0.008560
0.000000
0.001824
0.000000
0.021163
0.000000
0.000000
0.000000
0.017738
0.00000
0.00000
0.00000
Tomchick, D.R.
Brautigam, C.A.
Deka, R.K.
Norgard, M.V.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
102.03
90.00
116.829
47.252
57.643
C10 H15 N5 O10 P2
427.201
n
ADENOSINE-5'-DIPHOSPHATE
non-polymer
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
Mg 2
24.305
MAGNESIUM ION
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
P
N
2
N
O
N
3
N
O
N
4
N
O
N
5
S
P
N
6
N
O
N
7
N
O
N
8
N
O
N
9
N
O
N
10
N
C
N
11
R
C
N
12
N
O
N
13
S
C
N
14
N
O
N
15
R
C
N
16
N
O
N
17
R
C
Y
18
N
N
Y
19
N
C
Y
20
N
N
Y
21
N
C
Y
22
N
C
N
23
N
N
Y
24
N
N
Y
25
N
C
Y
26
N
N
Y
27
N
C
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
H
N
42
N
H
N
43
N
N
N
44
S
C
N
45
N
C
N
46
N
O
N
47
N
C
N
48
N
O
N
49
N
H
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
N
N
57
S
C
N
58
N
C
N
59
N
O
N
60
N
C
N
61
N
C
N
62
N
C
N
63
N
N
N
64
N
C
N
65
N
N
N
66
N
N
N
67
N
O
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
H
N
79
N
H
N
80
N
H
N
81
N
H
N
82
N
H
N
83
N
N
N
84
S
C
N
85
N
C
N
86
N
O
N
87
N
C
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
O
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
N
N
101
S
C
N
102
N
C
N
103
N
O
N
104
N
C
N
105
N
C
N
106
N
O
N
107
N
O
N
108
N
O
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
N
N
117
R
C
N
118
N
C
N
119
N
O
N
120
N
C
N
121
N
S
N
122
N
O
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
N
N
131
S
C
N
132
N
C
N
133
N
O
N
134
N
C
N
135
N
C
N
136
N
C
N
137
N
O
N
138
N
N
N
139
N
O
N
140
N
H
N
141
N
H
N
142
N
H
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
N
N
151
S
C
N
152
N
C
N
153
N
O
N
154
N
C
N
155
N
C
N
156
N
C
N
157
N
O
N
158
N
O
N
159
N
O
N
160
N
H
N
161
N
H
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
N
N
170
N
C
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
N
N
180
S
C
N
181
N
C
N
182
N
O
N
183
N
C
Y
184
N
C
Y
185
N
N
Y
186
N
C
Y
187
N
C
Y
188
N
N
N
189
N
O
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
O
N
201
N
H
N
202
N
H
N
203
N
N
N
204
S
C
N
205
N
C
N
206
N
O
N
207
S
C
N
208
N
C
N
209
N
C
N
210
N
C
N
211
N
O
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
N
N
226
S
C
N
227
N
C
N
228
N
O
N
229
N
C
N
230
N
C
N
231
N
C
N
232
N
C
N
233
N
O
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
H
N
245
N
H
N
246
N
H
N
247
N
N
N
248
S
C
N
249
N
C
N
250
N
O
N
251
N
C
N
252
N
C
N
253
N
C
N
254
N
C
N
255
N
N
N
256
N
O
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
N
N
273
S
C
N
274
N
C
N
275
N
O
N
276
N
C
N
277
N
C
N
278
N
S
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
H
N
291
N
H
N
292
N
MG
N
293
N
N
N
294
S
C
N
295
N
C
N
296
N
O
N
297
N
C
Y
298
N
C
Y
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
N
304
N
O
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
N
N
317
S
C
N
318
N
C
N
319
N
O
N
320
N
C
N
321
N
C
N
322
N
C
N
323
N
O
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
N
N
334
S
C
N
335
N
C
N
336
N
O
N
337
N
C
N
338
N
O
N
339
N
O
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
N
N
348
S
C
N
349
N
C
N
350
N
O
N
351
R
C
N
352
N
O
N
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
N
N
365
S
C
N
366
N
C
N
367
N
O
N
368
N
C
Y
369
N
C
Y
370
N
C
Y
371
N
C
Y
372
N
N
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
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
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
Y
396
N
C
Y
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
N
402
N
O
N
403
N
O
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
H
N
414
N
H
N
415
N
N
N
416
S
C
N
417
N
C
N
418
N
O
N
419
N
C
N
420
N
C
N
421
N
C
N
422
N
O
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
432
N
H
N
433
N
H
N
1
N
doub
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
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
Y
30
N
sing
Y
31
N
sing
Y
32
N
doub
N
33
N
sing
Y
34
N
sing
Y
35
N
sing
Y
36
N
doub
N
37
N
sing
Y
38
N
doub
N
39
N
sing
N
40
N
sing
Y
41
N
sing
Y
42
N
doub
N
43
N
sing
Y
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
doub
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
sing
N
62
N
sing
N
63
N
doub
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
doub
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
doub
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
doub
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
doub
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
doub
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
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
doub
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
doub
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
Y
184
N
sing
Y
185
N
doub
Y
186
N
doub
N
187
N
sing
Y
188
N
sing
N
189
N
sing
Y
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
sing
N
201
N
sing
N
202
N
doub
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
doub
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
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
sing
N
267
N
sing
N
268
N
doub
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
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
doub
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
Y
292
N
doub
Y
293
N
sing
Y
294
N
sing
N
295
N
sing
Y
296
N
doub
N
297
N
sing
Y
298
N
doub
N
299
N
sing
Y
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
doub
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
doub
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
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
doub
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
Y
361
N
doub
Y
362
N
sing
Y
363
N
sing
N
364
N
sing
Y
365
N
doub
Y
366
N
sing
Y
367
N
sing
N
368
N
sing
Y
369
N
sing
Y
370
N
doub
N
371
N
sing
Y
372
N
doub
N
373
N
sing
Y
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
N
384
N
doub
N
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
Y
389
N
doub
Y
390
N
sing
Y
391
N
sing
N
392
N
sing
Y
393
N
doub
N
394
N
sing
Y
395
N
doub
N
396
N
sing
Y
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
doub
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
288
11106
11121
10.1074/jbc.M113.449975
23447540
The TP0796 Lipoprotein of Treponema pallidum Is a Bimetal-dependent FAD Pyrophosphatase with a Potential Role in Flavin Homeostasis.
2013
10.2210/pdb4ifw/pdb
pdb_00004ifw
100
1
monochromator
CCD
2011-11-18
ADSC QUANTUM 315r
SAGITALLY FOCUSED Si(111)
SINGLE WAVELENGTH
M
x-ray
1
0.97918
1.0
19-ID
APS
0.97918
SYNCHROTRON
APS BEAMLINE 19-ID
36742.984
Thiamine biosynthesis lipoprotein ApbE
1
man
polymer
427.201
ADENOSINE-5'-DIPHOSPHATE
1
syn
non-polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
18.015
water
158
nat
water
no
no
CGGRARVREYSRAELVIGTLCRVRVYSKRPAAEVHAALEEVFTLLQQQEMVLSANRDDSALAALNAQAGSAPVVVDRSLY
ALLERALFFAEKSGGAFNPALGAVVKLWNIGFDRAAVPDPDALKEALTRCDFRQVHLRAGVSVGAPHTVQLAQAGMQLDL
GAIAKGFLADKIVQLLTAHALDSALVDLGGNIFALGLKYGDVRSAAAQRLEWNVGIRDPHGTGQKPALVVSVRDCSVVTS
GAYERFFERDGVRYHHIIDPVTGFPAHTDVDSVSIFAPRSTDADALATACFVLGYEKSCALLREFPGVDALFIFPDKRVR
ASAGIVDRVRVLDARFVLER
CGGRARVREYSRAELVIGTLCRVRVYSKRPAAEVHAALEEVFTLLQQQEMVLSANRDDSALAALNAQAGSAPVVVDRSLY
ALLERALFFAEKSGGAFNPALGAVVKLWNIGFDRAAVPDPDALKEALTRCDFRQVHLRAGVSVGAPHTVQLAQAGMQLDL
GAIAKGFLADKIVQLLTAHALDSALVDLGGNIFALGLKYGDVRSAAAQRLEWNVGIRDPHGTGQKPALVVSVRDCSVVTS
GAYERFFERDGVRYHHIIDPVTGFPAHTDVDSVSIFAPRSTDADALATACFVLGYEKSCALLREFPGVDALFIFPDKRVR
ASAGIVDRVRVLDARFVLER
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
Nichols
sample
apbE, tp0796, TP_0796
243276
Treponema pallidum subsp. pallidum
562
Escherichia coli
BL21(DE3)
plasmid
1
2.12
41.89
hanging-drop vapor diffusion
6.5
0.1 M MES, 0.8 M sodium acetate, 0.1 M NaCl, 20% (w/v) ethylene glycol;, pH 6.5, hanging-drop vapor diffusion, temperature 293K
293
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Structure summary
Database references
Database references
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2013-02-27
1
1
2013-03-06
1
2
2013-03-13
1
3
2013-05-08
1
4
2017-11-15
1
5
2023-09-20
_software.name
_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.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_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.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.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_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2012-12-15
REL
REL
ADP
ADENOSINE-5'-DIPHOSPHATE
MG
MAGNESIUM ION
HOH
water
4IFU
PDB ENTRY 4IFU
PDB
experimental model
ADP
501
2
ADP
ADP
501
A
MG
1
3
MG
MG
502
A
MG
2
3
MG
MG
503
A
HOH
1
4
HOH
HOH
601
A
HOH
2
4
HOH
HOH
602
A
HOH
3
4
HOH
HOH
603
A
HOH
4
4
HOH
HOH
604
A
HOH
5
4
HOH
HOH
605
A
HOH
6
4
HOH
HOH
606
A
HOH
7
4
HOH
HOH
607
A
HOH
8
4
HOH
HOH
608
A
HOH
9
4
HOH
HOH
609
A
HOH
10
4
HOH
HOH
610
A
HOH
11
4
HOH
HOH
611
A
HOH
12
4
HOH
HOH
612
A
HOH
13
4
HOH
HOH
613
A
HOH
14
4
HOH
HOH
614
A
HOH
15
4
HOH
HOH
615
A
HOH
16
4
HOH
HOH
616
A
HOH
17
4
HOH
HOH
617
A
HOH
18
4
HOH
HOH
618
A
HOH
19
4
HOH
HOH
619
A
HOH
20
4
HOH
HOH
620
A
HOH
21
4
HOH
HOH
621
A
HOH
22
4
HOH
HOH
622
A
HOH
23
4
HOH
HOH
623
A
HOH
24
4
HOH
HOH
624
A
HOH
25
4
HOH
HOH
625
A
HOH
26
4
HOH
HOH
626
A
HOH
27
4
HOH
HOH
627
A
HOH
28
4
HOH
HOH
628
A
HOH
29
4
HOH
HOH
629
A
HOH
30
4
HOH
HOH
630
A
HOH
31
4
HOH
HOH
631
A
HOH
32
4
HOH
HOH
632
A
HOH
33
4
HOH
HOH
633
A
HOH
34
4
HOH
HOH
634
A
HOH
35
4
HOH
HOH
635
A
HOH
36
4
HOH
HOH
636
A
HOH
37
4
HOH
HOH
637
A
HOH
38
4
HOH
HOH
638
A
HOH
39
4
HOH
HOH
639
A
HOH
40
4
HOH
HOH
640
A
HOH
41
4
HOH
HOH
641
A
HOH
42
4
HOH
HOH
642
A
HOH
43
4
HOH
HOH
643
A
HOH
44
4
HOH
HOH
644
A
HOH
45
4
HOH
HOH
645
A
HOH
46
4
HOH
HOH
646
A
HOH
47
4
HOH
HOH
647
A
HOH
48
4
HOH
HOH
648
A
HOH
49
4
HOH
HOH
649
A
HOH
50
4
HOH
HOH
650
A
HOH
51
4
HOH
HOH
651
A
HOH
52
4
HOH
HOH
652
A
HOH
53
4
HOH
HOH
653
A
HOH
54
4
HOH
HOH
654
A
HOH
55
4
HOH
HOH
655
A
HOH
56
4
HOH
HOH
656
A
HOH
57
4
HOH
HOH
657
A
HOH
58
4
HOH
HOH
658
A
HOH
59
4
HOH
HOH
659
A
HOH
60
4
HOH
HOH
660
A
HOH
61
4
HOH
HOH
661
A
HOH
62
4
HOH
HOH
662
A
HOH
63
4
HOH
HOH
663
A
HOH
64
4
HOH
HOH
664
A
HOH
65
4
HOH
HOH
665
A
HOH
66
4
HOH
HOH
666
A
HOH
67
4
HOH
HOH
667
A
HOH
68
4
HOH
HOH
668
A
HOH
70
4
HOH
HOH
669
A
HOH
71
4
HOH
HOH
670
A
HOH
72
4
HOH
HOH
671
A
HOH
74
4
HOH
HOH
672
A
HOH
75
4
HOH
HOH
673
A
HOH
76
4
HOH
HOH
674
A
HOH
77
4
HOH
HOH
675
A
HOH
78
4
HOH
HOH
676
A
HOH
79
4
HOH
HOH
677
A
HOH
80
4
HOH
HOH
678
A
HOH
83
4
HOH
HOH
679
A
HOH
84
4
HOH
HOH
680
A
HOH
85
4
HOH
HOH
681
A
HOH
87
4
HOH
HOH
682
A
HOH
89
4
HOH
HOH
683
A
HOH
90
4
HOH
HOH
684
A
HOH
91
4
HOH
HOH
685
A
HOH
92
4
HOH
HOH
686
A
HOH
93
4
HOH
HOH
687
A
HOH
94
4
HOH
HOH
688
A
HOH
95
4
HOH
HOH
689
A
HOH
96
4
HOH
HOH
690
A
HOH
97
4
HOH
HOH
691
A
HOH
98
4
HOH
HOH
692
A
HOH
99
4
HOH
HOH
693
A
HOH
100
4
HOH
HOH
694
A
HOH
101
4
HOH
HOH
695
A
HOH
102
4
HOH
HOH
696
A
HOH
103
4
HOH
HOH
697
A
HOH
104
4
HOH
HOH
698
A
HOH
106
4
HOH
HOH
699
A
HOH
107
4
HOH
HOH
700
A
HOH
108
4
HOH
HOH
701
A
HOH
109
4
HOH
HOH
702
A
HOH
110
4
HOH
HOH
703
A
HOH
111
4
HOH
HOH
704
A
HOH
112
4
HOH
HOH
705
A
HOH
113
4
HOH
HOH
706
A
HOH
114
4
HOH
HOH
707
A
HOH
115
4
HOH
HOH
708
A
HOH
116
4
HOH
HOH
709
A
HOH
117
4
HOH
HOH
710
A
HOH
118
4
HOH
HOH
711
A
HOH
119
4
HOH
HOH
712
A
HOH
120
4
HOH
HOH
713
A
HOH
122
4
HOH
HOH
714
A
HOH
123
4
HOH
HOH
715
A
HOH
125
4
HOH
HOH
716
A
HOH
126
4
HOH
HOH
717
A
HOH
127
4
HOH
HOH
718
A
HOH
128
4
HOH
HOH
719
A
HOH
130
4
HOH
HOH
720
A
HOH
132
4
HOH
HOH
721
A
HOH
133
4
HOH
HOH
722
A
HOH
134
4
HOH
HOH
723
A
HOH
135
4
HOH
HOH
724
A
HOH
136
4
HOH
HOH
725
A
HOH
137
4
HOH
HOH
726
A
HOH
138
4
HOH
HOH
727
A
HOH
139
4
HOH
HOH
728
A
HOH
140
4
HOH
HOH
729
A
HOH
141
4
HOH
HOH
730
A
HOH
142
4
HOH
HOH
731
A
HOH
143
4
HOH
HOH
732
A
HOH
145
4
HOH
HOH
733
A
HOH
148
4
HOH
HOH
734
A
HOH
150
4
HOH
HOH
735
A
HOH
151
4
HOH
HOH
736
A
HOH
152
4
HOH
HOH
737
A
HOH
153
4
HOH
HOH
738
A
HOH
154
4
HOH
HOH
739
A
HOH
155
4
HOH
HOH
740
A
HOH
156
4
HOH
HOH
741
A
HOH
157
4
HOH
HOH
742
A
HOH
158
4
HOH
HOH
743
A
HOH
159
4
HOH
HOH
744
A
HOH
160
4
HOH
HOH
745
A
HOH
161
4
HOH
HOH
746
A
HOH
162
4
HOH
HOH
747
A
HOH
163
4
HOH
HOH
748
A
HOH
166
4
HOH
HOH
749
A
HOH
167
4
HOH
HOH
750
A
HOH
174
4
HOH
HOH
751
A
HOH
175
4
HOH
HOH
752
A
HOH
176
4
HOH
HOH
753
A
HOH
177
4
HOH
HOH
754
A
HOH
178
4
HOH
HOH
755
A
HOH
179
4
HOH
HOH
756
A
HOH
180
4
HOH
HOH
757
A
HOH
181
4
HOH
HOH
758
A
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
ARG
6
n
6
ARG
6
A
VAL
7
n
7
VAL
7
A
ARG
8
n
8
ARG
8
A
GLU
9
n
9
GLU
9
A
TYR
10
n
10
TYR
10
A
SER
11
n
11
SER
11
A
ARG
12
n
12
ARG
12
A
ALA
13
n
13
ALA
13
A
GLU
14
n
14
GLU
14
A
LEU
15
n
15
LEU
15
A
VAL
16
n
16
VAL
16
A
ILE
17
n
17
ILE
17
A
GLY
18
n
18
GLY
18
A
THR
19
n
19
THR
19
A
LEU
20
n
20
LEU
20
A
CYS
21
n
21
CYS
21
A
ARG
22
n
22
ARG
22
A
VAL
23
n
23
VAL
23
A
ARG
24
n
24
ARG
24
A
VAL
25
n
25
VAL
25
A
TYR
26
n
26
TYR
26
A
SER
27
n
27
SER
27
A
LYS
28
n
28
LYS
28
A
ARG
29
n
29
ARG
29
A
PRO
30
n
30
PRO
30
A
ALA
31
n
31
ALA
31
A
ALA
32
n
32
ALA
32
A
GLU
33
n
33
GLU
33
A
VAL
34
n
34
VAL
34
A
HIS
35
n
35
HIS
35
A
ALA
36
n
36
ALA
36
A
ALA
37
n
37
ALA
37
A
LEU
38
n
38
LEU
38
A
GLU
39
n
39
GLU
39
A
GLU
40
n
40
GLU
40
A
VAL
41
n
41
VAL
41
A
PHE
42
n
42
PHE
42
A
THR
43
n
43
THR
43
A
LEU
44
n
44
LEU
44
A
LEU
45
n
45
LEU
45
A
GLN
46
n
46
GLN
46
A
GLN
47
n
47
GLN
47
A
GLN
48
n
48
GLN
48
A
GLU
49
n
49
GLU
49
A
MET
50
n
50
MET
50
A
VAL
51
n
51
VAL
51
A
LEU
52
n
52
LEU
52
A
SER
53
n
53
SER
53
A
ALA
54
n
54
ALA
54
A
ASN
55
n
55
ASN
55
A
ARG
56
n
56
ARG
56
A
ASP
57
n
57
ASP
57
A
ASP
58
n
58
ASP
58
A
SER
59
n
59
SER
59
A
ALA
60
n
60
ALA
60
A
LEU
61
n
61
LEU
61
A
ALA
62
n
62
ALA
62
A
ALA
63
n
63
ALA
63
A
LEU
64
n
64
LEU
64
A
ASN
65
n
65
ASN
65
A
ALA
66
n
66
ALA
66
A
GLN
67
n
67
GLN
67
A
ALA
68
n
68
ALA
68
A
GLY
69
n
69
GLY
69
A
SER
70
n
70
SER
70
A
ALA
71
n
71
ALA
71
A
PRO
72
n
72
PRO
72
A
VAL
73
n
73
VAL
73
A
VAL
74
n
74
VAL
74
A
VAL
75
n
75
VAL
75
A
ASP
76
n
76
ASP
76
A
ARG
77
n
77
ARG
77
A
SER
78
n
78
SER
78
A
LEU
79
n
79
LEU
79
A
TYR
80
n
80
TYR
80
A
ALA
81
n
81
ALA
81
A
LEU
82
n
82
LEU
82
A
LEU
83
n
83
LEU
83
A
GLU
84
n
84
GLU
84
A
ARG
85
n
85
ARG
85
A
ALA
86
n
86
ALA
86
A
LEU
87
n
87
LEU
87
A
PHE
88
n
88
PHE
88
A
PHE
89
n
89
PHE
89
A
ALA
90
n
90
ALA
90
A
GLU
91
n
91
GLU
91
A
LYS
92
n
92
LYS
92
A
SER
93
n
93
SER
93
A
GLY
94
n
94
GLY
94
A
GLY
95
n
95
GLY
95
A
ALA
96
n
96
ALA
96
A
PHE
97
n
97
PHE
97
A
ASN
98
n
98
ASN
98
A
PRO
99
n
99
PRO
99
A
ALA
100
n
100
ALA
100
A
LEU
101
n
101
LEU
101
A
GLY
102
n
102
GLY
102
A
ALA
103
n
103
ALA
103
A
VAL
104
n
104
VAL
104
A
VAL
105
n
105
VAL
105
A
LYS
106
n
106
LYS
106
A
LEU
107
n
107
LEU
107
A
TRP
108
n
108
TRP
108
A
ASN
109
n
109
ASN
109
A
ILE
110
n
110
ILE
110
A
GLY
111
n
111
GLY
111
A
PHE
112
n
112
PHE
112
A
ASP
113
n
113
ASP
113
A
n
114
114
A
n
115
115
A
ALA
116
n
116
ALA
116
A
VAL
117
n
117
VAL
117
A
PRO
118
n
118
PRO
118
A
ASP
119
n
119
ASP
119
A
PRO
120
n
120
PRO
120
A
ASP
121
n
121
ASP
121
A
ALA
122
n
122
ALA
122
A
LEU
123
n
123
LEU
123
A
LYS
124
n
124
LYS
124
A
GLU
125
n
125
GLU
125
A
ALA
126
n
126
ALA
126
A
LEU
127
n
127
LEU
127
A
THR
128
n
128
THR
128
A
ARG
129
n
129
ARG
129
A
CYS
130
n
130
CYS
130
A
ASP
131
n
131
ASP
131
A
PHE
132
n
132
PHE
132
A
ARG
133
n
133
ARG
133
A
GLN
134
n
134
GLN
134
A
VAL
135
n
135
VAL
135
A
HIS
136
n
136
HIS
136
A
LEU
137
n
137
LEU
137
A
ARG
138
n
138
ARG
138
A
ALA
139
n
139
ALA
139
A
GLY
140
n
140
GLY
140
A
VAL
141
n
141
VAL
141
A
SER
142
n
142
SER
142
A
VAL
143
n
143
VAL
143
A
GLY
144
n
144
GLY
144
A
ALA
145
n
145
ALA
145
A
PRO
146
n
146
PRO
146
A
HIS
147
n
147
HIS
147
A
THR
148
n
148
THR
148
A
VAL
149
n
149
VAL
149
A
GLN
150
n
150
GLN
150
A
LEU
151
n
151
LEU
151
A
ALA
152
n
152
ALA
152
A
GLN
153
n
153
GLN
153
A
ALA
154
n
154
ALA
154
A
GLY
155
n
155
GLY
155
A
MET
156
n
156
MET
156
A
GLN
157
n
157
GLN
157
A
LEU
158
n
158
LEU
158
A
ASP
159
n
159
ASP
159
A
LEU
160
n
160
LEU
160
A
GLY
161
n
161
GLY
161
A
ALA
162
n
162
ALA
162
A
ILE
163
n
163
ILE
163
A
ALA
164
n
164
ALA
164
A
LYS
165
n
165
LYS
165
A
GLY
166
n
166
GLY
166
A
PHE
167
n
167
PHE
167
A
LEU
168
n
168
LEU
168
A
ALA
169
n
169
ALA
169
A
ASP
170
n
170
ASP
170
A
LYS
171
n
171
LYS
171
A
ILE
172
n
172
ILE
172
A
VAL
173
n
173
VAL
173
A
GLN
174
n
174
GLN
174
A
LEU
175
n
175
LEU
175
A
LEU
176
n
176
LEU
176
A
THR
177
n
177
THR
177
A
ALA
178
n
178
ALA
178
A
HIS
179
n
179
HIS
179
A
ALA
180
n
180
ALA
180
A
LEU
181
n
181
LEU
181
A
ASP
182
n
182
ASP
182
A
SER
183
n
183
SER
183
A
ALA
184
n
184
ALA
184
A
LEU
185
n
185
LEU
185
A
VAL
186
n
186
VAL
186
A
ASP
187
n
187
ASP
187
A
LEU
188
n
188
LEU
188
A
GLY
189
n
189
GLY
189
A
GLY
190
n
190
GLY
190
A
ASN
191
n
191
ASN
191
A
ILE
192
n
192
ILE
192
A
PHE
193
n
193
PHE
193
A
ALA
194
n
194
ALA
194
A
LEU
195
n
195
LEU
195
A
GLY
196
n
196
GLY
196
A
LEU
197
n
197
LEU
197
A
LYS
198
n
198
LYS
198
A
TYR
199
n
199
TYR
199
A
GLY
200
n
200
GLY
200
A
n
201
201
A
n
202
202
A
n
203
203
A
n
204
204
A
n
205
205
A
n
206
206
A
ALA
207
n
207
ALA
207
A
GLN
208
n
208
GLN
208
A
ARG
209
n
209
ARG
209
A
LEU
210
n
210
LEU
210
A
GLU
211
n
211
GLU
211
A
TRP
212
n
212
TRP
212
A
ASN
213
n
213
ASN
213
A
VAL
214
n
214
VAL
214
A
GLY
215
n
215
GLY
215
A
ILE
216
n
216
ILE
216
A
ARG
217
n
217
ARG
217
A
ASP
218
n
218
ASP
218
A
PRO
219
n
219
PRO
219
A
HIS
220
n
220
HIS
220
A
GLY
221
n
221
GLY
221
A
THR
222
n
222
THR
222
A
GLY
223
n
223
GLY
223
A
GLN
224
n
224
GLN
224
A
LYS
225
n
225
LYS
225
A
PRO
226
n
226
PRO
226
A
ALA
227
n
227
ALA
227
A
LEU
228
n
228
LEU
228
A
VAL
229
n
229
VAL
229
A
VAL
230
n
230
VAL
230
A
SER
231
n
231
SER
231
A
VAL
232
n
232
VAL
232
A
ARG
233
n
233
ARG
233
A
ASP
234
n
234
ASP
234
A
CYS
235
n
235
CYS
235
A
SER
236
n
236
SER
236
A
VAL
237
n
237
VAL
237
A
VAL
238
n
238
VAL
238
A
THR
239
n
239
THR
239
A
SER
240
n
240
SER
240
A
GLY
241
n
241
GLY
241
A
ALA
242
n
242
ALA
242
A
TYR
243
n
243
TYR
243
A
GLU
244
n
244
GLU
244
A
ARG
245
n
245
ARG
245
A
PHE
246
n
246
PHE
246
A
PHE
247
n
247
PHE
247
A
GLU
248
n
248
GLU
248
A
ARG
249
n
249
ARG
249
A
ASP
250
n
250
ASP
250
A
GLY
251
n
251
GLY
251
A
VAL
252
n
252
VAL
252
A
ARG
253
n
253
ARG
253
A
TYR
254
n
254
TYR
254
A
HIS
255
n
255
HIS
255
A
HIS
256
n
256
HIS
256
A
ILE
257
n
257
ILE
257
A
ILE
258
n
258
ILE
258
A
ASP
259
n
259
ASP
259
A
PRO
260
n
260
PRO
260
A
VAL
261
n
261
VAL
261
A
THR
262
n
262
THR
262
A
GLY
263
n
263
GLY
263
A
PHE
264
n
264
PHE
264
A
PRO
265
n
265
PRO
265
A
ALA
266
n
266
ALA
266
A
HIS
267
n
267
HIS
267
A
THR
268
n
268
THR
268
A
ASP
269
n
269
ASP
269
A
VAL
270
n
270
VAL
270
A
ASP
271
n
271
ASP
271
A
SER
272
n
272
SER
272
A
VAL
273
n
273
VAL
273
A
SER
274
n
274
SER
274
A
ILE
275
n
275
ILE
275
A
PHE
276
n
276
PHE
276
A
ALA
277
n
277
ALA
277
A
PRO
278
n
278
PRO
278
A
ARG
279
n
279
ARG
279
A
SER
280
n
280
SER
280
A
THR
281
n
281
THR
281
A
ASP
282
n
282
ASP
282
A
ALA
283
n
283
ALA
283
A
ASP
284
n
284
ASP
284
A
ALA
285
n
285
ALA
285
A
LEU
286
n
286
LEU
286
A
ALA
287
n
287
ALA
287
A
THR
288
n
288
THR
288
A
ALA
289
n
289
ALA
289
A
CYS
290
n
290
CYS
290
A
PHE
291
n
291
PHE
291
A
VAL
292
n
292
VAL
292
A
LEU
293
n
293
LEU
293
A
GLY
294
n
294
GLY
294
A
TYR
295
n
295
TYR
295
A
GLU
296
n
296
GLU
296
A
LYS
297
n
297
LYS
297
A
SER
298
n
298
SER
298
A
CYS
299
n
299
CYS
299
A
ALA
300
n
300
ALA
300
A
LEU
301
n
301
LEU
301
A
LEU
302
n
302
LEU
302
A
ARG
303
n
303
ARG
303
A
GLU
304
n
304
GLU
304
A
PHE
305
n
305
PHE
305
A
PRO
306
n
306
PRO
306
A
GLY
307
n
307
GLY
307
A
VAL
308
n
308
VAL
308
A
ASP
309
n
309
ASP
309
A
ALA
310
n
310
ALA
310
A
LEU
311
n
311
LEU
311
A
PHE
312
n
312
PHE
312
A
ILE
313
n
313
ILE
313
A
PHE
314
n
314
PHE
314
A
PRO
315
n
315
PRO
315
A
ASP
316
n
316
ASP
316
A
LYS
317
n
317
LYS
317
A
ARG
318
n
318
ARG
318
A
VAL
319
n
319
VAL
319
A
ARG
320
n
320
ARG
320
A
ALA
321
n
321
ALA
321
A
SER
322
n
322
SER
322
A
ALA
323
n
323
ALA
323
A
GLY
324
n
324
GLY
324
A
ILE
325
n
325
ILE
325
A
VAL
326
n
326
VAL
326
A
ASP
327
n
327
ASP
327
A
ARG
328
n
328
ARG
328
A
VAL
329
n
329
VAL
329
A
ARG
330
n
330
ARG
330
A
VAL
331
n
331
VAL
331
A
LEU
332
n
332
LEU
332
A
ASP
333
n
333
ASP
333
A
ALA
334
n
334
ALA
334
A
ARG
335
n
335
ARG
335
A
PHE
336
n
336
PHE
336
A
VAL
337
n
337
VAL
337
A
LEU
338
n
338
LEU
338
A
GLU
339
n
339
GLU
339
A
ARG
340
n
340
ARG
340
A
0.0490
-0.0318
0.0002
0.0347
-0.0011
0.0177
0.0215
-0.0115
0.0663
0.0298
-0.0121
-0.0563
0.0006
0.0222
0.0609
-0.0853
0.0410
-0.0350
0.0524
0.0047
0.0053
refined
53.6455
46.1832
-0.0390
X-RAY DIFFRACTION
0.0296
0.0381
0.0180
0.2445
-0.1081
0.1087
-0.0373
-0.0650
0.0510
0.2169
-0.0436
0.0469
-0.1109
-0.0623
-0.1215
0.0018
0.1109
0.0394
-0.1793
-0.0845
-0.0008
refined
38.5116
49.1634
16.7108
X-RAY DIFFRACTION
0.0618
0.0440
0.0325
0.0607
-0.0047
0.1156
-0.0153
0.0262
0.0485
0.1297
-0.0067
0.1018
-0.0154
-0.1338
-0.0093
0.0720
0.0063
0.0445
0.0597
-0.0073
0.0587
refined
31.5033
39.2498
27.2096
X-RAY DIFFRACTION
0.0577
0.0349
0.0230
0.0497
-0.0557
0.2547
0.0690
0.0362
-0.0123
-0.0133
0.0766
0.1040
0.0648
0.0245
0.2149
0.0194
-0.0318
0.0698
-0.0029
0.0523
-0.1099
refined
43.7529
39.4057
4.7881
X-RAY DIFFRACTION
0.0320
-0.0087
-0.0332
0.2475
-0.0638
0.0692
-0.0203
-0.0584
-0.0066
-0.1073
0.0258
-0.0317
0.0350
0.0246
-0.0001
0.0285
-0.0075
0.0152
0.0651
0.0048
0.0747
refined
44.9527
26.8764
13.4500
X-RAY DIFFRACTION
0.0754
-0.0830
0.0134
0.2368
0.0445
0.0298
-0.0017
-0.0293
-0.1125
0.0877
0.0235
0.1680
0.0692
-0.0123
0.0250
0.0485
-0.0013
-0.0138
0.0037
-0.0277
0.0325
refined
35.7755
24.6139
7.5726
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
chain 'A' and (resid 6 through 30 )
X-RAY DIFFRACTION
2
chain 'A' and (resid 31 through 93 )
X-RAY DIFFRACTION
3
chain 'A' and (resid 94 through 151 )
X-RAY DIFFRACTION
4
chain 'A' and (resid 152 through 225 )
X-RAY DIFFRACTION
5
chain 'A' and (resid 226 through 255 )
X-RAY DIFFRACTION
6
chain 'A' and (resid 256 through 340 )
author_and_software_defined_assembly
PISA
1
monomeric
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
A
ASP
284
A
OD1
ASP
284
1_555
77.8
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
A
ASP
284
A
O
ASP
284
1_555
86.8
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
ASP
284
A
O
ASP
284
1_555
81.6
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
A
THR
288
A
OG1
THR
288
1_555
108.9
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
THR
288
A
OG1
THR
288
1_555
173.2
A
ASP
284
A
O
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
THR
288
A
OG1
THR
288
1_555
97.4
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
93.5
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
89.4
A
ASP
284
A
O
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
170.8
A
THR
288
A
OG1
THR
288
1_555
A
MG
502
C
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
91.3
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
156.5
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
80.3
A
ASP
284
A
O
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
98.1
A
THR
288
A
OG1
THR
288
1_555
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
93.3
A
ADP
501
B
O1A
ADP
1_555
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
78.2
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
ASP
284
A
OD2
ASP
284
1_555
57.0
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
ADP
501
B
O3B
ADP
1_555
148.6
A
ASP
284
A
OD2
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
ADP
501
B
O3B
ADP
1_555
149.6
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
87.3
A
ASP
284
A
OD2
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
119.0
A
ADP
501
B
O3B
ADP
1_555
A
MG
503
D
MG
MG
1_555
A
ADP
501
B
O1A
ADP
1_555
65.1
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
602
E
O
HOH
1_555
105.6
A
ASP
284
A
OD2
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
602
E
O
HOH
1_555
52.8
A
ADP
501
B
O3B
ADP
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
602
E
O
HOH
1_555
96.7
A
ADP
501
B
O1A
ADP
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
602
E
O
HOH
1_555
106.1
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
100.8
A
ASP
284
A
OD2
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
85.3
A
ADP
501
B
O3B
ADP
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
98.8
A
ADP
501
B
O1A
ADP
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
154.2
A
HOH
602
E
O
HOH
1_555
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
95.4
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
A
N
TYR
10
A
N
TYR
10
A
O
VAL
25
A
O
VAL
25
A
N
ARG
22
A
N
ARG
22
A
O
ASP
187
A
O
ASP
187
A
N
VAL
186
A
N
VAL
186
A
O
PHE
193
A
O
PHE
193
A
N
ALA
194
A
N
ALA
194
A
O
CYS
235
A
O
CYS
235
A
N
SER
236
A
N
SER
236
A
O
ALA
277
A
O
ALA
277
A
N
PHE
276
A
N
PHE
276
A
O
ASP
309
A
O
ASP
309
A
N
PHE
312
A
N
PHE
312
A
O
ARG
320
A
O
ARG
320
A
N
VAL
319
A
N
VAL
319
A
O
VAL
337
A
O
VAL
337
A
N
VAL
75
A
N
VAL
75
A
O
HIS
147
A
O
HIS
147
A
O
GLN
150
A
O
GLN
150
A
N
HIS
136
A
N
HIS
136
A
N
LYS
198
A
N
LYS
198
A
O
LEU
210
A
O
LEU
210
A
N
VAL
214
A
N
VAL
214
A
O
VAL
230
A
O
VAL
230
A
N
VAL
229
A
N
VAL
229
A
O
ARG
330
A
O
ARG
330
A
N
PHE
247
A
N
PHE
247
A
O
TYR
254
A
O
TYR
254
1
A
CYS
1
A
CYS
1
1
Y
1
A
GLY
2
A
GLY
2
1
Y
1
A
GLY
3
A
GLY
3
1
Y
1
A
ARG
4
A
ARG
4
1
Y
1
A
ALA
5
A
ALA
5
1
Y
1
A
ARG
114
A
ARG
114
1
Y
1
A
ALA
115
A
ALA
115
1
Y
1
A
ASP
201
A
ASP
201
1
Y
1
A
VAL
202
A
VAL
202
1
Y
1
A
ARG
203
A
ARG
203
1
Y
1
A
SER
204
A
SER
204
1
Y
1
A
ALA
205
A
ALA
205
1
Y
1
A
ALA
206
A
ALA
206
1
Y
1
A
A
OD2
O
ASP
HOH
284
602
2.04
1
A
ASN
55
65.49
76.77
1
A
ARG
56
-146.11
-52.93
1
A
ASP
57
92.53
-44.92
1
A
SER
70
-132.55
-155.82
1
A
GLN
208
71.64
-79.37
21.1165
0.2380
0.1768
0.1798
2.3001
29.654
673
13718
13721
4.90
98.75
1.000
0.830
0.25
1
1.36
FOURIER SYNTHESIS
24.14
0.90
1.11
PDB ENTRY 4IFU
ML
FLAT BULK SOLVENT MODEL
2.3001
29.654
158
2687
29
0
2500
0.013
2587
0.795
3529
14.794
927
0.043
402
0.002
454
0.2886
0.2129
2.4776
135
2518
96.00
0.2529
0.1967
2.7268
142
2566
99.00
0.2552
0.1790
3.1210
127
2621
100.00
0.2156
0.1639
3.9307
131
2653
100.00
0.2219
0.1670
29.6565
138
2690
100.00
2.300
50.000
4IFW
13766
13766
1.0
1.0
0.134
1
7.100
3.900
99.000
0.388
2.300
2.340
1
3.400
94.900
0.405
2.340
2.380
1
3.500
94.300
0.398
2.380
2.430
1
3.500
96.600
0.425
2.430
2.480
1
3.700
98.300
0.411
2.480
2.530
1
3.700
98.900
0.378
2.530
2.590
1
3.900
99.400
0.364
2.590
2.660
1
3.900
99.900
0.334
2.660
2.730
1
4.000
99.900
0.310
2.730
2.810
1
4.100
100.000
0.232
2.810
2.900
1
4.100
100.000
0.219
2.900
3.000
1
4.100
100.000
0.174
3.000
3.120
1
4.100
100.000
0.158
3.120
3.260
1
4.100
100.000
0.135
3.260
3.440
1
4.000
99.900
0.116
3.440
3.650
1
4.000
99.700
0.106
3.650
3.930
1
3.800
99.700
0.077
3.930
4.330
1
3.800
100.000
0.060
4.330
4.950
1
3.900
99.100
0.064
4.950
6.240
1
4.100
100.000
0.046
6.240
50.000
1
3.800
99.700
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
program
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.8.1_1168
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data collection
HKL-3000
data reduction
DENZO
data scaling
HKL-3000
phasing
PHENIX
Crystal structure of Treponema pallidum TP0796 Flavin trafficking protein, ADP inhibited form
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
A
PRO
30
A
PRO
30
HELX_P
A
SER
53
A
SER
53
1
1
24
A
SER
59
A
SER
59
HELX_P
A
ALA
66
A
ALA
66
1
2
8
A
ASP
76
A
ASP
76
HELX_P
A
SER
93
A
SER
93
1
3
18
A
LEU
101
A
LEU
101
HELX_P
A
ASP
113
A
ASP
113
1
4
13
A
ASP
119
A
ASP
119
HELX_P
A
THR
128
A
THR
128
1
5
10
A
ARG
129
A
ARG
129
HELX_P
A
CYS
130
A
CYS
130
5
6
2
A
ASP
131
A
ASP
131
HELX_P
A
ARG
133
A
ARG
133
5
7
3
A
ILE
163
A
ILE
163
HELX_P
A
HIS
179
A
HIS
179
1
8
17
A
ARG
279
A
ARG
279
HELX_P
A
GLY
294
A
GLY
294
1
9
16
A
GLY
294
A
GLY
294
HELX_P
A
ARG
303
A
ARG
303
1
10
10
A
SER
322
A
SER
322
HELX_P
A
ASP
327
A
ASP
327
1
11
6
metalc
2.408
A
ALA
162
A
O
ALA
162
1_555
A
MG
502
C
MG
MG
1_555
metalc
2.078
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
metalc
2.117
A
ASP
284
A
O
ASP
284
1_555
A
MG
502
C
MG
MG
1_555
metalc
2.071
A
ASP
284
A
OD1
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
metalc
2.429
A
ASP
284
A
OD2
ASP
284
1_555
A
MG
503
D
MG
MG
1_555
metalc
2.233
A
THR
288
A
OG1
THR
288
1_555
A
MG
502
C
MG
MG
1_555
metalc
2.340
A
ADP
501
B
O1A
ADP
1_555
A
MG
502
C
MG
MG
1_555
metalc
2.126
A
ADP
501
B
O3B
ADP
1_555
A
MG
503
D
MG
MG
1_555
metalc
2.423
A
ADP
501
B
O1A
ADP
1_555
A
MG
503
D
MG
MG
1_555
metalc
2.071
A
MG
502
C
MG
MG
1_555
A
HOH
601
E
O
HOH
1_555
metalc
2.103
A
MG
503
D
MG
MG
1_555
A
HOH
602
E
O
HOH
1_555
metalc
2.065
A
MG
503
D
MG
MG
1_555
A
HOH
604
E
O
HOH
1_555
HYDROLASE/HYDROLASE INHIBITOR
hydrolase, bimetal center, fad pyrophosphatase, flavin turnover, Treponema pallidum, HYDROLASE-HYDROLASE INHIBITOR complex
APBE_TREPA
UNP
1
23
O83774
CGGRARVREYSRAELVIGTLCRVRVYSKRPAAEVHAALEEVFTLLQQQEMVLSANRDDSALAALNAQAGSAPVVVDRSLY
ALLERALFFAEKSGGAFNPALGAVVKLWNIGFDRAAVPDPDALKEALTRCDFRQVHLRAGVSVGAPHTVQLAQAGMQLDL
GAIAKGFLADKIVQLLTAHALDSALVDLGGNIFALGLKYGDVRSAAAQRLEWNVGIRDPHGTGQKPALVVSVRDCSVVTS
GAYERFFERDGVRYHHIIDPVTGFPAHTDVDSVSIFAPRSTDADALATACFVLGYEKSCALLREFPGVDALFIFPDKRVR
ASAGIVDRVRVLDARFVLER
23
362
4IFW
1
340
O83774
A
1
1
340
9
3
2
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ARG
8
A
ARG
8
A
VAL
16
A
VAL
16
A
THR
19
A
THR
19
A
SER
27
A
SER
27
A
ALA
184
A
ALA
184
A
LEU
188
A
LEU
188
A
ASN
191
A
ASN
191
A
LEU
195
A
LEU
195
A
CYS
235
A
CYS
235
A
GLY
241
A
GLY
241
A
SER
272
A
SER
272
A
ALA
277
A
ALA
277
A
ASP
309
A
ASP
309
A
ILE
313
A
ILE
313
A
ARG
318
A
ARG
318
A
ALA
321
A
ALA
321
A
VAL
337
A
VAL
337
A
LEU
338
A
LEU
338
A
VAL
73
A
VAL
73
A
VAL
75
A
VAL
75
A
HIS
147
A
HIS
147
A
LEU
151
A
LEU
151
A
VAL
135
A
VAL
135
A
ALA
139
A
ALA
139
A
LYS
198
A
LYS
198
A
TYR
199
A
TYR
199
A
ARG
209
A
ARG
209
A
LEU
210
A
LEU
210
A
TRP
212
A
TRP
212
A
ARG
217
A
ARG
217
A
PRO
226
A
PRO
226
A
VAL
232
A
VAL
232
A
VAL
329
A
VAL
329
A
VAL
331
A
VAL
331
A
PHE
246
A
PHE
246
A
ARG
249
A
ARG
249
A
VAL
252
A
VAL
252
A
HIS
255
A
HIS
255
BINDING SITE FOR RESIDUE ADP A 501
A
ADP
501
Software
22
BINDING SITE FOR RESIDUE MG A 502
A
MG
502
Software
6
BINDING SITE FOR RESIDUE MG A 503
A
MG
503
Software
5
A
ALA
96
A
ALA
96
22
1_555
A
PHE
97
A
PHE
97
22
1_555
A
ASN
98
A
ASN
98
22
1_555
A
LEU
101
A
LEU
101
22
1_555
A
VAL
105
A
VAL
105
22
1_555
A
ASP
159
A
ASP
159
22
1_555
A
GLY
161
A
GLY
161
22
1_555
A
ALA
162
A
ALA
162
22
1_555
A
LYS
165
A
LYS
165
22
1_555
A
SER
240
A
SER
240
22
1_555
A
GLU
244
A
GLU
244
22
1_555
A
HIS
256
A
HIS
256
22
1_555
A
ILE
257
A
ILE
257
22
1_555
A
ILE
258
A
ILE
258
22
1_555
A
ASP
284
A
ASP
284
22
1_555
A
THR
288
A
THR
288
22
1_555
A
MG
502
C
MG
22
1_555
A
MG
503
D
MG
22
1_555
A
HOH
601
E
HOH
22
1_555
A
HOH
603
E
HOH
22
1_555
A
HOH
619
E
HOH
22
1_555
A
HOH
753
E
HOH
22
1_555
A
ALA
162
A
ALA
162
6
1_555
A
ASP
284
A
ASP
284
6
1_555
A
THR
288
A
THR
288
6
1_555
A
ADP
501
B
ADP
6
1_555
A
MG
503
D
MG
6
1_555
A
HOH
601
E
HOH
6
1_555
A
ASP
284
A
ASP
284
5
1_555
A
ADP
501
B
ADP
5
1_555
A
MG
502
C
MG
5
1_555
A
HOH
602
E
HOH
5
1_555
A
HOH
604
E
HOH
5
1_555
5
C 1 2 1