0.010879
0.000000
0.000000
0.000000
0.010879
0.000000
0.000000
0.000000
0.005895
0.000000
0.000000
0.000000
Shumilin, I.A.
Cymborowski, M.
Joachimiak, A.
0000-0001-7075-7090
Minor, W.
Midwest Center for Structural Genomics (MCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.000
90.000
90.000
91.920
91.920
169.630
281605
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C10 H14 N5 O7 P
347.221
ADENOSINE MONOPHOSPHATE
non-polymer
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
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
Mg 2
24.305
MAGNESIUM ION
non-polymer
C21 H32 N7 O18 P3
763.436
BETA-6-HYDROXY-1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE
non-polymer
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
P
N
15
N
O
N
16
N
O
N
17
N
O
N
18
N
O
N
19
N
C
N
20
R
C
N
21
N
O
N
22
S
C
N
23
N
O
N
24
R
C
N
25
N
O
N
26
R
C
Y
27
N
N
Y
28
N
C
Y
29
N
N
Y
30
N
C
Y
31
N
C
N
32
N
N
Y
33
N
N
Y
34
N
C
Y
35
N
N
Y
36
N
C
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
H
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
N
50
N
H
N
51
N
N
N
52
S
C
N
53
N
C
N
54
N
O
N
55
N
C
N
56
N
C
N
57
N
C
N
58
N
N
N
59
N
C
N
60
N
N
N
61
N
N
N
62
N
O
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
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
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
N
N
79
S
C
N
80
N
C
N
81
N
O
N
82
N
C
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
O
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
N
N
96
S
C
N
97
N
C
N
98
N
O
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
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
H
N
111
N
N
N
112
R
C
N
113
N
C
N
114
N
O
N
115
N
C
N
116
N
S
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
N
N
126
S
C
N
127
N
C
N
128
N
O
N
129
N
C
N
130
N
C
N
131
N
C
N
132
N
O
N
133
N
N
N
134
N
O
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
H
N
145
N
N
N
146
S
C
N
147
N
C
N
148
N
O
N
149
N
C
N
150
N
C
N
151
N
C
N
152
N
O
N
153
N
O
N
154
N
O
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
N
N
165
N
C
N
166
N
C
N
167
N
O
N
168
N
O
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
N
N
175
S
C
N
176
N
C
N
177
N
O
N
178
N
C
Y
179
N
C
Y
180
N
N
Y
181
N
C
Y
182
N
C
Y
183
N
N
N
184
N
O
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
H
N
197
N
H
N
198
N
N
N
199
S
C
N
200
N
C
N
201
N
O
N
202
S
C
N
203
N
C
N
204
N
C
N
205
N
C
N
206
N
O
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
H
N
218
N
H
N
219
N
H
N
220
N
N
N
221
S
C
N
222
N
C
N
223
N
O
N
224
N
C
N
225
N
C
N
226
N
C
N
227
N
C
N
228
N
O
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
N
N
243
S
C
N
244
N
C
N
245
N
O
N
246
N
C
N
247
N
C
N
248
N
C
N
249
N
C
N
250
N
N
N
251
N
O
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
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
S
C
N
269
N
C
N
270
N
O
N
271
N
C
N
272
N
C
N
273
N
S
N
274
N
C
N
275
N
O
N
276
N
H
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
MG
N
288
N
P
N
289
N
O
N
290
N
O
N
291
N
O
N
292
N
P
N
293
N
P
N
294
R
C
N
295
R
C
N
296
N
N
Y
297
N
N
N
298
R
C
N
299
N
O
N
300
R
C
N
301
N
O
N
302
N
C
Y
303
N
C
N
304
R
C
N
305
N
O
N
306
S
C
N
307
N
O
N
308
N
C
Y
309
N
N
N
310
R
C
N
311
N
O
N
312
N
C
Y
313
N
C
N
314
N
O
N
315
R
C
Y
316
N
C
N
317
N
C
N
318
N
O
N
319
N
C
N
320
N
C
N
321
N
O
N
322
S
C
N
323
N
O
Y
324
N
C
N
325
N
N
Y
326
N
N
N
327
N
C
N
328
N
N
N
329
N
O
Y
330
N
C
Y
331
N
N
N
332
N
O
N
333
N
O
N
334
N
O
N
335
N
O
N
336
N
O
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
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
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
N
N
370
S
C
N
371
N
C
N
372
N
O
N
373
N
C
Y
374
N
C
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
378
N
C
Y
379
N
C
N
380
N
O
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
H
N
391
N
H
N
392
N
N
N
393
S
C
N
394
N
C
N
395
N
O
N
396
N
C
N
397
N
C
N
398
N
C
N
399
N
O
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
H
N
408
N
H
N
409
N
N
N
410
S
C
N
411
N
C
N
412
N
O
N
413
N
C
N
414
N
O
N
415
N
O
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
N
N
424
S
C
N
425
N
C
N
426
N
O
N
427
R
C
N
428
N
O
N
429
N
C
N
430
N
O
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
H
N
439
N
H
N
440
N
N
N
441
S
C
N
442
N
C
N
443
N
O
N
444
N
C
Y
445
N
C
Y
446
N
C
Y
447
N
C
Y
448
N
N
Y
449
N
C
Y
450
N
C
Y
451
N
C
Y
452
N
C
Y
453
N
C
N
454
N
O
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
H
N
466
N
H
N
467
N
N
N
468
S
C
N
469
N
C
N
470
N
O
N
471
N
C
Y
472
N
C
Y
473
N
C
Y
474
N
C
Y
475
N
C
Y
476
N
C
Y
477
N
C
N
478
N
O
N
479
N
O
N
480
N
H
N
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
H
N
486
N
H
N
487
N
H
N
488
N
H
N
489
N
H
N
490
N
H
N
491
N
N
N
492
S
C
N
493
N
C
N
494
N
O
N
495
N
C
N
496
N
C
N
497
N
C
N
498
N
O
N
499
N
H
N
500
N
H
N
501
N
H
N
502
N
H
N
503
N
H
N
504
N
H
N
505
N
H
N
506
N
H
N
507
N
H
N
508
N
H
N
509
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
doub
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
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
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
Y
37
N
sing
Y
38
N
sing
Y
39
N
doub
N
40
N
sing
Y
41
N
sing
Y
42
N
sing
Y
43
N
doub
N
44
N
sing
Y
45
N
doub
N
46
N
sing
N
47
N
sing
Y
48
N
sing
Y
49
N
doub
N
50
N
sing
Y
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
doub
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
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
doub
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
sing
N
98
N
sing
N
99
N
sing
N
100
N
doub
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
doub
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
doub
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
doub
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
doub
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
doub
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
doub
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
Y
179
N
sing
Y
180
N
doub
Y
181
N
doub
N
182
N
sing
Y
183
N
sing
N
184
N
sing
Y
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
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
doub
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
doub
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
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
sing
N
263
N
doub
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
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
doub
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
doub
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
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
Y
300
N
doub
Y
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
doub
N
310
N
sing
Y
311
N
doub
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
Y
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
Y
330
N
doub
Y
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
Y
335
N
sing
Y
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
Y
352
N
doub
N
353
N
sing
N
354
N
doub
N
355
N
sing
N
356
N
sing
Y
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
doub
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
Y
372
N
doub
Y
373
N
sing
Y
374
N
sing
N
375
N
sing
Y
376
N
doub
N
377
N
sing
Y
378
N
doub
N
379
N
sing
Y
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
Y
469
N
doub
Y
470
N
sing
Y
471
N
sing
N
472
N
sing
Y
473
N
doub
N
474
N
sing
Y
475
N
doub
N
476
N
sing
Y
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
N
486
N
sing
N
487
N
sing
N
488
N
doub
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
sing
N
499
N
sing
UK
Structure
STRUE6
2005
0969-2126
20
1715
1725
10.1016/j.str.2012.07.016
22940582
Identification of unknown protein function using metabolite cocktail screening.
2012
0000-0001-7075-7090
10.2210/pdb3rpz/pdb
pdb_00003rpz
100.0
1
MIRRORS
CCD
2009-10-16
ADSC QUANTUM 210r
1.00 degrees, 9.00 sec, detector distance 140.00 mm
scans
SI(111)
SINGLE WAVELENGTH
M
x-ray
1
0.97918
1.0
0.086
281605
19-BM
APS
0.97918
SYNCHROTRON
APS BEAMLINE 19-BM
30176.439
ADP/ATP-dependent NAD(P)H-hydrate dehydratase
4.2.1.93
1
man
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
347.221
ADENOSINE MONOPHOSPHATE
1
syn
non-polymer
763.436
BETA-6-HYDROXY-1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE
1
syn
non-polymer
18.015
water
252
nat
water
no
no
SNAMNVPFWTEEHVRATLPERDAESHKGTYGTALLLAGSDDMPGAALLAGLGAMRSGLGKLVIGTSENVIPLIVPVLPEA
TYWRDGWKKAADAQLEETYRAIAIGPGLPQTESVQQAVDHVLTADCPVILDAGALAKRTYPKREGPVILTPHPGEFFRMT
GVPVNELQKKRAEYAKEWAAQLQTVIVLKGNQTVIAFPDGDCWLNPTGNGALAKGGTGDTLTGMILGMLCCHEDPKHAVL
NAVYLHGACAELWTDEHSAHTLLAHELSDILPRVWKRFE
SNAMNVPFWTEEHVRATLPERDAESHKGTYGTALLLAGSDDMPGAALLAGLGAMRSGLGKLVIGTSENVIPLIVPVLPEA
TYWRDGWKKAADAQLEETYRAIAIGPGLPQTESVQQAVDHVLTADCPVILDAGALAKRTYPKREGPVILTPHPGEFFRMT
GVPVNELQKKRAEYAKEWAAQLQTVIVLKGNQTVIAFPDGDCWLNPTGNGALAKGGTGDTLTGMILGMLCCHEDPKHAVL
NAVYLHGACAELWTDEHSAHTLLAHELSDILPRVWKRFE
A
APC102301
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
BSU38720, yxkO
1423
Bacillus subtilis
511693
Escherichia coli
BL21-CodonPlus (DE3)-RIPL
PLASMID
pMCSG19
1
2.97
58.56
VAPOR DIFFUSION, HANGING DROP
7.5
0.005 M ATP, 0.18 M Magnesium Cloride, 13.5%(v/v) PEG 400, 10%(v/v) Glycerol, 0.09 M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
Midwest Center for Structural Genomics
MCSG
PSI:Biology
audit_author
citation_author
database_2
pdbx_struct_conn_angle
pdbx_struct_special_symmetry
struct_conn
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Structure summary
Database references
Database references
Derived calculations
Structure summary
Data collection
Refinement description
1
0
2011-07-27
1
1
2011-09-21
1
2
2013-01-09
1
3
2022-04-13
1
4
2023-09-13
_audit_author.identifier_ORCID
_citation_author.identifier_ORCID
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr2_auth_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Apo-protein
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis co-crystallized with ATP/Mg2+ and soaked with CoA
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis soaked with ADP-ribose
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis soaked with P1,P5-Di(adenosine-5') pentaphosphate
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis in complex with P1,P6-Di(adenosine-5') hexaphosphate
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis in complex with P1,P3-Di(adenosine-5') triphosphate
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis in complex with P1,P4-Di(adenosine-5') tetraphosphate
Y
RCSB
Y
RCSB
2011-04-27
REL
REL
MG
MAGNESIUM ION
AMP
ADENOSINE MONOPHOSPHATE
NPW
BETA-6-HYDROXY-1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE
HOH
water
1KYH
PDB ENTRY 1KYH
PDB
experimental model
MG
1
2
MG
MG
277
A
AMP
2
3
AMP
AMP
278
A
NPW
3
4
NPW
NPW
279
A
HOH
1
5
HOH
HOH
280
A
HOH
2
5
HOH
HOH
281
A
HOH
3
5
HOH
HOH
282
A
HOH
4
5
HOH
HOH
283
A
HOH
5
5
HOH
HOH
284
A
HOH
6
5
HOH
HOH
285
A
HOH
7
5
HOH
HOH
286
A
HOH
8
5
HOH
HOH
287
A
HOH
9
5
HOH
HOH
288
A
HOH
10
5
HOH
HOH
289
A
HOH
11
5
HOH
HOH
290
A
HOH
12
5
HOH
HOH
291
A
HOH
13
5
HOH
HOH
292
A
HOH
14
5
HOH
HOH
293
A
HOH
15
5
HOH
HOH
294
A
HOH
16
5
HOH
HOH
295
A
HOH
17
5
HOH
HOH
296
A
HOH
18
5
HOH
HOH
297
A
HOH
19
5
HOH
HOH
298
A
HOH
20
5
HOH
HOH
299
A
HOH
21
5
HOH
HOH
300
A
HOH
22
5
HOH
HOH
301
A
HOH
23
5
HOH
HOH
302
A
HOH
24
5
HOH
HOH
303
A
HOH
25
5
HOH
HOH
304
A
HOH
26
5
HOH
HOH
305
A
HOH
27
5
HOH
HOH
306
A
HOH
28
5
HOH
HOH
307
A
HOH
29
5
HOH
HOH
308
A
HOH
30
5
HOH
HOH
309
A
HOH
31
5
HOH
HOH
310
A
HOH
32
5
HOH
HOH
311
A
HOH
33
5
HOH
HOH
312
A
HOH
34
5
HOH
HOH
313
A
HOH
35
5
HOH
HOH
314
A
HOH
36
5
HOH
HOH
315
A
HOH
37
5
HOH
HOH
316
A
HOH
38
5
HOH
HOH
317
A
HOH
39
5
HOH
HOH
318
A
HOH
40
5
HOH
HOH
319
A
HOH
41
5
HOH
HOH
320
A
HOH
42
5
HOH
HOH
321
A
HOH
43
5
HOH
HOH
322
A
HOH
44
5
HOH
HOH
323
A
HOH
45
5
HOH
HOH
324
A
HOH
46
5
HOH
HOH
325
A
HOH
47
5
HOH
HOH
326
A
HOH
48
5
HOH
HOH
327
A
HOH
49
5
HOH
HOH
328
A
HOH
50
5
HOH
HOH
329
A
HOH
51
5
HOH
HOH
330
A
HOH
52
5
HOH
HOH
331
A
HOH
53
5
HOH
HOH
332
A
HOH
54
5
HOH
HOH
333
A
HOH
55
5
HOH
HOH
334
A
HOH
56
5
HOH
HOH
335
A
HOH
57
5
HOH
HOH
336
A
HOH
58
5
HOH
HOH
337
A
HOH
59
5
HOH
HOH
338
A
HOH
60
5
HOH
HOH
339
A
HOH
61
5
HOH
HOH
340
A
HOH
62
5
HOH
HOH
341
A
HOH
63
5
HOH
HOH
342
A
HOH
64
5
HOH
HOH
343
A
HOH
65
5
HOH
HOH
344
A
HOH
66
5
HOH
HOH
345
A
HOH
67
5
HOH
HOH
346
A
HOH
68
5
HOH
HOH
347
A
HOH
69
5
HOH
HOH
348
A
HOH
70
5
HOH
HOH
349
A
HOH
71
5
HOH
HOH
350
A
HOH
72
5
HOH
HOH
351
A
HOH
73
5
HOH
HOH
352
A
HOH
74
5
HOH
HOH
353
A
HOH
75
5
HOH
HOH
354
A
HOH
76
5
HOH
HOH
355
A
HOH
77
5
HOH
HOH
356
A
HOH
78
5
HOH
HOH
357
A
HOH
79
5
HOH
HOH
358
A
HOH
80
5
HOH
HOH
359
A
HOH
81
5
HOH
HOH
360
A
HOH
82
5
HOH
HOH
361
A
HOH
83
5
HOH
HOH
362
A
HOH
84
5
HOH
HOH
363
A
HOH
85
5
HOH
HOH
364
A
HOH
86
5
HOH
HOH
365
A
HOH
87
5
HOH
HOH
366
A
HOH
88
5
HOH
HOH
367
A
HOH
89
5
HOH
HOH
368
A
HOH
90
5
HOH
HOH
369
A
HOH
91
5
HOH
HOH
370
A
HOH
92
5
HOH
HOH
371
A
HOH
93
5
HOH
HOH
372
A
HOH
94
5
HOH
HOH
373
A
HOH
95
5
HOH
HOH
374
A
HOH
96
5
HOH
HOH
375
A
HOH
97
5
HOH
HOH
376
A
HOH
98
5
HOH
HOH
377
A
HOH
99
5
HOH
HOH
378
A
HOH
100
5
HOH
HOH
379
A
HOH
101
5
HOH
HOH
380
A
HOH
102
5
HOH
HOH
381
A
HOH
103
5
HOH
HOH
382
A
HOH
104
5
HOH
HOH
383
A
HOH
105
5
HOH
HOH
384
A
HOH
106
5
HOH
HOH
385
A
HOH
107
5
HOH
HOH
386
A
HOH
108
5
HOH
HOH
387
A
HOH
109
5
HOH
HOH
388
A
HOH
110
5
HOH
HOH
389
A
HOH
111
5
HOH
HOH
390
A
HOH
112
5
HOH
HOH
391
A
HOH
113
5
HOH
HOH
392
A
HOH
114
5
HOH
HOH
393
A
HOH
115
5
HOH
HOH
394
A
HOH
116
5
HOH
HOH
395
A
HOH
117
5
HOH
HOH
396
A
HOH
118
5
HOH
HOH
397
A
HOH
119
5
HOH
HOH
398
A
HOH
120
5
HOH
HOH
399
A
HOH
121
5
HOH
HOH
400
A
HOH
122
5
HOH
HOH
401
A
HOH
123
5
HOH
HOH
402
A
HOH
124
5
HOH
HOH
403
A
HOH
125
5
HOH
HOH
404
A
HOH
126
5
HOH
HOH
405
A
HOH
127
5
HOH
HOH
406
A
HOH
128
5
HOH
HOH
407
A
HOH
129
5
HOH
HOH
408
A
HOH
130
5
HOH
HOH
409
A
HOH
131
5
HOH
HOH
410
A
HOH
132
5
HOH
HOH
411
A
HOH
133
5
HOH
HOH
412
A
HOH
134
5
HOH
HOH
413
A
HOH
135
5
HOH
HOH
414
A
HOH
136
5
HOH
HOH
415
A
HOH
137
5
HOH
HOH
416
A
HOH
138
5
HOH
HOH
417
A
HOH
139
5
HOH
HOH
418
A
HOH
140
5
HOH
HOH
419
A
HOH
141
5
HOH
HOH
420
A
HOH
142
5
HOH
HOH
421
A
HOH
143
5
HOH
HOH
422
A
HOH
144
5
HOH
HOH
423
A
HOH
145
5
HOH
HOH
424
A
HOH
146
5
HOH
HOH
425
A
HOH
147
5
HOH
HOH
426
A
HOH
148
5
HOH
HOH
427
A
HOH
149
5
HOH
HOH
428
A
HOH
150
5
HOH
HOH
429
A
HOH
151
5
HOH
HOH
430
A
HOH
152
5
HOH
HOH
431
A
HOH
153
5
HOH
HOH
432
A
HOH
154
5
HOH
HOH
433
A
HOH
155
5
HOH
HOH
434
A
HOH
156
5
HOH
HOH
435
A
HOH
157
5
HOH
HOH
436
A
HOH
158
5
HOH
HOH
437
A
HOH
159
5
HOH
HOH
438
A
HOH
160
5
HOH
HOH
439
A
HOH
161
5
HOH
HOH
440
A
HOH
162
5
HOH
HOH
441
A
HOH
163
5
HOH
HOH
442
A
HOH
164
5
HOH
HOH
443
A
HOH
165
5
HOH
HOH
444
A
HOH
166
5
HOH
HOH
445
A
HOH
167
5
HOH
HOH
446
A
HOH
168
5
HOH
HOH
447
A
HOH
169
5
HOH
HOH
448
A
HOH
170
5
HOH
HOH
449
A
HOH
171
5
HOH
HOH
450
A
HOH
172
5
HOH
HOH
451
A
HOH
173
5
HOH
HOH
452
A
HOH
174
5
HOH
HOH
453
A
HOH
175
5
HOH
HOH
454
A
HOH
176
5
HOH
HOH
455
A
HOH
177
5
HOH
HOH
456
A
HOH
178
5
HOH
HOH
457
A
HOH
179
5
HOH
HOH
458
A
HOH
180
5
HOH
HOH
459
A
HOH
181
5
HOH
HOH
460
A
HOH
182
5
HOH
HOH
461
A
HOH
183
5
HOH
HOH
462
A
HOH
184
5
HOH
HOH
463
A
HOH
185
5
HOH
HOH
464
A
HOH
186
5
HOH
HOH
465
A
HOH
187
5
HOH
HOH
466
A
HOH
188
5
HOH
HOH
467
A
HOH
189
5
HOH
HOH
468
A
HOH
190
5
HOH
HOH
469
A
HOH
191
5
HOH
HOH
470
A
HOH
192
5
HOH
HOH
471
A
HOH
193
5
HOH
HOH
472
A
HOH
194
5
HOH
HOH
473
A
HOH
195
5
HOH
HOH
474
A
HOH
196
5
HOH
HOH
475
A
HOH
197
5
HOH
HOH
476
A
HOH
198
5
HOH
HOH
477
A
HOH
199
5
HOH
HOH
478
A
HOH
200
5
HOH
HOH
479
A
HOH
201
5
HOH
HOH
480
A
HOH
202
5
HOH
HOH
481
A
HOH
203
5
HOH
HOH
482
A
HOH
204
5
HOH
HOH
483
A
HOH
205
5
HOH
HOH
484
A
HOH
206
5
HOH
HOH
485
A
HOH
207
5
HOH
HOH
486
A
HOH
208
5
HOH
HOH
487
A
HOH
209
5
HOH
HOH
488
A
HOH
210
5
HOH
HOH
489
A
HOH
211
5
HOH
HOH
490
A
HOH
212
5
HOH
HOH
491
A
HOH
213
5
HOH
HOH
492
A
HOH
214
5
HOH
HOH
493
A
HOH
215
5
HOH
HOH
494
A
HOH
216
5
HOH
HOH
495
A
HOH
217
5
HOH
HOH
496
A
HOH
218
5
HOH
HOH
497
A
HOH
219
5
HOH
HOH
498
A
HOH
220
5
HOH
HOH
499
A
HOH
221
5
HOH
HOH
500
A
HOH
222
5
HOH
HOH
501
A
HOH
223
5
HOH
HOH
502
A
HOH
224
5
HOH
HOH
503
A
HOH
225
5
HOH
HOH
504
A
HOH
226
5
HOH
HOH
505
A
HOH
227
5
HOH
HOH
506
A
HOH
228
5
HOH
HOH
507
A
HOH
229
5
HOH
HOH
508
A
HOH
230
5
HOH
HOH
509
A
HOH
231
5
HOH
HOH
510
A
HOH
232
5
HOH
HOH
511
A
HOH
233
5
HOH
HOH
512
A
HOH
234
5
HOH
HOH
513
A
HOH
235
5
HOH
HOH
514
A
HOH
236
5
HOH
HOH
515
A
HOH
237
5
HOH
HOH
516
A
HOH
238
5
HOH
HOH
517
A
HOH
239
5
HOH
HOH
518
A
HOH
240
5
HOH
HOH
519
A
HOH
241
5
HOH
HOH
520
A
HOH
242
5
HOH
HOH
521
A
HOH
243
5
HOH
HOH
522
A
HOH
244
5
HOH
HOH
523
A
HOH
245
5
HOH
HOH
524
A
HOH
246
5
HOH
HOH
525
A
HOH
247
5
HOH
HOH
526
A
HOH
248
5
HOH
HOH
527
A
HOH
249
5
HOH
HOH
528
A
HOH
250
5
HOH
HOH
529
A
HOH
251
5
HOH
HOH
530
A
HOH
252
5
HOH
HOH
531
A
n
1
-2
A
n
2
-1
A
ALA
0
n
3
ALA
0
A
MET
1
n
4
MET
1
A
ASN
2
n
5
ASN
2
A
VAL
3
n
6
VAL
3
A
PRO
4
n
7
PRO
4
A
PHE
5
n
8
PHE
5
A
TRP
6
n
9
TRP
6
A
THR
7
n
10
THR
7
A
GLU
8
n
11
GLU
8
A
GLU
9
n
12
GLU
9
A
HIS
10
n
13
HIS
10
A
VAL
11
n
14
VAL
11
A
ARG
12
n
15
ARG
12
A
ALA
13
n
16
ALA
13
A
THR
14
n
17
THR
14
A
LEU
15
n
18
LEU
15
A
PRO
16
n
19
PRO
16
A
GLU
17
n
20
GLU
17
A
ARG
18
n
21
ARG
18
A
ASP
19
n
22
ASP
19
A
ALA
20
n
23
ALA
20
A
GLU
21
n
24
GLU
21
A
SER
22
n
25
SER
22
A
HIS
23
n
26
HIS
23
A
LYS
24
n
27
LYS
24
A
GLY
25
n
28
GLY
25
A
THR
26
n
29
THR
26
A
TYR
27
n
30
TYR
27
A
GLY
28
n
31
GLY
28
A
THR
29
n
32
THR
29
A
ALA
30
n
33
ALA
30
A
LEU
31
n
34
LEU
31
A
LEU
32
n
35
LEU
32
A
LEU
33
n
36
LEU
33
A
ALA
34
n
37
ALA
34
A
GLY
35
n
38
GLY
35
A
SER
36
n
39
SER
36
A
ASP
37
n
40
ASP
37
A
ASP
38
n
41
ASP
38
A
MET
39
n
42
MET
39
A
PRO
40
n
43
PRO
40
A
GLY
41
n
44
GLY
41
A
ALA
42
n
45
ALA
42
A
ALA
43
n
46
ALA
43
A
LEU
44
n
47
LEU
44
A
LEU
45
n
48
LEU
45
A
ALA
46
n
49
ALA
46
A
GLY
47
n
50
GLY
47
A
LEU
48
n
51
LEU
48
A
GLY
49
n
52
GLY
49
A
ALA
50
n
53
ALA
50
A
MET
51
n
54
MET
51
A
ARG
52
n
55
ARG
52
A
SER
53
n
56
SER
53
A
GLY
54
n
57
GLY
54
A
LEU
55
n
58
LEU
55
A
GLY
56
n
59
GLY
56
A
LYS
57
n
60
LYS
57
A
LEU
58
n
61
LEU
58
A
VAL
59
n
62
VAL
59
A
ILE
60
n
63
ILE
60
A
GLY
61
n
64
GLY
61
A
THR
62
n
65
THR
62
A
SER
63
n
66
SER
63
A
GLU
64
n
67
GLU
64
A
ASN
65
n
68
ASN
65
A
VAL
66
n
69
VAL
66
A
ILE
67
n
70
ILE
67
A
PRO
68
n
71
PRO
68
A
LEU
69
n
72
LEU
69
A
ILE
70
n
73
ILE
70
A
VAL
71
n
74
VAL
71
A
PRO
72
n
75
PRO
72
A
VAL
73
n
76
VAL
73
A
LEU
74
n
77
LEU
74
A
PRO
75
n
78
PRO
75
A
GLU
76
n
79
GLU
76
A
ALA
77
n
80
ALA
77
A
THR
78
n
81
THR
78
A
TYR
79
n
82
TYR
79
A
TRP
80
n
83
TRP
80
A
ARG
81
n
84
ARG
81
A
ASP
82
n
85
ASP
82
A
GLY
83
n
86
GLY
83
A
TRP
84
n
87
TRP
84
A
LYS
85
n
88
LYS
85
A
LYS
86
n
89
LYS
86
A
ALA
87
n
90
ALA
87
A
ALA
88
n
91
ALA
88
A
ASP
89
n
92
ASP
89
A
ALA
90
n
93
ALA
90
A
GLN
91
n
94
GLN
91
A
LEU
92
n
95
LEU
92
A
GLU
93
n
96
GLU
93
A
GLU
94
n
97
GLU
94
A
THR
95
n
98
THR
95
A
TYR
96
n
99
TYR
96
A
ARG
97
n
100
ARG
97
A
ALA
98
n
101
ALA
98
A
ILE
99
n
102
ILE
99
A
ALA
100
n
103
ALA
100
A
ILE
101
n
104
ILE
101
A
GLY
102
n
105
GLY
102
A
PRO
103
n
106
PRO
103
A
GLY
104
n
107
GLY
104
A
LEU
105
n
108
LEU
105
A
PRO
106
n
109
PRO
106
A
GLN
107
n
110
GLN
107
A
THR
108
n
111
THR
108
A
GLU
109
n
112
GLU
109
A
SER
110
n
113
SER
110
A
VAL
111
n
114
VAL
111
A
GLN
112
n
115
GLN
112
A
GLN
113
n
116
GLN
113
A
ALA
114
n
117
ALA
114
A
VAL
115
n
118
VAL
115
A
ASP
116
n
119
ASP
116
A
HIS
117
n
120
HIS
117
A
VAL
118
n
121
VAL
118
A
LEU
119
n
122
LEU
119
A
THR
120
n
123
THR
120
A
ALA
121
n
124
ALA
121
A
ASP
122
n
125
ASP
122
A
CYS
123
n
126
CYS
123
A
PRO
124
n
127
PRO
124
A
VAL
125
n
128
VAL
125
A
ILE
126
n
129
ILE
126
A
LEU
127
n
130
LEU
127
A
ASP
128
n
131
ASP
128
A
ALA
129
n
132
ALA
129
A
GLY
130
n
133
GLY
130
A
ALA
131
n
134
ALA
131
A
LEU
132
n
135
LEU
132
A
ALA
133
n
136
ALA
133
A
LYS
134
n
137
LYS
134
A
ARG
135
n
138
ARG
135
A
THR
136
n
139
THR
136
A
TYR
137
n
140
TYR
137
A
PRO
138
n
141
PRO
138
A
LYS
139
n
142
LYS
139
A
ARG
140
n
143
ARG
140
A
GLU
141
n
144
GLU
141
A
GLY
142
n
145
GLY
142
A
PRO
143
n
146
PRO
143
A
VAL
144
n
147
VAL
144
A
ILE
145
n
148
ILE
145
A
LEU
146
n
149
LEU
146
A
THR
147
n
150
THR
147
A
PRO
148
n
151
PRO
148
A
HIS
149
n
152
HIS
149
A
PRO
150
n
153
PRO
150
A
GLY
151
n
154
GLY
151
A
GLU
152
n
155
GLU
152
A
PHE
153
n
156
PHE
153
A
PHE
154
n
157
PHE
154
A
ARG
155
n
158
ARG
155
A
MET
156
n
159
MET
156
A
THR
157
n
160
THR
157
A
GLY
158
n
161
GLY
158
A
VAL
159
n
162
VAL
159
A
PRO
160
n
163
PRO
160
A
VAL
161
n
164
VAL
161
A
ASN
162
n
165
ASN
162
A
GLU
163
n
166
GLU
163
A
LEU
164
n
167
LEU
164
A
GLN
165
n
168
GLN
165
A
LYS
166
n
169
LYS
166
A
LYS
167
n
170
LYS
167
A
ARG
168
n
171
ARG
168
A
ALA
169
n
172
ALA
169
A
GLU
170
n
173
GLU
170
A
TYR
171
n
174
TYR
171
A
ALA
172
n
175
ALA
172
A
LYS
173
n
176
LYS
173
A
GLU
174
n
177
GLU
174
A
TRP
175
n
178
TRP
175
A
ALA
176
n
179
ALA
176
A
ALA
177
n
180
ALA
177
A
GLN
178
n
181
GLN
178
A
LEU
179
n
182
LEU
179
A
GLN
180
n
183
GLN
180
A
THR
181
n
184
THR
181
A
VAL
182
n
185
VAL
182
A
ILE
183
n
186
ILE
183
A
VAL
184
n
187
VAL
184
A
LEU
185
n
188
LEU
185
A
LYS
186
n
189
LYS
186
A
GLY
187
n
190
GLY
187
A
ASN
188
n
191
ASN
188
A
GLN
189
n
192
GLN
189
A
THR
190
n
193
THR
190
A
VAL
191
n
194
VAL
191
A
ILE
192
n
195
ILE
192
A
ALA
193
n
196
ALA
193
A
PHE
194
n
197
PHE
194
A
PRO
195
n
198
PRO
195
A
ASP
196
n
199
ASP
196
A
GLY
197
n
200
GLY
197
A
ASP
198
n
201
ASP
198
A
CYS
199
n
202
CYS
199
A
TRP
200
n
203
TRP
200
A
LEU
201
n
204
LEU
201
A
ASN
202
n
205
ASN
202
A
PRO
203
n
206
PRO
203
A
THR
204
n
207
THR
204
A
GLY
205
n
208
GLY
205
A
ASN
206
n
209
ASN
206
A
GLY
207
n
210
GLY
207
A
ALA
208
n
211
ALA
208
A
LEU
209
n
212
LEU
209
A
ALA
210
n
213
ALA
210
A
LYS
211
n
214
LYS
211
A
GLY
212
n
215
GLY
212
A
GLY
213
n
216
GLY
213
A
THR
214
n
217
THR
214
A
GLY
215
n
218
GLY
215
A
ASP
216
n
219
ASP
216
A
THR
217
n
220
THR
217
A
LEU
218
n
221
LEU
218
A
THR
219
n
222
THR
219
A
GLY
220
n
223
GLY
220
A
MET
221
n
224
MET
221
A
ILE
222
n
225
ILE
222
A
LEU
223
n
226
LEU
223
A
GLY
224
n
227
GLY
224
A
MET
225
n
228
MET
225
A
LEU
226
n
229
LEU
226
A
CYS
227
n
230
CYS
227
A
CYS
228
n
231
CYS
228
A
HIS
229
n
232
HIS
229
A
GLU
230
n
233
GLU
230
A
ASP
231
n
234
ASP
231
A
PRO
232
n
235
PRO
232
A
LYS
233
n
236
LYS
233
A
HIS
234
n
237
HIS
234
A
ALA
235
n
238
ALA
235
A
VAL
236
n
239
VAL
236
A
LEU
237
n
240
LEU
237
A
ASN
238
n
241
ASN
238
A
ALA
239
n
242
ALA
239
A
VAL
240
n
243
VAL
240
A
TYR
241
n
244
TYR
241
A
LEU
242
n
245
LEU
242
A
HIS
243
n
246
HIS
243
A
GLY
244
n
247
GLY
244
A
ALA
245
n
248
ALA
245
A
CYS
246
n
249
CYS
246
A
ALA
247
n
250
ALA
247
A
GLU
248
n
251
GLU
248
A
LEU
249
n
252
LEU
249
A
TRP
250
n
253
TRP
250
A
THR
251
n
254
THR
251
A
ASP
252
n
255
ASP
252
A
GLU
253
n
256
GLU
253
A
HIS
254
n
257
HIS
254
A
SER
255
n
258
SER
255
A
ALA
256
n
259
ALA
256
A
HIS
257
n
260
HIS
257
A
THR
258
n
261
THR
258
A
LEU
259
n
262
LEU
259
A
LEU
260
n
263
LEU
260
A
ALA
261
n
264
ALA
261
A
HIS
262
n
265
HIS
262
A
GLU
263
n
266
GLU
263
A
LEU
264
n
267
LEU
264
A
SER
265
n
268
SER
265
A
ASP
266
n
269
ASP
266
A
ILE
267
n
270
ILE
267
A
LEU
268
n
271
LEU
268
A
PRO
269
n
272
PRO
269
A
ARG
270
n
273
ARG
270
A
VAL
271
n
274
VAL
271
A
TRP
272
n
275
TRP
272
A
LYS
273
n
276
LYS
273
A
ARG
274
n
277
ARG
274
A
PHE
275
n
278
PHE
275
A
GLU
276
n
279
GLU
276
A
0.4311
-0.0771
0.0549
0.6430
0.0316
0.3643
-0.0286
0.0157
-0.0967
-0.0005
-0.0206
0.0170
0.0713
-0.0110
0.0492
0.0505
-0.0029
0.0281
0.0185
-0.0095
0.0339
refined
-0.3080
-24.6490
-23.7270
X-RAY DIFFRACTION
A
0
A
276
X-RAY DIFFRACTION
1
author_and_software_defined_assembly
PISA
4
tetrameric
15710
-96
36510
A
AMP
278
C
O3P
AMP
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
297
E
O
HOH
1_555
112.1
A
AMP
278
C
O3P
AMP
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
303
E
O
HOH
1_555
93.5
A
HOH
297
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
303
E
O
HOH
1_555
91.7
A
AMP
278
C
O3P
AMP
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
306
E
O
HOH
1_555
123.7
A
HOH
297
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
306
E
O
HOH
1_555
124.1
A
HOH
303
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
306
E
O
HOH
1_555
87.7
A
AMP
278
C
O3P
AMP
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
322
E
O
HOH
1_555
88.2
A
HOH
297
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
322
E
O
HOH
1_555
88.8
A
HOH
303
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
322
E
O
HOH
1_555
177.9
A
HOH
306
E
O
HOH
1_555
A
MG
277
B
MG
MG
1_555
A
HOH
322
E
O
HOH
1_555
90.3
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_555
-x,-y,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_555
-y,x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_555
y,-x,z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
O
THR
78
A
O
THR
81
A
N
ILE
60
A
N
ILE
63
A
O
GLY
61
A
O
GLY
64
A
N
LEU
32
A
N
LEU
35
A
N
LEU
33
A
N
LEU
36
A
O
ALA
100
A
O
ALA
103
A
N
ILE
99
A
N
ILE
102
A
O
ILE
126
A
O
ILE
129
A
N
VAL
125
A
N
VAL
128
A
O
ILE
145
A
O
ILE
148
A
N
VAL
144
A
N
VAL
147
A
O
VAL
182
A
O
VAL
185
A
N
ILE
183
A
N
ILE
186
A
O
ALA
193
A
O
ALA
196
A
N
ILE
192
A
N
ILE
195
A
O
TRP
200
A
O
TRP
203
1
A
HOH
363
E
HOH
1
A
HOH
370
E
HOH
1
A
HOH
456
E
HOH
1
A
SER
-2
A
SER
1
1
Y
1
A
ASN
-1
A
ASN
2
1
Y
1
A
GLU
21
-103.91
65.25
1
A
ASP
122
-102.80
78.64
1
A
ALA
129
55.60
-121.57
1
A
LYS
167
-145.78
52.78
57.39
21.147
11.13
-0.380
0.000
0.000
-0.380
0.000
0.750
0.976
0.975
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS, refinement counts Friedel's pair. U VALUES RESIDUAL ONLY
0.148
0.134
0.135
1.510
50.000
2895
57159
5.100
99.960
1.00
0.25
1.246
0.025
RANDOM
1
THROUGHOUT
0.00
MOLECULAR REPLACEMENT
0.048
0.800
0.800
1.200
PDB ENTRY 1KYH
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.510
50.000
252
2432
73
0
2107
0.019
0.022
2285
0.000
0.020
1497
2.155
2.006
3142
4.240
3.000
3681
6.295
5.000
290
37.294
24.409
93
11.897
15.000
356
16.150
15.000
12
0.111
0.200
354
0.010
0.021
2526
0.011
0.020
429
1.043
1.500
1398
0.000
1.500
568
1.890
2.000
2250
2.948
3.000
887
4.713
4.500
885
0.157
0.144
1.549
221
3943
4164
20
99.860
17.3
1.51
50.00
3RPZ
57168
0
-3
0.086
0.086
1
25.913
7.6
100.0
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.5.0109
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.006
data collection
HKL-3000
data reduction
HKL-3000
data scaling
HKL-3000
phasing
HKL-3000
MOLREP
Crystal Structure of ADP/ATP-dependent NAD(P)H-hydrate dehydratase from Bacillus subtilis co-crystallized with ATP/Mg2+ and soaked with NADPH
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
A
THR
7
A
THR
10
HELX_P
A
LEU
15
A
LEU
18
1
1
9
A
HIS
23
A
HIS
26
HELX_P
A
TYR
27
A
TYR
30
5
2
5
A
PRO
40
A
PRO
43
HELX_P
A
ARG
52
A
ARG
55
1
3
13
A
VAL
66
A
VAL
69
HELX_P
A
VAL
71
A
VAL
74
1
4
6
A
ASP
82
A
ASP
85
HELX_P
A
ALA
87
A
ALA
90
1
5
6
A
THR
108
A
THR
111
HELX_P
A
LEU
119
A
LEU
122
1
6
12
A
ALA
129
A
ALA
132
HELX_P
A
LEU
132
A
LEU
135
5
7
4
A
HIS
149
A
HIS
152
HELX_P
A
GLY
158
A
GLY
161
1
8
10
A
PRO
160
A
PRO
163
HELX_P
A
GLN
165
A
GLN
168
1
9
6
A
LYS
167
A
LYS
170
HELX_P
A
GLN
180
A
GLN
183
1
10
14
A
ASN
206
A
ASN
209
HELX_P
A
ALA
210
A
ALA
213
5
11
5
A
GLY
213
A
GLY
216
HELX_P
A
HIS
229
A
HIS
232
1
12
17
A
ASP
231
A
ASP
234
HELX_P
A
HIS
254
A
HIS
257
1
13
24
A
LEU
260
A
LEU
263
HELX_P
A
PHE
275
A
PHE
278
1
14
16
metalc
1.972
A
MG
277
B
MG
MG
1_555
A
AMP
278
C
O3P
AMP
1_555
metalc
2.057
A
MG
277
B
MG
MG
1_555
A
HOH
297
E
O
HOH
1_555
metalc
2.025
A
MG
277
B
MG
MG
1_555
A
HOH
303
E
O
HOH
1_555
metalc
1.983
A
MG
277
B
MG
MG
1_555
A
HOH
306
E
O
HOH
1_555
metalc
2.045
A
MG
277
B
MG
MG
1_555
A
HOH
322
E
O
HOH
1_555
lyase/lyase substrate
STRUCTURAL GENOMICS, PSI-biology, PROTEIN STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, LYASE, lyase-lyase substrate complex
YXKO_BACSU
UNP
1
1
P94368
MNVPFWTEEHVRATLPERDAESHKGTYGTALLLAGSDDMPGAALLAGLGAMRSGLGKLVIGTSENVIPLIVPVLPEATYW
RDGWKKAADAQLEETYRAIAIGPGLPQTESVQQAVDHVLTADCPVILDAGALAKRTYPKREGPVILTPHPGEFFRMTGVP
VNELQKKRAEYAKEWAAQLQTVIVLKGNQTVIAFPDGDCWLNPTGNGALAKGGTGDTLTGMILGMLCCHEDPKHAVLNAV
YLHGACAELWTDEHSAHTLLAHELSDILPRVWKRFE
1
276
3RPZ
1
276
P94368
A
1
4
279
1
expression tag
SER
-2
3RPZ
A
P94368
UNP
1
1
expression tag
ASN
-1
3RPZ
A
P94368
UNP
2
1
expression tag
ALA
0
3RPZ
A
P94368
UNP
3
9
parallel
parallel
parallel
parallel
parallel
parallel
anti-parallel
anti-parallel
A
THR
78
A
THR
81
A
ARG
81
A
ARG
84
A
LYS
57
A
LYS
60
A
THR
62
A
THR
65
A
THR
29
A
THR
32
A
LEU
33
A
LEU
36
A
ALA
98
A
ALA
101
A
ILE
101
A
ILE
104
A
VAL
125
A
VAL
128
A
LEU
127
A
LEU
130
A
VAL
144
A
VAL
147
A
LEU
146
A
LEU
149
A
VAL
182
A
VAL
185
A
LEU
185
A
LEU
188
A
VAL
191
A
VAL
194
A
ALA
193
A
ALA
196
A
CYS
199
A
CYS
202
A
LEU
201
A
LEU
204
BINDING SITE FOR RESIDUE MG A 277
A
MG
277
Software
6
BINDING SITE FOR RESIDUE AMP A 278
A
AMP
278
Software
24
BINDING SITE FOR RESIDUE NPW A 279
A
NPW
279
Software
35
A
LYS
186
A
LYS
189
6
1_555
A
AMP
278
C
AMP
6
1_555
A
HOH
297
E
HOH
6
1_555
A
HOH
303
E
HOH
6
1_555
A
HOH
306
E
HOH
6
1_555
A
HOH
322
E
HOH
6
1_555
A
ALA
20
A
ALA
23
24
3_555
A
SER
22
A
SER
25
24
3_555
A
LYS
24
A
LYS
27
24
3_555
A
HIS
149
A
HIS
152
24
1_555
A
LYS
186
A
LYS
189
24
1_555
A
GLY
187
A
GLY
190
24
1_555
A
THR
190
A
THR
193
24
1_555
A
ASN
206
A
ASN
209
24
1_555
A
GLY
207
A
GLY
210
24
1_555
A
LEU
209
A
LEU
212
24
1_555
A
ALA
210
A
ALA
213
24
1_555
A
THR
214
A
THR
217
24
1_555
A
GLY
215
A
GLY
218
24
1_555
A
LEU
218
A
LEU
221
24
1_555
A
HIS
243
A
HIS
246
24
1_555
A
MG
277
B
MG
24
1_555
A
HOH
285
E
HOH
24
1_555
A
HOH
295
E
HOH
24
1_555
A
HOH
303
E
HOH
24
1_555
A
HOH
317
E
HOH
24
1_555
A
HOH
322
E
HOH
24
1_555
A
HOH
340
E
HOH
24
1_555
A
HOH
345
E
HOH
24
1_555
A
HOH
388
E
HOH
24
1_555
A
HIS
23
A
HIS
26
35
3_555
A
LYS
24
A
LYS
27
35
3_555
A
GLY
25
A
GLY
28
35
3_555
A
MET
39
A
MET
42
35
1_555
A
ALA
42
A
ALA
45
35
1_555
A
LYS
57
A
LYS
60
35
3_555
A
PRO
75
A
PRO
78
35
3_555
A
GLU
76
A
GLU
79
35
3_555
A
ALA
77
A
ALA
80
35
3_555
A
THR
78
A
THR
81
35
3_555
A
PRO
103
A
PRO
106
35
1_555
A
GLY
104
A
GLY
107
35
1_555
A
ALA
129
A
ALA
132
35
1_555
A
HIS
149
A
HIS
152
35
1_555
A
PRO
150
A
PRO
153
35
1_555
A
GLY
151
A
GLY
154
35
1_555
A
VAL
161
A
VAL
164
35
1_555
A
GLY
213
A
GLY
216
35
1_555
A
ASP
216
A
ASP
219
35
1_555
A
HOH
280
E
HOH
35
1_555
A
HOH
291
E
HOH
35
1_555
A
HOH
301
E
HOH
35
1_555
A
HOH
306
E
HOH
35
1_555
A
HOH
317
E
HOH
35
1_555
A
HOH
322
E
HOH
35
1_555
A
HOH
323
E
HOH
35
1_555
A
HOH
365
E
HOH
35
1_555
A
HOH
388
E
HOH
35
1_555
A
HOH
424
E
HOH
35
1_555
A
HOH
438
E
HOH
35
1_555
A
HOH
439
E
HOH
35
1_555
A
HOH
444
E
HOH
35
1_555
A
HOH
446
E
HOH
35
1_555
A
HOH
508
E
HOH
35
1_555
A
HOH
512
E
HOH
35
1_555
97
I 4 2 2