0.014672
0.000000
0.001858
0.000000
0.018696
0.000000
0.000000
0.000000
0.019587
0.00000
0.00000
0.00000
Christendat, D.
Saridakis, V.
Bochkarev, A.
Pai, E.F.
Arrowsmith, C.
Edwards, A.M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
97.22
90.00
68.156
53.486
51.462
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 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
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C10 H16 N2 O11 P2
402.188
THYMIDINE-5'-DIPHOSPHATE
non-polymer
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
N
N
162
S
C
N
163
N
C
N
164
N
O
N
165
S
C
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
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
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
N
N
184
S
C
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
O
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
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
N
214
N
O
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
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
S
N
237
N
C
N
238
N
O
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
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
N
261
N
O
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
H
N
272
N
H
N
273
N
N
N
274
S
C
N
275
N
C
N
276
N
O
N
277
N
C
N
278
N
C
N
279
N
C
N
280
N
O
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
H
N
288
N
H
N
289
N
H
N
290
N
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
N
C
N
295
N
O
N
296
N
O
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
R
C
N
309
N
O
N
310
N
C
N
311
N
O
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
H
N
319
N
H
N
320
N
H
N
321
N
N
N
322
S
C
N
323
N
C
N
324
N
O
N
325
N
C
Y
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
N
Y
330
N
C
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
C
N
335
N
O
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
S
P
N
349
N
O
N
350
N
O
N
351
N
O
N
352
N
P
N
353
N
O
N
354
N
O
N
355
N
O
N
356
N
O
N
357
N
C
N
358
R
C
N
359
N
O
N
360
S
C
N
361
N
O
N
362
N
C
N
363
R
C
Y
364
N
N
Y
365
N
C
N
366
N
O
Y
367
N
N
Y
368
N
C
N
369
N
O
Y
370
N
C
N
371
N
C
Y
372
N
C
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
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
H
N
389
N
N
N
390
S
C
N
391
N
C
N
392
N
O
N
393
N
C
Y
394
N
C
Y
395
N
C
Y
396
N
C
Y
397
N
C
Y
398
N
C
Y
399
N
C
N
400
N
O
N
401
N
O
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
410
N
H
N
411
N
H
N
412
N
H
N
413
N
N
N
414
S
C
N
415
N
C
N
416
N
O
N
417
N
C
N
418
N
C
N
419
N
C
N
420
N
O
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
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
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
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
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
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
sing
N
200
N
doub
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
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
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
doub
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
Y
248
N
doub
Y
249
N
sing
Y
250
N
sing
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
doub
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
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
doub
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
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
doub
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
Y
317
N
doub
Y
318
N
sing
Y
319
N
sing
N
320
N
sing
Y
321
N
doub
Y
322
N
sing
Y
323
N
sing
N
324
N
sing
Y
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
doub
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
doub
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
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
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
Y
362
N
sing
Y
363
N
sing
N
364
N
doub
Y
365
N
sing
Y
366
N
sing
N
367
N
sing
N
368
N
doub
Y
369
N
sing
N
370
N
sing
Y
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
doub
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
Y
387
N
doub
Y
388
N
sing
Y
389
N
sing
N
390
N
sing
Y
391
N
doub
N
392
N
sing
Y
393
N
doub
N
394
N
sing
Y
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
doub
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
sing
N
416
N
sing
N
417
N
sing
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
275
24608
24612
10.1074/jbc.C000238200
10827167
Crystal structure of dTDP-4-keto-6-deoxy-D-hexulose 3,5-epimerase from Methanobacterium thermoautotrophicum complexed with dTDP.
2000
10.2210/pdb1epz/pdb
pdb_00001epz
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
IMAGE PLATE
2000-03-28
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RU200
21702.332
DTDP-6-DEOXY-D-XYLO-4-HEXULOSE 3,5-EPIMERASE
5.1.3.13
1
man
polymer
402.188
THYMIDINE-5'-DIPHOSPHATE
1
syn
non-polymer
18.015
water
119
nat
water
DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE
no
no
MAEFRFIKTSLDGAIIIEPEVYTDERGYFMETFNEAIFQENGLEVRFVQDNESMSVRGVLRGLHFQREKPQGKLVRVIRG
EIFDVAVDLRKNSDTYGEWTGVRLSDENRREFFIPEGFAHGFLALSDECIVNYKCTELYHPEYDSGIPWDDPDIGIDWPL
EMVDDLIISEKDRNWKPLRENPVYL
MAEFRFIKTSLDGAIIIEPEVYTDERGYFMETFNEAIFQENGLEVRFVQDNESMSVRGVLRGLHFQREKPQGKLVRVIRG
EIFDVAVDLRKNSDTYGEWTGVRLSDENRREFFIPEGFAHGFLALSDECIVNYKCTELYHPEYDSGIPWDDPDIGIDWPL
EMVDDLIISEKDRNWKPLRENPVYL
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
Methanothermobacter
Escherichia
sample
145262
Methanothermobacter thermautotrophicus
562
Escherichia coli
PET15B
1
2.14
42.60
VAPOR DIFFUSION, HANGING DROP
4.6
10% polyethylene glycol 4K, 0.1 M Sodium Acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 20K
293.0
exptl_crystal_grow
chem_comp_atom
chem_comp_bond
database_2
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Experimental preparation
Data collection
Database references
Derived calculations
1
0
2000-12-13
1
1
2008-04-27
1
2
2011-07-13
1
3
2018-01-31
1
4
2024-02-07
_exptl_crystal_grow.temp
_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
1EPO is the apo-form of this enzyme.
RCSB
Y
RCSB
2000-03-30
REL
TYD
THYMIDINE-5'-DIPHOSPHATE
HOH
water
TYD
2187
2
TYD
TYD
2187
A
HOH
1001
3
HOH
HOH
1001
A
HOH
1002
3
HOH
HOH
1002
A
HOH
1003
3
HOH
HOH
1003
A
HOH
1004
3
HOH
HOH
1004
A
HOH
1005
3
HOH
HOH
1005
A
HOH
1006
3
HOH
HOH
1006
A
HOH
1007
3
HOH
HOH
1007
A
HOH
1008
3
HOH
HOH
1008
A
HOH
1009
3
HOH
HOH
1009
A
HOH
1010
3
HOH
HOH
1010
A
HOH
1011
3
HOH
HOH
1011
A
HOH
1012
3
HOH
HOH
1012
A
HOH
1013
3
HOH
HOH
1013
A
HOH
1014
3
HOH
HOH
1014
A
HOH
1015
3
HOH
HOH
1015
A
HOH
1016
3
HOH
HOH
1016
A
HOH
1017
3
HOH
HOH
1017
A
HOH
1018
3
HOH
HOH
1018
A
HOH
1019
3
HOH
HOH
1019
A
HOH
1020
3
HOH
HOH
1020
A
HOH
1021
3
HOH
HOH
1021
A
HOH
1022
3
HOH
HOH
1022
A
HOH
1023
3
HOH
HOH
1023
A
HOH
1024
3
HOH
HOH
1024
A
HOH
1025
3
HOH
HOH
1025
A
HOH
1026
3
HOH
HOH
1026
A
HOH
1027
3
HOH
HOH
1027
A
HOH
1028
3
HOH
HOH
1028
A
HOH
1029
3
HOH
HOH
1029
A
HOH
1030
3
HOH
HOH
1030
A
HOH
1031
3
HOH
HOH
1031
A
HOH
1032
3
HOH
HOH
1032
A
HOH
1033
3
HOH
HOH
1033
A
HOH
1034
3
HOH
HOH
1034
A
HOH
1035
3
HOH
HOH
1035
A
HOH
1036
3
HOH
HOH
1036
A
HOH
1037
3
HOH
HOH
1037
A
HOH
1038
3
HOH
HOH
1038
A
HOH
1039
3
HOH
HOH
1039
A
HOH
1040
3
HOH
HOH
1040
A
HOH
1041
3
HOH
HOH
1041
A
HOH
1042
3
HOH
HOH
1042
A
HOH
1043
3
HOH
HOH
1043
A
HOH
1044
3
HOH
HOH
1044
A
HOH
1045
3
HOH
HOH
1045
A
HOH
1046
3
HOH
HOH
1046
A
HOH
1047
3
HOH
HOH
1047
A
HOH
1048
3
HOH
HOH
1048
A
HOH
1049
3
HOH
HOH
1049
A
HOH
1050
3
HOH
HOH
1050
A
HOH
1051
3
HOH
HOH
1051
A
HOH
1052
3
HOH
HOH
1052
A
HOH
1053
3
HOH
HOH
1053
A
HOH
1054
3
HOH
HOH
1054
A
HOH
1055
3
HOH
HOH
1055
A
HOH
1056
3
HOH
HOH
1056
A
HOH
1057
3
HOH
HOH
1057
A
HOH
1058
3
HOH
HOH
1058
A
HOH
1059
3
HOH
HOH
1059
A
HOH
1060
3
HOH
HOH
1060
A
HOH
1061
3
HOH
HOH
1061
A
HOH
1062
3
HOH
HOH
1062
A
HOH
1063
3
HOH
HOH
1063
A
HOH
1064
3
HOH
HOH
1064
A
HOH
1065
3
HOH
HOH
1065
A
HOH
1066
3
HOH
HOH
1066
A
HOH
1067
3
HOH
HOH
1067
A
HOH
1068
3
HOH
HOH
1068
A
HOH
1069
3
HOH
HOH
1069
A
HOH
1070
3
HOH
HOH
1070
A
HOH
1071
3
HOH
HOH
1071
A
HOH
1072
3
HOH
HOH
1072
A
HOH
1073
3
HOH
HOH
1073
A
HOH
1074
3
HOH
HOH
1074
A
HOH
1075
3
HOH
HOH
1075
A
HOH
1076
3
HOH
HOH
1076
A
HOH
1077
3
HOH
HOH
1077
A
HOH
1078
3
HOH
HOH
1078
A
HOH
1079
3
HOH
HOH
1079
A
HOH
1080
3
HOH
HOH
1080
A
HOH
1081
3
HOH
HOH
1081
A
HOH
1082
3
HOH
HOH
1082
A
HOH
1083
3
HOH
HOH
1083
A
HOH
1084
3
HOH
HOH
1084
A
HOH
1085
3
HOH
HOH
1085
A
HOH
1086
3
HOH
HOH
1086
A
HOH
1087
3
HOH
HOH
1087
A
HOH
1088
3
HOH
HOH
1088
A
HOH
1089
3
HOH
HOH
1089
A
HOH
1090
3
HOH
HOH
1090
A
HOH
1091
3
HOH
HOH
1091
A
HOH
1092
3
HOH
HOH
1092
A
HOH
1093
3
HOH
HOH
1093
A
HOH
1094
3
HOH
HOH
1094
A
HOH
1095
3
HOH
HOH
1095
A
HOH
1096
3
HOH
HOH
1096
A
HOH
1097
3
HOH
HOH
1097
A
HOH
1098
3
HOH
HOH
1098
A
HOH
1099
3
HOH
HOH
1099
A
HOH
1100
3
HOH
HOH
1100
A
HOH
1101
3
HOH
HOH
1101
A
HOH
1102
3
HOH
HOH
1102
A
HOH
1103
3
HOH
HOH
1103
A
HOH
1104
3
HOH
HOH
1104
A
HOH
1105
3
HOH
HOH
1105
A
HOH
1106
3
HOH
HOH
1106
A
HOH
1107
3
HOH
HOH
1107
A
HOH
1108
3
HOH
HOH
1108
A
HOH
1109
3
HOH
HOH
1109
A
HOH
1110
3
HOH
HOH
1110
A
HOH
1111
3
HOH
HOH
1111
A
HOH
1112
3
HOH
HOH
1112
A
HOH
1113
3
HOH
HOH
1113
A
HOH
1114
3
HOH
HOH
1114
A
HOH
1115
3
HOH
HOH
1115
A
HOH
1116
3
HOH
HOH
1116
A
HOH
1117
3
HOH
HOH
1117
A
HOH
1118
3
HOH
HOH
1118
A
HOH
1119
3
HOH
HOH
1119
A
n
1
1
A
n
2
2
A
GLU
3
n
3
GLU
3
A
PHE
4
n
4
PHE
4
A
ARG
5
n
5
ARG
5
A
PHE
6
n
6
PHE
6
A
ILE
7
n
7
ILE
7
A
LYS
8
n
8
LYS
8
A
THR
9
n
9
THR
9
A
SER
10
n
10
SER
10
A
LEU
11
n
11
LEU
11
A
ASP
12
n
12
ASP
12
A
GLY
13
n
13
GLY
13
A
ALA
14
n
14
ALA
14
A
ILE
15
n
15
ILE
15
A
ILE
16
n
16
ILE
16
A
ILE
17
n
17
ILE
17
A
GLU
18
n
18
GLU
18
A
PRO
19
n
19
PRO
19
A
GLU
20
n
20
GLU
20
A
VAL
21
n
21
VAL
21
A
TYR
22
n
22
TYR
22
A
THR
23
n
23
THR
23
A
ASP
24
n
24
ASP
24
A
GLU
25
n
25
GLU
25
A
ARG
26
n
26
ARG
26
A
GLY
27
n
27
GLY
27
A
TYR
28
n
28
TYR
28
A
PHE
29
n
29
PHE
29
A
MET
30
n
30
MET
30
A
GLU
31
n
31
GLU
31
A
THR
32
n
32
THR
32
A
PHE
33
n
33
PHE
33
A
ASN
34
n
34
ASN
34
A
GLU
35
n
35
GLU
35
A
ALA
36
n
36
ALA
36
A
ILE
37
n
37
ILE
37
A
PHE
38
n
38
PHE
38
A
GLN
39
n
39
GLN
39
A
GLU
40
n
40
GLU
40
A
ASN
41
n
41
ASN
41
A
GLY
42
n
42
GLY
42
A
LEU
43
n
43
LEU
43
A
GLU
44
n
44
GLU
44
A
VAL
45
n
45
VAL
45
A
ARG
46
n
46
ARG
46
A
PHE
47
n
47
PHE
47
A
VAL
48
n
48
VAL
48
A
GLN
49
n
49
GLN
49
A
ASP
50
n
50
ASP
50
A
ASN
51
n
51
ASN
51
A
GLU
52
n
52
GLU
52
A
SER
53
n
53
SER
53
A
MET
54
n
54
MET
54
A
SER
55
n
55
SER
55
A
VAL
56
n
56
VAL
56
A
ARG
57
n
57
ARG
57
A
GLY
58
n
58
GLY
58
A
VAL
59
n
59
VAL
59
A
LEU
60
n
60
LEU
60
A
ARG
61
n
61
ARG
61
A
GLY
62
n
62
GLY
62
A
LEU
63
n
63
LEU
63
A
HIS
64
n
64
HIS
64
A
PHE
65
n
65
PHE
65
A
GLN
66
n
66
GLN
66
A
ARG
67
n
67
ARG
67
A
GLU
68
n
68
GLU
68
A
LYS
69
n
69
LYS
69
A
PRO
70
n
70
PRO
70
A
GLN
71
n
71
GLN
71
A
GLY
72
n
72
GLY
72
A
LYS
73
n
73
LYS
73
A
LEU
74
n
74
LEU
74
A
VAL
75
n
75
VAL
75
A
ARG
76
n
76
ARG
76
A
VAL
77
n
77
VAL
77
A
ILE
78
n
78
ILE
78
A
ARG
79
n
79
ARG
79
A
GLY
80
n
80
GLY
80
A
GLU
81
n
81
GLU
81
A
ILE
82
n
82
ILE
82
A
PHE
83
n
83
PHE
83
A
ASP
84
n
84
ASP
84
A
VAL
85
n
85
VAL
85
A
ALA
86
n
86
ALA
86
A
VAL
87
n
87
VAL
87
A
ASP
88
n
88
ASP
88
A
LEU
89
n
89
LEU
89
A
ARG
90
n
90
ARG
90
A
LYS
91
n
91
LYS
91
A
ASN
92
n
92
ASN
92
A
SER
93
n
93
SER
93
A
ASP
94
n
94
ASP
94
A
THR
95
n
95
THR
95
A
TYR
96
n
96
TYR
96
A
GLY
97
n
97
GLY
97
A
GLU
98
n
98
GLU
98
A
TRP
99
n
99
TRP
99
A
THR
100
n
100
THR
100
A
GLY
101
n
101
GLY
101
A
VAL
102
n
102
VAL
102
A
ARG
103
n
103
ARG
103
A
LEU
104
n
104
LEU
104
A
SER
105
n
105
SER
105
A
ASP
106
n
106
ASP
106
A
GLU
107
n
107
GLU
107
A
ASN
108
n
108
ASN
108
A
ARG
109
n
109
ARG
109
A
ARG
110
n
110
ARG
110
A
GLU
111
n
111
GLU
111
A
PHE
112
n
112
PHE
112
A
PHE
113
n
113
PHE
113
A
ILE
114
n
114
ILE
114
A
PRO
115
n
115
PRO
115
A
GLU
116
n
116
GLU
116
A
GLY
117
n
117
GLY
117
A
PHE
118
n
118
PHE
118
A
ALA
119
n
119
ALA
119
A
HIS
120
n
120
HIS
120
A
GLY
121
n
121
GLY
121
A
PHE
122
n
122
PHE
122
A
LEU
123
n
123
LEU
123
A
ALA
124
n
124
ALA
124
A
LEU
125
n
125
LEU
125
A
SER
126
n
126
SER
126
A
ASP
127
n
127
ASP
127
A
GLU
128
n
128
GLU
128
A
CYS
129
n
129
CYS
129
A
ILE
130
n
130
ILE
130
A
VAL
131
n
131
VAL
131
A
ASN
132
n
132
ASN
132
A
TYR
133
n
133
TYR
133
A
LYS
134
n
134
LYS
134
A
CYS
135
n
135
CYS
135
A
THR
136
n
136
THR
136
A
GLU
137
n
137
GLU
137
A
LEU
138
n
138
LEU
138
A
TYR
139
n
139
TYR
139
A
HIS
140
n
140
HIS
140
A
PRO
141
n
141
PRO
141
A
GLU
142
n
142
GLU
142
A
TYR
143
n
143
TYR
143
A
ASP
144
n
144
ASP
144
A
SER
145
n
145
SER
145
A
GLY
146
n
146
GLY
146
A
ILE
147
n
147
ILE
147
A
PRO
148
n
148
PRO
148
A
TRP
149
n
149
TRP
149
A
ASP
150
n
150
ASP
150
A
ASP
151
n
151
ASP
151
A
PRO
152
n
152
PRO
152
A
ASP
153
n
153
ASP
153
A
ILE
154
n
154
ILE
154
A
GLY
155
n
155
GLY
155
A
ILE
156
n
156
ILE
156
A
ASP
157
n
157
ASP
157
A
TRP
158
n
158
TRP
158
A
PRO
159
n
159
PRO
159
A
LEU
160
n
160
LEU
160
A
GLU
161
n
161
GLU
161
A
MET
162
n
162
MET
162
A
VAL
163
n
163
VAL
163
A
ASP
164
n
164
ASP
164
A
ASP
165
n
165
ASP
165
A
LEU
166
n
166
LEU
166
A
ILE
167
n
167
ILE
167
A
ILE
168
n
168
ILE
168
A
SER
169
n
169
SER
169
A
GLU
170
n
170
GLU
170
A
LYS
171
n
171
LYS
171
A
ASP
172
n
172
ASP
172
A
ARG
173
n
173
ARG
173
A
ASN
174
n
174
ASN
174
A
TRP
175
n
175
TRP
175
A
LYS
176
n
176
LYS
176
A
PRO
177
n
177
PRO
177
A
LEU
178
n
178
LEU
178
A
ARG
179
n
179
ARG
179
A
GLU
180
n
180
GLU
180
A
ASN
181
n
181
ASN
181
A
PRO
182
n
182
PRO
182
A
VAL
183
n
183
VAL
183
A
TYR
184
n
184
TYR
184
A
LEU
185
n
185
LEU
185
A
author_and_software_defined_assembly
PISA,PQS
2
dimeric
4890
-25
15240
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_656
-x+1,y,-z+1
crystal symmetry operation
61.6882795494
0.0000000000
51.0539522091
A
N
ILE
7
A
N
ILE
7
A
O
ILE
16
A
O
ILE
16
A
N
ILE
17
A
N
ILE
17
A
O
GLU
111
A
O
GLU
111
A
O
ILE
114
A
O
ILE
114
A
N
LYS
73
A
N
LYS
73
A
O
ARG
79
A
O
ARG
79
A
N
ILE
130
A
N
ILE
130
A
N
CYS
135
A
N
CYS
135
A
O
GLN
49
A
O
GLN
49
A
N
ASP
24
A
N
ASP
24
A
O
GLY
27
A
O
GLY
27
A
O
LEU
104
A
O
LEU
104
A
N
ILE
82
A
N
ILE
82
A
N
VAL
87
A
N
VAL
87
A
O
ALA
119
A
O
ALA
119
A
O
PHE
122
A
O
PHE
122
A
N
ARG
61
A
N
ARG
61
A
N
PHE
65
A
N
PHE
65
A
O
SER
145
A
O
SER
145
1
A
MET
1
A
MET
1
1
Y
1
A
ALA
2
A
ALA
2
1
Y
1
A
THR
9
-125.10
-169.62
1
A
ASN
41
-94.50
30.25
1
A
LEU
43
-110.18
58.09
1
A
GLU
44
-66.45
69.48
1
A
GLU
68
69.55
-53.70
1
A
ARG
109
55.02
18.43
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
WATER.TOP
CIS_PEPTIDE.PARAM
TDP.PARAM
TDP.PARAM
18.5
1.39
0.00
-0.64
1.77
0.00
-3.16
Simulated Annealing
0.2250000
0.005
0.1960000
0.1960000
1.75
9.99
1702
63707
17222
9.9
92.8
RANDOM
456278.04
0.00
1
RESTRAINED
THROUGHOUT
0.0
CNS 0.9
FLAT MODEL
56.66
0.536
0.23
0.20
5.00
0.14
0.11
1.75
9.99
119
1662
25
0
1518
0.005
1.3
25.7
0.71
0.92
1.50
1.52
2.00
1.58
2.00
2.45
2.50
0.2970000
0.019
0.2430000
1.86
246
2340
6
9.5
83.7
14.2
1.75
25
1EPZ
63707
17671
4862
206
0.0520000
1
24
4
95
0.3210000
1.75
1.81
1708
1
4
92
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
CRYSTAL STRUCTURE OF DTDP-6-DEOXY-D-XYLO-4-HEXULOASE 3,5-EPIMERASE FROM METHANOBACTERIUM THERMOAUTOTROPHICUM WITH BOUND LIGAND.
1
N
N
2
N
N
3
N
N
The biological assembly is a dimer constructed from Chain A and one symmetry related molecule.
A
ASN
34
A
ASN
34
HELX_P
A
ASN
41
A
ASN
41
1
1
8
A
HIS
140
A
HIS
140
HELX_P
A
GLU
142
A
GLU
142
5
2
3
A
PRO
159
A
PRO
159
HELX_P
A
VAL
163
A
VAL
163
5
3
5
A
GLU
170
A
GLU
170
HELX_P
A
ASN
174
A
ASN
174
5
4
5
ISOMERASE
racemase, dTDP-4-dehydrorhamnose epimerase, ISOMERASE
A
GLY
62
A
GLY
62
1
A
LEU
63
A
LEU
63
-1.72
O27818_METTH
UNP
1
1
O27818
MAEFRFIKTSLDGAIIIEPEVYTDERGYFMETFNEAIFQENGLEVRFVQDNESMSVRGVLRGLHFQREKPQGKLVRVIRG
EIFDVAVDLRKNSDTYGEWTGVRLSDENRREFFIPEGFAHGFLALSDECIVNYKCTELYHPEYDSGIPWDDPDIGIDWPL
EMVDDLIISEKDRNWKPLRENPVYL
1
185
1EPZ
1
185
O27818
A
1
1
185
6
2
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
PHE
4
A
PHE
4
A
LYS
8
A
LYS
8
A
ILE
15
A
ILE
15
A
PRO
19
A
PRO
19
A
GLU
111
A
GLU
111
A
ILE
114
A
ILE
114
A
LYS
73
A
LYS
73
A
ARG
79
A
ARG
79
A
GLU
128
A
GLU
128
A
CYS
135
A
CYS
135
A
GLN
49
A
GLN
49
A
VAL
56
A
VAL
56
A
VAL
21
A
VAL
21
A
ASP
24
A
ASP
24
A
GLY
27
A
GLY
27
A
MET
30
A
MET
30
A
TRP
99
A
TRP
99
A
SER
105
A
SER
105
A
GLU
81
A
GLU
81
A
ASP
88
A
ASP
88
A
PHE
118
A
PHE
118
A
ALA
124
A
ALA
124
A
LEU
60
A
LEU
60
A
GLN
66
A
GLN
66
A
ASP
144
A
ASP
144
A
GLY
146
A
GLY
146
BINDING SITE FOR RESIDUE TYD A 2187
A
TYD
2187
Software
15
A
TYR
22
A
TYR
22
15
2_656
A
ARG
26
A
ARG
26
15
2_656
A
PHE
29
A
PHE
29
15
2_656
A
GLU
31
A
GLU
31
15
2_656
A
GLN
49
A
GLN
49
15
1_555
A
ASN
51
A
ASN
51
15
1_555
A
ARG
61
A
ARG
61
15
1_555
A
HIS
64
A
HIS
64
15
1_555
A
TYR
139
A
TYR
139
15
1_555
A
LYS
171
A
LYS
171
15
1_555
A
HOH
1035
C
HOH
15
1_555
A
HOH
1036
C
HOH
15
1_555
A
HOH
1037
C
HOH
15
1_555
A
HOH
1040
C
HOH
15
1_555
A
HOH
1095
C
HOH
15
1_555
5
C 1 2 1