0.012768
0.007372
0.000000
0.000000
0.014743
0.000000
0.000000
0.000000
0.003949
0.00000
0.00000
0.00000
Mizutani, H.
Kunishima, N.
RIKEN Structural Genomics/Proteomics Initiative (RSGI)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
78.320
78.320
253.213
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
C2 H6 O2
62.068
1,2-ETHANEDIOL
ETHYLENE GLYCOL
non-polymer
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
C21 H27 N7 O14 P2
663.425
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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
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
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
C
N
75
N
O
N
76
N
C
N
77
N
O
N
78
N
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
N
N
85
S
C
N
86
N
C
N
87
N
O
N
88
N
C
N
89
N
C
N
90
N
C
N
91
N
O
N
92
N
N
N
93
N
O
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
N
N
105
S
C
N
106
N
C
N
107
N
O
N
108
N
C
N
109
N
C
N
110
N
C
N
111
N
O
N
112
N
O
N
113
N
O
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
N
N
124
N
C
N
125
N
C
N
126
N
O
N
127
N
O
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
N
N
134
S
C
N
135
N
C
N
136
N
O
N
137
N
C
Y
138
N
C
Y
139
N
N
Y
140
N
C
Y
141
N
C
Y
142
N
N
N
143
N
O
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
O
N
155
N
H
N
156
N
H
N
157
N
N
N
158
S
C
N
159
N
C
N
160
N
O
N
161
S
C
N
162
N
C
N
163
N
C
N
164
N
C
N
165
N
O
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
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
N
N
180
S
C
N
181
N
C
N
182
N
O
N
183
N
C
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
O
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
H
N
201
N
N
N
202
S
C
N
203
N
C
N
204
N
O
N
205
N
C
N
206
N
C
N
207
N
C
N
208
N
C
N
209
N
N
N
210
N
O
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
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
N
N
227
S
C
N
228
N
C
N
229
N
O
N
230
N
C
N
231
N
C
N
232
N
S
N
233
N
C
N
234
N
O
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
S
P
N
247
N
O
N
248
N
O
N
249
N
O
N
250
N
C
N
251
R
C
N
252
N
O
N
253
S
C
N
254
N
O
N
255
R
C
N
256
N
O
N
257
R
C
Y
258
N
N
Y
259
N
C
Y
260
N
N
Y
261
N
C
Y
262
N
C
N
263
N
N
Y
264
N
N
Y
265
N
C
Y
266
N
N
Y
267
N
C
N
268
N
O
N
269
N
P
N
270
N
O
N
271
N
O
N
272
N
O
N
273
N
C
N
274
R
C
N
275
N
O
N
276
S
C
N
277
N
O
N
278
R
C
N
279
N
O
N
280
R
C
Y
281
N
N
Y
282
N
C
Y
283
N
C
N
284
N
C
N
285
N
O
N
286
N
N
Y
287
N
C
Y
288
N
C
Y
289
N
C
N
290
N
H
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
H
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
N
N
318
S
C
N
319
N
C
N
320
N
O
N
321
N
C
Y
322
N
C
Y
323
N
C
Y
324
N
C
Y
325
N
C
Y
326
N
C
Y
327
N
C
N
328
N
O
N
329
N
H
N
330
N
H
N
331
N
H
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
N
N
341
S
C
N
342
N
C
N
343
N
O
N
344
N
C
N
345
N
C
N
346
N
C
N
347
N
O
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
N
N
358
S
C
N
359
N
C
N
360
N
O
N
361
N
C
N
362
N
O
N
363
N
O
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
H
N
371
N
S
N
372
N
O
N
373
N
O
N
374
N
O
N
375
N
O
N
376
N
N
N
377
S
C
N
378
N
C
N
379
N
O
N
380
R
C
N
381
N
O
N
382
N
C
N
383
N
O
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
H
N
393
N
N
N
394
S
C
N
395
N
C
N
396
N
O
N
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
N
Y
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
Y
406
N
C
N
407
N
O
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
N
N
421
S
C
N
422
N
C
N
423
N
O
N
424
N
C
Y
425
N
C
Y
426
N
C
Y
427
N
C
Y
428
N
C
Y
429
N
C
Y
430
N
C
N
431
N
O
N
432
N
O
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
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
N
N
445
S
C
N
446
N
C
N
447
N
O
N
448
N
C
N
449
N
C
N
450
N
C
N
451
N
O
N
452
N
H
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
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
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
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
doub
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
doub
N
105
N
sing
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
doub
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
doub
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
Y
136
N
sing
Y
137
N
doub
Y
138
N
doub
N
139
N
sing
Y
140
N
sing
N
141
N
sing
Y
142
N
sing
N
143
N
sing
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
sing
N
152
N
sing
N
153
N
sing
N
154
N
doub
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
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
doub
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
sing
N
196
N
doub
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
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
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
doub
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
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
Y
256
N
sing
Y
257
N
sing
Y
258
N
doub
N
259
N
sing
Y
260
N
sing
Y
261
N
sing
Y
262
N
doub
N
263
N
sing
Y
264
N
doub
N
265
N
sing
N
266
N
sing
Y
267
N
sing
Y
268
N
doub
N
269
N
sing
Y
270
N
sing
N
271
N
sing
N
272
N
doub
N
273
N
sing
N
274
N
sing
N
275
N
sing
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
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
Y
293
N
sing
Y
294
N
doub
Y
295
N
doub
N
296
N
sing
N
297
N
sing
Y
298
N
sing
N
299
N
doub
N
300
N
sing
N
301
N
sing
N
302
N
sing
Y
303
N
doub
N
304
N
sing
Y
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
doub
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
Y
319
N
doub
Y
320
N
sing
Y
321
N
sing
N
322
N
sing
Y
323
N
doub
N
324
N
sing
Y
325
N
doub
N
326
N
sing
Y
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
doub
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
doub
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
doub
N
362
N
doub
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
doub
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
Y
392
N
doub
Y
393
N
sing
Y
394
N
sing
N
395
N
sing
Y
396
N
doub
Y
397
N
sing
Y
398
N
sing
N
399
N
sing
Y
400
N
sing
Y
401
N
doub
N
402
N
sing
Y
403
N
doub
N
404
N
sing
Y
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
doub
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
Y
420
N
doub
Y
421
N
sing
Y
422
N
sing
N
423
N
sing
Y
424
N
doub
N
425
N
sing
Y
426
N
doub
N
427
N
sing
Y
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
sing
N
437
N
sing
N
438
N
sing
N
439
N
doub
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
To be Published
0353
Crystal structure of type 2 malate/lactate dehydrogenase from thermus thermophilus HB8
10.2210/pdb1vbi/pdb
pdb_00001vbi
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
mirrors
IMAGE PLATE
2004-02-03
RIGAKU RAXIS V
mirrors
MAD
M
x-ray
1
0.97900
1.0
0.97931
1.0
1.0000
1.0
BL26B1
SPring-8
0.97900, 0.97931, 1.0000
SYNCHROTRON
SPRING-8 BEAMLINE BL26B1
36997.316
Type 2 malate/lactate dehydrogenase
1.1.1.27
1
man
polymer
96.063
SULFATE ION
3
syn
non-polymer
663.425
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
1
syn
non-polymer
62.068
1,2-ETHANEDIOL
4
syn
non-polymer
18.015
water
342
nat
water
no
no
MRWRADFLSAWAEALLRKAGADEPSAKAVAWALVEADLRGVGSHGLLRLPVYVRRLEAGLVNPSPTLPLEERGPVALLDG
EHGFGPRVALKAVEAAQSLARRHGLGAVGVRRSTHFGMAGLYAEKLAREGFVAWVTTNAEPDVVPFGGREKALGTNPLAF
AAPAPQGILVADLATSESAMGKVFLAREKGERIPPSWGVDREGSPTDDPHRVYALRPLGGPKGYALALLVEVLSGVLTGA
GVAHGIGRMYDEWDRPQDVGHFLLALDPGRFVGKEAFLERMGALWQALKATPPAPGHEEVFLPGELEARRRERALAEGMA
LPERVVAELKALGERYGVPWRDDA
MRWRADFLSAWAEALLRKAGADEPSAKAVAWALVEADLRGVGSHGLLRLPVYVRRLEAGLVNPSPTLPLEERGPVALLDG
EHGFGPRVALKAVEAAQSLARRHGLGAVGVRRSTHFGMAGLYAEKLAREGFVAWVTTNAEPDVVPFGGREKALGTNPLAF
AAPAPQGILVADLATSESAMGKVFLAREKGERIPPSWGVDREGSPTDDPHRVYALRPLGGPKGYALALLVEVLSGVLTGA
GVAHGIGRMYDEWDRPQDVGHFLLALDPGRFVGKEAFLERMGALWQALKATPPAPGHEEVFLPGELEARRRERALAEGMA
LPERVVAELKALGERYGVPWRDDA
A
ttk003001327
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Thermus
Escherichia
Escherichia coli
sample
274
Thermus thermophilus
469008
Escherichia coli BL21(DE3)
BL21(DE3)
PLASMID
pET11a
1
2.67
53.60
MICROBATCH
4.6
1.58M ammonium sulfate, 0.1M sodium acetate, 1mM NAD, pH 4.6, microbatch, temperature 295.0K
295.0
RIKEN Structural Genomics/Proteomics Initiative
RSGI
chem_comp_atom
chem_comp_bond
database_2
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Data collection
Database references
Derived calculations
1
0
2005-04-19
1
1
2008-04-27
1
2
2011-07-13
1
3
2023-12-27
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
PDBJ
Y
PDBJ
2004-02-27
REL
REL
SO4
SULFATE ION
NAD
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
EDO
1,2-ETHANEDIOL
HOH
water
SO4
406
2
SO4
SO4
406
A
SO4
407
2
SO4
SO4
407
A
SO4
408
2
SO4
SO4
408
A
NAD
401
3
NAD
NAD
401
A
EGL
402
4
EDO
EDO
402
A
EGL
403
4
EDO
EDO
403
A
EGL
404
4
EDO
EDO
404
A
EGL
405
4
EDO
EDO
405
A
WAT
1
5
HOH
HOH
409
A
WAT
2
5
HOH
HOH
410
A
WAT
3
5
HOH
HOH
411
A
WAT
4
5
HOH
HOH
412
A
WAT
5
5
HOH
HOH
413
A
WAT
6
5
HOH
HOH
414
A
WAT
7
5
HOH
HOH
415
A
WAT
8
5
HOH
HOH
416
A
WAT
9
5
HOH
HOH
417
A
WAT
10
5
HOH
HOH
418
A
WAT
11
5
HOH
HOH
419
A
WAT
12
5
HOH
HOH
420
A
WAT
13
5
HOH
HOH
421
A
WAT
14
5
HOH
HOH
422
A
WAT
15
5
HOH
HOH
423
A
WAT
16
5
HOH
HOH
424
A
WAT
17
5
HOH
HOH
425
A
WAT
18
5
HOH
HOH
426
A
WAT
19
5
HOH
HOH
427
A
WAT
20
5
HOH
HOH
428
A
WAT
21
5
HOH
HOH
429
A
WAT
22
5
HOH
HOH
430
A
WAT
23
5
HOH
HOH
431
A
WAT
24
5
HOH
HOH
432
A
WAT
25
5
HOH
HOH
433
A
WAT
26
5
HOH
HOH
434
A
WAT
27
5
HOH
HOH
435
A
WAT
28
5
HOH
HOH
436
A
WAT
29
5
HOH
HOH
437
A
WAT
30
5
HOH
HOH
438
A
WAT
31
5
HOH
HOH
439
A
WAT
32
5
HOH
HOH
440
A
WAT
33
5
HOH
HOH
441
A
WAT
34
5
HOH
HOH
442
A
WAT
35
5
HOH
HOH
443
A
WAT
36
5
HOH
HOH
444
A
WAT
37
5
HOH
HOH
445
A
WAT
38
5
HOH
HOH
446
A
WAT
39
5
HOH
HOH
447
A
WAT
40
5
HOH
HOH
448
A
WAT
41
5
HOH
HOH
449
A
WAT
42
5
HOH
HOH
450
A
WAT
43
5
HOH
HOH
451
A
WAT
44
5
HOH
HOH
452
A
WAT
45
5
HOH
HOH
453
A
WAT
46
5
HOH
HOH
454
A
WAT
47
5
HOH
HOH
455
A
WAT
48
5
HOH
HOH
456
A
WAT
49
5
HOH
HOH
457
A
WAT
50
5
HOH
HOH
458
A
WAT
51
5
HOH
HOH
459
A
WAT
52
5
HOH
HOH
460
A
WAT
53
5
HOH
HOH
461
A
WAT
54
5
HOH
HOH
462
A
WAT
55
5
HOH
HOH
463
A
WAT
56
5
HOH
HOH
464
A
WAT
57
5
HOH
HOH
465
A
WAT
58
5
HOH
HOH
466
A
WAT
59
5
HOH
HOH
467
A
WAT
60
5
HOH
HOH
468
A
WAT
61
5
HOH
HOH
469
A
WAT
62
5
HOH
HOH
470
A
WAT
63
5
HOH
HOH
471
A
WAT
64
5
HOH
HOH
472
A
WAT
65
5
HOH
HOH
473
A
WAT
66
5
HOH
HOH
474
A
WAT
67
5
HOH
HOH
475
A
WAT
68
5
HOH
HOH
476
A
WAT
69
5
HOH
HOH
477
A
WAT
70
5
HOH
HOH
478
A
WAT
71
5
HOH
HOH
479
A
WAT
72
5
HOH
HOH
480
A
WAT
73
5
HOH
HOH
481
A
WAT
74
5
HOH
HOH
482
A
WAT
75
5
HOH
HOH
483
A
WAT
76
5
HOH
HOH
484
A
WAT
77
5
HOH
HOH
485
A
WAT
78
5
HOH
HOH
486
A
WAT
79
5
HOH
HOH
487
A
WAT
80
5
HOH
HOH
488
A
WAT
81
5
HOH
HOH
489
A
WAT
82
5
HOH
HOH
490
A
WAT
83
5
HOH
HOH
491
A
WAT
84
5
HOH
HOH
492
A
WAT
85
5
HOH
HOH
493
A
WAT
86
5
HOH
HOH
494
A
WAT
87
5
HOH
HOH
495
A
WAT
88
5
HOH
HOH
496
A
WAT
89
5
HOH
HOH
497
A
WAT
90
5
HOH
HOH
498
A
WAT
91
5
HOH
HOH
499
A
WAT
92
5
HOH
HOH
500
A
WAT
93
5
HOH
HOH
501
A
WAT
94
5
HOH
HOH
502
A
WAT
95
5
HOH
HOH
503
A
WAT
96
5
HOH
HOH
504
A
WAT
97
5
HOH
HOH
505
A
WAT
98
5
HOH
HOH
506
A
WAT
99
5
HOH
HOH
507
A
WAT
100
5
HOH
HOH
508
A
WAT
101
5
HOH
HOH
509
A
WAT
102
5
HOH
HOH
510
A
WAT
103
5
HOH
HOH
511
A
WAT
104
5
HOH
HOH
512
A
WAT
105
5
HOH
HOH
513
A
WAT
106
5
HOH
HOH
514
A
WAT
107
5
HOH
HOH
515
A
WAT
108
5
HOH
HOH
516
A
WAT
109
5
HOH
HOH
517
A
WAT
110
5
HOH
HOH
518
A
WAT
111
5
HOH
HOH
519
A
WAT
112
5
HOH
HOH
520
A
WAT
113
5
HOH
HOH
521
A
WAT
114
5
HOH
HOH
522
A
WAT
115
5
HOH
HOH
523
A
WAT
116
5
HOH
HOH
524
A
WAT
117
5
HOH
HOH
525
A
WAT
118
5
HOH
HOH
526
A
WAT
119
5
HOH
HOH
527
A
WAT
120
5
HOH
HOH
528
A
WAT
121
5
HOH
HOH
529
A
WAT
122
5
HOH
HOH
530
A
WAT
123
5
HOH
HOH
531
A
WAT
124
5
HOH
HOH
532
A
WAT
125
5
HOH
HOH
533
A
WAT
126
5
HOH
HOH
534
A
WAT
127
5
HOH
HOH
535
A
WAT
128
5
HOH
HOH
536
A
WAT
129
5
HOH
HOH
537
A
WAT
130
5
HOH
HOH
538
A
WAT
131
5
HOH
HOH
539
A
WAT
132
5
HOH
HOH
540
A
WAT
133
5
HOH
HOH
541
A
WAT
134
5
HOH
HOH
542
A
WAT
135
5
HOH
HOH
543
A
WAT
136
5
HOH
HOH
544
A
WAT
137
5
HOH
HOH
545
A
WAT
138
5
HOH
HOH
546
A
WAT
139
5
HOH
HOH
547
A
WAT
140
5
HOH
HOH
548
A
WAT
141
5
HOH
HOH
549
A
WAT
142
5
HOH
HOH
550
A
WAT
143
5
HOH
HOH
551
A
WAT
144
5
HOH
HOH
552
A
WAT
145
5
HOH
HOH
553
A
WAT
146
5
HOH
HOH
554
A
WAT
147
5
HOH
HOH
555
A
WAT
148
5
HOH
HOH
556
A
WAT
149
5
HOH
HOH
557
A
WAT
150
5
HOH
HOH
558
A
WAT
151
5
HOH
HOH
559
A
WAT
152
5
HOH
HOH
560
A
WAT
153
5
HOH
HOH
561
A
WAT
154
5
HOH
HOH
562
A
WAT
155
5
HOH
HOH
563
A
WAT
156
5
HOH
HOH
564
A
WAT
157
5
HOH
HOH
565
A
WAT
158
5
HOH
HOH
566
A
WAT
159
5
HOH
HOH
567
A
WAT
160
5
HOH
HOH
568
A
WAT
161
5
HOH
HOH
569
A
WAT
162
5
HOH
HOH
570
A
WAT
163
5
HOH
HOH
571
A
WAT
164
5
HOH
HOH
572
A
WAT
165
5
HOH
HOH
573
A
WAT
166
5
HOH
HOH
574
A
WAT
167
5
HOH
HOH
575
A
WAT
168
5
HOH
HOH
576
A
WAT
169
5
HOH
HOH
577
A
WAT
170
5
HOH
HOH
578
A
WAT
171
5
HOH
HOH
579
A
WAT
172
5
HOH
HOH
580
A
WAT
173
5
HOH
HOH
581
A
WAT
174
5
HOH
HOH
582
A
WAT
175
5
HOH
HOH
583
A
WAT
176
5
HOH
HOH
584
A
WAT
177
5
HOH
HOH
585
A
WAT
178
5
HOH
HOH
586
A
WAT
179
5
HOH
HOH
587
A
WAT
180
5
HOH
HOH
588
A
WAT
181
5
HOH
HOH
589
A
WAT
182
5
HOH
HOH
590
A
WAT
183
5
HOH
HOH
591
A
WAT
184
5
HOH
HOH
592
A
WAT
185
5
HOH
HOH
593
A
WAT
186
5
HOH
HOH
594
A
WAT
187
5
HOH
HOH
595
A
WAT
188
5
HOH
HOH
596
A
WAT
189
5
HOH
HOH
597
A
WAT
190
5
HOH
HOH
598
A
WAT
191
5
HOH
HOH
599
A
WAT
192
5
HOH
HOH
600
A
WAT
193
5
HOH
HOH
601
A
WAT
194
5
HOH
HOH
602
A
WAT
195
5
HOH
HOH
603
A
WAT
196
5
HOH
HOH
604
A
WAT
197
5
HOH
HOH
605
A
WAT
198
5
HOH
HOH
606
A
WAT
199
5
HOH
HOH
607
A
WAT
200
5
HOH
HOH
608
A
WAT
201
5
HOH
HOH
609
A
WAT
202
5
HOH
HOH
610
A
WAT
203
5
HOH
HOH
611
A
WAT
204
5
HOH
HOH
612
A
WAT
205
5
HOH
HOH
613
A
WAT
206
5
HOH
HOH
614
A
WAT
207
5
HOH
HOH
615
A
WAT
208
5
HOH
HOH
616
A
WAT
209
5
HOH
HOH
617
A
WAT
210
5
HOH
HOH
618
A
WAT
211
5
HOH
HOH
619
A
WAT
212
5
HOH
HOH
620
A
WAT
213
5
HOH
HOH
621
A
WAT
214
5
HOH
HOH
622
A
WAT
215
5
HOH
HOH
623
A
WAT
216
5
HOH
HOH
624
A
WAT
217
5
HOH
HOH
625
A
WAT
218
5
HOH
HOH
626
A
WAT
219
5
HOH
HOH
627
A
WAT
220
5
HOH
HOH
628
A
WAT
221
5
HOH
HOH
629
A
WAT
222
5
HOH
HOH
630
A
WAT
223
5
HOH
HOH
631
A
WAT
224
5
HOH
HOH
632
A
WAT
225
5
HOH
HOH
633
A
WAT
226
5
HOH
HOH
634
A
WAT
227
5
HOH
HOH
635
A
WAT
228
5
HOH
HOH
636
A
WAT
229
5
HOH
HOH
637
A
WAT
230
5
HOH
HOH
638
A
WAT
231
5
HOH
HOH
639
A
WAT
232
5
HOH
HOH
640
A
WAT
233
5
HOH
HOH
641
A
WAT
234
5
HOH
HOH
642
A
WAT
235
5
HOH
HOH
643
A
WAT
236
5
HOH
HOH
644
A
WAT
237
5
HOH
HOH
645
A
WAT
238
5
HOH
HOH
646
A
WAT
239
5
HOH
HOH
647
A
WAT
240
5
HOH
HOH
648
A
WAT
241
5
HOH
HOH
649
A
WAT
242
5
HOH
HOH
650
A
WAT
243
5
HOH
HOH
651
A
WAT
244
5
HOH
HOH
652
A
WAT
245
5
HOH
HOH
653
A
WAT
246
5
HOH
HOH
654
A
WAT
247
5
HOH
HOH
655
A
WAT
248
5
HOH
HOH
656
A
WAT
249
5
HOH
HOH
657
A
WAT
250
5
HOH
HOH
658
A
WAT
251
5
HOH
HOH
659
A
WAT
252
5
HOH
HOH
660
A
WAT
253
5
HOH
HOH
661
A
WAT
254
5
HOH
HOH
662
A
WAT
255
5
HOH
HOH
663
A
WAT
256
5
HOH
HOH
664
A
WAT
257
5
HOH
HOH
665
A
WAT
258
5
HOH
HOH
666
A
WAT
259
5
HOH
HOH
667
A
WAT
260
5
HOH
HOH
668
A
WAT
261
5
HOH
HOH
669
A
WAT
262
5
HOH
HOH
670
A
WAT
263
5
HOH
HOH
671
A
WAT
264
5
HOH
HOH
672
A
WAT
265
5
HOH
HOH
673
A
WAT
266
5
HOH
HOH
674
A
WAT
267
5
HOH
HOH
675
A
WAT
268
5
HOH
HOH
676
A
WAT
269
5
HOH
HOH
677
A
WAT
270
5
HOH
HOH
678
A
WAT
271
5
HOH
HOH
679
A
WAT
272
5
HOH
HOH
680
A
WAT
273
5
HOH
HOH
681
A
WAT
274
5
HOH
HOH
682
A
WAT
275
5
HOH
HOH
683
A
WAT
276
5
HOH
HOH
684
A
WAT
277
5
HOH
HOH
685
A
WAT
278
5
HOH
HOH
686
A
WAT
279
5
HOH
HOH
687
A
WAT
280
5
HOH
HOH
688
A
WAT
281
5
HOH
HOH
689
A
WAT
282
5
HOH
HOH
690
A
WAT
283
5
HOH
HOH
691
A
WAT
284
5
HOH
HOH
692
A
WAT
285
5
HOH
HOH
693
A
WAT
286
5
HOH
HOH
694
A
WAT
287
5
HOH
HOH
695
A
WAT
288
5
HOH
HOH
696
A
WAT
289
5
HOH
HOH
697
A
WAT
290
5
HOH
HOH
698
A
WAT
291
5
HOH
HOH
699
A
WAT
292
5
HOH
HOH
700
A
WAT
293
5
HOH
HOH
701
A
WAT
294
5
HOH
HOH
702
A
WAT
295
5
HOH
HOH
703
A
WAT
296
5
HOH
HOH
704
A
WAT
297
5
HOH
HOH
705
A
WAT
298
5
HOH
HOH
706
A
WAT
299
5
HOH
HOH
707
A
WAT
300
5
HOH
HOH
708
A
WAT
301
5
HOH
HOH
709
A
WAT
302
5
HOH
HOH
710
A
WAT
303
5
HOH
HOH
711
A
WAT
304
5
HOH
HOH
712
A
WAT
305
5
HOH
HOH
713
A
WAT
306
5
HOH
HOH
714
A
WAT
307
5
HOH
HOH
715
A
WAT
308
5
HOH
HOH
716
A
WAT
309
5
HOH
HOH
717
A
WAT
310
5
HOH
HOH
718
A
WAT
311
5
HOH
HOH
719
A
WAT
312
5
HOH
HOH
720
A
WAT
313
5
HOH
HOH
721
A
WAT
314
5
HOH
HOH
722
A
WAT
315
5
HOH
HOH
723
A
WAT
316
5
HOH
HOH
724
A
WAT
317
5
HOH
HOH
725
A
WAT
318
5
HOH
HOH
726
A
WAT
319
5
HOH
HOH
727
A
WAT
320
5
HOH
HOH
728
A
WAT
321
5
HOH
HOH
729
A
WAT
322
5
HOH
HOH
730
A
WAT
323
5
HOH
HOH
731
A
WAT
324
5
HOH
HOH
732
A
WAT
325
5
HOH
HOH
733
A
WAT
326
5
HOH
HOH
734
A
WAT
327
5
HOH
HOH
735
A
WAT
328
5
HOH
HOH
736
A
WAT
329
5
HOH
HOH
737
A
WAT
330
5
HOH
HOH
738
A
WAT
331
5
HOH
HOH
739
A
WAT
332
5
HOH
HOH
740
A
WAT
333
5
HOH
HOH
741
A
WAT
334
5
HOH
HOH
742
A
WAT
335
5
HOH
HOH
743
A
WAT
336
5
HOH
HOH
744
A
WAT
337
5
HOH
HOH
745
A
WAT
338
5
HOH
HOH
746
A
WAT
339
5
HOH
HOH
747
A
WAT
340
5
HOH
HOH
748
A
WAT
341
5
HOH
HOH
749
A
WAT
342
5
HOH
HOH
750
A
MET
1
n
1
MET
1
A
ARG
2
n
2
ARG
2
A
TRP
3
n
3
TRP
3
A
ARG
4
n
4
ARG
4
A
ALA
5
n
5
ALA
5
A
ASP
6
n
6
ASP
6
A
PHE
7
n
7
PHE
7
A
LEU
8
n
8
LEU
8
A
SER
9
n
9
SER
9
A
ALA
10
n
10
ALA
10
A
TRP
11
n
11
TRP
11
A
ALA
12
n
12
ALA
12
A
GLU
13
n
13
GLU
13
A
ALA
14
n
14
ALA
14
A
LEU
15
n
15
LEU
15
A
LEU
16
n
16
LEU
16
A
ARG
17
n
17
ARG
17
A
LYS
18
n
18
LYS
18
A
ALA
19
n
19
ALA
19
A
GLY
20
n
20
GLY
20
A
ALA
21
n
21
ALA
21
A
ASP
22
n
22
ASP
22
A
GLU
23
n
23
GLU
23
A
PRO
24
n
24
PRO
24
A
SER
25
n
25
SER
25
A
ALA
26
n
26
ALA
26
A
LYS
27
n
27
LYS
27
A
ALA
28
n
28
ALA
28
A
VAL
29
n
29
VAL
29
A
ALA
30
n
30
ALA
30
A
TRP
31
n
31
TRP
31
A
ALA
32
n
32
ALA
32
A
LEU
33
n
33
LEU
33
A
VAL
34
n
34
VAL
34
A
GLU
35
n
35
GLU
35
A
ALA
36
n
36
ALA
36
A
ASP
37
n
37
ASP
37
A
LEU
38
n
38
LEU
38
A
ARG
39
n
39
ARG
39
A
GLY
40
n
40
GLY
40
A
VAL
41
n
41
VAL
41
A
GLY
42
n
42
GLY
42
A
SER
43
n
43
SER
43
A
HIS
44
n
44
HIS
44
A
GLY
45
n
45
GLY
45
A
LEU
46
n
46
LEU
46
A
LEU
47
n
47
LEU
47
A
ARG
48
n
48
ARG
48
A
LEU
49
n
49
LEU
49
A
PRO
50
n
50
PRO
50
A
VAL
51
n
51
VAL
51
A
TYR
52
n
52
TYR
52
A
VAL
53
n
53
VAL
53
A
ARG
54
n
54
ARG
54
A
ARG
55
n
55
ARG
55
A
LEU
56
n
56
LEU
56
A
GLU
57
n
57
GLU
57
A
ALA
58
n
58
ALA
58
A
GLY
59
n
59
GLY
59
A
LEU
60
n
60
LEU
60
A
VAL
61
n
61
VAL
61
A
ASN
62
n
62
ASN
62
A
PRO
63
n
63
PRO
63
A
SER
64
n
64
SER
64
A
PRO
65
n
65
PRO
65
A
THR
66
n
66
THR
66
A
LEU
67
n
67
LEU
67
A
PRO
68
n
68
PRO
68
A
LEU
69
n
69
LEU
69
A
GLU
70
n
70
GLU
70
A
GLU
71
n
71
GLU
71
A
ARG
72
n
72
ARG
72
A
GLY
73
n
73
GLY
73
A
PRO
74
n
74
PRO
74
A
VAL
75
n
75
VAL
75
A
ALA
76
n
76
ALA
76
A
LEU
77
n
77
LEU
77
A
LEU
78
n
78
LEU
78
A
ASP
79
n
79
ASP
79
A
GLY
80
n
80
GLY
80
A
GLU
81
n
81
GLU
81
A
HIS
82
n
82
HIS
82
A
GLY
83
n
83
GLY
83
A
PHE
84
n
84
PHE
84
A
GLY
85
n
85
GLY
85
A
PRO
86
n
86
PRO
86
A
ARG
87
n
87
ARG
87
A
VAL
88
n
88
VAL
88
A
ALA
89
n
89
ALA
89
A
LEU
90
n
90
LEU
90
A
LYS
91
n
91
LYS
91
A
ALA
92
n
92
ALA
92
A
VAL
93
n
93
VAL
93
A
GLU
94
n
94
GLU
94
A
ALA
95
n
95
ALA
95
A
ALA
96
n
96
ALA
96
A
GLN
97
n
97
GLN
97
A
SER
98
n
98
SER
98
A
LEU
99
n
99
LEU
99
A
ALA
100
n
100
ALA
100
A
ARG
101
n
101
ARG
101
A
ARG
102
n
102
ARG
102
A
HIS
103
n
103
HIS
103
A
GLY
104
n
104
GLY
104
A
LEU
105
n
105
LEU
105
A
GLY
106
n
106
GLY
106
A
ALA
107
n
107
ALA
107
A
VAL
108
n
108
VAL
108
A
GLY
109
n
109
GLY
109
A
VAL
110
n
110
VAL
110
A
ARG
111
n
111
ARG
111
A
ARG
112
n
112
ARG
112
A
SER
113
n
113
SER
113
A
THR
114
n
114
THR
114
A
HIS
115
n
115
HIS
115
A
PHE
116
n
116
PHE
116
A
GLY
117
n
117
GLY
117
A
MET
118
n
118
MET
118
A
ALA
119
n
119
ALA
119
A
GLY
120
n
120
GLY
120
A
LEU
121
n
121
LEU
121
A
TYR
122
n
122
TYR
122
A
ALA
123
n
123
ALA
123
A
GLU
124
n
124
GLU
124
A
LYS
125
n
125
LYS
125
A
LEU
126
n
126
LEU
126
A
ALA
127
n
127
ALA
127
A
ARG
128
n
128
ARG
128
A
GLU
129
n
129
GLU
129
A
GLY
130
n
130
GLY
130
A
PHE
131
n
131
PHE
131
A
VAL
132
n
132
VAL
132
A
ALA
133
n
133
ALA
133
A
TRP
134
n
134
TRP
134
A
VAL
135
n
135
VAL
135
A
THR
136
n
136
THR
136
A
THR
137
n
137
THR
137
A
ASN
138
n
138
ASN
138
A
ALA
139
n
139
ALA
139
A
GLU
140
n
140
GLU
140
A
PRO
141
n
141
PRO
141
A
ASP
142
n
142
ASP
142
A
VAL
143
n
143
VAL
143
A
VAL
144
n
144
VAL
144
A
PRO
145
n
145
PRO
145
A
PHE
146
n
146
PHE
146
A
GLY
147
n
147
GLY
147
A
GLY
148
n
148
GLY
148
A
ARG
149
n
149
ARG
149
A
GLU
150
n
150
GLU
150
A
LYS
151
n
151
LYS
151
A
ALA
152
n
152
ALA
152
A
LEU
153
n
153
LEU
153
A
GLY
154
n
154
GLY
154
A
THR
155
n
155
THR
155
A
ASN
156
n
156
ASN
156
A
PRO
157
n
157
PRO
157
A
LEU
158
n
158
LEU
158
A
ALA
159
n
159
ALA
159
A
PHE
160
n
160
PHE
160
A
ALA
161
n
161
ALA
161
A
ALA
162
n
162
ALA
162
A
PRO
163
n
163
PRO
163
A
ALA
164
n
164
ALA
164
A
PRO
165
n
165
PRO
165
A
GLN
166
n
166
GLN
166
A
GLY
167
n
167
GLY
167
A
ILE
168
n
168
ILE
168
A
LEU
169
n
169
LEU
169
A
VAL
170
n
170
VAL
170
A
ALA
171
n
171
ALA
171
A
ASP
172
n
172
ASP
172
A
LEU
173
n
173
LEU
173
A
ALA
174
n
174
ALA
174
A
THR
175
n
175
THR
175
A
SER
176
n
176
SER
176
A
GLU
177
n
177
GLU
177
A
SER
178
n
178
SER
178
A
ALA
179
n
179
ALA
179
A
MET
180
n
180
MET
180
A
GLY
181
n
181
GLY
181
A
LYS
182
n
182
LYS
182
A
VAL
183
n
183
VAL
183
A
PHE
184
n
184
PHE
184
A
LEU
185
n
185
LEU
185
A
ALA
186
n
186
ALA
186
A
ARG
187
n
187
ARG
187
A
GLU
188
n
188
GLU
188
A
LYS
189
n
189
LYS
189
A
GLY
190
n
190
GLY
190
A
GLU
191
n
191
GLU
191
A
ARG
192
n
192
ARG
192
A
ILE
193
n
193
ILE
193
A
PRO
194
n
194
PRO
194
A
PRO
195
n
195
PRO
195
A
SER
196
n
196
SER
196
A
TRP
197
n
197
TRP
197
A
GLY
198
n
198
GLY
198
A
VAL
199
n
199
VAL
199
A
ASP
200
n
200
ASP
200
A
ARG
201
n
201
ARG
201
A
GLU
202
n
202
GLU
202
A
GLY
203
n
203
GLY
203
A
SER
204
n
204
SER
204
A
PRO
205
n
205
PRO
205
A
THR
206
n
206
THR
206
A
ASP
207
n
207
ASP
207
A
ASP
208
n
208
ASP
208
A
PRO
209
n
209
PRO
209
A
HIS
210
n
210
HIS
210
A
ARG
211
n
211
ARG
211
A
VAL
212
n
212
VAL
212
A
TYR
213
n
213
TYR
213
A
ALA
214
n
214
ALA
214
A
LEU
215
n
215
LEU
215
A
ARG
216
n
216
ARG
216
A
PRO
217
n
217
PRO
217
A
LEU
218
n
218
LEU
218
A
GLY
219
n
219
GLY
219
A
GLY
220
n
220
GLY
220
A
PRO
221
n
221
PRO
221
A
LYS
222
n
222
LYS
222
A
GLY
223
n
223
GLY
223
A
TYR
224
n
224
TYR
224
A
ALA
225
n
225
ALA
225
A
LEU
226
n
226
LEU
226
A
ALA
227
n
227
ALA
227
A
LEU
228
n
228
LEU
228
A
LEU
229
n
229
LEU
229
A
VAL
230
n
230
VAL
230
A
GLU
231
n
231
GLU
231
A
VAL
232
n
232
VAL
232
A
LEU
233
n
233
LEU
233
A
SER
234
n
234
SER
234
A
GLY
235
n
235
GLY
235
A
VAL
236
n
236
VAL
236
A
LEU
237
n
237
LEU
237
A
THR
238
n
238
THR
238
A
GLY
239
n
239
GLY
239
A
ALA
240
n
240
ALA
240
A
GLY
241
n
241
GLY
241
A
VAL
242
n
242
VAL
242
A
ALA
243
n
243
ALA
243
A
HIS
244
n
244
HIS
244
A
GLY
245
n
245
GLY
245
A
ILE
246
n
246
ILE
246
A
GLY
247
n
247
GLY
247
A
ARG
248
n
248
ARG
248
A
MET
249
n
249
MET
249
A
TYR
250
n
250
TYR
250
A
ASP
251
n
251
ASP
251
A
GLU
252
n
252
GLU
252
A
TRP
253
n
253
TRP
253
A
ASP
254
n
254
ASP
254
A
ARG
255
n
255
ARG
255
A
PRO
256
n
256
PRO
256
A
GLN
257
n
257
GLN
257
A
ASP
258
n
258
ASP
258
A
VAL
259
n
259
VAL
259
A
GLY
260
n
260
GLY
260
A
HIS
261
n
261
HIS
261
A
PHE
262
n
262
PHE
262
A
LEU
263
n
263
LEU
263
A
LEU
264
n
264
LEU
264
A
ALA
265
n
265
ALA
265
A
LEU
266
n
266
LEU
266
A
ASP
267
n
267
ASP
267
A
PRO
268
n
268
PRO
268
A
GLY
269
n
269
GLY
269
A
ARG
270
n
270
ARG
270
A
PHE
271
n
271
PHE
271
A
VAL
272
n
272
VAL
272
A
GLY
273
n
273
GLY
273
A
LYS
274
n
274
LYS
274
A
GLU
275
n
275
GLU
275
A
ALA
276
n
276
ALA
276
A
PHE
277
n
277
PHE
277
A
LEU
278
n
278
LEU
278
A
GLU
279
n
279
GLU
279
A
ARG
280
n
280
ARG
280
A
MET
281
n
281
MET
281
A
GLY
282
n
282
GLY
282
A
ALA
283
n
283
ALA
283
A
LEU
284
n
284
LEU
284
A
TRP
285
n
285
TRP
285
A
GLN
286
n
286
GLN
286
A
ALA
287
n
287
ALA
287
A
LEU
288
n
288
LEU
288
A
LYS
289
n
289
LYS
289
A
ALA
290
n
290
ALA
290
A
THR
291
n
291
THR
291
A
PRO
292
n
292
PRO
292
A
PRO
293
n
293
PRO
293
A
ALA
294
n
294
ALA
294
A
PRO
295
n
295
PRO
295
A
GLY
296
n
296
GLY
296
A
HIS
297
n
297
HIS
297
A
GLU
298
n
298
GLU
298
A
GLU
299
n
299
GLU
299
A
VAL
300
n
300
VAL
300
A
PHE
301
n
301
PHE
301
A
LEU
302
n
302
LEU
302
A
PRO
303
n
303
PRO
303
A
GLY
304
n
304
GLY
304
A
GLU
305
n
305
GLU
305
A
LEU
306
n
306
LEU
306
A
GLU
307
n
307
GLU
307
A
ALA
308
n
308
ALA
308
A
ARG
309
n
309
ARG
309
A
ARG
310
n
310
ARG
310
A
ARG
311
n
311
ARG
311
A
GLU
312
n
312
GLU
312
A
ARG
313
n
313
ARG
313
A
ALA
314
n
314
ALA
314
A
LEU
315
n
315
LEU
315
A
ALA
316
n
316
ALA
316
A
GLU
317
n
317
GLU
317
A
GLY
318
n
318
GLY
318
A
MET
319
n
319
MET
319
A
ALA
320
n
320
ALA
320
A
LEU
321
n
321
LEU
321
A
PRO
322
n
322
PRO
322
A
GLU
323
n
323
GLU
323
A
ARG
324
n
324
ARG
324
A
VAL
325
n
325
VAL
325
A
VAL
326
n
326
VAL
326
A
ALA
327
n
327
ALA
327
A
GLU
328
n
328
GLU
328
A
LEU
329
n
329
LEU
329
A
LYS
330
n
330
LYS
330
A
ALA
331
n
331
ALA
331
A
LEU
332
n
332
LEU
332
A
GLY
333
n
333
GLY
333
A
GLU
334
n
334
GLU
334
A
ARG
335
n
335
ARG
335
A
TYR
336
n
336
TYR
336
A
GLY
337
n
337
GLY
337
A
VAL
338
n
338
VAL
338
A
PRO
339
n
339
PRO
339
A
TRP
340
n
340
TRP
340
A
n
341
341
A
n
342
342
A
n
343
343
A
n
344
344
A
author_and_software_defined_assembly
PISA,PQS
2
dimeric
11830
-112
24470
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
8_675
x-y+1,-y+2,-z
crystal symmetry operation
0.0000000000
135.6542192488
0.0000000000
A
N
GLU
70
A
N
GLU
70
A
O
LEU
77
A
O
LEU
77
A
N
ALA
76
A
N
ALA
76
A
O
GLY
109
A
O
GLY
109
A
N
VAL
110
A
N
VAL
110
A
O
HIS
261
A
O
HIS
261
A
O
LEU
264
A
O
LEU
264
A
N
TRP
134
A
N
TRP
134
A
N
ALA
133
A
N
ALA
133
A
O
ALA
161
A
O
ALA
161
A
N
PHE
160
A
N
PHE
160
A
O
ALA
171
A
O
ALA
171
A
N
VAL
199
A
N
VAL
199
A
O
ALA
214
A
O
ALA
214
1
A
ARG
341
A
ARG
341
1
Y
1
A
ASP
342
A
ASP
342
1
Y
1
A
ASP
343
A
ASP
343
1
Y
1
A
ALA
344
A
ALA
344
1
Y
1
A
VAL
41
-103.61
65.45
1
A
SER
64
-150.39
66.59
1
A
ASN
156
16.11
84.74
1
A
SER
178
-138.14
-151.40
1
A
ALA
243
45.52
-116.02
1
A
PHE
271
-113.75
-116.94
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
NAD.PARAM
NAD.TOP
EGL.PARAM
EGL.TOP
15.7
1.35
1.04
0.00
1.35
0.00
-2.70
0.21
0.005
0.187
0.188
0.188
1.80
30.00
2162
43745
43635
5.0
99.8
RANDOM
2925735.38
0.000000
1
RESTRAINED
THROUGHOUT
0.0
MAD
Engh & Huber
FLAT MODEL
38.4969
0.366908
0.20
0.18
5.00
0.05
-0.02
1.80
30.00
342
2996
75
0
2579
0.006
1.3
22.3
0.82
0.216
0.015
0.188
1.86
202
4027
10
4.8
98.7
11.3
1.80
30.0
1VBI
43745
43745
0.0
0.0
0.061
0.06
1
16.3
13.0
99.9
0.13
1.80
1.86
11.53
4275
0.124
1
8.8
99.6
refinement
CNS
1.1
data reduction
HKL-2000
data scaling
SCALEPACK
phasing
SOLVE
Crystal structure of type 2 malate/lactate dehydrogenase from thermus thermophilus HB8
1
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
4
N
N
5
N
N
The biological assembly is dimer generated by the operation:x-y+1,-y+2,-z.
A
ARG
4
A
ARG
4
HELX_P
A
ALA
19
A
ALA
19
1
1
16
A
ASP
22
A
ASP
22
HELX_P
A
ARG
39
A
ARG
39
1
2
18
A
VAL
41
A
VAL
41
HELX_P
A
LEU
47
A
LEU
47
5
3
7
A
ARG
48
A
ARG
48
HELX_P
A
ALA
58
A
ALA
58
1
4
11
A
PHE
84
A
PHE
84
HELX_P
A
GLY
104
A
GLY
104
1
5
21
A
MET
118
A
MET
118
HELX_P
A
GLU
129
A
GLU
129
1
6
12
A
ALA
179
A
ALA
179
HELX_P
A
GLY
190
A
GLY
190
1
7
12
A
ASP
208
A
ASP
208
HELX_P
A
VAL
212
A
VAL
212
5
8
5
A
GLY
220
A
GLY
220
HELX_P
A
GLY
235
A
GLY
235
1
9
16
A
VAL
242
A
VAL
242
HELX_P
A
ILE
246
A
ILE
246
5
10
5
A
PRO
268
A
PRO
268
HELX_P
A
PHE
271
A
PHE
271
5
11
4
A
GLY
273
A
GLY
273
HELX_P
A
ALA
290
A
ALA
290
1
12
18
A
GLY
304
A
GLY
304
HELX_P
A
GLY
318
A
GLY
318
1
13
15
A
PRO
322
A
PRO
322
HELX_P
A
GLY
337
A
GLY
337
1
14
16
OXIDOREDUCTASE
malate dehydrogenase, NAD(P) binding protein, thermus thermophilus HB8, Structural Genomics, RIKEN Structural Genomics/Proteomics Initiative, RSGI, OXIDOREDUCTASE
Q746L8_THET2
UNP
1
1
Q746L8
MRWRADFLSAWAEALLRKAGADEPSAKAVAWALVEADLRGVGSHGLLRLPVYVRRLEAGLVNPSPTLPLEERGPVALLDG
EHGFGPRVALKAVEAAQSLARRHGLGAVGVRRSTHFGMAGLYAEKLAREGFVAWVTTNAEPDVVPFGGREKALGTNPLAF
AAPAPQGILVADLATSESAMGKVFLAREKGERIPPSWGVDREGSPTDDPHRVYALRPLGGPKGYALALLVEVLSGVLTGA
GVAHGIGRMYDEWDRPQDVGHFLLALDPGRFVGKEAFLERMGALWQALKATPPAPGHEEVFLPGELEARRRERALAEGMA
LPERVVAELKALGERYGVPWRDDA
1
344
1VBI
1
344
Q746L8
A
1
1
344
7
2
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
LEU
69
A
LEU
69
A
ARG
72
A
ARG
72
A
VAL
75
A
VAL
75
A
ASP
79
A
ASP
79
A
LEU
105
A
LEU
105
A
SER
113
A
SER
113
A
VAL
259
A
VAL
259
A
LEU
266
A
LEU
266
A
VAL
132
A
VAL
132
A
THR
137
A
THR
137
A
LEU
158
A
LEU
158
A
ALA
164
A
ALA
164
A
GLY
167
A
GLY
167
A
LEU
173
A
LEU
173
A
GLY
198
A
GLY
198
A
VAL
199
A
VAL
199
A
ALA
214
A
ALA
214
A
LEU
215
A
LEU
215
BINDING SITE FOR RESIDUE SO4 A 406
A
SO4
406
Software
7
BINDING SITE FOR RESIDUE SO4 A 407
A
SO4
407
Software
3
BINDING SITE FOR RESIDUE SO4 A 408
A
SO4
408
Software
5
BINDING SITE FOR RESIDUE NAD A 401
A
NAD
401
Software
29
BINDING SITE FOR RESIDUE EDO A 402
A
EDO
402
Software
5
BINDING SITE FOR RESIDUE EDO A 403
A
EDO
403
Software
5
BINDING SITE FOR RESIDUE EDO A 404
A
EDO
404
Software
5
BINDING SITE FOR RESIDUE EDO A 405
A
EDO
405
Software
6
A
ARG
48
A
ARG
48
7
1_555
A
ALA
179
A
ALA
179
7
1_555
A
MET
180
A
MET
180
7
1_555
A
GLY
181
A
GLY
181
7
1_555
A
HOH
516
J
HOH
7
1_555
A
HOH
638
J
HOH
7
1_555
A
HOH
721
J
HOH
7
1_555
A
ARG
87
A
ARG
87
3
1_555
A
LYS
91
A
LYS
91
3
1_555
A
HOH
628
J
HOH
3
1_555
A
GLY
273
A
GLY
273
5
1_555
A
LYS
274
A
LYS
274
5
1_555
A
GLU
275
A
GLU
275
5
1_555
A
HOH
419
J
HOH
5
1_555
A
HOH
714
J
HOH
5
1_555
A
HIS
44
A
HIS
44
29
1_555
A
HIS
115
A
HIS
115
29
1_555
A
GLY
117
A
GLY
117
29
1_555
A
MET
118
A
MET
118
29
1_555
A
ALA
119
A
ALA
119
29
1_555
A
ALA
139
A
ALA
139
29
1_555
A
PHE
146
A
PHE
146
29
8_675
A
THR
155
A
THR
155
29
1_555
A
PRO
157
A
PRO
157
29
1_555
A
VAL
170
A
VAL
170
29
1_555
A
ALA
171
A
ALA
171
29
1_555
A
ASP
172
A
ASP
172
29
1_555
A
LEU
173
A
LEU
173
29
1_555
A
ALA
174
A
ALA
174
29
1_555
A
PRO
221
A
PRO
221
29
8_675
A
LYS
222
A
LYS
222
29
8_675
A
PHE
301
A
PHE
301
29
1_555
A
PRO
303
A
PRO
303
29
1_555
A
GLY
304
A
GLY
304
29
1_555
A
LEU
306
A
LEU
306
29
1_555
A
GLU
307
A
GLU
307
29
1_555
A
EDO
405
I
EDO
29
1_555
A
HOH
413
J
HOH
29
1_555
A
HOH
414
J
HOH
29
1_555
A
HOH
427
J
HOH
29
8_675
A
HOH
561
J
HOH
29
1_555
A
HOH
592
J
HOH
29
1_555
A
HOH
656
J
HOH
29
1_555
A
HOH
694
J
HOH
29
1_555
A
PHE
146
A
PHE
146
5
1_555
A
GLY
147
A
GLY
147
5
1_555
A
GLY
148
A
GLY
148
5
1_555
A
ARG
216
A
ARG
216
5
1_555
A
HOH
498
J
HOH
5
1_555
A
PRO
68
A
PRO
68
5
1_555
A
GLU
70
A
GLU
70
5
1_555
A
LEU
77
A
LEU
77
5
1_555
A
ARG
111
A
ARG
111
5
1_555
A
HOH
471
J
HOH
5
1_555
A
GLU
129
A
GLU
129
5
1_555
A
GLY
130
A
GLY
130
5
1_555
A
ASP
267
A
ASP
267
5
1_555
A
LYS
274
A
LYS
274
5
1_555
A
HOH
622
J
HOH
5
1_555
A
VAL
41
A
VAL
41
6
1_555
A
MET
118
A
MET
118
6
1_555
A
ASP
172
A
ASP
172
6
1_555
A
GLU
307
A
GLU
307
6
1_555
A
NAD
401
E
NAD
6
1_555
A
HOH
435
J
HOH
6
1_555
179
P 65 2 2