0.013104
0.000000
0.000000
0.000000
0.008418
0.000000
0.000000
0.000000
0.026330
0.00000
0.00000
0.00000
Karthikeyan, S.
Zhou, Q.
Osterman, A.L.
Zhang, H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
76.312
118.789
37.979
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
C17 H21 N4 O9 P
456.344
FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE
non-polymer
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
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
N
C
N
132
N
O
N
133
N
N
N
134
N
C
N
135
N
O
N
136
N
C
N
137
N
N
Y
138
N
C
Y
139
N
C
Y
140
N
C
N
141
N
C
Y
142
N
C
N
143
N
C
Y
144
N
C
Y
145
N
C
N
146
N
N
N
147
N
C
N
148
N
C
N
149
S
C
N
150
N
O
N
151
S
C
N
152
N
O
N
153
R
C
N
154
N
O
N
155
N
C
N
156
N
O
N
157
N
P
N
158
N
O
N
159
N
O
N
160
N
O
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
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
N
N
183
S
C
N
184
N
C
N
185
N
O
N
186
N
C
N
187
N
C
N
188
N
C
N
189
N
O
N
190
N
N
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
N
N
203
S
C
N
204
N
C
N
205
N
O
N
206
N
C
N
207
N
C
N
208
N
C
N
209
N
O
N
210
N
O
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
N
N
222
N
C
N
223
N
C
N
224
N
O
N
225
N
O
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
N
N
232
S
C
N
233
N
C
N
234
N
O
N
235
N
C
Y
236
N
C
Y
237
N
N
Y
238
N
C
Y
239
N
C
Y
240
N
N
N
241
N
O
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
O
N
253
N
H
N
254
N
H
N
255
N
N
N
256
S
C
N
257
N
C
N
258
N
O
N
259
S
C
N
260
N
C
N
261
N
C
N
262
N
C
N
263
N
O
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
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
N
N
278
S
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
C
N
283
N
C
N
284
N
C
N
285
N
O
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
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
N
N
300
S
C
N
301
N
C
N
302
N
O
N
303
N
C
N
304
N
C
N
305
N
C
N
306
N
C
N
307
N
N
N
308
N
O
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
N
N
325
S
C
N
326
N
C
N
327
N
O
N
328
N
C
N
329
N
C
N
330
N
S
N
331
N
C
N
332
N
O
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
MG
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
N
356
N
O
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
H
N
368
N
N
N
369
S
C
N
370
N
C
N
371
N
O
N
372
N
C
N
373
N
C
N
374
N
C
N
375
N
O
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
N
N
386
S
C
N
387
N
C
N
388
N
O
N
389
N
C
N
390
N
O
N
391
N
O
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
N
N
400
S
C
N
401
N
C
N
402
N
O
N
403
R
C
N
404
N
O
N
405
N
C
N
406
N
O
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
H
N
416
N
N
N
417
S
C
N
418
N
C
N
419
N
O
N
420
N
C
Y
421
N
C
Y
422
N
C
Y
423
N
C
Y
424
N
N
Y
425
N
C
Y
426
N
C
Y
427
N
C
Y
428
N
C
Y
429
N
C
N
430
N
O
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
N
N
444
S
C
N
445
N
C
N
446
N
O
N
447
N
C
Y
448
N
C
Y
449
N
C
Y
450
N
C
Y
451
N
C
Y
452
N
C
Y
453
N
C
N
454
N
O
N
455
N
O
N
456
N
H
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
N
N
468
S
C
N
469
N
C
N
470
N
O
N
471
N
C
N
472
N
C
N
473
N
C
N
474
N
O
N
475
N
H
N
476
N
H
N
477
N
H
N
478
N
H
N
479
N
H
N
480
N
H
N
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
H
N
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
doub
N
129
N
doub
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
doub
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
sing
Y
138
N
doub
Y
139
N
sing
Y
140
N
sing
N
141
N
sing
N
142
N
sing
Y
143
N
doub
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
Y
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
Y
152
N
doub
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
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
doub
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
doub
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
doub
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
doub
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
doub
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
doub
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
Y
238
N
sing
Y
239
N
doub
Y
240
N
doub
N
241
N
sing
Y
242
N
sing
N
243
N
sing
Y
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
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
doub
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
doub
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
doub
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
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
sing
N
341
N
doub
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
Y
346
N
doub
Y
347
N
sing
Y
348
N
sing
N
349
N
sing
Y
350
N
doub
N
351
N
sing
Y
352
N
doub
N
353
N
sing
Y
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
N
362
N
sing
N
363
N
sing
N
364
N
doub
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
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
N
393
N
sing
N
394
N
doub
N
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
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
doub
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
Y
415
N
doub
Y
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
419
N
doub
Y
420
N
sing
Y
421
N
sing
N
422
N
sing
Y
423
N
sing
Y
424
N
doub
N
425
N
sing
Y
426
N
doub
N
427
N
sing
Y
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
doub
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
Y
443
N
doub
Y
444
N
sing
Y
445
N
sing
N
446
N
sing
Y
447
N
doub
N
448
N
sing
Y
449
N
doub
N
450
N
sing
Y
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
N
458
N
sing
N
459
N
sing
N
460
N
sing
N
461
N
sing
N
462
N
doub
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
42
12532
12538
10.1021/bi035450t
14580199
Ligand binding-induced conformational changes in riboflavin kinase: structural basis for the ordered mechanism.
2003
10.2210/pdb1q9s/pdb
pdb_00001q9s
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
OSMIC MIRROR
IMAGE PLATE
2003-05-05
RIGAKU RAXIS IV
MIRRORS
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RUH3R
17016.439
hypothetical protein FLJ11149
2.7.1.26
1
man
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
427.201
ADENOSINE-5'-DIPHOSPHATE
1
syn
non-polymer
456.344
FLAVIN MONONUCLEOTIDE
1
syn
non-polymer
18.015
water
86
nat
water
no
no
IMRHLPYFCRGQVVRGFGRGSKQLGIPTANFPEQVVDNLPADISTGIYYGWASVGSGDVHKMVVSIGWNPYYKNTKKSME
THIMHTFKEDFYGEILNVAIVGYLRPEKNFDSLESLISAIQGDIEEAKKRLELPEYLKIKEDNFFQVSK
IMRHLPYFCRGQVVRGFGRGSKQLGIPTANFPEQVVDNLPADISTGIYYGWASVGSGDVHKMVVSIGWNPYYKNTKKSME
THIMHTFKEDFYGEILNVAIVGYLRPEKNFDSLESLISAIQGDIEEAKKRLELPEYLKIKEDNFFQVSK
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
human
Homo
Escherichia
Escherichia coli
sample
FLJ11149
9606
Homo sapiens
511693
Escherichia coli BL21
BL21
PLASMID
PPROEX-HTA
1
2.34
47.4
VAPOR DIFFUSION, HANGING DROP
4.7
PEG MME 5000, ammonium sulphate, sodium acetate, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2003-12-16
1
1
2008-04-29
1
2
2011-07-13
1
3
2023-08-16
_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_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_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_conn_type.id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2003-08-25
REL
REL
MG
MAGNESIUM ION
ADP
ADENOSINE-5'-DIPHOSPHATE
FMN
FLAVIN MONONUCLEOTIDE
HOH
water
1NB9
PDB ENTRY 1NB9
PDB
experimental model
MG
201
2
MG
MG
201
A
ADP
301
3
ADP
ADP
301
A
FMN
401
4
FMN
FMN
401
A
HOH
501
5
HOH
HOH
501
A
HOH
502
5
HOH
HOH
502
A
HOH
503
5
HOH
HOH
503
A
HOH
504
5
HOH
HOH
504
A
HOH
505
5
HOH
HOH
505
A
HOH
506
5
HOH
HOH
506
A
HOH
507
5
HOH
HOH
507
A
HOH
508
5
HOH
HOH
508
A
HOH
509
5
HOH
HOH
509
A
HOH
510
5
HOH
HOH
510
A
HOH
511
5
HOH
HOH
511
A
HOH
512
5
HOH
HOH
512
A
HOH
513
5
HOH
HOH
513
A
HOH
514
5
HOH
HOH
514
A
HOH
515
5
HOH
HOH
515
A
HOH
516
5
HOH
HOH
516
A
HOH
517
5
HOH
HOH
517
A
HOH
518
5
HOH
HOH
518
A
HOH
519
5
HOH
HOH
519
A
HOH
520
5
HOH
HOH
520
A
HOH
521
5
HOH
HOH
521
A
HOH
522
5
HOH
HOH
522
A
HOH
523
5
HOH
HOH
523
A
HOH
524
5
HOH
HOH
524
A
HOH
525
5
HOH
HOH
525
A
HOH
526
5
HOH
HOH
526
A
HOH
527
5
HOH
HOH
527
A
HOH
528
5
HOH
HOH
528
A
HOH
529
5
HOH
HOH
529
A
HOH
530
5
HOH
HOH
530
A
HOH
531
5
HOH
HOH
531
A
HOH
532
5
HOH
HOH
532
A
HOH
533
5
HOH
HOH
533
A
HOH
534
5
HOH
HOH
534
A
HOH
535
5
HOH
HOH
535
A
HOH
536
5
HOH
HOH
536
A
HOH
537
5
HOH
HOH
537
A
HOH
538
5
HOH
HOH
538
A
HOH
539
5
HOH
HOH
539
A
HOH
540
5
HOH
HOH
540
A
HOH
541
5
HOH
HOH
541
A
HOH
542
5
HOH
HOH
542
A
HOH
543
5
HOH
HOH
543
A
HOH
544
5
HOH
HOH
544
A
HOH
545
5
HOH
HOH
545
A
HOH
546
5
HOH
HOH
546
A
HOH
547
5
HOH
HOH
547
A
HOH
548
5
HOH
HOH
548
A
HOH
549
5
HOH
HOH
549
A
HOH
550
5
HOH
HOH
550
A
HOH
551
5
HOH
HOH
551
A
HOH
552
5
HOH
HOH
552
A
HOH
553
5
HOH
HOH
553
A
HOH
554
5
HOH
HOH
554
A
HOH
555
5
HOH
HOH
555
A
HOH
556
5
HOH
HOH
556
A
HOH
557
5
HOH
HOH
557
A
HOH
558
5
HOH
HOH
558
A
HOH
559
5
HOH
HOH
559
A
HOH
560
5
HOH
HOH
560
A
HOH
561
5
HOH
HOH
561
A
HOH
562
5
HOH
HOH
562
A
HOH
563
5
HOH
HOH
563
A
HOH
564
5
HOH
HOH
564
A
HOH
565
5
HOH
HOH
565
A
HOH
566
5
HOH
HOH
566
A
HOH
567
5
HOH
HOH
567
A
HOH
568
5
HOH
HOH
568
A
HOH
569
5
HOH
HOH
569
A
HOH
570
5
HOH
HOH
570
A
HOH
571
5
HOH
HOH
571
A
HOH
572
5
HOH
HOH
572
A
HOH
573
5
HOH
HOH
573
A
HOH
574
5
HOH
HOH
574
A
HOH
575
5
HOH
HOH
575
A
HOH
576
5
HOH
HOH
576
A
HOH
577
5
HOH
HOH
577
A
HOH
578
5
HOH
HOH
578
A
HOH
579
5
HOH
HOH
579
A
HOH
580
5
HOH
HOH
580
A
HOH
581
5
HOH
HOH
581
A
HOH
582
5
HOH
HOH
582
A
HOH
583
5
HOH
HOH
583
A
HOH
584
5
HOH
HOH
584
A
HOH
585
5
HOH
HOH
585
A
HOH
586
5
HOH
HOH
586
A
ILE
7
n
1
ILE
7
A
MET
8
n
2
MET
8
A
ARG
9
n
3
ARG
9
A
HIS
10
n
4
HIS
10
A
LEU
11
n
5
LEU
11
A
PRO
12
n
6
PRO
12
A
TYR
13
n
7
TYR
13
A
PHE
14
n
8
PHE
14
A
CYS
15
n
9
CYS
15
A
ARG
16
n
10
ARG
16
A
GLY
17
n
11
GLY
17
A
GLN
18
n
12
GLN
18
A
VAL
19
n
13
VAL
19
A
VAL
20
n
14
VAL
20
A
ARG
21
n
15
ARG
21
A
GLY
22
n
16
GLY
22
A
PHE
23
n
17
PHE
23
A
GLY
24
n
18
GLY
24
A
ARG
25
n
19
ARG
25
A
GLY
26
n
20
GLY
26
A
SER
27
n
21
SER
27
A
LYS
28
n
22
LYS
28
A
GLN
29
n
23
GLN
29
A
LEU
30
n
24
LEU
30
A
GLY
31
n
25
GLY
31
A
ILE
32
n
26
ILE
32
A
PRO
33
n
27
PRO
33
A
THR
34
n
28
THR
34
A
ALA
35
n
29
ALA
35
A
ASN
36
n
30
ASN
36
A
PHE
37
n
31
PHE
37
A
PRO
38
n
32
PRO
38
A
GLU
39
n
33
GLU
39
A
GLN
40
n
34
GLN
40
A
VAL
41
n
35
VAL
41
A
VAL
42
n
36
VAL
42
A
ASP
43
n
37
ASP
43
A
ASN
44
n
38
ASN
44
A
LEU
45
n
39
LEU
45
A
PRO
46
n
40
PRO
46
A
ALA
47
n
41
ALA
47
A
ASP
48
n
42
ASP
48
A
ILE
49
n
43
ILE
49
A
SER
50
n
44
SER
50
A
THR
51
n
45
THR
51
A
GLY
52
n
46
GLY
52
A
ILE
53
n
47
ILE
53
A
TYR
54
n
48
TYR
54
A
TYR
55
n
49
TYR
55
A
GLY
56
n
50
GLY
56
A
TRP
57
n
51
TRP
57
A
ALA
58
n
52
ALA
58
A
SER
59
n
53
SER
59
A
VAL
60
n
54
VAL
60
A
GLY
61
n
55
GLY
61
A
SER
62
n
56
SER
62
A
GLY
63
n
57
GLY
63
A
ASP
64
n
58
ASP
64
A
VAL
65
n
59
VAL
65
A
HIS
66
n
60
HIS
66
A
LYS
67
n
61
LYS
67
A
MET
68
n
62
MET
68
A
VAL
69
n
63
VAL
69
A
VAL
70
n
64
VAL
70
A
SER
71
n
65
SER
71
A
ILE
72
n
66
ILE
72
A
GLY
73
n
67
GLY
73
A
TRP
74
n
68
TRP
74
A
ASN
75
n
69
ASN
75
A
PRO
76
n
70
PRO
76
A
TYR
77
n
71
TYR
77
A
TYR
78
n
72
TYR
78
A
LYS
79
n
73
LYS
79
A
ASN
80
n
74
ASN
80
A
THR
81
n
75
THR
81
A
LYS
82
n
76
LYS
82
A
LYS
83
n
77
LYS
83
A
SER
84
n
78
SER
84
A
MET
85
n
79
MET
85
A
GLU
86
n
80
GLU
86
A
THR
87
n
81
THR
87
A
HIS
88
n
82
HIS
88
A
ILE
89
n
83
ILE
89
A
MET
90
n
84
MET
90
A
HIS
91
n
85
HIS
91
A
THR
92
n
86
THR
92
A
PHE
93
n
87
PHE
93
A
LYS
94
n
88
LYS
94
A
GLU
95
n
89
GLU
95
A
ASP
96
n
90
ASP
96
A
PHE
97
n
91
PHE
97
A
TYR
98
n
92
TYR
98
A
GLY
99
n
93
GLY
99
A
GLU
100
n
94
GLU
100
A
ILE
101
n
95
ILE
101
A
LEU
102
n
96
LEU
102
A
ASN
103
n
97
ASN
103
A
VAL
104
n
98
VAL
104
A
ALA
105
n
99
ALA
105
A
ILE
106
n
100
ILE
106
A
VAL
107
n
101
VAL
107
A
GLY
108
n
102
GLY
108
A
TYR
109
n
103
TYR
109
A
LEU
110
n
104
LEU
110
A
ARG
111
n
105
ARG
111
A
PRO
112
n
106
PRO
112
A
GLU
113
n
107
GLU
113
A
LYS
114
n
108
LYS
114
A
ASN
115
n
109
ASN
115
A
PHE
116
n
110
PHE
116
A
ASP
117
n
111
ASP
117
A
SER
118
n
112
SER
118
A
LEU
119
n
113
LEU
119
A
GLU
120
n
114
GLU
120
A
SER
121
n
115
SER
121
A
LEU
122
n
116
LEU
122
A
ILE
123
n
117
ILE
123
A
SER
124
n
118
SER
124
A
ALA
125
n
119
ALA
125
A
ILE
126
n
120
ILE
126
A
GLN
127
n
121
GLN
127
A
GLY
128
n
122
GLY
128
A
ASP
129
n
123
ASP
129
A
ILE
130
n
124
ILE
130
A
GLU
131
n
125
GLU
131
A
GLU
132
n
126
GLU
132
A
ALA
133
n
127
ALA
133
A
LYS
134
n
128
LYS
134
A
LYS
135
n
129
LYS
135
A
ARG
136
n
130
ARG
136
A
LEU
137
n
131
LEU
137
A
GLU
138
n
132
GLU
138
A
LEU
139
n
133
LEU
139
A
PRO
140
n
134
PRO
140
A
GLU
141
n
135
GLU
141
A
TYR
142
n
136
TYR
142
A
LEU
143
n
137
LEU
143
A
LYS
144
n
138
LYS
144
A
ILE
145
n
139
ILE
145
A
LYS
146
n
140
LYS
146
A
GLU
147
n
141
GLU
147
A
ASP
148
n
142
ASP
148
A
ASN
149
n
143
ASN
149
A
PHE
150
n
144
PHE
150
A
PHE
151
n
145
PHE
151
A
GLN
152
n
146
GLN
152
A
VAL
153
n
147
VAL
153
A
SER
154
n
148
SER
154
A
LYS
155
n
149
LYS
155
A
author_defined_assembly
1
monomeric
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
THR
34
A
O
THR
28
1_555
78.9
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ASN
36
A
OD1
ASN
30
1_555
83.5
A
THR
34
A
O
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ASN
36
A
OD1
ASN
30
1_555
83.0
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O1B
ADP
1_555
167.5
A
THR
34
A
O
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O1B
ADP
1_555
90.2
A
ASN
36
A
OD1
ASN
30
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O1B
ADP
1_555
101.4
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O2A
ADP
1_555
89.4
A
THR
34
A
O
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O2A
ADP
1_555
89.9
A
ASN
36
A
OD1
ASN
30
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O2A
ADP
1_555
170.8
A
ADP
301
C
O1B
ADP
1_555
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O2A
ADP
1_555
84.4
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
78.0
A
THR
34
A
O
THR
28
1_555
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
156.8
A
ASN
36
A
OD1
ASN
30
1_555
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
94.6
A
ADP
301
C
O1B
ADP
1_555
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
112.8
A
ADP
301
C
O2A
ADP
1_555
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
89.7
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
GLY
17
A
N
GLY
11
A
O
LEU
102
A
O
LEU
96
A
O
ARG
111
A
O
ARG
105
A
N
ILE
53
A
N
ILE
47
A
N
TYR
54
A
N
TYR
48
A
O
VAL
70
A
O
VAL
64
A
N
VAL
69
A
N
VAL
63
A
O
HIS
88
A
O
HIS
82
A
O
THR
87
A
O
THR
81
A
N
ALA
35
A
N
ALA
29
1
A
HOH
586
E
HOH
1
A
CB
ILE
7
A
CB
ILE
1
1
Y
1
A
CG1
ILE
7
A
CG1
ILE
1
1
Y
1
A
CG2
ILE
7
A
CG2
ILE
1
1
Y
1
A
CD1
ILE
7
A
CD1
ILE
1
1
Y
1
A
CB
MET
8
A
CB
MET
2
1
Y
1
A
CG
MET
8
A
CG
MET
2
1
Y
1
A
SD
MET
8
A
SD
MET
2
1
Y
1
A
CE
MET
8
A
CE
MET
2
1
Y
1
A
ARG
9
-67.36
37.48
1
A
HIS
10
-104.62
49.24
1
A
ASN
75
53.35
72.37
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
ADP.PAR
ADP.TOP
FMN.PAR
FMN.TOP
32.2
-5.92
0.00
0.00
4.07
0.00
1.85
0.26
0.014
0.199
0.222
0.199
2.42
35.15
330
6905
6896
4.8
99.7
RANDOM
1023651.21
0.000000
1
RESTRAINED
THROUGHOUT
0.00
MOLECULAR REPLACEMENT
PDB ENTRY 1NB9
Engh & Huber
FLAT MODEL
42.0074
0.380922
0.36
0.26
5.00
0.35
0.24
2.42
35.15
86
1337
59
0
1192
0.012
1.6
23.2
1.11
1.36
1.50
2.24
2.00
2.06
2.00
3.05
2.50
0.313
0.047
0.236
2.57
45
1063
6
4.1
98.7
28.5
2.42
50.0
1Q9S
6905
6905
0.0
-3.0
0.061
1
35.5
6.2
99.7
2.42
2.51
7.2
656
0.241
5.8
99.5
refinement
CNS
1.1
data reduction
HKL-2000
data scaling
SCALEPACK
phasing
AMoRE
Crystal structure of riboflavin kinase with ternary product complex
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
A
ARG
25
A
ARG
19
HELX_P
A
GLY
31
A
GLY
25
1
1
7
A
PRO
38
A
PRO
32
HELX_P
A
ASN
44
A
ASN
38
1
2
7
A
SER
118
A
SER
112
HELX_P
A
LEU
137
A
LEU
131
1
3
20
A
LEU
139
A
LEU
133
HELX_P
A
LYS
146
A
LYS
140
1
4
8
A
ASP
148
A
ASP
142
HELX_P
A
VAL
153
A
VAL
147
1
5
6
covale
2.408
none
A
GLU
86
A
OE1
GLU
80
1_555
A
FMN
401
D
O3'
FMN
1_555
metalc
2.399
A
THR
34
A
OG1
THR
28
1_555
A
MG
201
B
MG
MG
1_555
metalc
2.240
A
THR
34
A
O
THR
28
1_555
A
MG
201
B
MG
MG
1_555
metalc
2.334
A
ASN
36
A
OD1
ASN
30
1_555
A
MG
201
B
MG
MG
1_555
metalc
2.092
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O1B
ADP
1_555
metalc
2.363
A
MG
201
B
MG
MG
1_555
A
ADP
301
C
O2A
ADP
1_555
metalc
1.991
A
MG
201
B
MG
MG
1_555
A
FMN
401
D
O1P
FMN
1_555
TRANSFERASE
TRANSFERASE, BETA BARREL, RIBOFLAVIN, RIBOFLAVIN KINASE, FMN binding protein, complex
A
LEU
11
A
LEU
5
1
A
PRO
12
A
PRO
6
-0.01
RIFK_HUMAN
UNP
1
7
Q969G6
IMRHLPYFCRGQVVRGFGRGSKQLGIPTANFPEQVVDNLPADISTGIYYGWASVGSGDVHKMVVSIGWNPYYKNTKKSME
THIMHTFKEDFYGEILNVAIVGYLRPEKNFDSLESLISAIQGDIEEAKKRLELPEHLKIKEDNFFQVSK
7
155
1Q9S
7
155
Q969G6
A
1
1
149
1
HIS
conflict
TYR
142
1Q9S
A
Q969G6
UNP
142
136
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
TYR
13
A
TYR
7
A
GLN
18
A
GLN
12
A
ILE
101
A
ILE
95
A
ARG
111
A
ARG
105
A
GLY
52
A
GLY
46
A
VAL
60
A
VAL
54
A
HIS
66
A
HIS
60
A
GLY
73
A
GLY
67
A
SER
84
A
SER
78
A
ILE
89
A
ILE
83
A
ALA
35
A
ALA
29
A
ASN
36
A
ASN
30
BINDING SITE FOR RESIDUE MG A 201
A
MG
201
Software
4
BINDING SITE FOR RESIDUE ADP A 301
A
ADP
301
Software
22
BINDING SITE FOR RESIDUE FMN A 401
A
FMN
401
Software
25
A
THR
34
A
THR
28
4
1_555
A
ASN
36
A
ASN
30
4
1_555
A
ADP
301
C
ADP
4
1_555
A
FMN
401
D
FMN
4
1_555
A
VAL
19
A
VAL
13
22
1_555
A
GLY
22
A
GLY
16
22
1_555
A
PHE
23
A
PHE
17
22
1_555
A
GLY
24
A
GLY
18
22
1_555
A
GLY
26
A
GLY
20
22
1_555
A
SER
27
A
SER
21
22
1_555
A
PRO
33
A
PRO
27
22
1_555
A
THR
34
A
THR
28
22
1_555
A
ALA
35
A
ALA
29
22
1_555
A
ASN
36
A
ASN
30
22
1_555
A
THR
87
A
THR
81
22
1_555
A
ILE
89
A
ILE
83
22
1_555
A
HIS
91
A
HIS
85
22
1_555
A
ASP
96
A
ASP
90
22
1_555
A
PHE
97
A
PHE
91
22
1_555
A
TYR
98
A
TYR
92
22
1_555
A
MG
201
B
MG
22
1_555
A
FMN
401
D
FMN
22
1_555
A
HOH
502
E
HOH
22
1_555
A
HOH
514
E
HOH
22
1_555
A
HOH
516
E
HOH
22
1_555
A
HOH
529
E
HOH
22
1_555
A
GLY
22
A
GLY
16
25
1_555
A
PHE
23
A
PHE
17
25
1_555
A
GLY
24
A
GLY
18
25
1_555
A
ARG
25
A
ARG
19
25
1_555
A
GLY
26
A
GLY
20
25
1_555
A
THR
34
A
THR
28
25
1_555
A
ASN
36
A
ASN
30
25
1_555
A
ILE
53
A
ILE
47
25
1_555
A
VAL
69
A
VAL
63
25
1_555
A
SER
71
A
SER
65
25
1_555
A
ASN
75
A
ASN
69
25
1_555
A
PRO
76
A
PRO
70
25
1_555
A
TYR
77
A
TYR
71
25
1_555
A
TYR
78
A
TYR
72
25
1_555
A
GLU
86
A
GLU
80
25
1_555
A
ARG
111
A
ARG
105
25
1_555
A
LYS
114
A
LYS
108
25
1_555
A
PHE
116
A
PHE
110
25
1_555
A
ILE
126
A
ILE
120
25
1_555
A
ASP
129
A
ASP
123
25
1_555
A
MG
201
B
MG
25
1_555
A
ADP
301
C
ADP
25
1_555
A
HOH
503
E
HOH
25
1_555
A
HOH
505
E
HOH
25
1_555
A
HOH
568
E
HOH
25
1_555
20
C 2 2 21