0.009515
0.000000
0.000000
0.000000
0.009515
0.000000
0.000000
0.000000
0.006653
0.00000
0.00000
0.00000
CIS PROLINE - PRO 262
Bolduc, J.M.
Dyer, D.H.
Scott, W.G.
Singer, P.
Sweet, R.M.
Koshland Junior, D.E.
Stoddard, B.L.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
105.100
105.100
150.300
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
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H8 O7
192.124
ISOCITRIC ACID
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 H28 N7 O17 P3
743.405
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE
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
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
O
N
141
N
C
Y
142
N
C
Y
143
N
N
Y
144
N
C
Y
145
N
C
Y
146
N
N
N
147
N
O
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
O
N
159
N
H
N
160
N
H
N
161
N
C
N
162
N
O
N
163
N
O
N
164
R
C
N
165
N
O
N
166
S
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
O
N
171
N
C
N
172
N
O
N
173
N
O
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
N
N
183
S
C
N
184
N
C
N
185
N
O
N
186
S
C
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
O
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
H
N
202
N
H
N
203
N
H
N
204
N
N
N
205
S
C
N
206
N
C
N
207
N
O
N
208
N
C
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
O
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
C
N
233
N
C
N
234
N
N
N
235
N
O
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
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
S
N
258
N
C
N
259
N
O
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
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
MG
N
272
R
P
N
273
N
O
N
274
N
O
N
275
N
O
N
276
N
C
N
277
R
C
N
278
N
O
N
279
R
C
N
280
N
O
N
281
R
C
N
282
N
O
N
283
R
C
Y
284
N
N
Y
285
N
C
Y
286
N
N
Y
287
N
C
Y
288
N
C
N
289
N
N
Y
290
N
N
Y
291
N
C
Y
292
N
N
Y
293
N
C
N
294
N
O
N
295
N
P
N
296
N
O
N
297
N
O
N
298
N
O
N
299
N
C
N
300
R
C
N
301
N
O
N
302
S
C
N
303
N
O
N
304
R
C
N
305
N
O
N
306
R
C
Y
307
N
N
Y
308
N
C
Y
309
N
C
N
310
N
C
N
311
N
O
N
312
N
N
Y
313
N
C
Y
314
N
C
Y
315
N
C
N
316
N
P
N
317
N
O
N
318
N
O
N
319
N
O
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
N
N
349
S
C
N
350
N
C
N
351
N
O
N
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
Y
358
N
C
N
359
N
O
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
N
N
372
S
C
N
373
N
C
N
374
N
O
N
375
N
C
N
376
N
C
N
377
N
C
N
378
N
O
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
N
N
389
S
C
N
390
N
C
N
391
N
O
N
392
N
C
N
393
N
O
N
394
N
O
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
N
N
403
S
C
N
404
N
C
N
405
N
O
N
406
R
C
N
407
N
O
N
408
N
C
N
409
N
O
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
N
N
420
S
C
N
421
N
C
N
422
N
O
N
423
N
C
Y
424
N
C
Y
425
N
C
Y
426
N
C
Y
427
N
N
Y
428
N
C
Y
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
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
H
N
446
N
N
N
447
S
C
N
448
N
C
N
449
N
O
N
450
N
C
Y
451
N
C
Y
452
N
C
Y
453
N
C
Y
454
N
C
Y
455
N
C
Y
456
N
C
N
457
N
O
N
458
N
O
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
H
N
468
N
H
N
469
N
H
N
470
N
N
N
471
S
C
N
472
N
C
N
473
N
O
N
474
N
C
N
475
N
C
N
476
N
C
N
477
N
O
N
478
N
H
N
479
N
H
N
480
N
H
N
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
H
N
486
N
H
N
487
N
H
N
488
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
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
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
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
doub
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
doub
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
doub
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
sing
N
197
N
sing
N
198
N
sing
N
199
N
doub
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
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
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
doub
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
doub
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
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
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
Y
280
N
sing
Y
281
N
sing
Y
282
N
doub
N
283
N
sing
Y
284
N
sing
Y
285
N
sing
Y
286
N
doub
N
287
N
sing
Y
288
N
doub
N
289
N
sing
N
290
N
sing
Y
291
N
sing
Y
292
N
doub
N
293
N
sing
Y
294
N
sing
N
295
N
sing
N
296
N
doub
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
Y
317
N
sing
Y
318
N
doub
Y
319
N
doub
N
320
N
sing
N
321
N
sing
Y
322
N
sing
N
323
N
doub
N
324
N
sing
N
325
N
sing
N
326
N
sing
Y
327
N
doub
N
328
N
sing
Y
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
doub
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
doub
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
Y
348
N
doub
Y
349
N
sing
Y
350
N
sing
N
351
N
sing
Y
352
N
doub
N
353
N
sing
Y
354
N
doub
N
355
N
sing
Y
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
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
sing
N
383
N
doub
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
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
doub
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
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
doub
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
Y
417
N
doub
Y
418
N
sing
Y
419
N
sing
N
420
N
sing
Y
421
N
doub
Y
422
N
sing
Y
423
N
sing
N
424
N
sing
Y
425
N
sing
Y
426
N
doub
N
427
N
sing
Y
428
N
doub
N
429
N
sing
Y
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
sing
N
440
N
doub
N
441
N
sing
N
442
N
sing
N
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
doub
N
450
N
sing
Y
451
N
doub
N
452
N
sing
Y
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
N
458
N
sing
N
459
N
sing
N
460
N
sing
N
461
N
sing
N
462
N
sing
N
463
N
sing
N
464
N
doub
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
sing
N
474
N
sing
N
475
N
sing
US
Science
SCIEAS
0038
0036-8075
268
1312
1318
7761851
Mutagenesis and Laue structures of enzyme intermediates: isocitrate dehydrogenase.
1995
US
Biochemistry
BICHAW
0033
0006-2960
30
8671
Catalytic Mechanism of Nadp+-Dependent Isocitrate Dehydrogenase: Implications from the Structures of Magnesium-Isocitrate and Nadp+ Complexes
1991
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
265
3599
Regulation of Isocitrate Dehydrogenase by Phosphorylation Involves No Long-Range Conformational Change in the Free Enzyme
1990
US
Science
SCIEAS
0038
0036-8075
249
1012
Regulation of an Enzyme by Phosphorylation at the Active Site
1990
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
86
8635
Structure of a Bacterial Enzyme Regulated by Phosphorylation, Isocitrate Dehydrogenase
1989
10.2210/pdb1ide/pdb
pdb_00001ide
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
IMAGE PLATE
1993-10-15
FUJI
LAUE
L
neutron
1
0.7
1.0
2.1
1.0
X26C
NSLS
0.7 - 2.1
SYNCHROTRON
NSLS BEAMLINE X26C
TERNARY RATE-LIMITED MICHAELIS COMPLEX
45793.562
ISOCITRATE DEHYDROGENASE
1.1.1.42
Y160F
1
man
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
192.124
ISOCITRIC ACID
1
syn
non-polymer
743.405
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
1
syn
non-polymer
18.015
water
2
nat
water
IDH
no
no
MESKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKVVDAAVEKAYKGERKISWMEIYTGEKSTQVYGQ
DVWLPAETLDLIREYRVAIKGPLTTPVGGGIRSLNVALRQELDLYICLRPVRYYQGTPSPVKHPELTDMVIFRENSEDIF
AGIEWKADSADAEKVIKFLREEMGVKKIRFPEHCGIGIKPCSEEGTKRLVRAAIEYAIANDRDSVTLVHKGNIMKFTEGA
FKDWGYQLAREEFGGELIDGGPWLKVKNPNTGKEIVIKDVIADAFLQQILLRPAEYDVIACMNLNGDYISDALAAQVGGI
GIAPGANIGDECALFEATHGTAPKYAGQDKVNPGSIILSAEMMLRHMGWTEAADLIVKGMEGAINAKTVTYDFERLMDGA
KLLKCSEFGDAIIENM
MESKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKVVDAAVEKAYKGERKISWMEIYTGEKSTQVYGQ
DVWLPAETLDLIREYRVAIKGPLTTPVGGGIRSLNVALRQELDLYICLRPVRYYQGTPSPVKHPELTDMVIFRENSEDIF
AGIEWKADSADAEKVIKFLREEMGVKKIRFPEHCGIGIKPCSEEGTKRLVRAAIEYAIANDRDSVTLVHKGNIMKFTEGA
FKDWGYQLAREEFGGELIDGGPWLKVKNPNTGKEIVIKDVIADAFLQQILLRPAEYDVIACMNLNGDYISDALAAQVGGI
GIAPGANIGDECALFEATHGTAPKYAGQDKVNPGSIILSAEMMLRHMGWTEAADLIVKGMEGAINAKTVTYDFERLMDGA
KLLKCSEFGDAIIENM
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
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n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
JLK1
sample
ICD
562
Escherichia coli
ICD(-) (DEFICIENT IN WT IDH GENE)
ICD
PEMBL (DENTE ET AL 1983 NUC ACIDS RES 11,1645)
BACTERIAL
PTK513
4.53
72.85
pdbx_database_status
struct_conf
struct_conf_type
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Derived calculations
Other
Database references
Derived calculations
Data collection
1
0
1996-03-08
1
1
2008-03-03
1
2
2011-07-13
1
3
2017-11-29
1
4
2021-11-03
1
5
2024-02-07
_pdbx_database_status.process_site
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr1_symmetry
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.ptnr3_symmetry
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_symmetry
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1995-01-18
REL
MG
MAGNESIUM ION
ICT
ISOCITRIC ACID
NAP
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
HOH
water
THE NICOTINAMIDE RING IN THIS Y160F DYNAMIC LAUE STRUCTURE
SHOWS VERY CLEAR SIGNS OF OCCUPYING AT LEAST TWO DISTINCT
CONFORMERS. THIS IS DUE TO THE FACT THAT THE ENZYME IS
TURNING OVER IN THE PRESENCE OF SATURATING SUBSTRATE
CONCENTRATIONS WHEN THE DATA IS COLLECTED IN THIS
EXPERIMENT, AND THE NICOTINAMIDE RING IS THE MOST MOBILE
STRUCTURAL ELEMENT IN THE FULL ENZYMATIC COMPLEX.
THE ELECTRON DENSITY FIGURE IN THE SCIENCE MANUSCRIPT
FOR Y160F INDICATES A LARGE DEGREE OF FREEDOM FOR THE
NICOTINAMIDE RING. THE STRUCTURE AND ORIENTATION OF THE
RING IN THIS COORDINATE SET SHOWS A SLIGHT ROTATION ABOUT
THE GLYCOSIDIC RIBOSYL-NICOTINAMIDE BOND RELATIVE TO THE
FIGURE IN THE PAPER; BOTH CONFORMERS HAVE BEEN
INDEPENDENTLY REFINED BUT THE AUTHORS HAVE DECIDED TO FAVOR
THIS MODEL IN THE FINAL DEPOSITED STRUCTURE AS IT (1)
AGREES WELL WITH MOLECULAR DYNAMICS SIMULATIONS, (2) HAS
GOOD GEOMETRY AND CONTACTS, (3) HAS AN ORIENTATION OF THE
NADP THAT AGREES WELL WITH OTHER DEHYDROGENASE COMPLEX
STRUCTURES, AND (4) AGREES WITH THE STRUCTURE OF THE BINARY
ISOCITRATE/MG+2 STRUCTURE (HURLEY ET AL. SCIENCE 1990, 249:
1012) AND THE STRUCTURE OF THE INACTIVE CALCIUM-COMPLEX
(STODDARD ET AL. BIOCHEMISTRY 1993 32: 9310.
MG
1
2
MG
MG
417
A
ICT
1
3
ICT
ICT
418
A
NAP
2
4
NAP
NAP
419
A
HOH
458
5
HOH
HOH
458
A
HOH
562
5
HOH
HOH
562
A
n
1
1
A
n
2
2
A
SER
3
n
3
SER
3
A
LYS
4
n
4
LYS
4
A
VAL
5
n
5
VAL
5
A
VAL
6
n
6
VAL
6
A
VAL
7
n
7
VAL
7
A
PRO
8
n
8
PRO
8
A
ALA
9
n
9
ALA
9
A
GLN
10
n
10
GLN
10
A
GLY
11
n
11
GLY
11
A
LYS
12
n
12
LYS
12
A
LYS
13
n
13
LYS
13
A
ILE
14
n
14
ILE
14
A
THR
15
n
15
THR
15
A
LEU
16
n
16
LEU
16
A
GLN
17
n
17
GLN
17
A
ASN
18
n
18
ASN
18
A
GLY
19
n
19
GLY
19
A
LYS
20
n
20
LYS
20
A
LEU
21
n
21
LEU
21
A
ASN
22
n
22
ASN
22
A
VAL
23
n
23
VAL
23
A
PRO
24
n
24
PRO
24
A
GLU
25
n
25
GLU
25
A
ASN
26
n
26
ASN
26
A
PRO
27
n
27
PRO
27
A
ILE
28
n
28
ILE
28
A
ILE
29
n
29
ILE
29
A
PRO
30
n
30
PRO
30
A
TYR
31
n
31
TYR
31
A
ILE
32
n
32
ILE
32
A
GLU
33
n
33
GLU
33
A
GLY
34
n
34
GLY
34
A
ASP
35
n
35
ASP
35
A
GLY
36
n
36
GLY
36
A
ILE
37
n
37
ILE
37
A
GLY
38
n
38
GLY
38
A
VAL
39
n
39
VAL
39
A
ASP
40
n
40
ASP
40
A
VAL
41
n
41
VAL
41
A
THR
42
n
42
THR
42
A
PRO
43
n
43
PRO
43
A
ALA
44
n
44
ALA
44
A
MET
45
n
45
MET
45
A
LEU
46
n
46
LEU
46
A
LYS
47
n
47
LYS
47
A
VAL
48
n
48
VAL
48
A
VAL
49
n
49
VAL
49
A
ASP
50
n
50
ASP
50
A
ALA
51
n
51
ALA
51
A
ALA
52
n
52
ALA
52
A
VAL
53
n
53
VAL
53
A
GLU
54
n
54
GLU
54
A
LYS
55
n
55
LYS
55
A
ALA
56
n
56
ALA
56
A
TYR
57
n
57
TYR
57
A
LYS
58
n
58
LYS
58
A
GLY
59
n
59
GLY
59
A
GLU
60
n
60
GLU
60
A
ARG
61
n
61
ARG
61
A
LYS
62
n
62
LYS
62
A
ILE
63
n
63
ILE
63
A
SER
64
n
64
SER
64
A
TRP
65
n
65
TRP
65
A
MET
66
n
66
MET
66
A
GLU
67
n
67
GLU
67
A
ILE
68
n
68
ILE
68
A
TYR
69
n
69
TYR
69
A
THR
70
n
70
THR
70
A
GLY
71
n
71
GLY
71
A
GLU
72
n
72
GLU
72
A
LYS
73
n
73
LYS
73
A
SER
74
n
74
SER
74
A
THR
75
n
75
THR
75
A
GLN
76
n
76
GLN
76
A
VAL
77
n
77
VAL
77
A
TYR
78
n
78
TYR
78
A
GLY
79
n
79
GLY
79
A
GLN
80
n
80
GLN
80
A
ASP
81
n
81
ASP
81
A
VAL
82
n
82
VAL
82
A
TRP
83
n
83
TRP
83
A
LEU
84
n
84
LEU
84
A
PRO
85
n
85
PRO
85
A
ALA
86
n
86
ALA
86
A
GLU
87
n
87
GLU
87
A
THR
88
n
88
THR
88
A
LEU
89
n
89
LEU
89
A
ASP
90
n
90
ASP
90
A
LEU
91
n
91
LEU
91
A
ILE
92
n
92
ILE
92
A
ARG
93
n
93
ARG
93
A
GLU
94
n
94
GLU
94
A
TYR
95
n
95
TYR
95
A
ARG
96
n
96
ARG
96
A
VAL
97
n
97
VAL
97
A
ALA
98
n
98
ALA
98
A
ILE
99
n
99
ILE
99
A
LYS
100
n
100
LYS
100
A
GLY
101
n
101
GLY
101
A
PRO
102
n
102
PRO
102
A
LEU
103
n
103
LEU
103
A
THR
104
n
104
THR
104
A
THR
105
n
105
THR
105
A
PRO
106
n
106
PRO
106
A
VAL
107
n
107
VAL
107
A
GLY
108
n
108
GLY
108
A
GLY
109
n
109
GLY
109
A
GLY
110
n
110
GLY
110
A
ILE
111
n
111
ILE
111
A
ARG
112
n
112
ARG
112
A
SER
113
n
113
SER
113
A
LEU
114
n
114
LEU
114
A
ASN
115
n
115
ASN
115
A
VAL
116
n
116
VAL
116
A
ALA
117
n
117
ALA
117
A
LEU
118
n
118
LEU
118
A
ARG
119
n
119
ARG
119
A
GLN
120
n
120
GLN
120
A
GLU
121
n
121
GLU
121
A
LEU
122
n
122
LEU
122
A
ASP
123
n
123
ASP
123
A
LEU
124
n
124
LEU
124
A
TYR
125
n
125
TYR
125
A
ILE
126
n
126
ILE
126
A
CYS
127
n
127
CYS
127
A
LEU
128
n
128
LEU
128
A
ARG
129
n
129
ARG
129
A
PRO
130
n
130
PRO
130
A
VAL
131
n
131
VAL
131
A
ARG
132
n
132
ARG
132
A
TYR
133
n
133
TYR
133
A
TYR
134
n
134
TYR
134
A
GLN
135
n
135
GLN
135
A
GLY
136
n
136
GLY
136
A
THR
137
n
137
THR
137
A
PRO
138
n
138
PRO
138
A
SER
139
n
139
SER
139
A
PRO
140
n
140
PRO
140
A
VAL
141
n
141
VAL
141
A
LYS
142
n
142
LYS
142
A
HIS
143
n
143
HIS
143
A
PRO
144
n
144
PRO
144
A
GLU
145
n
145
GLU
145
A
LEU
146
n
146
LEU
146
A
THR
147
n
147
THR
147
A
ASP
148
n
148
ASP
148
A
MET
149
n
149
MET
149
A
VAL
150
n
150
VAL
150
A
ILE
151
n
151
ILE
151
A
PHE
152
n
152
PHE
152
A
ARG
153
n
153
ARG
153
A
GLU
154
n
154
GLU
154
A
ASN
155
n
155
ASN
155
A
SER
156
n
156
SER
156
A
GLU
157
n
157
GLU
157
A
ASP
158
n
158
ASP
158
A
ILE
159
n
159
ILE
159
A
PHE
160
n
160
PHE
160
A
ALA
161
n
161
ALA
161
A
GLY
162
n
162
GLY
162
A
ILE
163
n
163
ILE
163
A
GLU
164
n
164
GLU
164
A
TRP
165
n
165
TRP
165
A
LYS
166
n
166
LYS
166
A
ALA
167
n
167
ALA
167
A
ASP
168
n
168
ASP
168
A
SER
169
n
169
SER
169
A
ALA
170
n
170
ALA
170
A
ASP
171
n
171
ASP
171
A
ALA
172
n
172
ALA
172
A
GLU
173
n
173
GLU
173
A
LYS
174
n
174
LYS
174
A
VAL
175
n
175
VAL
175
A
ILE
176
n
176
ILE
176
A
LYS
177
n
177
LYS
177
A
PHE
178
n
178
PHE
178
A
LEU
179
n
179
LEU
179
A
ARG
180
n
180
ARG
180
A
GLU
181
n
181
GLU
181
A
GLU
182
n
182
GLU
182
A
MET
183
n
183
MET
183
A
GLY
184
n
184
GLY
184
A
VAL
185
n
185
VAL
185
A
LYS
186
n
186
LYS
186
A
LYS
187
n
187
LYS
187
A
ILE
188
n
188
ILE
188
A
ARG
189
n
189
ARG
189
A
PHE
190
n
190
PHE
190
A
PRO
191
n
191
PRO
191
A
GLU
192
n
192
GLU
192
A
HIS
193
n
193
HIS
193
A
CYS
194
n
194
CYS
194
A
GLY
195
n
195
GLY
195
A
ILE
196
n
196
ILE
196
A
GLY
197
n
197
GLY
197
A
ILE
198
n
198
ILE
198
A
LYS
199
n
199
LYS
199
A
PRO
200
n
200
PRO
200
A
CYS
201
n
201
CYS
201
A
SER
202
n
202
SER
202
A
GLU
203
n
203
GLU
203
A
GLU
204
n
204
GLU
204
A
GLY
205
n
205
GLY
205
A
THR
206
n
206
THR
206
A
LYS
207
n
207
LYS
207
A
ARG
208
n
208
ARG
208
A
LEU
209
n
209
LEU
209
A
VAL
210
n
210
VAL
210
A
ARG
211
n
211
ARG
211
A
ALA
212
n
212
ALA
212
A
ALA
213
n
213
ALA
213
A
ILE
214
n
214
ILE
214
A
GLU
215
n
215
GLU
215
A
TYR
216
n
216
TYR
216
A
ALA
217
n
217
ALA
217
A
ILE
218
n
218
ILE
218
A
ALA
219
n
219
ALA
219
A
ASN
220
n
220
ASN
220
A
ASP
221
n
221
ASP
221
A
ARG
222
n
222
ARG
222
A
ASP
223
n
223
ASP
223
A
SER
224
n
224
SER
224
A
VAL
225
n
225
VAL
225
A
THR
226
n
226
THR
226
A
LEU
227
n
227
LEU
227
A
VAL
228
n
228
VAL
228
A
HIS
229
n
229
HIS
229
A
LYS
230
n
230
LYS
230
A
GLY
231
n
231
GLY
231
A
ASN
232
n
232
ASN
232
A
ILE
233
n
233
ILE
233
A
MET
234
n
234
MET
234
A
LYS
235
n
235
LYS
235
A
PHE
236
n
236
PHE
236
A
THR
237
n
237
THR
237
A
GLU
238
n
238
GLU
238
A
GLY
239
n
239
GLY
239
A
ALA
240
n
240
ALA
240
A
PHE
241
n
241
PHE
241
A
LYS
242
n
242
LYS
242
A
ASP
243
n
243
ASP
243
A
TRP
244
n
244
TRP
244
A
GLY
245
n
245
GLY
245
A
TYR
246
n
246
TYR
246
A
GLN
247
n
247
GLN
247
A
LEU
248
n
248
LEU
248
A
ALA
249
n
249
ALA
249
A
ARG
250
n
250
ARG
250
A
GLU
251
n
251
GLU
251
A
GLU
252
n
252
GLU
252
A
PHE
253
n
253
PHE
253
A
GLY
254
n
254
GLY
254
A
GLY
255
n
255
GLY
255
A
GLU
256
n
256
GLU
256
A
LEU
257
n
257
LEU
257
A
ILE
258
n
258
ILE
258
A
ASP
259
n
259
ASP
259
A
GLY
260
n
260
GLY
260
A
GLY
261
n
261
GLY
261
A
PRO
262
n
262
PRO
262
A
TRP
263
n
263
TRP
263
A
LEU
264
n
264
LEU
264
A
LYS
265
n
265
LYS
265
A
VAL
266
n
266
VAL
266
A
LYS
267
n
267
LYS
267
A
ASN
268
n
268
ASN
268
A
PRO
269
n
269
PRO
269
A
ASN
270
n
270
ASN
270
A
THR
271
n
271
THR
271
A
GLY
272
n
272
GLY
272
A
LYS
273
n
273
LYS
273
A
GLU
274
n
274
GLU
274
A
ILE
275
n
275
ILE
275
A
VAL
276
n
276
VAL
276
A
ILE
277
n
277
ILE
277
A
LYS
278
n
278
LYS
278
A
ASP
279
n
279
ASP
279
A
VAL
280
n
280
VAL
280
A
ILE
281
n
281
ILE
281
A
ALA
282
n
282
ALA
282
A
ASP
283
n
283
ASP
283
A
ALA
284
n
284
ALA
284
A
PHE
285
n
285
PHE
285
A
LEU
286
n
286
LEU
286
A
GLN
287
n
287
GLN
287
A
GLN
288
n
288
GLN
288
A
ILE
289
n
289
ILE
289
A
LEU
290
n
290
LEU
290
A
LEU
291
n
291
LEU
291
A
ARG
292
n
292
ARG
292
A
PRO
293
n
293
PRO
293
A
ALA
294
n
294
ALA
294
A
GLU
295
n
295
GLU
295
A
TYR
296
n
296
TYR
296
A
ASP
297
n
297
ASP
297
A
VAL
298
n
298
VAL
298
A
ILE
299
n
299
ILE
299
A
ALA
300
n
300
ALA
300
A
CYS
301
n
301
CYS
301
A
MET
302
n
302
MET
302
A
ASN
303
n
303
ASN
303
A
LEU
304
n
304
LEU
304
A
ASN
305
n
305
ASN
305
A
GLY
306
n
306
GLY
306
A
ASP
307
n
307
ASP
307
A
TYR
308
n
308
TYR
308
A
ILE
309
n
309
ILE
309
A
SER
310
n
310
SER
310
A
ASP
311
n
311
ASP
311
A
ALA
312
n
312
ALA
312
A
LEU
313
n
313
LEU
313
A
ALA
314
n
314
ALA
314
A
ALA
315
n
315
ALA
315
A
GLN
316
n
316
GLN
316
A
VAL
317
n
317
VAL
317
A
GLY
318
n
318
GLY
318
A
GLY
319
n
319
GLY
319
A
ILE
320
n
320
ILE
320
A
GLY
321
n
321
GLY
321
A
ILE
322
n
322
ILE
322
A
ALA
323
n
323
ALA
323
A
PRO
324
n
324
PRO
324
A
GLY
325
n
325
GLY
325
A
ALA
326
n
326
ALA
326
A
ASN
327
n
327
ASN
327
A
ILE
328
n
328
ILE
328
A
GLY
329
n
329
GLY
329
A
ASP
330
n
330
ASP
330
A
GLU
331
n
331
GLU
331
A
CYS
332
n
332
CYS
332
A
ALA
333
n
333
ALA
333
A
LEU
334
n
334
LEU
334
A
PHE
335
n
335
PHE
335
A
GLU
336
n
336
GLU
336
A
ALA
337
n
337
ALA
337
A
THR
338
n
338
THR
338
A
HIS
339
n
339
HIS
339
A
GLY
340
n
340
GLY
340
A
THR
341
n
341
THR
341
A
ALA
342
n
342
ALA
342
A
PRO
343
n
343
PRO
343
A
LYS
344
n
344
LYS
344
A
TYR
345
n
345
TYR
345
A
ALA
346
n
346
ALA
346
A
GLY
347
n
347
GLY
347
A
GLN
348
n
348
GLN
348
A
ASP
349
n
349
ASP
349
A
LYS
350
n
350
LYS
350
A
VAL
351
n
351
VAL
351
A
ASN
352
n
352
ASN
352
A
PRO
353
n
353
PRO
353
A
GLY
354
n
354
GLY
354
A
SER
355
n
355
SER
355
A
ILE
356
n
356
ILE
356
A
ILE
357
n
357
ILE
357
A
LEU
358
n
358
LEU
358
A
SER
359
n
359
SER
359
A
ALA
360
n
360
ALA
360
A
GLU
361
n
361
GLU
361
A
MET
362
n
362
MET
362
A
MET
363
n
363
MET
363
A
LEU
364
n
364
LEU
364
A
ARG
365
n
365
ARG
365
A
HIS
366
n
366
HIS
366
A
MET
367
n
367
MET
367
A
GLY
368
n
368
GLY
368
A
TRP
369
n
369
TRP
369
A
THR
370
n
370
THR
370
A
GLU
371
n
371
GLU
371
A
ALA
372
n
372
ALA
372
A
ALA
373
n
373
ALA
373
A
ASP
374
n
374
ASP
374
A
LEU
375
n
375
LEU
375
A
ILE
376
n
376
ILE
376
A
VAL
377
n
377
VAL
377
A
LYS
378
n
378
LYS
378
A
GLY
379
n
379
GLY
379
A
MET
380
n
380
MET
380
A
GLU
381
n
381
GLU
381
A
GLY
382
n
382
GLY
382
A
ALA
383
n
383
ALA
383
A
ILE
384
n
384
ILE
384
A
ASN
385
n
385
ASN
385
A
ALA
386
n
386
ALA
386
A
LYS
387
n
387
LYS
387
A
THR
388
n
388
THR
388
A
VAL
389
n
389
VAL
389
A
THR
390
n
390
THR
390
A
TYR
391
n
391
TYR
391
A
ASP
392
n
392
ASP
392
A
PHE
393
n
393
PHE
393
A
GLU
394
n
394
GLU
394
A
ARG
395
n
395
ARG
395
A
LEU
396
n
396
LEU
396
A
MET
397
n
397
MET
397
A
ASP
398
n
398
ASP
398
A
GLY
399
n
399
GLY
399
A
ALA
400
n
400
ALA
400
A
LYS
401
n
401
LYS
401
A
LEU
402
n
402
LEU
402
A
LEU
403
n
403
LEU
403
A
LYS
404
n
404
LYS
404
A
CYS
405
n
405
CYS
405
A
SER
406
n
406
SER
406
A
GLU
407
n
407
GLU
407
A
PHE
408
n
408
PHE
408
A
GLY
409
n
409
GLY
409
A
ASP
410
n
410
ASP
410
A
ALA
411
n
411
ALA
411
A
ILE
412
n
412
ILE
412
A
ILE
413
n
413
ILE
413
A
GLU
414
n
414
GLU
414
A
ASN
415
n
415
ASN
415
A
MET
416
n
416
MET
416
A
author_and_software_defined_assembly
PISA,PQS
2
dimeric
10070
-58
31370
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
A
ASP
307
A
OD1
ASP
307
1_555
72.8
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O7
ICT
1_555
71.8
A
ASP
307
A
OD1
ASP
307
1_555
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O7
ICT
1_555
106.3
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O2
ICT
1_555
142.0
A
ASP
307
A
OD1
ASP
307
1_555
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O2
ICT
1_555
128.2
A
ICT
418
C
O7
ICT
1_555
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O2
ICT
1_555
71.6
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
A
HOH
458
E
O
HOH
1_555
141.7
A
ASP
307
A
OD1
ASP
307
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
458
E
O
HOH
1_555
98.5
A
ICT
418
C
O7
ICT
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
458
E
O
HOH
1_555
144.1
A
ICT
418
C
O2
ICT
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
458
E
O
HOH
1_555
72.7
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
71.6
A
ASP
307
A
OD1
ASP
307
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
138.3
A
ICT
418
C
O7
ICT
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
82.3
A
ICT
418
C
O2
ICT
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
93.4
A
HOH
458
E
O
HOH
1_555
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
96.2
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
0.0000000000
1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
7_555
y,x,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
1
A
MET
1
A
MET
1
1
Y
1
A
GLU
2
A
GLU
2
1
Y
1
A
C3D
NAP
419
WRONG HAND
1
A
TYR
95
0.069
SIDE CHAIN
1
15.04
2.30
115.30
130.34
A
A
A
CA
CB
CG
LEU
LEU
LEU
290
290
290
N
1
6.51
0.90
118.30
124.81
A
A
A
CB
CG
OD1
ASP
ASP
ASP
307
307
307
N
1
9.68
1.50
119.30
128.98
A
A
A
C
N
CA
ALA
PRO
PRO
342
343
343
Y
1
18.22
2.30
115.30
133.52
A
A
A
CA
CB
CG
LEU
LEU
LEU
396
396
396
N
1
A
A
HD21
O4
ASN
ICT
232
418
1.38
1_555
7_555
1
A
ASN
18
63.82
77.95
1
A
PRO
24
-61.94
-177.02
1
A
ILE
37
-59.38
-2.43
1
A
ASP
40
-89.87
-76.37
1
A
ASP
81
164.54
-21.93
1
A
ARG
96
80.95
-46.80
1
A
PRO
138
-52.69
109.96
1
A
ASP
148
-156.24
79.94
1
A
GLU
157
-129.48
-151.28
1
A
ASP
158
69.86
175.54
1
A
ASP
168
81.76
-5.94
1
A
LYS
186
-84.85
38.44
1
A
HIS
193
47.33
74.74
1
A
THR
237
-116.23
-73.59
1
A
GLU
251
-60.52
-75.32
1
A
ASP
259
52.49
-116.20
1
A
ASP
297
-133.75
-97.92
1
A
ALA
342
56.77
94.41
1
A
PRO
343
-60.14
0.38
1
A
LYS
387
39.79
35.97
1
A
ASP
398
-69.51
88.37
DATA COLLECTED FROM FOUR SEPARATE CRYSTALS AT X26-C (POLYCHROMATIC LAUE BEAM LINE AT BROOKHAVEN NATIONAL LABORATORY) AND MERGED TOGETHER WITH LAUENORM IN OXFORD LAUE DATA REDUCTION PACKAGE
0.192
0.192
2.5
17043
1
2.0
2.5
2
3259
62
0
3195
0.019
3.794
26.2
2.539
1IDE
17043
1.
0.084
1
17.3
61.
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
data reduction
OXFORD
LAUE PACKAGE (J.CAMPBELL)
phasing
X-PLOR
3.1
ISOCITRATE DEHYDROGENASE Y160F MUTANT STEADY-STATE INTERMEDIATE COMPLEX (LAUE DETERMINATION)
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
A
ILE
37
A
ILE
37
HELX_P
A
LYS
58
A
LYS
58
1
HA
22
A
THR
70
A
THR
70
HELX_P
A
TYR
78
A
TYR
78
1
HB
9
A
PRO
85
A
PRO
85
HELX_P
A
TYR
95
A
TYR
95
1
HC
11
A
SER
113
A
SER
113
HELX_P
A
LEU
124
A
LEU
124
1
HD
12
A
ASP
168
A
ASP
168
HELX_P
A
MET
183
A
MET
183
1
HE
16
A
GLU
203
A
GLU
203
HELX_P
A
ARG
222
A
ARG
222
1
HF
20
A
LYS
235
A
LYS
235
HELX_P
A
PHE
253
A
PHE
253
1
HG
19
A
ILE
281
A
ILE
281
HELX_P
A
LEU
291
A
LEU
291
1
HH
11
A
ASN
303
A
ASN
303
HELX_P
A
VAL
317
A
VAL
317
1
HI
15
A
PRO
353
A
PRO
353
HELX_P
A
MET
367
A
MET
367
1
HJ
15
A
TRP
369
A
TRP
369
HELX_P
A
THR
388
A
THR
388
1
HK
20
A
THR
390
A
THR
390
HELX_P
A
MET
397
A
MET
397
1
HL
8
A
LYS
404
A
LYS
404
HELX_P
A
ASN
415
A
ASN
415
1
HM
12
metalc
2.447
A
ASP
283
A
OD2
ASP
283
7_555
A
MG
417
B
MG
MG
1_555
metalc
2.019
A
ASP
307
A
OD1
ASP
307
1_555
A
MG
417
B
MG
MG
1_555
metalc
2.214
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O7
ICT
1_555
metalc
2.193
A
MG
417
B
MG
MG
1_555
A
ICT
418
C
O2
ICT
1_555
metalc
2.130
A
MG
417
B
MG
MG
1_555
A
HOH
458
E
O
HOH
1_555
metalc
2.195
A
MG
417
B
MG
MG
1_555
A
HOH
562
E
O
HOH
1_555
OXIDOREDUCTASE (NAD(A)-CHOH(D))
OXIDOREDUCTASE (NAD(A)-CHOH(D))
A
GLY
261
A
GLY
261
1
A
PRO
262
A
PRO
262
-1.20
IDH_ECOLI
UNP
1
1
P08200
MESKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKVVDAAVEKAYKGERKISWMEIYTGEKSTQVYGQ
DVWLPAETLDLIREYRVAIKGPLTTPVGGGIRSLNVALRQELDLYICLRPVRYYQGTPSPVKHPELTDMVIFRENSEDIY
AGIEWKADSADAEKVIKFLREEMGVKKIRFPEHCGIGIKPCSEEGTKRLVRAAIEYAIANDRDSVTLVHKGNIMKFTEGA
FKDWGYQLAREEFGGELIDGGPWLKVKNPNTGKEIVIKDVIADAFLQQILLRPAEYDVIACMNLNGDYISDALAAQVGGI
GIAPGANIGDECALFEATHGTAPKYAGQDKVNPGSIILSAEMMLRHMGWTEAADLIVKGMEGAINAKTVTYDFERLMDGA
KLLKCSEFGDAIIENM
1
416
1IDE
1
416
P08200
A
1
1
416
1
TYR
engineered mutation
PHE
160
1IDE
A
P08200
UNP
160
160
12
2
parallel
parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
parallel
parallel
anti-parallel
anti-parallel
anti-parallel
A
ARG
61
A
ARG
61
A
ILE
68
A
ILE
68
A
GLU
25
A
GLU
25
A
ILE
32
A
ILE
32
A
ARG
96
A
ARG
96
A
LYS
100
A
LYS
100
A
ALA
333
A
ALA
333
A
GLU
336
A
GLU
336
A
GLY
325
A
GLY
325
A
ILE
328
A
ILE
328
A
TYR
125
A
TYR
125
A
ARG
132
A
ARG
132
A
THR
147
A
THR
147
A
ARG
153
A
ARG
153
A
ASP
297
A
ASP
297
A
MET
302
A
MET
302
A
SER
224
A
SER
224
A
HIS
229
A
HIS
229
A
LYS
273
A
LYS
273
A
VAL
280
A
VAL
280
A
LEU
264
A
LEU
264
A
LYS
267
A
LYS
267
A
GLY
254
A
GLY
254
A
GLU
256
A
GLU
256
A
ILE
163
A
ILE
163
A
ALA
167
A
ALA
167
A
HIS
193
A
HIS
193
A
SER
202
A
SER
202
ISOCITRATE/MG++ BINDING SITE
Author
8
BINDING SITE FOR RESIDUE MG A 417
A
MG
417
Software
6
BINDING SITE FOR RESIDUE ICT A 418
A
ICT
418
Software
11
BINDING SITE FOR RESIDUE NAP A 419
A
NAP
419
Software
17
A
SER
113
A
SER
113
8
1_555
A
ASN
115
A
ASN
115
8
1_555
A
ARG
119
A
ARG
119
8
1_555
A
ARG
129
A
ARG
129
8
1_555
A
ARG
153
A
ARG
153
8
1_555
A
PHE
160
A
PHE
160
8
1_555
A
ASP
307
A
ASP
307
8
1_555
A
ASP
311
A
ASP
311
8
1_555
A
ASP
283
A
ASP
283
6
7_555
A
ASP
307
A
ASP
307
6
1_555
A
ASP
311
A
ASP
311
6
1_555
A
ICT
418
C
ICT
6
1_555
A
HOH
458
E
HOH
6
1_555
A
HOH
562
E
HOH
6
1_555
A
ARG
119
A
ARG
119
11
1_555
A
ARG
129
A
ARG
129
11
1_555
A
ARG
153
A
ARG
153
11
1_555
A
PHE
160
A
PHE
160
11
1_555
A
ASN
232
A
ASN
232
11
7_555
A
ASP
283
A
ASP
283
11
7_555
A
ASP
307
A
ASP
307
11
1_555
A
MG
417
B
MG
11
1_555
A
NAP
419
D
NAP
11
1_555
A
HOH
458
E
HOH
11
1_555
A
HOH
562
E
HOH
11
1_555
A
ILE
37
A
ILE
37
17
1_555
A
PRO
102
A
PRO
102
17
1_555
A
LEU
103
A
LEU
103
17
1_555
A
THR
104
A
THR
104
17
1_555
A
ASN
115
A
ASN
115
17
1_555
A
ALA
337
A
ALA
337
17
1_555
A
THR
338
A
THR
338
17
1_555
A
HIS
339
A
HIS
339
17
1_555
A
GLY
340
A
GLY
340
17
1_555
A
ALA
342
A
ALA
342
17
1_555
A
PRO
343
A
PRO
343
17
1_555
A
TYR
345
A
TYR
345
17
1_555
A
VAL
351
A
VAL
351
17
1_555
A
ASN
352
A
ASN
352
17
1_555
A
TYR
391
A
TYR
391
17
1_555
A
ASP
392
A
ASP
392
17
1_555
A
ICT
418
C
ICT
17
1_555
96
P 43 21 2