DT8:DA17_D
7
-11.067
0.254
-0.002
-0.239
1.925
1
20
C
9
D
16
-4.057
C_DA9:DT16_D
8
-1.084
0.499
-0.096
-0.328
6.899
1
19
C
10
D
15
1.660
C_DG10:DC15_D
9
-12.734
-0.508
-0.217
-0.366
1.206
1
19
C
11
D
14
-3.659
C_DC11:DG14_D
10
-17.076
0.448
0.107
-0.405
-16.208
1
20
C
12
D
13
2.369
C_DA12:DT13_D
11
-3.876
0.671
-0.323
-0.208
0.078
1
20
C
13
D
12
-0.652
C_DA13:DT12_D
12
-1.482
0.655
0.048
-0.304
-0.379
1
19
C
14
D
11
4.637
C_DG14:DC11_D
13
-16.309
-0.110
0.348
-0.205
-6.588
1
19
C
15
D
10
-1.219
C_DC15:DG10_D
14
-7.391
0.902
0.038
-0.434
1.461
1
20
C
16
D
9
-6.562
C_DT16:DA9_D
15
-3.512
0.007
0.206
-0.084
3.280
1
20
C
17
D
8
-2.155
C_DA17:DT8_D
16
-8.969
-0.084
0.175
-0.281
6.010
1
20
C
18
D
7
2.065
C_DA18:DT7_D
17
-8.222
0.170
0.573
-0.390
-6.010
1
20
C
19
D
6
-0.148
C_DT19:DA6_D
18
-7.086
0.451
0.252
-0.402
-2.964
1
20
C
20
D
5
8.148
C_DT20:DA5_D
19
-6.354
-0.372
-0.009
-0.099
-6.072
1
20
C
21
D
4
5.811
C_DA21:DT4_D
20
-4.969
0.018
0.058
-0.252
-0.935
1
20
C
22
D
3
-2.674
C_DT22:DA3_D
21
-5.914
-0.174
0.141
-0.269
2.324
1
20
C
23
D
2
4.457
C_DA23:DT2_D
22
-6.513
-0.269
-0.212
-0.379
3.264
25.219
C
C
2
3
-7.180
D
D
23
22
3.103
-3.111
-0.499
-1.194
CC_DA2DT3:DA22DT23_DD
1
-4.482
10.345
24.632
-1.839
-0.147
3.351
43.568
C
C
3
4
4.875
D
D
22
21
3.356
3.614
0.595
-0.173
CC_DT3DA4:DT21DA22_DD
2
1.664
-2.244
43.395
-0.590
-0.637
3.187
31.673
C
C
4
5
13.267
D
D
21
20
3.227
7.180
-0.361
0.149
CC_DA4DA5:DT20DT21_DD
3
-0.742
1.370
30.860
-1.043
0.525
3.215
31.392
C
C
5
6
1.829
D
D
20
19
3.218
0.989
0.292
-0.330
CC_DA5DC6:DG19DT20_DD
4
1.151
-2.128
31.357
-0.792
-0.327
3.342
38.557
C
C
6
7
8.846
D
D
19
18
3.494
5.820
0.070
-0.786
CC_DC6DT7:DA18DG19_DD
5
-0.306
0.464
38.131
-1.946
-0.145
3.266
36.780
C
C
7
8
-4.934
D
D
18
17
3.251
-3.109
0.008
-0.350
CC_DT7DT8:DA17DA18_DD
6
1.658
-2.631
36.616
-0.132
0.212
3.169
35.892
C
C
8
9
6.631
D
D
17
16
3.203
4.077
-0.101
-0.076
CC_DT8DA9:DT16DA17_DD
7
1.431
-2.328
35.640
-0.694
0.364
2.998
26.562
C
C
9
10
20.173
D
D
16
15
3.334
9.088
0.833
-0.409
CC_DA9DG10:DC15DT16_DD
8
-0.102
0.227
24.985
-3.280
-1.839
3.281
43.218
C
C
10
11
5.728
D
D
15
14
3.324
4.202
-0.702
-0.963
CC_DG10DC11:DG14DC15_DD
9
-5.646
7.697
42.668
-1.726
0.392
3.613
42.540
C
C
11
12
6.929
D
D
14
13
3.671
4.998
0.124
-0.117
CC_DC11DA12:DT13DG14_DD
10
6.539
-9.065
41.772
-0.730
0.573
3.098
25.933
C
C
12
13
23.096
D
D
13
12
3.048
10.051
-0.292
0.729
CC_DA12DA13:DT12DT13_DD
11
-4.301
9.882
23.552
-1.117
-0.523
3.262
32.873
C
C
13
14
-1.225
D
D
12
11
3.252
-0.691
-0.252
-0.425
CC_DA13DG14:DC11DT12_DD
12
-4.920
8.726
32.506
-0.633
-0.398
3.353
42.658
C
C
14
15
4.911
D
D
11
10
3.418
3.565
0.292
-0.826
CC_DG14DC15:DG10DC11_DD
13
3.516
-4.844
42.377
-1.508
-0.034
2.895
27.173
C
C
15
16
16.964
D
D
10
9
3.212
7.860
-0.864
-0.682
CC_DC15DT16:DA9DG10_DD
14
-0.315
0.680
26.030
-3.338
1.764
3.132
34.449
C
C
16
17
5.140
D
D
9
8
3.181
3.040
0.073
-0.436
CC_DT16DA17:DT8DA9_DD
15
0.539
-0.912
34.315
-1.193
-0.042
3.144
36.874
C
C
17
18
-3.086
D
D
8
7
3.179
-1.949
0.489
-0.507
CC_DA17DA18:DT7DT8_DD
16
-3.432
5.435
36.669
-0.546
-1.224
3.547
36.924
C
C
18
19
0.253
D
D
7
6
3.580
0.160
-0.720
-1.173
CC_DA18DT19:DA6DT7_DD
17
1.344
-2.123
36.900
-1.875
1.334
3.001
26.742
C
C
19
20
10.713
D
D
6
5
3.170
4.924
0.095
-0.639
CC_DT19DT20:DA5DA6_DD
18
1.922
-4.182
26.224
-2.599
0.270
3.398
42.789
C
C
20
21
10.297
D
D
5
4
3.369
7.472
0.319
0.623
CC_DT20DA21:DT4DA5_DD
19
-2.874
3.961
42.068
0.074
-0.736
3.266
35.002
C
C
21
22
-3.358
D
D
4
3
3.220
-2.018
-0.312
-0.713
CC_DA21DT22:DA3DT4_DD
20
-1.589
2.644
34.911
-0.885
0.282
3.244
35.403
C
C
22
23
-5.302
D
D
3
2
3.259
-3.218
-0.132
-0.130
CC_DT22DA23:DT2DA3_DD
21
2.200
-3.625
35.194
0.259
0.539
software
chem_comp_atom
chem_comp_bond
database_2
struct_ncs_dom_lim
struct_ref_seq_dif
repository
Initial release
Version format compliance
Refinement description
Data collection
Database references
Refinement description
1
0
2011-05-04
1
1
2011-07-13
1
2
2017-11-08
1
3
2024-02-21
_software.classification
_software.contact_author
_software.contact_author_email
_software.date
_software.language
_software.location
_software.name
_software.type
_software.version
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ncs_dom_lim.beg_auth_comp_id
_struct_ncs_dom_lim.beg_label_asym_id
_struct_ncs_dom_lim.beg_label_comp_id
_struct_ncs_dom_lim.beg_label_seq_id
_struct_ncs_dom_lim.end_auth_comp_id
_struct_ncs_dom_lim.end_label_asym_id
_struct_ncs_dom_lim.end_label_comp_id
_struct_ncs_dom_lim.end_label_seq_id
_struct_ref_seq_dif.details
RCSB
Y
RCSB
2010-12-28
REL
REL
0.053
3.232
96.70
14.70
0.070
2.558
99.00
15.50
0.127
2.071
99.30
15.60
0.152
1.925
99.40
15.40
0.178
1.779
99.10
15.50
0.195
1.759
99.00
15.30
0.215
1.717
99.00
15.00
0.231
1.745
98.90
14.30
0.241
1.636
99.20
13.70
0.287
1.653
99.00
13.80
AUTHORS STATE THAT THE SEQUENCING EXPERIMENTS OF THE CLONES CONFIRMED THE CODING SEQUENCE AT THESE POSITIONS IS GAGCCG (CORRESPONDING TO GLU-PRO).
31.972
7.248
8.980
TA
60.00
0.93
3.330
29.043
20.066
TA
60.00
0.52
0.248
38.777
27.480
TA
60.00
0.50
0.700
139
0.670
229
0.680
289
0.730
318
0.680
360
0.690
383
0.610
391
0.520
425
0.820
0.830
0.780
2522
1661
861
0.920
0.970
0.900
126
35
91
0.920
0.930
0.900
378
200
178
0.880
0.910
0.840
442
281
161
0.830
0.860
0.770
431
294
137
0.780
0.810
0.680
710
522
188
0.680
0.710
0.600
435
329
106
n
1
-2
A
n
2
-1
A
n
3
0
A
n
4
1
A
GLU
2
n
5
GLU
2
A
SER
3
n
6
SER
3
A
PRO
4
n
7
PRO
4
A
LEU
5
n
8
LEU
5
A
GLY
6
n
9
GLY
6
A
SER
7
n
10
SER
7
A
ASP
8
n
11
ASP
8
A
LEU
9
n
12
LEU
9
A
ALA
10
n
13
ALA
10
A
ARG
11
n
14
ARG
11
A
LEU
12
n
15
LEU
12
A
VAL
13
n
16
VAL
13
A
ARG
14
n
17
ARG
14
A
ILE
15
n
18
ILE
15
A
TRP
16
n
19
TRP
16
A
ARG
17
n
20
ARG
17
A
ALA
18
n
21
ALA
18
A
LEU
19
n
22
LEU
19
A
ILE
20
n
23
ILE
20
A
ASP
21
n
24
ASP
21
A
HIS
22
n
25
HIS
22
A
ARG
23
n
26
ARG
23
A
LEU
24
n
27
LEU
24
A
LYS
25
n
28
LYS
25
A
PRO
26
n
29
PRO
26
A
LEU
27
n
30
LEU
27
A
GLU
28
n
31
GLU
28
A
LEU
29
n
32
LEU
29
A
THR
30
n
33
THR
30
A
GLN
31
n
34
GLN
31
A
THR
32
n
35
THR
32
A
HIS
33
n
36
HIS
33
A
TRP
34
n
37
TRP
34
A
VAL
35
n
38
VAL
35
A
THR
36
n
39
THR
36
A
LEU
37
n
40
LEU
37
A
HIS
38
n
41
HIS
38
A
ASN
39
n
42
ASN
39
A
ILE
40
n
43
ILE
40
A
HIS
41
n
44
HIS
41
A
GLN
42
n
45
GLN
42
A
LEU
43
n
46
LEU
43
A
PRO
44
n
47
PRO
44
A
PRO
45
n
48
PRO
45
A
ASP
46
n
49
ASP
46
A
GLN
47
n
50
GLN
47
A
SER
48
n
51
SER
48
A
GLN
49
n
52
GLN
49
A
ILE
50
n
53
ILE
50
A
GLN
51
n
54
GLN
51
A
LEU
52
n
55
LEU
52
A
ALA
53
n
56
ALA
53
A
LYS
54
n
57
LYS
54
A
ALA
55
n
58
ALA
55
A
ILE
56
n
59
ILE
56
A
GLY
57
n
60
GLY
57
A
ILE
58
n
61
ILE
58
A
GLU
59
n
62
GLU
59
A
GLN
60
n
63
GLN
60
A
PRO
61
n
64
PRO
61
A
SER
62
n
65
SER
62
A
LEU
63
n
66
LEU
63
A
VAL
64
n
67
VAL
64
A
ARG
65
n
68
ARG
65
A
THR
66
n
69
THR
66
A
LEU
67
n
70
LEU
67
A
ASP
68
n
71
ASP
68
A
GLN
69
n
72
GLN
69
A
LEU
70
n
73
LEU
70
A
GLU
71
n
74
GLU
71
A
ASP
72
n
75
ASP
72
A
LYS
73
n
76
LYS
73
A
GLY
74
n
77
GLY
74
A
LEU
75
n
78
LEU
75
A
ILE
76
n
79
ILE
76
A
SER
77
n
80
SER
77
A
ARG
78
n
81
ARG
78
A
GLN
79
n
82
GLN
79
A
THR
80
n
83
THR
80
A
CYS
81
n
84
CYS
81
A
ALA
82
n
85
ALA
82
A
SER
83
n
86
SER
83
A
ASP
84
n
87
ASP
84
A
ARG
85
n
88
ARG
85
A
ARG
86
n
89
ARG
86
A
ALA
87
n
90
ALA
87
A
LYS
88
n
91
LYS
88
A
ARG
89
n
92
ARG
89
A
ILE
90
n
93
ILE
90
A
LYS
91
n
94
LYS
91
A
LEU
92
n
95
LEU
92
A
THR
93
n
96
THR
93
A
GLU
94
n
97
GLU
94
A
LYS
95
n
98
LYS
95
A
ALA
96
n
99
ALA
96
A
GLU
97
n
100
GLU
97
A
PRO
98
n
101
PRO
98
A
LEU
99
n
102
LEU
99
A
ILE
100
n
103
ILE
100
A
ALA
101
n
104
ALA
101
A
GLU
102
n
105
GLU
102
A
MET
103
n
106
MET
103
A
GLU
104
n
107
GLU
104
A
GLU
105
n
108
GLU
105
A
VAL
106
n
109
VAL
106
A
ILE
107
n
110
ILE
107
A
HIS
108
n
111
HIS
108
A
LYS
109
n
112
LYS
109
A
THR
110
n
113
THR
110
A
ARG
111
n
114
ARG
111
A
GLY
112
n
115
GLY
112
A
GLU
113
n
116
GLU
113
A
ILE
114
n
117
ILE
114
A
LEU
115
n
118
LEU
115
A
ALA
116
n
119
ALA
116
A
GLY
117
n
120
GLY
117
A
ILE
118
n
121
ILE
118
A
SER
119
n
122
SER
119
A
SER
120
n
123
SER
120
A
GLU
121
n
124
GLU
121
A
GLU
122
n
125
GLU
122
A
ILE
123
n
126
ILE
123
A
GLU
124
n
127
GLU
124
A
LEU
125
n
128
LEU
125
A
LEU
126
n
129
LEU
126
A
ILE
127
n
130
ILE
127
A
LYS
128
n
131
LYS
128
A
LEU
129
n
132
LEU
129
A
ILE
130
n
133
ILE
130
A
ALA
131
n
134
ALA
131
A
LYS
132
n
135
LYS
132
A
LEU
133
n
136
LEU
133
A
GLU
134
n
137
GLU
134
A
HIS
135
n
138
HIS
135
A
ASN
136
n
139
ASN
136
A
ILE
137
n
140
ILE
137
A
MET
138
n
141
MET
138
A
GLU
139
n
142
GLU
139
A
LEU
140
n
143
LEU
140
A
HIS
141
n
144
HIS
141
A
SER
142
n
145
SER
142
A
n
146
143
A
n
147
144
A
n
1
-2
B
n
2
-1
B
n
3
0
B
n
4
1
B
n
5
2
B
SER
3
n
6
SER
3
B
PRO
4
n
7
PRO
4
B
LEU
5
n
8
LEU
5
B
GLY
6
n
9
GLY
6
B
SER
7
n
10
SER
7
B
ASP
8
n
11
ASP
8
B
LEU
9
n
12
LEU
9
B
ALA
10
n
13
ALA
10
B
ARG
11
n
14
ARG
11
B
LEU
12
n
15
LEU
12
B
VAL
13
n
16
VAL
13
B
ARG
14
n
17
ARG
14
B
ILE
15
n
18
ILE
15
B
TRP
16
n
19
TRP
16
B
ARG
17
n
20
ARG
17
B
ALA
18
n
21
ALA
18
B
LEU
19
n
22
LEU
19
B
ILE
20
n
23
ILE
20
B
ASP
21
n
24
ASP
21
B
HIS
22
n
25
HIS
22
B
ARG
23
n
26
ARG
23
B
LEU
24
n
27
LEU
24
B
LYS
25
n
28
LYS
25
B
PRO
26
n
29
PRO
26
B
LEU
27
n
30
LEU
27
B
GLU
28
n
31
GLU
28
B
LEU
29
n
32
LEU
29
B
THR
30
n
33
THR
30
B
GLN
31
n
34
GLN
31
B
THR
32
n
35
THR
32
B
HIS
33
n
36
HIS
33
B
TRP
34
n
37
TRP
34
B
VAL
35
n
38
VAL
35
B
THR
36
n
39
THR
36
B
LEU
37
n
40
LEU
37
B
HIS
38
n
41
HIS
38
B
ASN
39
n
42
ASN
39
B
ILE
40
n
43
ILE
40
B
HIS
41
n
44
HIS
41
B
GLN
42
n
45
GLN
42
B
LEU
43
n
46
LEU
43
B
PRO
44
n
47
PRO
44
B
PRO
45
n
48
PRO
45
B
ASP
46
n
49
ASP
46
B
GLN
47
n
50
GLN
47
B
SER
48
n
51
SER
48
B
GLN
49
n
52
GLN
49
B
ILE
50
n
53
ILE
50
B
GLN
51
n
54
GLN
51
B
LEU
52
n
55
LEU
52
B
ALA
53
n
56
ALA
53
B
LYS
54
n
57
LYS
54
B
ALA
55
n
58
ALA
55
B
ILE
56
n
59
ILE
56
B
GLY
57
n
60
GLY
57
B
ILE
58
n
61
ILE
58
B
GLU
59
n
62
GLU
59
B
GLN
60
n
63
GLN
60
B
PRO
61
n
64
PRO
61
B
SER
62
n
65
SER
62
B
LEU
63
n
66
LEU
63
B
VAL
64
n
67
VAL
64
B
ARG
65
n
68
ARG
65
B
THR
66
n
69
THR
66
B
LEU
67
n
70
LEU
67
B
ASP
68
n
71
ASP
68
B
GLN
69
n
72
GLN
69
B
LEU
70
n
73
LEU
70
B
GLU
71
n
74
GLU
71
B
ASP
72
n
75
ASP
72
B
LYS
73
n
76
LYS
73
B
GLY
74
n
77
GLY
74
B
LEU
75
n
78
LEU
75
B
ILE
76
n
79
ILE
76
B
SER
77
n
80
SER
77
B
ARG
78
n
81
ARG
78
B
GLN
79
n
82
GLN
79
B
THR
80
n
83
THR
80
B
CYS
81
n
84
CYS
81
B
ALA
82
n
85
ALA
82
B
SER
83
n
86
SER
83
B
ASP
84
n
87
ASP
84
B
ARG
85
n
88
ARG
85
B
ARG
86
n
89
ARG
86
B
ALA
87
n
90
ALA
87
B
LYS
88
n
91
LYS
88
B
ARG
89
n
92
ARG
89
B
ILE
90
n
93
ILE
90
B
LYS
91
n
94
LYS
91
B
LEU
92
n
95
LEU
92
B
THR
93
n
96
THR
93
B
GLU
94
n
97
GLU
94
B
LYS
95
n
98
LYS
95
B
ALA
96
n
99
ALA
96
B
GLU
97
n
100
GLU
97
B
PRO
98
n
101
PRO
98
B
LEU
99
n
102
LEU
99
B
ILE
100
n
103
ILE
100
B
ALA
101
n
104
ALA
101
B
GLU
102
n
105
GLU
102
B
MET
103
n
106
MET
103
B
GLU
104
n
107
GLU
104
B
GLU
105
n
108
GLU
105
B
VAL
106
n
109
VAL
106
B
ILE
107
n
110
ILE
107
B
HIS
108
n
111
HIS
108
B
LYS
109
n
112
LYS
109
B
THR
110
n
113
THR
110
B
ARG
111
n
114
ARG
111
B
GLY
112
n
115
GLY
112
B
GLU
113
n
116
GLU
113
B
ILE
114
n
117
ILE
114
B
LEU
115
n
118
LEU
115
B
ALA
116
n
119
ALA
116
B
GLY
117
n
120
GLY
117
B
ILE
118
n
121
ILE
118
B
SER
119
n
122
SER
119
B
SER
120
n
123
SER
120
B
GLU
121
n
124
GLU
121
B
GLU
122
n
125
GLU
122
B
ILE
123
n
126
ILE
123
B
GLU
124
n
127
GLU
124
B
LEU
125
n
128
LEU
125
B
LEU
126
n
129
LEU
126
B
ILE
127
n
130
ILE
127
B
LYS
128
n
131
LYS
128
B
LEU
129
n
132
LEU
129
B
ILE
130
n
133
ILE
130
B
ALA
131
n
134
ALA
131
B
LYS
132
n
135
LYS
132
B
LEU
133
n
136
LEU
133
B
GLU
134
n
137
GLU
134
B
HIS
135
n
138
HIS
135
B
ASN
136
n
139
ASN
136
B
ILE
137
n
140
ILE
137
B
MET
138
n
141
MET
138
B
GLU
139
n
142
GLU
139
B
LEU
140
n
143
LEU
140
B
HIS
141
n
144
HIS
141
B
SER
142
n
145
SER
142
B
n
146
143
B
n
147
144
B
DA
1
n
1
DA
1
C
DA
2
n
2
DA
2
C
DT
3
n
3
DT
3
C
DA
4
n
4
DA
4
C
DA
5
n
5
DA
5
C
DC
6
n
6
DC
6
C
DT
7
n
7
DT
7
C
DT
8
n
8
DT
8
C
DA
9
n
9
DA
9
C
DG
10
n
10
DG
10
C
DC
11
n
11
DC
11
C
DA
12
n
12
DA
12
C
DA
13
n
13
DA
13
C
DG
14
n
14
DG
14
C
DC
15
n
15
DC
15
C
DT
16
n
16
DT
16
C
DA
17
n
17
DA
17
C
DA
18
n
18
DA
18
C
DT
19
n
19
DT
19
C
DT
20
n
20
DT
20
C
DA
21
n
21
DA
21
C
DT
22
n
22
DT
22
C
DA
23
n
23
DA
23
C
DT
1
n
1
DT
1
D
DT
2
n
2
DT
2
D
DA
3
n
3
DA
3
D
DT
4
n
4
DT
4
D
DA
5
n
5
DA
5
D
DA
6
n
6
DA
6
D
DT
7
n
7
DT
7
D
DT
8
n
8
DT
8
D
DA
9
n
9
DA
9
D
DG
10
n
10
DG
10
D
DC
11
n
11
DC
11
D
DT
12
n
12
DT
12
D
DT
13
n
13
DT
13
D
DG
14
n
14
DG
14
D
DC
15
n
15
DC
15
D
DT
16
n
16
DT
16
D
DA
17
n
17
DA
17
D
DA
18
n
18
DA
18
D
DG
19
n
19
DG
19
D
DT
20
n
20
DT
20
D
DT
21
n
21
DT
21
D
DA
22
n
22
DA
22
D
DT
23
n
23
DT
23
D
author_and_software_defined_assembly
PISA
4
tetrameric
10800
-79
19880
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
GLN
79
A
N
GLN
82
A
O
ARG
89
A
O
ARG
92
B
N
GLN
79
B
N
GLN
82
B
O
ARG
89
B
O
ARG
92
1
A
SER
-2
A
SER
1
1
Y
1
A
ASN
-1
A
ASN
2
1
Y
1
A
ALA
0
A
ALA
3
1
Y
1
A
MET
1
A
MET
4
1
Y
1
A
HIS
143
A
HIS
146
1
Y
1
A
ASP
144
A
ASP
147
1
Y
1
B
SER
-2
B
SER
1
1
Y
1
B
ASN
-1
B
ASN
2
1
Y
1
B
ALA
0
B
ALA
3
1
Y
1
B
MET
1
B
MET
4
1
Y
1
B
GLU
2
B
GLU
5
1
Y
1
B
HIS
143
B
HIS
146
1
Y
1
B
ASP
144
B
ASP
147
1
Y
1
A
C
NH1
O4'
ARG
DA
86
23
2.08
1
2.36
0.30
108.30
110.66
C
C
C
O4'
C1'
N9
DA
DA
DA
4
4
4
N
1
-2.57
0.40
104.50
101.93
C
C
C
O4'
C4'
C3'
DC
DC
DC
6
6
6
N
1
-6.90
0.80
102.40
95.50
C
C
C
C3'
C2'
C1'
DG
DG
DG
10
10
10
N
1
8.05
0.30
108.30
116.35
C
C
C
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
4.25
0.30
108.30
112.55
C
C
C
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
-5.85
0.70
108.00
102.15
C
C
C
O4'
C1'
N9
DA
DA
DA
12
12
12
N
1
-5.60
0.80
102.40
96.80
C
C
C
C3'
C2'
C1'
DA
DA
DA
13
13
13
N
1
-4.86
0.80
105.90
101.04
C
C
C
O4'
C1'
C2'
DA
DA
DA
13
13
13
N
1
-4.60
0.70
102.20
97.60
C
C
C
C4'
C3'
C2'
DG
DG
DG
14
14
14
N
1
2.28
0.30
108.30
110.58
C
C
C
O4'
C1'
N1
DT
DT
DT
16
16
16
N
1
2.99
0.30
108.30
111.29
C
C
C
O4'
C1'
N1
DT
DT
DT
20
20
20
N
1
-4.84
0.60
122.30
117.46
C
C
C
N3
C2
O2
DT
DT
DT
22
22
22
N
1
-3.94
0.40
104.50
100.56
C
C
C
O4'
C4'
C3'
DA
DA
DA
23
23
23
N
1
2.33
0.30
108.30
110.63
D
D
D
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
-5.89
0.40
104.50
98.61
D
D
D
O4'
C4'
C3'
DT
DT
DT
7
7
7
N
1
-7.89
1.00
110.10
102.21
D
D
D
C1'
O4'
C4'
DT
DT
DT
7
7
7
N
1
-4.38
0.70
108.00
103.62
D
D
D
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
3.72
0.60
119.90
123.62
D
D
D
N3
C4
O4
DT
DT
DT
7
7
7
N
1
-4.43
0.70
124.90
120.47
D
D
D
C5
C4
O4
DT
DT
DT
7
7
7
N
1
3.77
0.60
119.90
123.67
D
D
D
N3
C4
O4
DT
DT
DT
8
8
8
N
1
-4.91
0.80
102.40
97.49
D
D
D
C3'
C2'
C1'
DA
DA
DA
9
9
9
N
1
3.17
0.30
108.30
111.47
D
D
D
O4'
C1'
N9
DA
DA
DA
9
9
9
N
1
4.50
0.30
108.30
112.80
D
D
D
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
-4.68
0.70
102.20
97.52
D
D
D
C4'
C3'
C2'
DG
DG
DG
14
14
14
N
1
-4.80
0.70
108.00
103.20
D
D
D
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
-5.56
0.70
102.20
96.64
D
D
D
C4'
C3'
C2'
DT
DT
DT
16
16
16
N
1
-5.74
0.80
102.40
96.66
D
D
D
C3'
C2'
C1'
DT
DT
DT
16
16
16
N
1
-5.19
0.70
102.20
97.01
D
D
D
C4'
C3'
C2'
DA
DA
DA
17
17
17
N
1
-6.12
0.80
102.40
96.28
D
D
D
C3'
C2'
C1'
DA
DA
DA
17
17
17
N
1
-6.21
0.80
102.40
96.19
D
D
D
C3'
C2'
C1'
DA
DA
DA
18
18
18
N
1
3.64
0.30
108.30
111.94
D
D
D
O4'
C1'
N9
DA
DA
DA
18
18
18
N
1
2.04
0.30
108.30
110.34
D
D
D
O4'
C1'
N9
DG
DG
DG
19
19
19
N
1
3.58
0.30
108.30
111.88
D
D
D
O4'
C1'
N1
DT
DT
DT
20
20
20
N
1
-5.60
0.80
102.40
96.80
D
D
D
C3'
C2'
C1'
DA
DA
DA
22
22
22
N
1
A
HIS
41
-69.18
20.63
1
A
PRO
45
-49.88
163.90
1
A
ASP
46
61.21
64.84
1
A
ARG
85
-54.05
1.79
1
A
LEU
115
-87.26
36.92
1
A
SER
120
-45.06
-17.74
1
A
LEU
140
-57.96
-9.95
1
B
HIS
41
-69.36
19.80
1
B
ARG
85
-54.94
1.76
1
B
LYS
95
-59.68
-6.27
1
B
LEU
115
-85.35
37.08
1
B
SER
120
-44.52
-17.51
5.00
1000.00
0.650
2534
18.32
-17.20
12.43
-23.08
7.70
-11.69
149.780
67.2251
29.710
13.9864
0.0000
-0.0000
13.9864
-0.0000
-27.9729
0.2662
0.2135
0.2189
2.96
46.0990
1060
10606
9.9900
89.4400
1.000
1.000
0.3800
1
0.120
MAD
0.9000
1.1100
MLHL
FLAT BULK SOLVENT MODEL
36.1480
0.3040
2.96
46.0990
0
3186
0
937
2249
0.008
3331
1.354
4697
0.064
551
0.004
436
22.281
1348
1
A
1
1120
X-RAY DIFFRACTION
POSITIONAL
0.040
2
B
1
1120
X-RAY DIFFRACTION
POSITIONAL
0.040
0.4910
0.3144
3.0896
75
677
752
8
53.0000
0.3512
0.2638
3.2525
116
1014
1130
8
78.0000
0.2895
0.2159
3.4562
128
1194
1322
8
92.0000
0.2986
0.2276
3.7229
144
1257
1401
8
95.0000
0.2688
0.2094
4.0974
139
1268
1407
8
98.0000
0.2320
0.1850
4.6898
149
1322
1471
8
98.0000
0.2571
0.1948
5.9067
149
1340
1489
8
99.0000
0.2216
0.1971
46.1049
160
1474
1634
8
99.0000
2.96
50.000
3Q5F
11205
0.081
1.483
1
10.400
12.500
94.400
0.260
2.96
3.080
705
1.169
1
7.700
63.200
0.147
3.080
3.200
958
1.350
1
8.600
83.100
0.147
3.200
3.340
1127
1.299
1
10.500
96.900
0.137
3.340
3.520
1156
1.460
1
13.200
99.500
0.146
3.520
3.740
1147
1.367
1
14.100
99.600
0.112
3.740
4.030
1169
1.424
1
14.200
99.700
0.091
4.030
4.440
1166
1.774
1
14.100
99.800
0.071
4.440
5.080
1198
1.417
1
13.800
100.000
0.068
5.080
6.390
1227
1.553
1
13.500
100.000
0.036
6.390
50.000
1352
1.676
1
12.200
99.100
data reduction
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
DENZO
package
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
package
phasing
Tom Terwilliger
terwilliger@LANL.gov
http://www.solve.lanl.gov/
SOLVE
program
phasing
Thomas C. Terwilliger
terwilliger@lanl.gov
1-Jun-2008
http://www.solve.lanl.gov/
RESOLVE
program
2.13
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.6.1_357
data extraction
PDB
deposit@deposit.rcsb.org
June 10, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.10
data collection
JBluIce-EPICS
data reduction
HKL-2000
Crystal structure of the Salmonella transcriptional regulator SlyA in complex with DNA
1
N
N
1
N
N
2
N
N
3
N
N
A
PRO
4
A
PRO
7
HELX_P
A
LYS
25
A
LYS
28
1
1
22
A
PRO
26
A
PRO
29
HELX_P
A
GLU
28
A
GLU
31
5
2
3
A
THR
30
A
THR
33
HELX_P
A
HIS
41
A
HIS
44
1
3
12
A
SER
48
A
SER
51
HELX_P
A
GLY
57
A
GLY
60
1
4
10
A
GLU
59
A
GLU
62
HELX_P
A
ASP
72
A
ASP
75
1
5
14
A
LYS
95
A
LYS
98
HELX_P
A
LEU
115
A
LEU
118
1
6
21
A
SER
119
A
SER
122
HELX_P
A
HIS
141
A
HIS
144
1
7
23
B
PRO
4
B
PRO
7
HELX_P
B
LYS
25
B
LYS
28
1
8
22
B
PRO
26
B
PRO
29
HELX_P
B
GLU
28
B
GLU
31
5
9
3
B
THR
30
B
THR
33
HELX_P
B
HIS
41
B
HIS
44
1
10
12
B
SER
48
B
SER
51
HELX_P
B
GLY
57
B
GLY
60
1
11
10
B
GLU
59
B
GLU
62
HELX_P
B
ASP
72
B
ASP
75
1
12
14
B
LYS
95
B
LYS
98
HELX_P
B
LEU
115
B
LEU
118
1
13
21
B
SER
119
B
SER
122
HELX_P
B
HIS
141
B
HIS
144
1
14
23
hydrog
WATSON-CRICK
C
DA
2
C
N1
DA
2
1_555
D
DT
23
D
N3
DT
23
1_555
hydrog
WATSON-CRICK
C
DA
2
C
N6
DA
2
1_555
D
DT
23
D
O4
DT
23
1_555
hydrog
WATSON-CRICK
C
DT
3
C
N3
DT
3
1_555
D
DA
22
D
N1
DA
22
1_555
hydrog
WATSON-CRICK
C
DT
3
C
O4
DT
3
1_555
D
DA
22
D
N6
DA
22
1_555
hydrog
WATSON-CRICK
C
DA
4
C
N1
DA
4
1_555
D
DT
21
D
N3
DT
21
1_555
hydrog
WATSON-CRICK
C
DA
4
C
N6
DA
4
1_555
D
DT
21
D
O4
DT
21
1_555
hydrog
WATSON-CRICK
C
DA
5
C
N1
DA
5
1_555
D
DT
20
D
N3
DT
20
1_555
hydrog
WATSON-CRICK
C
DA
5
C
N6
DA
5
1_555
D
DT
20
D
O4
DT
20
1_555
hydrog
WATSON-CRICK
C
DC
6
C
N3
DC
6
1_555
D
DG
19
D
N1
DG
19
1_555
hydrog
WATSON-CRICK
C
DC
6
C
N4
DC
6
1_555
D
DG
19
D
O6
DG
19
1_555
hydrog
WATSON-CRICK
C
DC
6
C
O2
DC
6
1_555
D
DG
19
D
N2
DG
19
1_555
hydrog
WATSON-CRICK
C
DT
7
C
N3
DT
7
1_555
D
DA
18
D
N1
DA
18
1_555
hydrog
WATSON-CRICK
C
DT
7
C
O4
DT
7
1_555
D
DA
18
D
N6
DA
18
1_555
hydrog
WATSON-CRICK
C
DT
8
C
N3
DT
8
1_555
D
DA
17
D
N1
DA
17
1_555
hydrog
WATSON-CRICK
C
DT
8
C
O4
DT
8
1_555
D
DA
17
D
N6
DA
17
1_555
hydrog
WATSON-CRICK
C
DA
9
C
N1
DA
9
1_555
D
DT
16
D
N3
DT
16
1_555
hydrog
WATSON-CRICK
C
DA
9
C
N6
DA
9
1_555
D
DT
16
D
O4
DT
16
1_555
hydrog
WATSON-CRICK
C
DG
10
C
N1
DG
10
1_555
D
DC
15
D
N3
DC
15
1_555
hydrog
WATSON-CRICK
C
DG
10
C
N2
DG
10
1_555
D
DC
15
D
O2
DC
15
1_555
hydrog
WATSON-CRICK
C
DG
10
C
O6
DG
10
1_555
D
DC
15
D
N4
DC
15
1_555
hydrog
WATSON-CRICK
C
DC
11
C
N3
DC
11
1_555
D
DG
14
D
N1
DG
14
1_555
hydrog
WATSON-CRICK
C
DC
11
C
N4
DC
11
1_555
D
DG
14
D
O6
DG
14
1_555
hydrog
WATSON-CRICK
C
DC
11
C
O2
DC
11
1_555
D
DG
14
D
N2
DG
14
1_555
hydrog
WATSON-CRICK
C
DA
12
C
N1
DA
12
1_555
D
DT
13
D
N3
DT
13
1_555
hydrog
WATSON-CRICK
C
DA
12
C
N6
DA
12
1_555
D
DT
13
D
O4
DT
13
1_555
hydrog
WATSON-CRICK
C
DA
13
C
N1
DA
13
1_555
D
DT
12
D
N3
DT
12
1_555
hydrog
WATSON-CRICK
C
DA
13
C
N6
DA
13
1_555
D
DT
12
D
O4
DT
12
1_555
hydrog
WATSON-CRICK
C
DG
14
C
N1
DG
14
1_555
D
DC
11
D
N3
DC
11
1_555
hydrog
WATSON-CRICK
C
DG
14
C
N2
DG
14
1_555
D
DC
11
D
O2
DC
11
1_555
hydrog
WATSON-CRICK
C
DG
14
C
O6
DG
14
1_555
D
DC
11
D
N4
DC
11
1_555
hydrog
WATSON-CRICK
C
DC
15
C
N3
DC
15
1_555
D
DG
10
D
N1
DG
10
1_555
hydrog
WATSON-CRICK
C
DC
15
C
N4
DC
15
1_555
D
DG
10
D
O6
DG
10
1_555
hydrog
WATSON-CRICK
C
DC
15
C
O2
DC
15
1_555
D
DG
10
D
N2
DG
10
1_555
hydrog
WATSON-CRICK
C
DT
16
C
N3
DT
16
1_555
D
DA
9
D
N1
DA
9
1_555
hydrog
WATSON-CRICK
C
DT
16
C
O4
DT
16
1_555
D
DA
9
D
N6
DA
9
1_555
hydrog
WATSON-CRICK
C
DA
17
C
N1
DA
17
1_555
D
DT
8
D
N3
DT
8
1_555
hydrog
WATSON-CRICK
C
DA
17
C
N6
DA
17
1_555
D
DT
8
D
O4
DT
8
1_555
hydrog
WATSON-CRICK
C
DA
18
C
N1
DA
18
1_555
D
DT
7
D
N3
DT
7
1_555
hydrog
WATSON-CRICK
C
DA
18
C
N6
DA
18
1_555
D
DT
7
D
O4
DT
7
1_555
hydrog
WATSON-CRICK
C
DT
19
C
N3
DT
19
1_555
D
DA
6
D
N1
DA
6
1_555
hydrog
WATSON-CRICK
C
DT
19
C
O4
DT
19
1_555
D
DA
6
D
N6
DA
6
1_555
hydrog
WATSON-CRICK
C
DT
20
C
N3
DT
20
1_555
D
DA
5
D
N1
DA
5
1_555
hydrog
WATSON-CRICK
C
DT
20
C
O4
DT
20
1_555
D
DA
5
D
N6
DA
5
1_555
hydrog
WATSON-CRICK
C
DA
21
C
N1
DA
21
1_555
D
DT
4
D
N3
DT
4
1_555
hydrog
WATSON-CRICK
C
DA
21
C
N6
DA
21
1_555
D
DT
4
D
O4
DT
4
1_555
hydrog
WATSON-CRICK
C
DT
22
C
N3
DT
22
1_555
D
DA
3
D
N1
DA
3
1_555
hydrog
WATSON-CRICK
C
DT
22
C
O4
DT
22
1_555
D
DA
3
D
N6
DA
3
1_555
hydrog
WATSON-CRICK
C
DA
23
C
N1
DA
23
1_555
D
DT
2
D
N3
DT
2
1_555
hydrog
WATSON-CRICK
C
DA
23
C
N6
DA
23
1_555
D
DT
2
D
O4
DT
2
1_555
TRANSCRIPTION/DNA
MarR/SlyA protein family, winged helix-turn-helix, transcriptonal regulator, protein-DNA complex, TRANSCRIPTION-DNA complex
A
B
A
GLU
2
A
GLU
5
A
SER
142
A
SER
145
CHAIN A OR CHAIN C
B
SER
3
B
SER
6
B
SER
142
B
SER
145
CHAIN B OR CHAIN D
given
-0.812060
-0.582972
0.026502
-0.576007
0.793414
-0.196750
0.093672
-0.175038
-0.980096
21.851400
33.825699
258.697998
SLYA_SALTY
UNP
1
1
P40676
MESPLGSDLARLVRIWRALIDHRLKPLELTQTHWVTLHNIHQLPPDQSQIQLAKAIGIEQPSLVRTLDQLEDKGLISRQT
CASDRRAKRIKLTEKADALIAEMEEVIHKTRGEILAGISSEEIELLIKLIAKLEHNIMELHSHD
3Q5F
PDB
2
3Q5F
3Q5F
PDB
3
3Q5F
1
144
3Q5F
1
144
P40676
A
1
4
147
1
144
3Q5F
1
144
P40676
B
1
4
147
1
23
3Q5F
1
23
3Q5F
C
2
1
23
1
23
3Q5F
1
23
3Q5F
D
3
1
23
1
expression tag
SER
-2
3Q5F
A
P40676
UNP
1
1
expression tag
ASN
-1
3Q5F
A
P40676
UNP
2
1
expression tag
ALA
0
3Q5F
A
P40676
UNP
3
1
ASP
SEE REMARK 999
GLU
97
3Q5F
A
P40676
UNP
97
100
1
ALA
SEE REMARK 999
PRO
98
3Q5F
A
P40676
UNP
98
101
2
expression tag
SER
-2
3Q5F
B
P40676
UNP
1
2
expression tag
ASN
-1
3Q5F
B
P40676
UNP
2
2
expression tag
ALA
0
3Q5F
B
P40676
UNP
3
2
ASP
SEE REMARK 999
GLU
97
3Q5F
B
P40676
UNP
97
100
2
ALA
SEE REMARK 999
PRO
98
3Q5F
B
P40676
UNP
98
101
2
2
anti-parallel
anti-parallel
A
ILE
76
A
ILE
79
A
THR
80
A
THR
83
A
LYS
88
A
LYS
91
A
LEU
92
A
LEU
95
B
ILE
76
B
ILE
79
B
THR
80
B
THR
83
B
LYS
88
B
LYS
91
B
LEU
92
B
LEU
95
92
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