0.012398
0.000000
0.003121
0.000000
0.015131
0.000000
0.000000
0.000000
0.013649
0.000000
0.000000
0.000000
Shabalin, I.G.
Polyakov, K.M.
Filippova, E.V.
Dorovatovskiy, P.V.
Tikhonova, T.V.
Sadykhov, E.G.
Tishkov, V.I.
Popov, V.O.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.000
104.130
90.000
80.660
66.089
75.551
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
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
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
C
N
138
N
O
N
139
N
C
N
140
N
O
N
141
N
C
N
142
N
O
N
143
N
H
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
N
N
152
S
C
N
153
N
C
N
154
N
O
N
155
N
C
Y
156
N
C
Y
157
N
N
Y
158
N
C
Y
159
N
C
Y
160
N
N
N
161
N
O
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
O
N
173
N
H
N
174
N
H
N
175
N
N
N
176
S
C
N
177
N
C
N
178
N
O
N
179
S
C
N
180
N
C
N
181
N
C
N
182
N
C
N
183
N
O
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
N
N
198
S
C
N
199
N
C
N
200
N
O
N
201
N
C
N
202
N
C
N
203
N
C
N
204
N
C
N
205
N
O
N
206
N
H
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
N
N
220
S
C
N
221
N
C
N
222
N
O
N
223
N
C
N
224
N
C
N
225
N
C
N
226
N
C
N
227
N
N
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
H
N
243
N
H
N
244
N
N
N
245
S
C
N
246
N
C
N
247
N
O
N
248
N
C
N
249
N
C
N
250
N
S
N
251
N
C
N
252
N
O
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
N
N
265
S
C
N
266
N
C
N
267
N
O
N
268
N
C
Y
269
N
C
Y
270
N
C
Y
271
N
C
Y
272
N
C
Y
273
N
C
Y
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
N
N
288
S
C
N
289
N
C
N
290
N
O
N
291
N
C
N
292
N
C
N
293
N
C
N
294
N
O
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
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
N
C
N
309
N
O
N
310
N
O
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
S
N
319
N
O
N
320
N
O
N
321
N
O
N
322
N
O
N
323
N
N
N
324
S
C
N
325
N
C
N
326
N
O
N
327
R
C
N
328
N
O
N
329
N
C
N
330
N
O
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
Y
345
N
C
Y
346
N
C
Y
347
N
C
Y
348
N
N
Y
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
N
354
N
O
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
N
N
368
S
C
N
369
N
C
N
370
N
O
N
371
N
C
Y
372
N
C
Y
373
N
C
Y
374
N
C
Y
375
N
C
Y
376
N
C
Y
377
N
C
N
378
N
O
N
379
N
O
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
N
N
392
S
C
N
393
N
C
N
394
N
O
N
395
N
C
N
396
N
C
N
397
N
C
N
398
N
O
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
H
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
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
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
Y
153
N
sing
Y
154
N
doub
Y
155
N
doub
N
156
N
sing
Y
157
N
sing
N
158
N
sing
Y
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
doub
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
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
doub
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
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
doub
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
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
doub
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
N
256
N
doub
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
Y
261
N
doub
Y
262
N
sing
Y
263
N
sing
N
264
N
sing
Y
265
N
doub
N
266
N
sing
Y
267
N
doub
N
268
N
sing
Y
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
doub
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
N
293
N
sing
N
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
doub
N
304
N
doub
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
doub
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
doub
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
Y
334
N
doub
Y
335
N
sing
Y
336
N
sing
N
337
N
sing
Y
338
N
doub
Y
339
N
sing
Y
340
N
sing
N
341
N
sing
Y
342
N
sing
Y
343
N
doub
N
344
N
sing
Y
345
N
doub
N
346
N
sing
Y
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
sing
N
355
N
sing
N
356
N
sing
N
357
N
doub
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
Y
362
N
doub
Y
363
N
sing
Y
364
N
sing
N
365
N
sing
Y
366
N
doub
N
367
N
sing
Y
368
N
doub
N
369
N
sing
Y
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
doub
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
sing
N
391
N
sing
N
392
N
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
65
1315
1325
10.1107/S0907444909040773
19966418
Structures of the apo and holo forms of formate dehydrogenase from the bacterium Moraxella sp. C-1: towards understanding the mechanism of the closure of the interdomain cleft
2009
10.2210/pdb3fn4/pdb
pdb_00003fn4
100
1
CCD
2006-06-22
MAR CCD 165 mm
SINGLE WAVELENGTH
M
x-ray
1
1.05
1.0
K4.4
KURCHATOV SNC
1.05
SYNCHROTRON
KURCHATOV SNC BEAMLINE K4.4
44067.629
NAD-dependent formate dehydrogenase
1.2.1.2
1
man
polymer
92.094
GLYCEROL
1
syn
non-polymer
96.063
SULFATE ION
1
syn
non-polymer
18.015
water
97
nat
water
no
no
AKVVCVLYDDPINGYPTSYARDDLPRIDKYPDGQTLPTPKAIDFTPGALLGSVSGELGLRKYLESQGHELVVTSSKDGPD
SELEKHLHDAEVIISQPFWPAYLTAERIAKAPKLKLALTAGIGSDHVDLQAAIDNNITVAEVTYCNSNSVAEHVVMMVLG
LVRNYIPSHDWARNGGWNIADCVARSYDVEGMHVGTVAAGRIGLRVLRLLAPFDMHLHYTDRHRLPEAVEKELNLTWHAT
REDMYGACDVVTLNCPLHPETEHMINDETLKLFKRGAYLVNTARGKLCDRDAIVRALESGRLAGYAGDVWFPQPAPNDHP
WRTMPHNGMTPHISGTSLSAQTRYAAGTREILECYFEGRPIRDEYLIVQGGGLAGVGAHSYSKGNATGGSEEAAKYEKLD
A
AKVVCVLYDDPINGYPTSYARDDLPRIDKYPDGQTLPTPKAIDFTPGALLGSVSGELGLRKYLESQGHELVVTSSKDGPD
SELEKHLHDAEVIISQPFWPAYLTAERIAKAPKLKLALTAGIGSDHVDLQAAIDNNITVAEVTYCNSNSVAEHVVMMVLG
LVRNYIPSHDWARNGGWNIADCVARSYDVEGMHVGTVAAGRIGLRVLRLLAPFDMHLHYTDRHRLPEAVEKELNLTWHAT
REDMYGACDVVTLNCPLHPETEHMINDETLKLFKRGAYLVNTARGKLCDRDAIVRALESGRLAGYAGDVWFPQPAPNDHP
WRTMPHNGMTPHISGTSLSAQTRYAAGTREILECYFEGRPIRDEYLIVQGGGLAGVGAHSYSKGNATGGSEEAAKYEKLD
A
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
C-1
sample
fdh
479
Moraxella sp.
562
Escherichia coli
Bl21(DE3)
plasmid
pMxFDH8a
1
2.22
44.49
VAPOR DIFFUSION, HANGING DROP
7.5
Protein solution (2mcl): 10.5 mg/ml FDH, 0.1M Na2HPO4 pH 7.0, Reservoir solution (2mcl): 0.1M HEPES pH 7.5, 2.2M Ammonium Sulfate, 2% PEG 400, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_site
repository
Initial release
Non-polymer description
Version format compliance
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2009-12-01
1
1
2011-07-13
1
2
2017-11-01
1
3
2023-09-06
_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
FDH from Moraxella sp.C-1 in holo-form
FDH from Pdeudomonas sp.101 in apo-form
FDH from Pdeudomonas sp.101 in holo-form
FDH from Candida boidinii in apo-form
RCSB
Y
RCSB
2008-12-23
REL
REL
GOL
GLYCEROL
SO4
SULFATE ION
HOH
water
2GSD
PDB ENTRY 2GSD
PDB
experimental model
GOL
1
2
GOL
GOL
402
A
SO4
3
3
SO4
SO4
403
A
HOH
1
4
HOH
HOH
404
A
HOH
2
4
HOH
HOH
405
A
HOH
3
4
HOH
HOH
406
A
HOH
4
4
HOH
HOH
407
A
HOH
5
4
HOH
HOH
408
A
HOH
6
4
HOH
HOH
409
A
HOH
7
4
HOH
HOH
410
A
HOH
8
4
HOH
HOH
411
A
HOH
9
4
HOH
HOH
412
A
HOH
10
4
HOH
HOH
413
A
HOH
11
4
HOH
HOH
414
A
HOH
12
4
HOH
HOH
415
A
HOH
13
4
HOH
HOH
416
A
HOH
14
4
HOH
HOH
417
A
HOH
15
4
HOH
HOH
418
A
HOH
16
4
HOH
HOH
419
A
HOH
17
4
HOH
HOH
420
A
HOH
18
4
HOH
HOH
421
A
HOH
19
4
HOH
HOH
422
A
HOH
20
4
HOH
HOH
423
A
HOH
21
4
HOH
HOH
424
A
HOH
22
4
HOH
HOH
425
A
HOH
23
4
HOH
HOH
426
A
HOH
24
4
HOH
HOH
427
A
HOH
25
4
HOH
HOH
428
A
HOH
26
4
HOH
HOH
429
A
HOH
27
4
HOH
HOH
430
A
HOH
28
4
HOH
HOH
431
A
HOH
29
4
HOH
HOH
432
A
HOH
30
4
HOH
HOH
433
A
HOH
31
4
HOH
HOH
434
A
HOH
32
4
HOH
HOH
435
A
HOH
33
4
HOH
HOH
436
A
HOH
34
4
HOH
HOH
437
A
HOH
35
4
HOH
HOH
438
A
HOH
36
4
HOH
HOH
439
A
HOH
37
4
HOH
HOH
440
A
HOH
38
4
HOH
HOH
441
A
HOH
39
4
HOH
HOH
442
A
HOH
40
4
HOH
HOH
443
A
HOH
41
4
HOH
HOH
444
A
HOH
42
4
HOH
HOH
445
A
HOH
43
4
HOH
HOH
446
A
HOH
44
4
HOH
HOH
447
A
HOH
45
4
HOH
HOH
448
A
HOH
46
4
HOH
HOH
449
A
HOH
47
4
HOH
HOH
450
A
HOH
48
4
HOH
HOH
451
A
HOH
49
4
HOH
HOH
452
A
HOH
50
4
HOH
HOH
453
A
HOH
51
4
HOH
HOH
454
A
HOH
52
4
HOH
HOH
455
A
HOH
53
4
HOH
HOH
456
A
HOH
54
4
HOH
HOH
457
A
HOH
55
4
HOH
HOH
458
A
HOH
56
4
HOH
HOH
459
A
HOH
57
4
HOH
HOH
460
A
HOH
58
4
HOH
HOH
461
A
HOH
59
4
HOH
HOH
462
A
HOH
60
4
HOH
HOH
463
A
HOH
61
4
HOH
HOH
464
A
HOH
62
4
HOH
HOH
465
A
HOH
63
4
HOH
HOH
466
A
HOH
64
4
HOH
HOH
467
A
HOH
65
4
HOH
HOH
468
A
HOH
66
4
HOH
HOH
469
A
HOH
67
4
HOH
HOH
470
A
HOH
68
4
HOH
HOH
471
A
HOH
69
4
HOH
HOH
472
A
HOH
70
4
HOH
HOH
473
A
HOH
71
4
HOH
HOH
474
A
HOH
72
4
HOH
HOH
475
A
HOH
73
4
HOH
HOH
476
A
HOH
74
4
HOH
HOH
477
A
HOH
75
4
HOH
HOH
478
A
HOH
76
4
HOH
HOH
479
A
HOH
77
4
HOH
HOH
480
A
HOH
78
4
HOH
HOH
481
A
HOH
79
4
HOH
HOH
482
A
HOH
80
4
HOH
HOH
483
A
HOH
81
4
HOH
HOH
484
A
HOH
82
4
HOH
HOH
485
A
HOH
83
4
HOH
HOH
486
A
HOH
84
4
HOH
HOH
487
A
HOH
85
4
HOH
HOH
488
A
HOH
86
4
HOH
HOH
489
A
HOH
87
4
HOH
HOH
490
A
HOH
88
4
HOH
HOH
491
A
HOH
89
4
HOH
HOH
492
A
HOH
90
4
HOH
HOH
493
A
HOH
91
4
HOH
HOH
494
A
HOH
92
4
HOH
HOH
495
A
HOH
93
4
HOH
HOH
496
A
HOH
94
4
HOH
HOH
497
A
HOH
95
4
HOH
HOH
498
A
HOH
96
4
HOH
HOH
499
A
HOH
97
4
HOH
HOH
500
A
ALA
1
n
1
ALA
1
A
LYS
2
n
2
LYS
2
A
VAL
3
n
3
VAL
3
A
VAL
4
n
4
VAL
4
A
CYS
5
n
5
CYS
5
A
VAL
6
n
6
VAL
6
A
LEU
7
n
7
LEU
7
A
TYR
8
n
8
TYR
8
A
ASP
9
n
9
ASP
9
A
ASP
10
n
10
ASP
10
A
PRO
11
n
11
PRO
11
A
ILE
12
n
12
ILE
12
A
ASN
13
n
13
ASN
13
A
GLY
14
n
14
GLY
14
A
TYR
15
n
15
TYR
15
A
PRO
16
n
16
PRO
16
A
THR
17
n
17
THR
17
A
SER
18
n
18
SER
18
A
TYR
19
n
19
TYR
19
A
ALA
20
n
20
ALA
20
A
ARG
21
n
21
ARG
21
A
ASP
22
n
22
ASP
22
A
ASP
23
n
23
ASP
23
A
LEU
24
n
24
LEU
24
A
PRO
25
n
25
PRO
25
A
ARG
26
n
26
ARG
26
A
ILE
27
n
27
ILE
27
A
ASP
28
n
28
ASP
28
A
LYS
29
n
29
LYS
29
A
TYR
30
n
30
TYR
30
A
PRO
31
n
31
PRO
31
A
ASP
32
n
32
ASP
32
A
GLY
33
n
33
GLY
33
A
GLN
34
n
34
GLN
34
A
THR
35
n
35
THR
35
A
LEU
36
n
36
LEU
36
A
PRO
37
n
37
PRO
37
A
THR
38
n
38
THR
38
A
PRO
39
n
39
PRO
39
A
LYS
40
n
40
LYS
40
A
ALA
41
n
41
ALA
41
A
ILE
42
n
42
ILE
42
A
ASP
43
n
43
ASP
43
A
PHE
44
n
44
PHE
44
A
THR
45
n
45
THR
45
A
PRO
46
n
46
PRO
46
A
GLY
47
n
47
GLY
47
A
ALA
48
n
48
ALA
48
A
LEU
49
n
49
LEU
49
A
LEU
50
n
50
LEU
50
A
GLY
51
n
51
GLY
51
A
SER
52
n
52
SER
52
A
VAL
53
n
53
VAL
53
A
SER
54
n
54
SER
54
A
GLY
55
n
55
GLY
55
A
GLU
56
n
56
GLU
56
A
LEU
57
n
57
LEU
57
A
GLY
58
n
58
GLY
58
A
LEU
59
n
59
LEU
59
A
ARG
60
n
60
ARG
60
A
LYS
61
n
61
LYS
61
A
TYR
62
n
62
TYR
62
A
LEU
63
n
63
LEU
63
A
GLU
64
n
64
GLU
64
A
SER
65
n
65
SER
65
A
GLN
66
n
66
GLN
66
A
GLY
67
n
67
GLY
67
A
HIS
68
n
68
HIS
68
A
GLU
69
n
69
GLU
69
A
LEU
70
n
70
LEU
70
A
VAL
71
n
71
VAL
71
A
VAL
72
n
72
VAL
72
A
THR
73
n
73
THR
73
A
SER
74
n
74
SER
74
A
SER
75
n
75
SER
75
A
LYS
76
n
76
LYS
76
A
ASP
77
n
77
ASP
77
A
GLY
78
n
78
GLY
78
A
PRO
79
n
79
PRO
79
A
ASP
80
n
80
ASP
80
A
SER
81
n
81
SER
81
A
GLU
82
n
82
GLU
82
A
LEU
83
n
83
LEU
83
A
GLU
84
n
84
GLU
84
A
LYS
85
n
85
LYS
85
A
HIS
86
n
86
HIS
86
A
LEU
87
n
87
LEU
87
A
HIS
88
n
88
HIS
88
A
ASP
89
n
89
ASP
89
A
ALA
90
n
90
ALA
90
A
GLU
91
n
91
GLU
91
A
VAL
92
n
92
VAL
92
A
ILE
93
n
93
ILE
93
A
ILE
94
n
94
ILE
94
A
SER
95
n
95
SER
95
A
GLN
96
n
96
GLN
96
A
PRO
97
n
97
PRO
97
A
PHE
98
n
98
PHE
98
A
TRP
99
n
99
TRP
99
A
PRO
100
n
100
PRO
100
A
ALA
101
n
101
ALA
101
A
TYR
102
n
102
TYR
102
A
LEU
103
n
103
LEU
103
A
THR
104
n
104
THR
104
A
ALA
105
n
105
ALA
105
A
GLU
106
n
106
GLU
106
A
ARG
107
n
107
ARG
107
A
ILE
108
n
108
ILE
108
A
ALA
109
n
109
ALA
109
A
LYS
110
n
110
LYS
110
A
ALA
111
n
111
ALA
111
A
PRO
112
n
112
PRO
112
A
LYS
113
n
113
LYS
113
A
LEU
114
n
114
LEU
114
A
LYS
115
n
115
LYS
115
A
LEU
116
n
116
LEU
116
A
ALA
117
n
117
ALA
117
A
LEU
118
n
118
LEU
118
A
THR
119
n
119
THR
119
A
ALA
120
n
120
ALA
120
A
GLY
121
n
121
GLY
121
A
ILE
122
n
122
ILE
122
A
GLY
123
n
123
GLY
123
A
SER
124
n
124
SER
124
A
ASP
125
n
125
ASP
125
A
HIS
126
n
126
HIS
126
A
VAL
127
n
127
VAL
127
A
ASP
128
n
128
ASP
128
A
LEU
129
n
129
LEU
129
A
GLN
130
n
130
GLN
130
A
ALA
131
n
131
ALA
131
A
ALA
132
n
132
ALA
132
A
ILE
133
n
133
ILE
133
A
ASP
134
n
134
ASP
134
A
ASN
135
n
135
ASN
135
A
ASN
136
n
136
ASN
136
A
ILE
137
n
137
ILE
137
A
THR
138
n
138
THR
138
A
VAL
139
n
139
VAL
139
A
ALA
140
n
140
ALA
140
A
GLU
141
n
141
GLU
141
A
VAL
142
n
142
VAL
142
A
THR
143
n
143
THR
143
A
TYR
144
n
144
TYR
144
A
CYS
145
n
145
CYS
145
A
ASN
146
n
146
ASN
146
A
SER
147
n
147
SER
147
A
ASN
148
n
148
ASN
148
A
SER
149
n
149
SER
149
A
VAL
150
n
150
VAL
150
A
ALA
151
n
151
ALA
151
A
GLU
152
n
152
GLU
152
A
HIS
153
n
153
HIS
153
A
VAL
154
n
154
VAL
154
A
VAL
155
n
155
VAL
155
A
MET
156
n
156
MET
156
A
MET
157
n
157
MET
157
A
VAL
158
n
158
VAL
158
A
LEU
159
n
159
LEU
159
A
GLY
160
n
160
GLY
160
A
LEU
161
n
161
LEU
161
A
VAL
162
n
162
VAL
162
A
ARG
163
n
163
ARG
163
A
ASN
164
n
164
ASN
164
A
TYR
165
n
165
TYR
165
A
ILE
166
n
166
ILE
166
A
PRO
167
n
167
PRO
167
A
SER
168
n
168
SER
168
A
HIS
169
n
169
HIS
169
A
ASP
170
n
170
ASP
170
A
TRP
171
n
171
TRP
171
A
ALA
172
n
172
ALA
172
A
ARG
173
n
173
ARG
173
A
ASN
174
n
174
ASN
174
A
GLY
175
n
175
GLY
175
A
GLY
176
n
176
GLY
176
A
TRP
177
n
177
TRP
177
A
ASN
178
n
178
ASN
178
A
ILE
179
n
179
ILE
179
A
ALA
180
n
180
ALA
180
A
ASP
181
n
181
ASP
181
A
CYS
182
n
182
CYS
182
A
VAL
183
n
183
VAL
183
A
ALA
184
n
184
ALA
184
A
ARG
185
n
185
ARG
185
A
SER
186
n
186
SER
186
A
TYR
187
n
187
TYR
187
A
ASP
188
n
188
ASP
188
A
VAL
189
n
189
VAL
189
A
GLU
190
n
190
GLU
190
A
GLY
191
n
191
GLY
191
A
MET
192
n
192
MET
192
A
HIS
193
n
193
HIS
193
A
VAL
194
n
194
VAL
194
A
GLY
195
n
195
GLY
195
A
THR
196
n
196
THR
196
A
VAL
197
n
197
VAL
197
A
ALA
198
n
198
ALA
198
A
ALA
199
n
199
ALA
199
A
GLY
200
n
200
GLY
200
A
ARG
201
n
201
ARG
201
A
ILE
202
n
202
ILE
202
A
GLY
203
n
203
GLY
203
A
LEU
204
n
204
LEU
204
A
ARG
205
n
205
ARG
205
A
VAL
206
n
206
VAL
206
A
LEU
207
n
207
LEU
207
A
ARG
208
n
208
ARG
208
A
LEU
209
n
209
LEU
209
A
LEU
210
n
210
LEU
210
A
ALA
211
n
211
ALA
211
A
PRO
212
n
212
PRO
212
A
PHE
213
n
213
PHE
213
A
ASP
214
n
214
ASP
214
A
MET
215
n
215
MET
215
A
HIS
216
n
216
HIS
216
A
LEU
217
n
217
LEU
217
A
HIS
218
n
218
HIS
218
A
TYR
219
n
219
TYR
219
A
THR
220
n
220
THR
220
A
ASP
221
n
221
ASP
221
A
ARG
222
n
222
ARG
222
A
HIS
223
n
223
HIS
223
A
ARG
224
n
224
ARG
224
A
LEU
225
n
225
LEU
225
A
PRO
226
n
226
PRO
226
A
GLU
227
n
227
GLU
227
A
ALA
228
n
228
ALA
228
A
VAL
229
n
229
VAL
229
A
GLU
230
n
230
GLU
230
A
LYS
231
n
231
LYS
231
A
GLU
232
n
232
GLU
232
A
LEU
233
n
233
LEU
233
A
ASN
234
n
234
ASN
234
A
LEU
235
n
235
LEU
235
A
THR
236
n
236
THR
236
A
TRP
237
n
237
TRP
237
A
HIS
238
n
238
HIS
238
A
ALA
239
n
239
ALA
239
A
THR
240
n
240
THR
240
A
ARG
241
n
241
ARG
241
A
GLU
242
n
242
GLU
242
A
ASP
243
n
243
ASP
243
A
MET
244
n
244
MET
244
A
TYR
245
n
245
TYR
245
A
GLY
246
n
246
GLY
246
A
ALA
247
n
247
ALA
247
A
CYS
248
n
248
CYS
248
A
ASP
249
n
249
ASP
249
A
VAL
250
n
250
VAL
250
A
VAL
251
n
251
VAL
251
A
THR
252
n
252
THR
252
A
LEU
253
n
253
LEU
253
A
ASN
254
n
254
ASN
254
A
CYS
255
n
255
CYS
255
A
PRO
256
n
256
PRO
256
A
LEU
257
n
257
LEU
257
A
HIS
258
n
258
HIS
258
A
PRO
259
n
259
PRO
259
A
GLU
260
n
260
GLU
260
A
THR
261
n
261
THR
261
A
GLU
262
n
262
GLU
262
A
HIS
263
n
263
HIS
263
A
MET
264
n
264
MET
264
A
ILE
265
n
265
ILE
265
A
ASN
266
n
266
ASN
266
A
ASP
267
n
267
ASP
267
A
GLU
268
n
268
GLU
268
A
THR
269
n
269
THR
269
A
LEU
270
n
270
LEU
270
A
LYS
271
n
271
LYS
271
A
LEU
272
n
272
LEU
272
A
PHE
273
n
273
PHE
273
A
LYS
274
n
274
LYS
274
A
ARG
275
n
275
ARG
275
A
GLY
276
n
276
GLY
276
A
ALA
277
n
277
ALA
277
A
TYR
278
n
278
TYR
278
A
LEU
279
n
279
LEU
279
A
VAL
280
n
280
VAL
280
A
ASN
281
n
281
ASN
281
A
THR
282
n
282
THR
282
A
ALA
283
n
283
ALA
283
A
ARG
284
n
284
ARG
284
A
GLY
285
n
285
GLY
285
A
LYS
286
n
286
LYS
286
A
LEU
287
n
287
LEU
287
A
CYS
288
n
288
CYS
288
A
ASP
289
n
289
ASP
289
A
ARG
290
n
290
ARG
290
A
ASP
291
n
291
ASP
291
A
ALA
292
n
292
ALA
292
A
ILE
293
n
293
ILE
293
A
VAL
294
n
294
VAL
294
A
ARG
295
n
295
ARG
295
A
ALA
296
n
296
ALA
296
A
LEU
297
n
297
LEU
297
A
GLU
298
n
298
GLU
298
A
SER
299
n
299
SER
299
A
GLY
300
n
300
GLY
300
A
ARG
301
n
301
ARG
301
A
LEU
302
n
302
LEU
302
A
ALA
303
n
303
ALA
303
A
GLY
304
n
304
GLY
304
A
TYR
305
n
305
TYR
305
A
ALA
306
n
306
ALA
306
A
GLY
307
n
307
GLY
307
A
ASP
308
n
308
ASP
308
A
VAL
309
n
309
VAL
309
A
TRP
310
n
310
TRP
310
A
PHE
311
n
311
PHE
311
A
PRO
312
n
312
PRO
312
A
GLN
313
n
313
GLN
313
A
PRO
314
n
314
PRO
314
A
ALA
315
n
315
ALA
315
A
PRO
316
n
316
PRO
316
A
ASN
317
n
317
ASN
317
A
ASP
318
n
318
ASP
318
A
HIS
319
n
319
HIS
319
A
PRO
320
n
320
PRO
320
A
TRP
321
n
321
TRP
321
A
ARG
322
n
322
ARG
322
A
THR
323
n
323
THR
323
A
MET
324
n
324
MET
324
A
PRO
325
n
325
PRO
325
A
HIS
326
n
326
HIS
326
A
ASN
327
n
327
ASN
327
A
GLY
328
n
328
GLY
328
A
MET
329
n
329
MET
329
A
THR
330
n
330
THR
330
A
PRO
331
n
331
PRO
331
A
HIS
332
n
332
HIS
332
A
ILE
333
n
333
ILE
333
A
SER
334
n
334
SER
334
A
GLY
335
n
335
GLY
335
A
THR
336
n
336
THR
336
A
SER
337
n
337
SER
337
A
LEU
338
n
338
LEU
338
A
SER
339
n
339
SER
339
A
ALA
340
n
340
ALA
340
A
GLN
341
n
341
GLN
341
A
THR
342
n
342
THR
342
A
ARG
343
n
343
ARG
343
A
TYR
344
n
344
TYR
344
A
ALA
345
n
345
ALA
345
A
ALA
346
n
346
ALA
346
A
GLY
347
n
347
GLY
347
A
THR
348
n
348
THR
348
A
ARG
349
n
349
ARG
349
A
GLU
350
n
350
GLU
350
A
ILE
351
n
351
ILE
351
A
LEU
352
n
352
LEU
352
A
GLU
353
n
353
GLU
353
A
CYS
354
n
354
CYS
354
A
TYR
355
n
355
TYR
355
A
PHE
356
n
356
PHE
356
A
GLU
357
n
357
GLU
357
A
GLY
358
n
358
GLY
358
A
ARG
359
n
359
ARG
359
A
PRO
360
n
360
PRO
360
A
ILE
361
n
361
ILE
361
A
ARG
362
n
362
ARG
362
A
ASP
363
n
363
ASP
363
A
GLU
364
n
364
GLU
364
A
TYR
365
n
365
TYR
365
A
LEU
366
n
366
LEU
366
A
ILE
367
n
367
ILE
367
A
VAL
368
n
368
VAL
368
A
GLN
369
n
369
GLN
369
A
GLY
370
n
370
GLY
370
A
GLY
371
n
371
GLY
371
A
GLY
372
n
372
GLY
372
A
LEU
373
n
373
LEU
373
A
ALA
374
n
374
ALA
374
A
GLY
375
n
375
GLY
375
A
VAL
376
n
376
VAL
376
A
GLY
377
n
377
GLY
377
A
ALA
378
n
378
ALA
378
A
HIS
379
n
379
HIS
379
A
SER
380
n
380
SER
380
A
TYR
381
n
381
TYR
381
A
SER
382
n
382
SER
382
A
LYS
383
n
383
LYS
383
A
GLY
384
n
384
GLY
384
A
ASN
385
n
385
ASN
385
A
ALA
386
n
386
ALA
386
A
THR
387
n
387
THR
387
A
GLY
388
n
388
GLY
388
A
GLY
389
n
389
GLY
389
A
SER
390
n
390
SER
390
A
GLU
391
n
391
GLU
391
A
GLU
392
n
392
GLU
392
A
ALA
393
n
393
ALA
393
A
ALA
394
n
394
ALA
394
A
LYS
395
n
395
LYS
395
A
TYR
396
n
396
TYR
396
A
GLU
397
n
397
GLU
397
A
LYS
398
n
398
LYS
398
A
LEU
399
n
399
LEU
399
A
n
400
400
A
n
401
401
A
author_and_software_defined_assembly
PISA
2
dimeric
8810
-77
26390
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_756
-x+2,y,-z+1
crystal symmetry operation
142.8762781734
0.0000000000
73.2651535601
A
O
GLU
69
A
O
GLU
69
A
N
VAL
3
A
N
VAL
3
A
N
VAL
6
A
N
VAL
6
A
O
ILE
94
A
O
ILE
94
A
N
ILE
93
A
N
ILE
93
A
O
LEU
118
A
O
LEU
118
A
N
THR
119
A
N
THR
119
A
O
ALA
140
A
O
ALA
140
A
N
VAL
139
A
N
VAL
139
A
O
ILE
367
A
O
ILE
367
A
N
GLN
369
A
N
GLN
369
A
O
GLY
372
A
O
GLY
372
A
O
THR
236
A
O
THR
236
A
N
TYR
219
A
N
TYR
219
A
O
HIS
218
A
O
HIS
218
A
N
VAL
194
A
N
VAL
194
A
N
VAL
197
A
N
VAL
197
A
O
THR
252
A
O
THR
252
A
N
VAL
251
A
N
VAL
251
A
O
TYR
278
A
O
TYR
278
A
N
ALA
277
A
N
ALA
277
A
O
ALA
303
A
O
ALA
303
1
A
OD1
ASN
13
A
OD1
ASN
13
1
Y
1
A
ND2
ASN
13
A
ND2
ASN
13
1
Y
1
A
CG
ASP
22
A
CG
ASP
22
1
Y
1
A
OD1
ASP
22
A
OD1
ASP
22
1
Y
1
A
OD2
ASP
22
A
OD2
ASP
22
1
Y
1
A
OD1
ASP
23
A
OD1
ASP
23
1
Y
1
A
OD2
ASP
23
A
OD2
ASP
23
1
Y
1
A
CG
ARG
26
A
CG
ARG
26
1
Y
1
A
CD
ARG
26
A
CD
ARG
26
1
Y
1
A
NE
ARG
26
A
NE
ARG
26
1
Y
1
A
CZ
ARG
26
A
CZ
ARG
26
1
Y
1
A
NH1
ARG
26
A
NH1
ARG
26
1
Y
1
A
NH2
ARG
26
A
NH2
ARG
26
1
Y
1
A
OD1
ASP
28
A
OD1
ASP
28
1
Y
1
A
OD2
ASP
28
A
OD2
ASP
28
1
Y
1
A
CG
LYS
29
A
CG
LYS
29
1
Y
1
A
CD
LYS
29
A
CD
LYS
29
1
Y
1
A
CE
LYS
29
A
CE
LYS
29
1
Y
1
A
NZ
LYS
29
A
NZ
LYS
29
1
Y
1
A
CG
LYS
40
A
CG
LYS
40
1
Y
1
A
CD
LYS
40
A
CD
LYS
40
1
Y
1
A
CE
LYS
40
A
CE
LYS
40
1
Y
1
A
NZ
LYS
40
A
NZ
LYS
40
1
Y
1
A
CG
LYS
61
A
CG
LYS
61
1
Y
1
A
CD
LYS
61
A
CD
LYS
61
1
Y
1
A
CE
LYS
61
A
CE
LYS
61
1
Y
1
A
NZ
LYS
61
A
NZ
LYS
61
1
Y
1
A
CG
GLN
66
A
CG
GLN
66
1
Y
1
A
CD
GLN
66
A
CD
GLN
66
1
Y
1
A
OE1
GLN
66
A
OE1
GLN
66
1
Y
1
A
NE2
GLN
66
A
NE2
GLN
66
1
Y
1
A
CE
LYS
113
A
CE
LYS
113
1
Y
1
A
NZ
LYS
113
A
NZ
LYS
113
1
Y
1
A
CD
LYS
115
A
CD
LYS
115
1
Y
1
A
CE
LYS
115
A
CE
LYS
115
1
Y
1
A
NZ
LYS
115
A
NZ
LYS
115
1
Y
1
A
CD
ARG
222
A
CD
ARG
222
1
Y
1
A
NE
ARG
222
A
NE
ARG
222
1
Y
1
A
CZ
ARG
222
A
CZ
ARG
222
1
Y
1
A
NH1
ARG
222
A
NH1
ARG
222
1
Y
1
A
NH2
ARG
222
A
NH2
ARG
222
1
Y
1
A
OE1
GLU
227
A
OE1
GLU
227
1
Y
1
A
OE2
GLU
227
A
OE2
GLU
227
1
Y
1
A
CD
LYS
231
A
CD
LYS
231
1
Y
1
A
CE
LYS
231
A
CE
LYS
231
1
Y
1
A
NZ
LYS
231
A
NZ
LYS
231
1
Y
1
A
OD1
ASN
234
A
OD1
ASN
234
1
Y
1
A
ND2
ASN
234
A
ND2
ASN
234
1
Y
1
A
CG
GLU
260
A
CG
GLU
260
1
Y
1
A
CD
GLU
260
A
CD
GLU
260
1
Y
1
A
OE1
GLU
260
A
OE1
GLU
260
1
Y
1
A
OE2
GLU
260
A
OE2
GLU
260
1
Y
1
A
CG
GLU
268
A
CG
GLU
268
1
Y
1
A
CD
GLU
268
A
CD
GLU
268
1
Y
1
A
OE1
GLU
268
A
OE1
GLU
268
1
Y
1
A
OE2
GLU
268
A
OE2
GLU
268
1
Y
1
A
CD
LYS
271
A
CD
LYS
271
1
Y
1
A
CE
LYS
271
A
CE
LYS
271
1
Y
1
A
NZ
LYS
271
A
NZ
LYS
271
1
Y
1
A
NE
ARG
275
A
NE
ARG
275
1
Y
1
A
CZ
ARG
275
A
CZ
ARG
275
1
Y
1
A
NH1
ARG
275
A
NH1
ARG
275
1
Y
1
A
NH2
ARG
275
A
NH2
ARG
275
1
Y
1
A
NE
ARG
301
A
NE
ARG
301
1
Y
1
A
CZ
ARG
301
A
CZ
ARG
301
1
Y
1
A
NH1
ARG
301
A
NH1
ARG
301
1
Y
1
A
NH2
ARG
301
A
NH2
ARG
301
1
Y
1
A
NE
ARG
359
A
NE
ARG
359
1
Y
1
A
CZ
ARG
359
A
CZ
ARG
359
1
Y
1
A
NH1
ARG
359
A
NH1
ARG
359
1
Y
1
A
NH2
ARG
359
A
NH2
ARG
359
1
Y
1
A
CG
HIS
379
A
CG
HIS
379
1
Y
1
A
ND1
HIS
379
A
ND1
HIS
379
1
Y
1
A
CD2
HIS
379
A
CD2
HIS
379
1
Y
1
A
CE1
HIS
379
A
CE1
HIS
379
1
Y
1
A
NE2
HIS
379
A
NE2
HIS
379
1
Y
1
A
OG
SER
382
A
OG
SER
382
1
Y
1
A
CE
LYS
383
A
CE
LYS
383
1
Y
1
A
NZ
LYS
383
A
NZ
LYS
383
1
Y
1
A
CG
GLU
391
A
CG
GLU
391
1
Y
1
A
CD
GLU
391
A
CD
GLU
391
1
Y
1
A
OE1
GLU
391
A
OE1
GLU
391
1
Y
1
A
OE2
GLU
391
A
OE2
GLU
391
1
Y
1
A
CE
LYS
395
A
CE
LYS
395
1
Y
1
A
NZ
LYS
395
A
NZ
LYS
395
1
Y
1
A
CD
LYS
398
A
CD
LYS
398
1
Y
1
A
CE
LYS
398
A
CE
LYS
398
1
Y
1
A
NZ
LYS
398
A
NZ
LYS
398
1
Y
1
A
ASP
400
A
ASP
400
1
Y
1
A
ALA
401
A
ALA
401
1
Y
1
A
LYS
29
179.52
165.62
1
A
LEU
36
-56.40
171.86
1
A
SER
65
-49.83
-3.77
1
A
LYS
76
-140.20
-22.26
1
A
VAL
142
-103.03
71.27
1
A
THR
143
-38.91
131.64
1
A
TYR
144
71.74
-1.78
1
A
ASN
164
70.80
45.64
1
A
TRP
177
-144.94
-65.76
1
A
ALA
198
84.57
140.43
1
A
ASN
254
-143.33
32.12
1
A
ALA
283
-93.44
-78.22
1
A
PRO
316
-39.87
143.70
58.60
32.438
11.18
0.240
0.000
-0.830
0.340
0.000
-0.990
0.957
0.926
U VALUES : REFINED INDIVIDUALLY
0.240
0.187
0.190
1.960
39.10
1393
27787
27648
5.000
99.530
0.269
0.204
1.00
0.25
0.841
4.697
0.127
0.177
0.165
RANDOM
1
THROUGHOUT
0.00
MOLECULAR REPLACEMENT
0.177
0.165
0.800
0.800
1.200
PDB ENTRY 2GSD
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
0.224
1.960
39.10
97
3104
11
0
2996
0.020
0.021
3089
1.820
1.957
4217
6.883
5.000
398
37.767
23.438
128
14.097
15.000
457
13.427
15.000
19
0.126
0.200
473
0.010
0.021
2373
1.015
1.500
1982
1.702
2.000
3176
2.687
3.000
1107
3.993
4.500
1041
0.368
0.338
2.011
100
1968
2068
20
99.900
33.1
1.96
39.1
3FN4
27787
27648
0
0
0.122
1
2.4
3.3
99.5
0.476
1.96
2.05
1.3
3430
1
3.3
100
phasing
Alexei Vaguine
alexei@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/molrep.html
MOLREP
program
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
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
AUTOMAR
data reduction
AUTOMAR
Apo-form of NAD-dependent formate dehydrogenase from bacterium Moraxella sp.C-1 in closed conformation
1
N
N
2
N
N
3
N
N
4
N
N
A
GLY
55
A
GLY
55
HELX_P
A
GLY
58
A
GLY
58
5
1
4
A
LEU
59
A
LEU
59
HELX_P
A
SER
65
A
SER
65
1
2
7
A
SER
81
A
SER
81
HELX_P
A
LEU
87
A
LEU
87
1
3
7
A
THR
104
A
THR
104
HELX_P
A
LYS
110
A
LYS
110
1
4
7
A
ASP
128
A
ASP
128
HELX_P
A
ASN
135
A
ASN
135
1
5
8
A
ASN
146
A
ASN
146
HELX_P
A
ASN
164
A
ASN
164
1
6
19
A
ASN
164
A
ASN
164
HELX_P
A
ASN
174
A
ASN
174
1
7
11
A
ASN
178
A
ASN
178
HELX_P
A
ALA
184
A
ALA
184
1
8
7
A
GLY
200
A
GLY
200
HELX_P
A
ALA
211
A
ALA
211
1
9
12
A
PRO
212
A
PRO
212
HELX_P
A
ASP
214
A
ASP
214
5
10
3
A
PRO
226
A
PRO
226
HELX_P
A
ASN
234
A
ASN
234
1
11
9
A
THR
240
A
THR
240
HELX_P
A
GLY
246
A
GLY
246
1
12
7
A
ASN
266
A
ASN
266
HELX_P
A
LYS
271
A
LYS
271
1
13
6
A
ARG
284
A
ARG
284
HELX_P
A
CYS
288
A
CYS
288
5
14
5
A
ASP
289
A
ASP
289
HELX_P
A
SER
299
A
SER
299
1
15
11
A
HIS
319
A
HIS
319
HELX_P
A
THR
323
A
THR
323
5
16
5
A
ILE
333
A
ILE
333
HELX_P
A
THR
336
A
THR
336
5
17
4
A
SER
337
A
SER
337
HELX_P
A
GLY
358
A
GLY
358
1
18
22
A
ARG
362
A
ARG
362
HELX_P
A
GLU
364
A
GLU
364
5
19
3
A
ALA
374
A
ALA
374
HELX_P
A
TYR
381
A
TYR
381
1
20
8
A
GLY
389
A
GLY
389
HELX_P
A
TYR
396
A
TYR
396
5
21
8
OXIDOREDUCTASE
homodimer, closed conformation of apo-form, Oxidoreductase
A
PHE
311
A
PHE
311
1
A
PRO
312
A
PRO
312
-5.66
A
GLN
313
A
GLN
313
1
A
PRO
314
A
PRO
314
-0.80
O08375_MORSP
UNP
1
2
O08375
AKVVCVLYDDPINGYPTSYARDDLPRIDKYPDGQTLPTPKAIDFTPGALLGSVSGELGLRKYLESQGHELVVTSSKDGPD
SELEKHLHDAEVIISQPFWPAYLTAERIAKAPKLKLALTAGIGSDHVDLQAAIDNNITVAEVTYCNSNSVAEHVVMMVLG
LVRNYIPSHDWARNGGWNIADCVARSYDVEGMHVGTVAAGRIGLRVLRLLAPFDMHLHYTDRHRLPEAVEKELNLTWHAT
REDMYGACDVVTLNCPLHPETEHMINDETLKLFKRGAYLVNTARGKLCDRDAIVRALESGRLAGYAGDVWFPQPAPNDHP
WRTMPHNGMTPHISGTSLSAQTRYAAGTREILECYFEGRPIRDEYLIVQGGGLAGVGAHSYSKGNATGGSEEAAKYEKLD
A
2
402
3FN4
1
401
O08375
A
1
1
401
7
6
parallel
parallel
parallel
parallel
anti-parallel
anti-parallel
parallel
parallel
parallel
parallel
parallel
A
GLU
69
A
GLU
69
A
THR
73
A
THR
73
A
LYS
2
A
LYS
2
A
VAL
6
A
VAL
6
A
ALA
90
A
ALA
90
A
SER
95
A
SER
95
A
LEU
116
A
LEU
116
A
THR
119
A
THR
119
A
THR
138
A
THR
138
A
GLU
141
A
GLU
141
A
LEU
366
A
LEU
366
A
GLN
369
A
GLN
369
A
GLY
372
A
GLY
372
A
LEU
373
A
LEU
373
A
THR
236
A
THR
236
A
TRP
237
A
TRP
237
A
HIS
216
A
HIS
216
A
THR
220
A
THR
220
A
HIS
193
A
HIS
193
A
VAL
197
A
VAL
197
A
VAL
250
A
VAL
250
A
LEU
253
A
LEU
253
A
ALA
277
A
ALA
277
A
ASN
281
A
ASN
281
A
LEU
302
A
LEU
302
A
GLY
307
A
GLY
307
BINDING SITE FOR RESIDUE GOL A 402
A
GOL
402
Software
9
BINDING SITE FOR RESIDUE SO4 A 403
A
SO4
403
Software
6
A
PRO
97
A
PRO
97
9
1_555
A
ILE
122
A
ILE
122
9
1_555
A
ASN
146
A
ASN
146
9
1_555
A
VAL
150
A
VAL
150
9
1_555
A
THR
282
A
THR
282
9
1_555
A
ARG
284
A
ARG
284
9
1_555
A
HIS
332
A
HIS
332
9
1_555
A
SER
334
A
SER
334
9
1_555
A
GLY
335
A
GLY
335
9
1_555
A
GLY
200
A
GLY
200
6
1_555
A
ARG
201
A
ARG
201
6
1_555
A
ILE
202
A
ILE
202
6
1_555
A
HOH
460
D
HOH
6
1_555
A
HOH
466
D
HOH
6
1_555
A
HOH
485
D
HOH
6
1_555
5
C 1 2 1