0.016104
0.009298
0.000000
0.000000
0.018596
0.000000
0.000000
0.000000
0.006664
0.00000
0.00000
0.00000
Ruzheinikov, S.N.
Das, S.K.
Sedelnikova, S.E.
Hartley, A.
Foster, S.J.
Horsburgh, M.J.
Cox, A.G.
McCleod, C.W.
Mekhalfia, A.
Blackburn, G.M.
Rice, D.W.
Baker, P.J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90
90
120
62.095
62.095
150.051
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
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
C4 H9 N O2 S
135.185
2-AMINO-4-MERCAPTO-BUTYRIC ACID
L-Homocysteine
L-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
C3 H7 N O5 S
169.156
n
CYSTEINESULFONIC ACID
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
C9 H17 N O6 S
267.299
(2S)-2-amino-4-[[(2S,3S,4R,5R)-3,4,5-trihydroxyoxolan-2-yl]methylsulfanyl]butanoic acid
5-(3-AMINO-4,4-DIHYROXY-BUTYLSULFANYLMETHYL)-TETRAHYDRO-FURAN-2,3,4-TRIOL
D-saccharide, beta linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
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
Zn 2
65.409
ZINC ION
non-polymer
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
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
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
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
C
N
141
N
S
N
142
N
C
N
143
N
O
N
144
N
O
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
N
N
155
S
C
N
156
N
C
N
157
N
O
N
158
N
C
Y
159
N
C
Y
160
N
N
Y
161
N
C
Y
162
N
C
Y
163
N
N
N
164
N
O
N
165
N
H
N
166
N
H
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
O
N
176
N
H
N
177
N
H
N
178
N
N
N
179
S
C
N
180
N
C
N
181
N
O
N
182
S
C
N
183
N
C
N
184
N
C
N
185
N
C
N
186
N
O
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
N
N
201
S
C
N
202
N
C
N
203
N
O
N
204
N
C
N
205
N
C
N
206
N
C
N
207
N
C
N
208
N
O
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
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
N
N
223
S
C
N
224
N
C
N
225
N
O
N
226
N
C
N
227
N
C
N
228
N
C
N
229
N
C
N
230
N
N
N
231
N
O
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
N
N
248
S
C
N
249
N
C
N
250
N
O
N
251
N
C
N
252
N
C
N
253
N
S
N
254
N
C
N
255
N
O
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
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
N
N
268
R
C
N
269
N
C
N
270
N
S
N
271
N
C
N
272
N
O
N
273
N
O
N
274
N
O
N
275
N
O
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
N
N
285
S
C
N
286
N
C
N
287
N
O
N
288
N
C
Y
289
N
C
Y
290
N
C
Y
291
N
C
Y
292
N
C
Y
293
N
C
Y
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
N
N
308
S
C
N
309
N
C
N
310
N
O
N
311
N
C
N
312
N
C
N
313
N
C
N
314
N
O
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
H
N
324
R
C
N
325
N
O
N
326
R
C
N
327
N
O
N
328
S
C
N
329
N
O
N
330
S
C
N
331
N
O
N
332
N
C
N
333
N
N
N
334
S
C
N
335
N
C
N
336
N
C
N
337
N
S
N
338
N
C
N
339
N
O
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
H
N
357
N
H
N
358
N
N
N
359
S
C
N
360
N
C
N
361
N
O
N
362
N
C
N
363
N
O
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
S
N
373
N
O
N
374
N
O
N
375
N
O
N
376
N
O
N
377
N
N
N
378
S
C
N
379
N
C
N
380
N
O
N
381
R
C
N
382
N
O
N
383
N
C
N
384
N
O
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
N
N
395
S
C
N
396
N
C
N
397
N
O
N
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
N
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
C
Y
407
N
C
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
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
N
C
Y
426
N
C
Y
427
N
C
Y
428
N
C
Y
429
N
C
Y
430
N
C
Y
431
N
C
N
432
N
O
N
433
N
O
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
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
N
N
446
S
C
N
447
N
C
N
448
N
O
N
449
N
C
N
450
N
C
N
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
ZN
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
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
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
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
N
106
N
sing
N
107
N
sing
N
108
N
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
doub
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
doub
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
doub
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
doub
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
Y
156
N
sing
Y
157
N
doub
Y
158
N
doub
N
159
N
sing
Y
160
N
sing
N
161
N
sing
Y
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
doub
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
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
doub
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
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
doub
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
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
sing
N
239
N
sing
N
240
N
doub
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
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
doub
N
263
N
sing
N
264
N
doub
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
Y
280
N
doub
Y
281
N
sing
Y
282
N
sing
N
283
N
sing
Y
284
N
doub
N
285
N
sing
Y
286
N
doub
N
287
N
sing
Y
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
doub
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
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
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
doub
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
doub
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
doub
N
357
N
doub
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
doub
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
Y
387
N
doub
Y
388
N
sing
Y
389
N
sing
N
390
N
sing
Y
391
N
doub
Y
392
N
sing
Y
393
N
sing
N
394
N
sing
Y
395
N
sing
Y
396
N
doub
N
397
N
sing
Y
398
N
doub
N
399
N
sing
Y
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
doub
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
Y
415
N
doub
Y
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
419
N
doub
N
420
N
sing
Y
421
N
doub
N
422
N
sing
Y
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
doub
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
313
111
122
10.1006/jmbi.2001.5027
11601850
The 1.2 A structure of a novel quorum-sensing protein, Bacillus subtilis LuxS
2001
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
57
1324
1325
10.1107/S0907444901011611
Cloning, purification, crystallization and preliminary crystallographic analysis of Bacillus subtilis LuxS.
2001
10.2210/pdb1jvi/pdb
pdb_00001jvi
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
IMAGE PLATE
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
17790.219
Autoinducer-2 production protein luxS
P96T
1
man
polymer
65.409
ZINC ION
1
syn
non-polymer
96.063
SULFATE ION
1
syn
non-polymer
267.299
(2S)-2-amino-4-[[(2S,3S,4R,5R)-3,4,5-trihydroxyoxolan-2-yl]methylsulfanyl]butanoic acid
1
syn
non-polymer
135.185
2-AMINO-4-MERCAPTO-BUTYRIC ACID
1
syn
non-polymer
18.015
water
81
nat
water
AI-2 synthesis protein
no
yes
MPSVESFELDHNAVVAPYVRHCGVHKVGTDGVVNKFDIRFCQPNKQAMKPDTIHTLEHLLAFTIRSHAEKYDHFDIIDIS
PMG(OCS)QTGYYLVVSGETTSAEIVDLLEDTMKEAVEITEIPAANEKQCGQAKLHDLEGAKRLMRFWLSQDKEELLKVF
G
MPSVESFELDHNAVVAPYVRHCGVHKVGTDGVVNKFDIRFCQPNKQAMKPDTIHTLEHLLAFTIRSHAEKYDHFDIIDIS
PMGCQTGYYLVVSGETTSAEIVDLLEDTMKEAVEITEIPAANEKQCGQAKLHDLEGAKRLMRFWLSQDKEELLKVFG
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
Bacillus
Escherichia
sample
LUXS
1423
Bacillus subtilis
562
Escherichia coli
TUNER (DE3) PLACI
PLASMID
PSKD1
1
2.55
45.3
VAPOR DIFFUSION, HANGING DROP
1.8 - 2.4M AMMONIUM SULPHATE, 0.1M TRIS-HCL, VAPOR DIFFUSION, HANGING DROP, temperature 290K
290
atom_site
chem_comp
entity
pdbx_entity_nonpoly
struct_conn
struct_ref_seq_dif
struct_site
struct_site_gen
chem_comp
database_2
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
chem_comp_atom
chem_comp_bond
chem_comp
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Derived calculations
Version format compliance
Atomic model
Database references
Derived calculations
Structure summary
Database references
Structure summary
Data collection
Refinement description
Data collection
Structure summary
1
0
2001-10-24
1
1
2008-04-01
1
2
2011-07-13
2
0
2020-07-29
2
1
2021-10-27
2
2
2023-08-16
2
3
2023-11-15
2
4
2024-04-03
_atom_site.auth_atom_id
_atom_site.label_atom_id
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_chem_comp_atom.atom_id
_chem_comp_bond.atom_id_2
_chem_comp.pdbx_synonyms
The 1.2 Angstrom Structure Of Bacillus Subtilis Luxs
THE 2.3 ANGSTROM RESOLUTION STRUCTURE OF BACILLUS SUBTILIS LUXS/HOMOCYSTEINE COMPLEX
RCSB
Y
RCSB
2001-08-30
REL
ZN
ZINC ION
SO4
SULFATE ION
RHC
(2S)-2-amino-4-[[(2S,3S,4R,5R)-3,4,5-trihydroxyoxolan-2-yl]methylsulfanyl]butanoic acid
HCS
2-AMINO-4-MERCAPTO-BUTYRIC ACID
HOH
water
1J98
PDB ENTRY 1J98
PDB
experimental model
ZN
300
2
ZN
ZN
300
A
SO4
501
3
SO4
SO4
501
A
RHC
401
4
RHC
RHC
401
A
HCS
402
5
HCS
HCS
402
A
HOH
1
6
HOH
HOH
502
A
HOH
2
6
HOH
HOH
503
A
HOH
3
6
HOH
HOH
504
A
HOH
4
6
HOH
HOH
505
A
HOH
5
6
HOH
HOH
506
A
HOH
6
6
HOH
HOH
507
A
HOH
7
6
HOH
HOH
508
A
HOH
8
6
HOH
HOH
509
A
HOH
9
6
HOH
HOH
510
A
HOH
10
6
HOH
HOH
511
A
HOH
11
6
HOH
HOH
512
A
HOH
12
6
HOH
HOH
513
A
HOH
13
6
HOH
HOH
514
A
HOH
14
6
HOH
HOH
515
A
HOH
15
6
HOH
HOH
516
A
HOH
16
6
HOH
HOH
517
A
HOH
17
6
HOH
HOH
518
A
HOH
18
6
HOH
HOH
519
A
HOH
19
6
HOH
HOH
520
A
HOH
20
6
HOH
HOH
521
A
HOH
21
6
HOH
HOH
522
A
HOH
22
6
HOH
HOH
523
A
HOH
23
6
HOH
HOH
524
A
HOH
24
6
HOH
HOH
525
A
HOH
25
6
HOH
HOH
526
A
HOH
26
6
HOH
HOH
527
A
HOH
27
6
HOH
HOH
528
A
HOH
28
6
HOH
HOH
529
A
HOH
29
6
HOH
HOH
530
A
HOH
30
6
HOH
HOH
531
A
HOH
31
6
HOH
HOH
532
A
HOH
32
6
HOH
HOH
533
A
HOH
33
6
HOH
HOH
534
A
HOH
34
6
HOH
HOH
535
A
HOH
35
6
HOH
HOH
536
A
HOH
36
6
HOH
HOH
537
A
HOH
37
6
HOH
HOH
538
A
HOH
38
6
HOH
HOH
539
A
HOH
39
6
HOH
HOH
540
A
HOH
40
6
HOH
HOH
541
A
HOH
41
6
HOH
HOH
542
A
HOH
42
6
HOH
HOH
543
A
HOH
43
6
HOH
HOH
544
A
HOH
44
6
HOH
HOH
545
A
HOH
45
6
HOH
HOH
546
A
HOH
46
6
HOH
HOH
547
A
HOH
47
6
HOH
HOH
548
A
HOH
48
6
HOH
HOH
549
A
HOH
49
6
HOH
HOH
550
A
HOH
50
6
HOH
HOH
551
A
HOH
51
6
HOH
HOH
552
A
HOH
52
6
HOH
HOH
553
A
HOH
53
6
HOH
HOH
554
A
HOH
54
6
HOH
HOH
555
A
HOH
55
6
HOH
HOH
556
A
HOH
56
6
HOH
HOH
557
A
HOH
57
6
HOH
HOH
558
A
HOH
58
6
HOH
HOH
559
A
HOH
59
6
HOH
HOH
560
A
HOH
60
6
HOH
HOH
561
A
HOH
61
6
HOH
HOH
562
A
HOH
62
6
HOH
HOH
563
A
HOH
63
6
HOH
HOH
564
A
HOH
64
6
HOH
HOH
565
A
HOH
65
6
HOH
HOH
566
A
HOH
66
6
HOH
HOH
567
A
HOH
67
6
HOH
HOH
568
A
HOH
68
6
HOH
HOH
569
A
HOH
69
6
HOH
HOH
570
A
HOH
70
6
HOH
HOH
571
A
HOH
71
6
HOH
HOH
572
A
HOH
72
6
HOH
HOH
573
A
HOH
73
6
HOH
HOH
574
A
HOH
74
6
HOH
HOH
575
A
HOH
75
6
HOH
HOH
576
A
HOH
76
6
HOH
HOH
577
A
HOH
77
6
HOH
HOH
578
A
HOH
78
6
HOH
HOH
579
A
HOH
79
6
HOH
HOH
580
A
HOH
80
6
HOH
HOH
581
A
HOH
81
6
HOH
HOH
582
A
n
1
1
A
n
2
2
A
n
3
3
A
VAL
4
n
4
VAL
4
A
GLU
5
n
5
GLU
5
A
SER
6
n
6
SER
6
A
PHE
7
n
7
PHE
7
A
GLU
8
n
8
GLU
8
A
LEU
9
n
9
LEU
9
A
ASP
10
n
10
ASP
10
A
HIS
11
n
11
HIS
11
A
ASN
12
n
12
ASN
12
A
ALA
13
n
13
ALA
13
A
VAL
14
n
14
VAL
14
A
VAL
15
n
15
VAL
15
A
ALA
16
n
16
ALA
16
A
PRO
17
n
17
PRO
17
A
TYR
18
n
18
TYR
18
A
VAL
19
n
19
VAL
19
A
ARG
20
n
20
ARG
20
A
HIS
21
n
21
HIS
21
A
CYS
22
n
22
CYS
22
A
GLY
23
n
23
GLY
23
A
VAL
24
n
24
VAL
24
A
HIS
25
n
25
HIS
25
A
LYS
26
n
26
LYS
26
A
VAL
27
n
27
VAL
27
A
GLY
28
n
28
GLY
28
A
THR
29
n
29
THR
29
A
ASP
30
n
30
ASP
30
A
GLY
31
n
31
GLY
31
A
VAL
32
n
32
VAL
32
A
VAL
33
n
33
VAL
33
A
ASN
34
n
34
ASN
34
A
LYS
35
n
35
LYS
35
A
PHE
36
n
36
PHE
36
A
ASP
37
n
37
ASP
37
A
ILE
38
n
38
ILE
38
A
ARG
39
n
39
ARG
39
A
PHE
40
n
40
PHE
40
A
CYS
41
n
41
CYS
41
A
GLN
42
n
42
GLN
42
A
PRO
43
n
43
PRO
43
A
ASN
44
n
44
ASN
44
A
LYS
45
n
45
LYS
45
A
GLN
46
n
46
GLN
46
A
ALA
47
n
47
ALA
47
A
MET
48
n
48
MET
48
A
LYS
49
n
49
LYS
49
A
PRO
50
n
50
PRO
50
A
ASP
51
n
51
ASP
51
A
THR
52
n
52
THR
52
A
ILE
53
n
53
ILE
53
A
HIS
54
n
54
HIS
54
A
THR
55
n
55
THR
55
A
LEU
56
n
56
LEU
56
A
GLU
57
n
57
GLU
57
A
HIS
58
n
58
HIS
58
A
LEU
59
n
59
LEU
59
A
LEU
60
n
60
LEU
60
A
ALA
61
n
61
ALA
61
A
PHE
62
n
62
PHE
62
A
THR
63
n
63
THR
63
A
ILE
64
n
64
ILE
64
A
ARG
65
n
65
ARG
65
A
SER
66
n
66
SER
66
A
HIS
67
n
67
HIS
67
A
ALA
68
n
68
ALA
68
A
GLU
69
n
69
GLU
69
A
LYS
70
n
70
LYS
70
A
TYR
71
n
71
TYR
71
A
ASP
72
n
72
ASP
72
A
HIS
73
n
73
HIS
73
A
PHE
74
n
74
PHE
74
A
ASP
75
n
75
ASP
75
A
ILE
76
n
76
ILE
76
A
ILE
77
n
77
ILE
77
A
ASP
78
n
78
ASP
78
A
ILE
79
n
79
ILE
79
A
SER
80
n
80
SER
80
A
PRO
81
n
81
PRO
81
A
MET
82
n
82
MET
82
A
GLY
83
n
83
GLY
83
A
CYO
84
n
84
OCS
84
A
GLN
85
n
85
GLN
85
A
THR
86
n
86
THR
86
A
GLY
87
n
87
GLY
87
A
TYR
88
n
88
TYR
88
A
TYR
89
n
89
TYR
89
A
LEU
90
n
90
LEU
90
A
VAL
91
n
91
VAL
91
A
VAL
92
n
92
VAL
92
A
SER
93
n
93
SER
93
A
GLY
94
n
94
GLY
94
A
GLU
95
n
95
GLU
95
A
THR
96
n
96
THR
96
A
THR
97
n
97
THR
97
A
SER
98
n
98
SER
98
A
ALA
99
n
99
ALA
99
A
GLU
100
n
100
GLU
100
A
ILE
101
n
101
ILE
101
A
VAL
102
n
102
VAL
102
A
ASP
103
n
103
ASP
103
A
LEU
104
n
104
LEU
104
A
LEU
105
n
105
LEU
105
A
GLU
106
n
106
GLU
106
A
ASP
107
n
107
ASP
107
A
THR
108
n
108
THR
108
A
MET
109
n
109
MET
109
A
LYS
110
n
110
LYS
110
A
GLU
111
n
111
GLU
111
A
ALA
112
n
112
ALA
112
A
VAL
113
n
113
VAL
113
A
GLU
114
n
114
GLU
114
A
ILE
115
n
115
ILE
115
A
THR
116
n
116
THR
116
A
GLU
117
n
117
GLU
117
A
ILE
118
n
118
ILE
118
A
PRO
119
n
119
PRO
119
A
ALA
120
n
120
ALA
120
A
ALA
121
n
121
ALA
121
A
ASN
122
n
122
ASN
122
A
GLU
123
n
123
GLU
123
A
LYS
124
n
124
LYS
124
A
GLN
125
n
125
GLN
125
A
CYS
126
n
126
CYS
126
A
GLY
127
n
127
GLY
127
A
GLN
128
n
128
GLN
128
A
ALA
129
n
129
ALA
129
A
LYS
130
n
130
LYS
130
A
LEU
131
n
131
LEU
131
A
HIS
132
n
132
HIS
132
A
ASP
133
n
133
ASP
133
A
LEU
134
n
134
LEU
134
A
GLU
135
n
135
GLU
135
A
GLY
136
n
136
GLY
136
A
ALA
137
n
137
ALA
137
A
LYS
138
n
138
LYS
138
A
ARG
139
n
139
ARG
139
A
LEU
140
n
140
LEU
140
A
MET
141
n
141
MET
141
A
ARG
142
n
142
ARG
142
A
PHE
143
n
143
PHE
143
A
TRP
144
n
144
TRP
144
A
LEU
145
n
145
LEU
145
A
SER
146
n
146
SER
146
A
GLN
147
n
147
GLN
147
A
ASP
148
n
148
ASP
148
A
LYS
149
n
149
LYS
149
A
GLU
150
n
150
GLU
150
A
GLU
151
n
151
GLU
151
A
LEU
152
n
152
LEU
152
A
LEU
153
n
153
LEU
153
A
LYS
154
n
154
LYS
154
A
VAL
155
n
155
VAL
155
A
PHE
156
n
156
PHE
156
A
GLY
157
n
157
GLY
157
A
author_and_software_defined_assembly
PISA,PQS
2
dimeric
4440
-63
12250
A
HIS
54
A
NE2
HIS
54
1_555
A
ZN
300
B
ZN
ZN
1_555
A
HIS
58
A
NE2
HIS
58
1_555
96.7
A
HIS
54
A
NE2
HIS
54
1_555
A
ZN
300
B
ZN
ZN
1_555
A
CYS
126
A
SG
CYS
126
1_555
98.2
A
HIS
58
A
NE2
HIS
58
1_555
A
ZN
300
B
ZN
ZN
1_555
A
CYS
126
A
SG
CYS
126
1_555
109.9
A
OCS
84
CYSTEINESULFONIC ACID
A
OCS
84
CYS
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
0.5000000000
0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
12_564
x,x-y+1,-z-1/6
crystal symmetry operation
-31.0475000000
53.7758474480
-25.0085000000
A
N
GLY
23
A
N
GLY
23
A
O
LYS
35
A
O
LYS
35
A
N
ILE
38
A
N
ILE
38
A
O
TYR
88
A
O
TYR
88
A
O
VAL
91
A
O
VAL
91
A
N
ASP
78
A
N
ASP
78
1
A
MET
1
A
MET
1
1
Y
1
A
PRO
2
A
PRO
2
1
Y
1
A
SER
3
A
SER
3
1
Y
1
A
LYS
45
-133.00
-44.65
1
A
ASP
78
-171.25
147.62
1
A
GLN
128
-163.07
69.51
1
A
ASP
133
-167.52
86.26
37.37
0.2419000
0.1739000
2.2
10
491
8850
8359
96.4
RANDOM
1
Isotropic
THROUGHOUT
1.0
MOLECULAR REPLACEMENT
PDB ENTRY 1J98
Engh & Huber
0.35
0.23
5.0
0.37
0.28
2.2
10
81
1337
31
0
1225
0.0107
1.5121
23.20
0.955
5.66
8.90
6.55
10.83
0.3130000
0.2630000
2.34
74
1391
0.3210000
0.2380000
2.51
82
1425
0.3820000
0.2230000
2.76
73
1452
0.2470000
0.1770000
3.15
78
1481
0.1990000
0.1510000
3.93
86
1529
0.2120000
0.1420000
10.0
98
1572
36.49
2.2
20.0
1JVI
8944
8944
0
0
0.0620000
1
13.1
2.63
95.7
0.3600000
2.2
2.25
553
1
92.5
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
THE 2.2 ANGSTROM RESOLUTION STRUCTURE OF BACILLUS SUBTILIS LUXS/RIBOSILHOMOCYSTEINE COMPLEX
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
6
N
N
The second part of the biological assembly is generated by the two fold axis:
X, X-Y, 5/6-Z
A
VAL
4
A
VAL
4
HELX_P
A
LEU
9
A
LEU
9
5
1
6
A
LYS
49
A
LYS
49
HELX_P
A
GLU
69
A
GLU
69
1
2
21
A
THR
97
A
THR
97
HELX_P
A
VAL
113
A
VAL
113
1
3
17
A
ASP
133
A
ASP
133
HELX_P
A
SER
146
A
SER
146
1
4
14
A
ASP
148
A
ASP
148
HELX_P
A
LEU
153
A
LEU
153
1
5
6
covale
2.044
none
A
CYS
41
A
SG
CYS
41
1_555
A
HCS
402
E
SD
HCS
1_555
covale
1.334
both
A
GLY
83
A
C
GLY
83
1_555
A
OCS
84
A
N
OCS
84
1_555
covale
1.329
both
A
OCS
84
A
C
OCS
84
1_555
A
GLN
85
A
N
GLN
85
1_555
metalc
2.236
A
HIS
54
A
NE2
HIS
54
1_555
A
ZN
300
B
ZN
ZN
1_555
metalc
2.397
A
HIS
58
A
NE2
HIS
58
1_555
A
ZN
300
B
ZN
ZN
1_555
metalc
2.422
A
CYS
126
A
SG
CYS
126
1_555
A
ZN
300
B
ZN
ZN
1_555
SIGNALING PROTEIN
AUTOINDUCER SYNTHESIS, SIGNALING PROTEIN
A
ALA
16
A
ALA
16
1
A
PRO
17
A
PRO
17
-0.32
LUXS_BACSU
UNP
1
1
O34667
MPSVESFELDHNAVVAPYVRHCGVHKVGTDGVVNKFDIRFCQPNKQAMKPDTIHTLEHLLAFTIRSHAEKYDHFDIIDIS
PMGCQTGYYLVVSGEPTSAEIVDLLEDTMKEAVEITEIPAANEKQCGQAKLHDLEGAKRLMRFWLSQDKEELLKVFG
1
157
1JVI
1
157
O34667
A
1
1
157
1
CYS
modified residue
OCS
84
1JVI
A
O34667
UNP
84
84
1
PRO
engineered mutation
THR
96
1JVI
A
O34667
UNP
96
96
4
anti-parallel
anti-parallel
anti-parallel
A
TYR
18
A
TYR
18
A
VAL
27
A
VAL
27
A
GLY
31
A
GLY
31
A
ARG
39
A
ARG
39
A
GLY
87
A
GLY
87
A
GLY
94
A
GLY
94
A
PHE
74
A
PHE
74
A
PRO
81
A
PRO
81
179
P 65 2 2