0.011485
0.000000
0.005436
0.000000
0.019355
0.000000
0.000000
0.000000
0.013790
0.00000
0.00000
0.00000
Forest, K.T.
Auldridge, M.E.
Satyshur, K.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
115.33
90.00
87.072
51.666
80.228
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
C33 H37 N4 O6 1
585.670
3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid
2(R),3(E)- PHYTOCHROMOBILIN
non-polymer
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
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
C
Y
184
N
C
N
185
N
O
N
186
N
C
N
187
N
O
N
188
N
C
N
189
S
C
Y
190
N
C
N
191
N
O
N
192
N
C
N
193
N
O
N
194
N
C
N
195
N
C
Y
196
N
C
N
197
N
C
N
198
N
C
N
199
N
C
Y
200
N
C
N
201
N
C
N
202
N
C
N
203
N
C
N
204
N
C
N
205
N
C
N
206
N
C
N
207
N
C
N
208
N
C
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
C
N
214
N
C
N
215
N
C
N
216
N
C
N
217
N
C
N
218
N
C
N
219
N
C
N
220
N
N
N
221
N
O
Y
222
N
N
N
223
N
N
N
224
N
N
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
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
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
H
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
N
N
264
S
C
N
265
N
C
N
266
N
O
N
267
N
C
N
268
N
C
N
269
N
C
N
270
N
C
N
271
N
O
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
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
N
N
286
S
C
N
287
N
C
N
288
N
O
N
289
N
C
N
290
N
C
N
291
N
C
N
292
N
C
N
293
N
N
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
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
N
N
311
S
C
N
312
N
C
N
313
N
O
N
314
N
C
N
315
N
C
N
316
N
S
N
317
N
C
N
318
N
O
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
N
N
331
S
C
N
332
N
C
N
333
N
O
N
334
N
C
Y
335
N
C
Y
336
N
C
Y
337
N
C
Y
338
N
C
Y
339
N
C
Y
340
N
C
N
341
N
O
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
N
N
354
S
C
N
355
N
C
N
356
N
O
N
357
N
C
N
358
N
C
N
359
N
C
N
360
N
O
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
N
N
371
S
C
N
372
N
C
N
373
N
O
N
374
N
C
N
375
N
O
N
376
N
O
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
N
N
385
S
C
N
386
N
C
N
387
N
O
N
388
R
C
N
389
N
O
N
390
N
C
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
H
N
400
N
H
N
401
N
N
N
402
S
C
N
403
N
C
N
404
N
O
N
405
N
C
Y
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
N
Y
410
N
C
Y
411
N
C
Y
412
N
C
Y
413
N
C
Y
414
N
C
N
415
N
O
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
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
N
N
429
S
C
N
430
N
C
N
431
N
O
N
432
N
C
Y
433
N
C
Y
434
N
C
Y
435
N
C
Y
436
N
C
Y
437
N
C
Y
438
N
C
N
439
N
O
N
440
N
O
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
N
N
453
S
C
N
454
N
C
N
455
N
O
N
456
N
C
N
457
N
C
N
458
N
C
N
459
N
O
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
N
H
N
468
N
H
N
469
N
H
N
470
N
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
Y
175
N
doub
N
176
N
sing
N
177
N
doub
N
178
Z
doub
N
179
Z
doub
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
N
185
N
sing
N
186
N
sing
N
187
E
doub
Y
188
N
sing
N
189
N
sing
N
190
N
doub
N
191
N
sing
N
192
N
doub
N
193
N
sing
N
194
Z
doub
Y
195
N
doub
Y
196
N
sing
N
197
N
doub
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
Y
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
doub
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
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
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
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
doub
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
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
sing
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
doub
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
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
doub
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
Y
331
N
doub
Y
332
N
sing
Y
333
N
sing
N
334
N
sing
Y
335
N
doub
N
336
N
sing
Y
337
N
doub
N
338
N
sing
Y
339
N
sing
N
340
N
sing
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
doub
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
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
doub
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
doub
N
380
N
sing
N
381
N
sing
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
sing
N
395
N
doub
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
Y
400
N
doub
Y
401
N
sing
Y
402
N
sing
N
403
N
sing
Y
404
N
doub
Y
405
N
sing
Y
406
N
sing
N
407
N
sing
Y
408
N
sing
Y
409
N
doub
N
410
N
sing
Y
411
N
doub
N
412
N
sing
Y
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
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
doub
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
Y
428
N
doub
Y
429
N
sing
Y
430
N
sing
N
431
N
sing
Y
432
N
doub
N
433
N
sing
Y
434
N
doub
N
435
N
sing
Y
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
doub
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
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
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
287
7000
7009
10.1074/jbc.M111.295121
22210774
Structure-guided engineering enhances a phytochrome-based infrared fluorescent protein.
2012
10.2210/pdb3s7p/pdb
pdb_00003s7p
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
mirrors
CCD
2010-06-08
MARMOSAIC 300 mm CCD
Si(111)
SINGLE WAVELENGTH
M
x-ray
1
0.9785
1.0
21-ID-D
APS
0.9785
SYNCHROTRON
APS BEAMLINE 21-ID-D
37176.418
Bacteriophytochrome
2.7.13.3
chromophore binidng domain (UNP Residues 1-321)
D207H Y307S
1
man
polymer
585.670
3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid
1
syn
non-polymer
18.015
water
298
nat
water
Phytochrome-like protein
no
no
MASMTGGQQMGRGSMSRDPLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEP
TVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTEAWDSTGPHALRNAMFA
LESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTAD
TRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLE
SLGRLLSLQVQVKEALEHHHHHH
MASMTGGQQMGRGSMSRDPLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEP
TVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTEAWDSTGPHALRNAMFA
LESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTAD
TRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLE
SLGRLLSLQVQVKEALEHHHHHH
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
sample
bphP, DR_A0050
1299
Deinococcus radiodurans
469008
Escherichia coli
BL21 (DE3)
Plasmid
pET21a
1
2.19
43.93
VAPOR DIFFUSION, HANGING DROP
5.6
14% v/v PEG 4000, 20% v/v isopropanol, 0.1M sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298.K
298.
chem_comp
chem_comp_atom
chem_comp_bond
database_2
entity
pdbx_entity_nonpoly
pdbx_initial_refinement_model
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Refinement description
Structure summary
1
0
2011-12-21
1
1
2012-11-28
1
2
2023-09-13
_chem_comp.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
DrCBD Y307S
Same as 2O9C but with a Pro to Thr substitution at position 240 and tyrosine at position 307
Same as 2O9C at lower resolution
RCSB
Y
RCSB
2011-05-26
REL
REL
LBV
3-[2-[(Z)-[3-(2-carboxyethyl)-5-[(Z)-(4-ethenyl-3-methyl-5-oxidanylidene-pyrrol-2-ylidene)methyl]-4-methyl-pyrrol-1-ium -2-ylidene]methyl]-5-[(Z)-[(3E)-3-ethylidene-4-methyl-5-oxidanylidene-pyrrolidin-2-ylidene]methyl]-4-methyl-1H-pyrrol-3- yl]propanoic acid
HOH
water
2O9C
PDB ENTRY 2O9C
PDB
experimental model
LBV
330
2
LBV
LBV
330
A
HOH
1
3
HOH
HOH
331
A
HOH
2
3
HOH
HOH
332
A
HOH
3
3
HOH
HOH
333
A
HOH
4
3
HOH
HOH
334
A
HOH
5
3
HOH
HOH
335
A
HOH
6
3
HOH
HOH
336
A
HOH
7
3
HOH
HOH
337
A
HOH
8
3
HOH
HOH
338
A
HOH
9
3
HOH
HOH
339
A
HOH
10
3
HOH
HOH
340
A
HOH
11
3
HOH
HOH
341
A
HOH
12
3
HOH
HOH
342
A
HOH
13
3
HOH
HOH
343
A
HOH
14
3
HOH
HOH
344
A
HOH
15
3
HOH
HOH
345
A
HOH
16
3
HOH
HOH
346
A
HOH
17
3
HOH
HOH
347
A
HOH
18
3
HOH
HOH
348
A
HOH
19
3
HOH
HOH
349
A
HOH
20
3
HOH
HOH
350
A
HOH
21
3
HOH
HOH
351
A
HOH
22
3
HOH
HOH
352
A
HOH
23
3
HOH
HOH
353
A
HOH
24
3
HOH
HOH
354
A
HOH
25
3
HOH
HOH
355
A
HOH
26
3
HOH
HOH
356
A
HOH
27
3
HOH
HOH
357
A
HOH
28
3
HOH
HOH
358
A
HOH
29
3
HOH
HOH
359
A
HOH
30
3
HOH
HOH
360
A
HOH
31
3
HOH
HOH
361
A
HOH
32
3
HOH
HOH
362
A
HOH
33
3
HOH
HOH
363
A
HOH
34
3
HOH
HOH
364
A
HOH
35
3
HOH
HOH
365
A
HOH
36
3
HOH
HOH
366
A
HOH
37
3
HOH
HOH
367
A
HOH
38
3
HOH
HOH
368
A
HOH
39
3
HOH
HOH
369
A
HOH
40
3
HOH
HOH
370
A
HOH
41
3
HOH
HOH
371
A
HOH
42
3
HOH
HOH
372
A
HOH
43
3
HOH
HOH
373
A
HOH
44
3
HOH
HOH
374
A
HOH
45
3
HOH
HOH
375
A
HOH
46
3
HOH
HOH
376
A
HOH
47
3
HOH
HOH
377
A
HOH
48
3
HOH
HOH
378
A
HOH
49
3
HOH
HOH
379
A
HOH
50
3
HOH
HOH
380
A
HOH
51
3
HOH
HOH
381
A
HOH
52
3
HOH
HOH
382
A
HOH
53
3
HOH
HOH
383
A
HOH
54
3
HOH
HOH
384
A
HOH
55
3
HOH
HOH
385
A
HOH
56
3
HOH
HOH
386
A
HOH
57
3
HOH
HOH
387
A
HOH
58
3
HOH
HOH
388
A
HOH
59
3
HOH
HOH
389
A
HOH
60
3
HOH
HOH
390
A
HOH
61
3
HOH
HOH
391
A
HOH
62
3
HOH
HOH
392
A
HOH
63
3
HOH
HOH
393
A
HOH
64
3
HOH
HOH
394
A
HOH
65
3
HOH
HOH
395
A
HOH
66
3
HOH
HOH
396
A
HOH
67
3
HOH
HOH
397
A
HOH
68
3
HOH
HOH
398
A
HOH
69
3
HOH
HOH
399
A
HOH
70
3
HOH
HOH
400
A
HOH
71
3
HOH
HOH
401
A
HOH
72
3
HOH
HOH
402
A
HOH
73
3
HOH
HOH
403
A
HOH
74
3
HOH
HOH
404
A
HOH
75
3
HOH
HOH
405
A
HOH
76
3
HOH
HOH
406
A
HOH
77
3
HOH
HOH
407
A
HOH
78
3
HOH
HOH
408
A
HOH
79
3
HOH
HOH
409
A
HOH
80
3
HOH
HOH
410
A
HOH
81
3
HOH
HOH
411
A
HOH
82
3
HOH
HOH
412
A
HOH
83
3
HOH
HOH
413
A
HOH
84
3
HOH
HOH
414
A
HOH
85
3
HOH
HOH
415
A
HOH
86
3
HOH
HOH
416
A
HOH
87
3
HOH
HOH
417
A
HOH
88
3
HOH
HOH
418
A
HOH
89
3
HOH
HOH
419
A
HOH
90
3
HOH
HOH
420
A
HOH
91
3
HOH
HOH
421
A
HOH
92
3
HOH
HOH
422
A
HOH
93
3
HOH
HOH
423
A
HOH
94
3
HOH
HOH
424
A
HOH
95
3
HOH
HOH
425
A
HOH
96
3
HOH
HOH
426
A
HOH
97
3
HOH
HOH
427
A
HOH
98
3
HOH
HOH
428
A
HOH
99
3
HOH
HOH
429
A
HOH
100
3
HOH
HOH
430
A
HOH
101
3
HOH
HOH
431
A
HOH
102
3
HOH
HOH
432
A
HOH
103
3
HOH
HOH
433
A
HOH
104
3
HOH
HOH
434
A
HOH
105
3
HOH
HOH
435
A
HOH
106
3
HOH
HOH
436
A
HOH
107
3
HOH
HOH
437
A
HOH
108
3
HOH
HOH
438
A
HOH
109
3
HOH
HOH
439
A
HOH
110
3
HOH
HOH
440
A
HOH
111
3
HOH
HOH
441
A
HOH
112
3
HOH
HOH
442
A
HOH
113
3
HOH
HOH
443
A
HOH
114
3
HOH
HOH
444
A
HOH
115
3
HOH
HOH
445
A
HOH
116
3
HOH
HOH
446
A
HOH
117
3
HOH
HOH
447
A
HOH
118
3
HOH
HOH
448
A
HOH
119
3
HOH
HOH
449
A
HOH
120
3
HOH
HOH
450
A
HOH
121
3
HOH
HOH
451
A
HOH
122
3
HOH
HOH
452
A
HOH
123
3
HOH
HOH
453
A
HOH
124
3
HOH
HOH
454
A
HOH
125
3
HOH
HOH
455
A
HOH
126
3
HOH
HOH
456
A
HOH
127
3
HOH
HOH
457
A
HOH
128
3
HOH
HOH
458
A
HOH
129
3
HOH
HOH
459
A
HOH
130
3
HOH
HOH
460
A
HOH
131
3
HOH
HOH
461
A
HOH
132
3
HOH
HOH
462
A
HOH
133
3
HOH
HOH
463
A
HOH
134
3
HOH
HOH
464
A
HOH
135
3
HOH
HOH
465
A
HOH
136
3
HOH
HOH
466
A
HOH
137
3
HOH
HOH
467
A
HOH
138
3
HOH
HOH
468
A
HOH
139
3
HOH
HOH
469
A
HOH
140
3
HOH
HOH
470
A
HOH
141
3
HOH
HOH
471
A
HOH
142
3
HOH
HOH
472
A
HOH
143
3
HOH
HOH
473
A
HOH
144
3
HOH
HOH
474
A
HOH
145
3
HOH
HOH
475
A
HOH
146
3
HOH
HOH
476
A
HOH
147
3
HOH
HOH
477
A
HOH
148
3
HOH
HOH
478
A
HOH
149
3
HOH
HOH
479
A
HOH
150
3
HOH
HOH
480
A
HOH
152
3
HOH
HOH
482
A
HOH
153
3
HOH
HOH
483
A
HOH
154
3
HOH
HOH
484
A
HOH
156
3
HOH
HOH
486
A
HOH
157
3
HOH
HOH
487
A
HOH
158
3
HOH
HOH
488
A
HOH
159
3
HOH
HOH
489
A
HOH
160
3
HOH
HOH
490
A
HOH
161
3
HOH
HOH
491
A
HOH
162
3
HOH
HOH
492
A
HOH
163
3
HOH
HOH
493
A
HOH
165
3
HOH
HOH
495
A
HOH
166
3
HOH
HOH
496
A
HOH
167
3
HOH
HOH
497
A
HOH
168
3
HOH
HOH
498
A
HOH
169
3
HOH
HOH
499
A
HOH
170
3
HOH
HOH
500
A
HOH
171
3
HOH
HOH
501
A
HOH
172
3
HOH
HOH
502
A
HOH
173
3
HOH
HOH
503
A
HOH
174
3
HOH
HOH
504
A
HOH
175
3
HOH
HOH
505
A
HOH
176
3
HOH
HOH
506
A
HOH
177
3
HOH
HOH
507
A
HOH
178
3
HOH
HOH
508
A
HOH
179
3
HOH
HOH
509
A
HOH
180
3
HOH
HOH
510
A
HOH
182
3
HOH
HOH
511
A
HOH
183
3
HOH
HOH
512
A
HOH
184
3
HOH
HOH
513
A
HOH
185
3
HOH
HOH
514
A
HOH
187
3
HOH
HOH
515
A
HOH
188
3
HOH
HOH
516
A
HOH
189
3
HOH
HOH
517
A
HOH
190
3
HOH
HOH
518
A
HOH
191
3
HOH
HOH
519
A
HOH
192
3
HOH
HOH
520
A
HOH
193
3
HOH
HOH
521
A
HOH
194
3
HOH
HOH
522
A
HOH
195
3
HOH
HOH
523
A
HOH
196
3
HOH
HOH
524
A
HOH
197
3
HOH
HOH
525
A
HOH
198
3
HOH
HOH
526
A
HOH
200
3
HOH
HOH
528
A
HOH
202
3
HOH
HOH
529
A
HOH
203
3
HOH
HOH
530
A
HOH
204
3
HOH
HOH
531
A
HOH
205
3
HOH
HOH
532
A
HOH
206
3
HOH
HOH
533
A
HOH
207
3
HOH
HOH
534
A
HOH
208
3
HOH
HOH
535
A
HOH
209
3
HOH
HOH
536
A
HOH
211
3
HOH
HOH
538
A
HOH
212
3
HOH
HOH
539
A
HOH
214
3
HOH
HOH
540
A
HOH
215
3
HOH
HOH
541
A
HOH
216
3
HOH
HOH
542
A
HOH
217
3
HOH
HOH
543
A
HOH
218
3
HOH
HOH
544
A
HOH
219
3
HOH
HOH
545
A
HOH
220
3
HOH
HOH
546
A
HOH
221
3
HOH
HOH
547
A
HOH
222
3
HOH
HOH
548
A
HOH
223
3
HOH
HOH
549
A
HOH
224
3
HOH
HOH
550
A
HOH
225
3
HOH
HOH
551
A
HOH
226
3
HOH
HOH
552
A
HOH
227
3
HOH
HOH
553
A
HOH
228
3
HOH
HOH
554
A
HOH
229
3
HOH
HOH
555
A
HOH
230
3
HOH
HOH
556
A
HOH
231
3
HOH
HOH
557
A
HOH
232
3
HOH
HOH
558
A
HOH
233
3
HOH
HOH
559
A
HOH
234
3
HOH
HOH
560
A
HOH
235
3
HOH
HOH
561
A
HOH
238
3
HOH
HOH
563
A
HOH
239
3
HOH
HOH
564
A
HOH
240
3
HOH
HOH
565
A
HOH
243
3
HOH
HOH
566
A
HOH
244
3
HOH
HOH
567
A
HOH
245
3
HOH
HOH
568
A
HOH
246
3
HOH
HOH
569
A
HOH
247
3
HOH
HOH
570
A
HOH
248
3
HOH
HOH
571
A
HOH
249
3
HOH
HOH
572
A
HOH
251
3
HOH
HOH
573
A
HOH
252
3
HOH
HOH
574
A
HOH
253
3
HOH
HOH
575
A
HOH
254
3
HOH
HOH
576
A
HOH
255
3
HOH
HOH
577
A
HOH
256
3
HOH
HOH
578
A
HOH
257
3
HOH
HOH
579
A
HOH
258
3
HOH
HOH
580
A
HOH
259
3
HOH
HOH
581
A
HOH
260
3
HOH
HOH
582
A
HOH
261
3
HOH
HOH
583
A
HOH
262
3
HOH
HOH
584
A
HOH
263
3
HOH
HOH
585
A
HOH
264
3
HOH
HOH
586
A
HOH
266
3
HOH
HOH
588
A
HOH
267
3
HOH
HOH
589
A
HOH
268
3
HOH
HOH
590
A
HOH
269
3
HOH
HOH
591
A
HOH
270
3
HOH
HOH
592
A
HOH
271
3
HOH
HOH
593
A
HOH
272
3
HOH
HOH
594
A
HOH
273
3
HOH
HOH
595
A
HOH
274
3
HOH
HOH
596
A
HOH
275
3
HOH
HOH
597
A
HOH
276
3
HOH
HOH
598
A
HOH
277
3
HOH
HOH
599
A
HOH
278
3
HOH
HOH
600
A
HOH
279
3
HOH
HOH
601
A
HOH
280
3
HOH
HOH
602
A
HOH
281
3
HOH
HOH
603
A
HOH
282
3
HOH
HOH
604
A
HOH
283
3
HOH
HOH
605
A
HOH
284
3
HOH
HOH
606
A
HOH
285
3
HOH
HOH
607
A
HOH
286
3
HOH
HOH
608
A
HOH
287
3
HOH
HOH
609
A
HOH
289
3
HOH
HOH
610
A
HOH
290
3
HOH
HOH
611
A
HOH
292
3
HOH
HOH
612
A
HOH
293
3
HOH
HOH
613
A
HOH
294
3
HOH
HOH
614
A
HOH
295
3
HOH
HOH
615
A
HOH
297
3
HOH
HOH
617
A
HOH
298
3
HOH
HOH
618
A
HOH
299
3
HOH
HOH
619
A
HOH
300
3
HOH
HOH
620
A
HOH
301
3
HOH
HOH
621
A
HOH
302
3
HOH
HOH
622
A
HOH
303
3
HOH
HOH
623
A
HOH
304
3
HOH
HOH
624
A
HOH
626
3
HOH
HOH
626
A
HOH
307
3
HOH
HOH
627
A
HOH
308
3
HOH
HOH
628
A
HOH
309
3
HOH
HOH
629
A
HOH
310
3
HOH
HOH
630
A
HOH
311
3
HOH
HOH
631
A
HOH
312
3
HOH
HOH
632
A
HOH
314
3
HOH
HOH
633
A
HOH
315
3
HOH
HOH
634
A
HOH
316
3
HOH
HOH
635
A
HOH
317
3
HOH
HOH
636
A
HOH
318
3
HOH
HOH
637
A
n
1
-13
A
n
2
-12
A
n
3
-11
A
n
4
-10
A
n
5
-9
A
n
6
-8
A
n
7
-7
A
n
8
-6
A
n
9
-5
A
n
10
-4
A
n
11
-3
A
n
12
-2
A
n
13
-1
A
n
14
0
A
n
15
1
A
n
16
2
A
n
17
3
A
n
18
4
A
PRO
5
n
19
PRO
5
A
LEU
6
n
20
LEU
6
A
PRO
7
n
21
PRO
7
A
PHE
8
n
22
PHE
8
A
PHE
9
n
23
PHE
9
A
PRO
10
n
24
PRO
10
A
PRO
11
n
25
PRO
11
A
LEU
12
n
26
LEU
12
A
TYR
13
n
27
TYR
13
A
LEU
14
n
28
LEU
14
A
GLY
15
n
29
GLY
15
A
GLY
16
n
30
GLY
16
A
PRO
17
n
31
PRO
17
A
GLU
18
n
32
GLU
18
A
ILE
19
n
33
ILE
19
A
THR
20
n
34
THR
20
A
THR
21
n
35
THR
21
A
GLU
22
n
36
GLU
22
A
ASN
23
n
37
ASN
23
A
CYS
24
n
38
CYS
24
A
GLU
25
n
39
GLU
25
A
ARG
26
n
40
ARG
26
A
GLU
27
n
41
GLU
27
A
PRO
28
n
42
PRO
28
A
ILE
29
n
43
ILE
29
A
HIS
30
n
44
HIS
30
A
ILE
31
n
45
ILE
31
A
PRO
32
n
46
PRO
32
A
GLY
33
n
47
GLY
33
A
SER
34
n
48
SER
34
A
ILE
35
n
49
ILE
35
A
GLN
36
n
50
GLN
36
A
PRO
37
n
51
PRO
37
A
HIS
38
n
52
HIS
38
A
GLY
39
n
53
GLY
39
A
ALA
40
n
54
ALA
40
A
LEU
41
n
55
LEU
41
A
LEU
42
n
56
LEU
42
A
THR
43
n
57
THR
43
A
ALA
44
n
58
ALA
44
A
ASP
45
n
59
ASP
45
A
GLY
46
n
60
GLY
46
A
HIS
47
n
61
HIS
47
A
SER
48
n
62
SER
48
A
GLY
49
n
63
GLY
49
A
GLU
50
n
64
GLU
50
A
VAL
51
n
65
VAL
51
A
LEU
52
n
66
LEU
52
A
GLN
53
n
67
GLN
53
A
MET
54
n
68
MET
54
A
SER
55
n
69
SER
55
A
LEU
56
n
70
LEU
56
A
ASN
57
n
71
ASN
57
A
ALA
58
n
72
ALA
58
A
ALA
59
n
73
ALA
59
A
THR
60
n
74
THR
60
A
PHE
61
n
75
PHE
61
A
LEU
62
n
76
LEU
62
A
GLY
63
n
77
GLY
63
A
GLN
64
n
78
GLN
64
A
GLU
65
n
79
GLU
65
A
PRO
66
n
80
PRO
66
A
THR
67
n
81
THR
67
A
VAL
68
n
82
VAL
68
A
LEU
69
n
83
LEU
69
A
ARG
70
n
84
ARG
70
A
GLY
71
n
85
GLY
71
A
GLN
72
n
86
GLN
72
A
THR
73
n
87
THR
73
A
LEU
74
n
88
LEU
74
A
ALA
75
n
89
ALA
75
A
ALA
76
n
90
ALA
76
A
LEU
77
n
91
LEU
77
A
LEU
78
n
92
LEU
78
A
PRO
79
n
93
PRO
79
A
GLU
80
n
94
GLU
80
A
GLN
81
n
95
GLN
81
A
TRP
82
n
96
TRP
82
A
PRO
83
n
97
PRO
83
A
ALA
84
n
98
ALA
84
A
LEU
85
n
99
LEU
85
A
GLN
86
n
100
GLN
86
A
ALA
87
n
101
ALA
87
A
ALA
88
n
102
ALA
88
A
LEU
89
n
103
LEU
89
A
PRO
90
n
104
PRO
90
A
PRO
91
n
105
PRO
91
A
GLY
92
n
106
GLY
92
A
CYS
93
n
107
CYS
93
A
PRO
94
n
108
PRO
94
A
ASP
95
n
109
ASP
95
A
ALA
96
n
110
ALA
96
A
LEU
97
n
111
LEU
97
A
GLN
98
n
112
GLN
98
A
TYR
99
n
113
TYR
99
A
ARG
100
n
114
ARG
100
A
ALA
101
n
115
ALA
101
A
THR
102
n
116
THR
102
A
LEU
103
n
117
LEU
103
A
ASP
104
n
118
ASP
104
A
TRP
105
n
119
TRP
105
A
PRO
106
n
120
PRO
106
A
ALA
107
n
121
ALA
107
A
ALA
108
n
122
ALA
108
A
GLY
109
n
123
GLY
109
A
HIS
110
n
124
HIS
110
A
LEU
111
n
125
LEU
111
A
SER
112
n
126
SER
112
A
LEU
113
n
127
LEU
113
A
THR
114
n
128
THR
114
A
VAL
115
n
129
VAL
115
A
HIS
116
n
130
HIS
116
A
ARG
117
n
131
ARG
117
A
VAL
118
n
132
VAL
118
A
GLY
119
n
133
GLY
119
A
GLU
120
n
134
GLU
120
A
LEU
121
n
135
LEU
121
A
LEU
122
n
136
LEU
122
A
ILE
123
n
137
ILE
123
A
LEU
124
n
138
LEU
124
A
GLU
125
n
139
GLU
125
A
PHE
126
n
140
PHE
126
A
GLU
127
n
141
GLU
127
A
PRO
128
n
142
PRO
128
A
THR
129
n
143
THR
129
A
GLU
130
n
144
GLU
130
A
n
145
131
A
n
146
132
A
n
147
133
A
n
148
134
A
THR
135
n
149
THR
135
A
GLY
136
n
150
GLY
136
A
PRO
137
n
151
PRO
137
A
HIS
138
n
152
HIS
138
A
ALA
139
n
153
ALA
139
A
LEU
140
n
154
LEU
140
A
ARG
141
n
155
ARG
141
A
ASN
142
n
156
ASN
142
A
ALA
143
n
157
ALA
143
A
MET
144
n
158
MET
144
A
PHE
145
n
159
PHE
145
A
ALA
146
n
160
ALA
146
A
LEU
147
n
161
LEU
147
A
GLU
148
n
162
GLU
148
A
SER
149
n
163
SER
149
A
ALA
150
n
164
ALA
150
A
PRO
151
n
165
PRO
151
A
ASN
152
n
166
ASN
152
A
LEU
153
n
167
LEU
153
A
ARG
154
n
168
ARG
154
A
ALA
155
n
169
ALA
155
A
LEU
156
n
170
LEU
156
A
ALA
157
n
171
ALA
157
A
GLU
158
n
172
GLU
158
A
VAL
159
n
173
VAL
159
A
ALA
160
n
174
ALA
160
A
THR
161
n
175
THR
161
A
GLN
162
n
176
GLN
162
A
THR
163
n
177
THR
163
A
VAL
164
n
178
VAL
164
A
ARG
165
n
179
ARG
165
A
GLU
166
n
180
GLU
166
A
LEU
167
n
181
LEU
167
A
THR
168
n
182
THR
168
A
GLY
169
n
183
GLY
169
A
PHE
170
n
184
PHE
170
A
ASP
171
n
185
ASP
171
A
ARG
172
n
186
ARG
172
A
VAL
173
n
187
VAL
173
A
MET
174
n
188
MET
174
A
LEU
175
n
189
LEU
175
A
TYR
176
n
190
TYR
176
A
LYS
177
n
191
LYS
177
A
PHE
178
n
192
PHE
178
A
ALA
179
n
193
ALA
179
A
PRO
180
n
194
PRO
180
A
ASP
181
n
195
ASP
181
A
ALA
182
n
196
ALA
182
A
THR
183
n
197
THR
183
A
GLY
184
n
198
GLY
184
A
GLU
185
n
199
GLU
185
A
VAL
186
n
200
VAL
186
A
ILE
187
n
201
ILE
187
A
ALA
188
n
202
ALA
188
A
GLU
189
n
203
GLU
189
A
ALA
190
n
204
ALA
190
A
ARG
191
n
205
ARG
191
A
ARG
192
n
206
ARG
192
A
GLU
193
n
207
GLU
193
A
GLY
194
n
208
GLY
194
A
LEU
195
n
209
LEU
195
A
HIS
196
n
210
HIS
196
A
ALA
197
n
211
ALA
197
A
PHE
198
n
212
PHE
198
A
LEU
199
n
213
LEU
199
A
GLY
200
n
214
GLY
200
A
HIS
201
n
215
HIS
201
A
ARG
202
n
216
ARG
202
A
PHE
203
n
217
PHE
203
A
PRO
204
n
218
PRO
204
A
ALA
205
n
219
ALA
205
A
SER
206
n
220
SER
206
A
HIS
207
n
221
HIS
207
A
ILE
208
n
222
ILE
208
A
PRO
209
n
223
PRO
209
A
ALA
210
n
224
ALA
210
A
GLN
211
n
225
GLN
211
A
ALA
212
n
226
ALA
212
A
ARG
213
n
227
ARG
213
A
ALA
214
n
228
ALA
214
A
LEU
215
n
229
LEU
215
A
TYR
216
n
230
TYR
216
A
THR
217
n
231
THR
217
A
ARG
218
n
232
ARG
218
A
HIS
219
n
233
HIS
219
A
LEU
220
n
234
LEU
220
A
LEU
221
n
235
LEU
221
A
ARG
222
n
236
ARG
222
A
LEU
223
n
237
LEU
223
A
THR
224
n
238
THR
224
A
ALA
225
n
239
ALA
225
A
ASP
226
n
240
ASP
226
A
THR
227
n
241
THR
227
A
ARG
228
n
242
ARG
228
A
ALA
229
n
243
ALA
229
A
ALA
230
n
244
ALA
230
A
ALA
231
n
245
ALA
231
A
VAL
232
n
246
VAL
232
A
PRO
233
n
247
PRO
233
A
LEU
234
n
248
LEU
234
A
ASP
235
n
249
ASP
235
A
PRO
236
n
250
PRO
236
A
VAL
237
n
251
VAL
237
A
LEU
238
n
252
LEU
238
A
ASN
239
n
253
ASN
239
A
PRO
240
n
254
PRO
240
A
GLN
241
n
255
GLN
241
A
THR
242
n
256
THR
242
A
ASN
243
n
257
ASN
243
A
ALA
244
n
258
ALA
244
A
PRO
245
n
259
PRO
245
A
THR
246
n
260
THR
246
A
PRO
247
n
261
PRO
247
A
LEU
248
n
262
LEU
248
A
GLY
249
n
263
GLY
249
A
GLY
250
n
264
GLY
250
A
ALA
251
n
265
ALA
251
A
VAL
252
n
266
VAL
252
A
LEU
253
n
267
LEU
253
A
ARG
254
n
268
ARG
254
A
ALA
255
n
269
ALA
255
A
THR
256
n
270
THR
256
A
SER
257
n
271
SER
257
A
PRO
258
n
272
PRO
258
A
MET
259
n
273
MET
259
A
HIS
260
n
274
HIS
260
A
MET
261
n
275
MET
261
A
GLN
262
n
276
GLN
262
A
TYR
263
n
277
TYR
263
A
LEU
264
n
278
LEU
264
A
ARG
265
n
279
ARG
265
A
ASN
266
n
280
ASN
266
A
MET
267
n
281
MET
267
A
GLY
268
n
282
GLY
268
A
VAL
269
n
283
VAL
269
A
GLY
270
n
284
GLY
270
A
SER
271
n
285
SER
271
A
SER
272
n
286
SER
272
A
LEU
273
n
287
LEU
273
A
SER
274
n
288
SER
274
A
VAL
275
n
289
VAL
275
A
SER
276
n
290
SER
276
A
VAL
277
n
291
VAL
277
A
VAL
278
n
292
VAL
278
A
VAL
279
n
293
VAL
279
A
GLY
280
n
294
GLY
280
A
GLY
281
n
295
GLY
281
A
GLN
282
n
296
GLN
282
A
LEU
283
n
297
LEU
283
A
TRP
284
n
298
TRP
284
A
GLY
285
n
299
GLY
285
A
LEU
286
n
300
LEU
286
A
ILE
287
n
301
ILE
287
A
ALA
288
n
302
ALA
288
A
CYS
289
n
303
CYS
289
A
HIS
290
n
304
HIS
290
A
HIS
291
n
305
HIS
291
A
GLN
292
n
306
GLN
292
A
THR
293
n
307
THR
293
A
PRO
294
n
308
PRO
294
A
TYR
295
n
309
TYR
295
A
VAL
296
n
310
VAL
296
A
LEU
297
n
311
LEU
297
A
PRO
298
n
312
PRO
298
A
PRO
299
n
313
PRO
299
A
ASP
300
n
314
ASP
300
A
LEU
301
n
315
LEU
301
A
ARG
302
n
316
ARG
302
A
THR
303
n
317
THR
303
A
THR
304
n
318
THR
304
A
LEU
305
n
319
LEU
305
A
GLU
306
n
320
GLU
306
A
SER
307
n
321
SER
307
A
LEU
308
n
322
LEU
308
A
GLY
309
n
323
GLY
309
A
ARG
310
n
324
ARG
310
A
LEU
311
n
325
LEU
311
A
LEU
312
n
326
LEU
312
A
SER
313
n
327
SER
313
A
LEU
314
n
328
LEU
314
A
GLN
315
n
329
GLN
315
A
VAL
316
n
330
VAL
316
A
GLN
317
n
331
GLN
317
A
VAL
318
n
332
VAL
318
A
LYS
319
n
333
LYS
319
A
GLU
320
n
334
GLU
320
A
ALA
321
n
335
ALA
321
A
LEU
322
n
336
LEU
322
A
GLU
323
n
337
GLU
323
A
n
338
324
A
n
339
325
A
n
340
326
A
n
341
327
A
n
342
328
A
n
343
329
A
1.8748
-0.2525
-0.9129
0.1780
0.6060
5.7365
0.0069
-0.2749
-0.2779
0.2152
-0.1495
-0.1086
0.3695
-0.0095
0.1426
0.2218
-0.1232
-0.0745
0.1795
0.1072
0.1431
refined
17.1370
-31.1860
32.3500
X-RAY DIFFRACTION
1.3462
-0.1614
0.0632
0.4692
0.3063
1.0612
0.0900
-0.2688
0.1386
0.0396
-0.1282
-0.0154
0.0365
-0.1446
0.0381
0.1088
-0.0388
0.0142
0.1677
-0.0468
0.0883
refined
8.164
-18.097
25.772
X-RAY DIFFRACTION
9.2181
-4.9924
-3.7686
5.4525
3.8149
2.0308
0.7908
-0.3645
0.9942
-0.7201
-0.5447
-0.1306
-0.5716
-0.3619
-0.2461
0.2119
0.0809
-0.0072
0.2605
-0.1717
0.2005
refined
-2.8160
-5.0110
25.2080
X-RAY DIFFRACTION
2.1493
1.2183
-1.0115
3.6001
1.2341
5.7111
0.1146
0.1801
0.1479
-0.9844
-0.5113
0.1913
0.1827
-0.7763
0.3968
0.4009
0.1230
0.0117
0.1909
-0.0357
0.0898
refined
-4.7890
-15.6220
16.5750
X-RAY DIFFRACTION
0.8888
0.4117
0.6145
0.4278
0.9716
2.1572
-0.0085
-0.0042
0.3397
-0.0987
-0.0850
0.1218
-0.1748
-0.1502
0.0936
0.1219
0.0370
0.0053
0.0973
0.0094
0.2170
refined
2.3170
-13.8630
11.5960
X-RAY DIFFRACTION
0.8942
0.4196
-0.1186
1.6918
0.7377
1.1739
-0.0258
0.1208
0.0089
-0.0943
-0.0140
0.1479
-0.0904
-0.0059
0.0398
0.1018
0.0143
-0.0157
0.1051
0.0002
0.1162
refined
12.6000
-29.2730
-4.4520
X-RAY DIFFRACTION
0.4073
0.3111
0.2320
0.8553
0.6169
0.9648
0.0524
-0.0354
-0.0444
0.0733
0.0069
-0.0650
0.0616
0.0808
-0.0594
0.0971
0.0069
-0.0080
0.0927
0.0073
0.1054
refined
19.0390
-29.1490
11.1990
X-RAY DIFFRACTION
2.9208
-0.4962
-1.6012
0.5329
0.4460
2.1210
-0.0048
-0.1555
-0.0564
0.1322
-0.0469
-0.0317
0.1071
0.0011
0.0518
0.1252
-0.0284
-0.0028
0.1155
-0.0099
0.0845
refined
13.7220
-21.3740
24.7190
X-RAY DIFFRACTION
0.6233
0.6724
0.1139
2.0465
-0.2376
0.5421
0.0166
0.0125
0.0020
0.0321
0.0266
0.0564
0.0289
0.0134
-0.0431
0.1046
0.0004
0.0042
0.0941
0.0001
0.1050
refined
15.1580
-26.4730
8.9760
X-RAY DIFFRACTION
2.2535
2.6858
1.8862
13.6850
3.6003
1.5961
-0.1255
0.1700
-0.1838
0.0469
0.2363
0.2219
-0.0756
0.1490
-0.1108
0.0868
-0.0041
0.0015
0.1233
0.0035
0.1364
refined
5.5770
-29.4340
2.8760
X-RAY DIFFRACTION
A
5
A
23
X-RAY DIFFRACTION
1
A
24
A
60
X-RAY DIFFRACTION
2
A
330
A
330
X-RAY DIFFRACTION
2
A
61
A
84
X-RAY DIFFRACTION
3
A
85
A
105
X-RAY DIFFRACTION
4
A
106
A
143
X-RAY DIFFRACTION
5
A
144
A
170
X-RAY DIFFRACTION
6
A
171
A
234
X-RAY DIFFRACTION
7
A
235
A
267
X-RAY DIFFRACTION
8
A
268
A
296
X-RAY DIFFRACTION
9
A
297
A
323
X-RAY DIFFRACTION
10
author_and_software_defined_assembly
PISA
2
dimeric
5030
-55
25770
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_555
-x,y,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
N
ILE
35
A
N
ILE
49
A
O
VAL
232
A
O
VAL
246
A
O
ASP
235
A
O
ASP
249
A
N
MET
54
A
N
MET
68
A
O
LEU
52
A
O
LEU
66
A
N
THR
43
A
N
THR
57
A
N
ALA
40
A
N
ALA
54
A
O
PHE
126
A
O
PHE
140
A
O
GLU
127
A
O
GLU
141
A
N
SER
112
A
N
SER
126
A
O
LEU
111
A
O
LEU
125
A
N
LEU
103
A
N
LEU
117
A
O
PHE
203
A
O
PHE
217
A
N
GLY
184
A
N
GLY
198
A
O
GLU
185
A
O
GLU
199
A
N
LYS
177
A
N
LYS
191
A
N
TYR
176
A
N
TYR
190
A
O
LEU
286
A
O
LEU
300
A
O
CYS
289
A
O
CYS
303
A
N
LEU
273
A
N
LEU
287
A
O
SER
272
A
O
SER
286
A
N
THR
224
A
N
THR
238
1
A
MET
-13
A
MET
1
1
Y
1
A
ALA
-12
A
ALA
2
1
Y
1
A
SER
-11
A
SER
3
1
Y
1
A
MET
-10
A
MET
4
1
Y
1
A
THR
-9
A
THR
5
1
Y
1
A
GLY
-8
A
GLY
6
1
Y
1
A
GLY
-7
A
GLY
7
1
Y
1
A
GLN
-6
A
GLN
8
1
Y
1
A
GLN
-5
A
GLN
9
1
Y
1
A
MET
-4
A
MET
10
1
Y
1
A
GLY
-3
A
GLY
11
1
Y
1
A
ARG
-2
A
ARG
12
1
Y
1
A
GLY
-1
A
GLY
13
1
Y
1
A
SER
0
A
SER
14
1
Y
1
A
MET
1
A
MET
15
1
Y
1
A
SER
2
A
SER
16
1
Y
1
A
ARG
3
A
ARG
17
1
Y
1
A
ASP
4
A
ASP
18
1
Y
1
A
ALA
131
A
ALA
145
1
Y
1
A
TRP
132
A
TRP
146
1
Y
1
A
ASP
133
A
ASP
147
1
Y
1
A
SER
134
A
SER
148
1
Y
1
A
HIS
324
A
HIS
338
1
Y
1
A
HIS
325
A
HIS
339
1
Y
1
A
HIS
326
A
HIS
340
1
Y
1
A
HIS
327
A
HIS
341
1
Y
1
A
HIS
328
A
HIS
342
1
Y
1
A
HIS
329
A
HIS
343
1
Y
1
A
A
HD21
O
ASN
HOH
243
553
1.59
1
A
A
O
O
ARG
HOH
218
460
2.16
1
A
A
LEU
PRO
6
7
-147.15
1
A
ASN
23
-141.27
23.25
1
A
TYR
295
-161.34
118.38
21.053
-0.71
0.00
-0.08
0.48
0.00
0.16
0.962
0.954
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.19623
0.16753
0.16901
0.16901
1.722
43.19
1701
33564
31863
5.1
97.92
4.267
0.065
RANDOM
1
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
0.109
0.103
0.80
0.80
1.40
PDB ENTRY 2O9C
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.722
43.19
298
2736
43
0
2395
0.011
0.022
2548
0.001
0.020
1696
1.479
2.000
3496
0.959
3.002
4119
6.383
5.000
321
33.795
22.941
102
11.693
15.000
383
15.031
15.000
20
0.078
0.200
397
0.007
0.021
2839
0.001
0.020
487
0.742
1.500
1600
0.154
1.500
633
1.343
2.000
2586
2.013
3.000
948
3.243
4.500
909
0.235
0.181
1.767
111
2167
20
90.43
18.8
1.72
50.
3S7P
34268
33621
-3.0
0.0
0.039
1
31.12
3.8
98.5
0.215
1.72
1.75
5.53
1642
1
3.5
97.3
data collection
MAR345dtb
phasing
PHASER
refinement
REFMAC
5.5.0109
data reduction
HKL-2000
data scaling
HKL-2000
Crystal Structure of the Infrared Fluorescent D207H variant of Deinococcus Bacteriophytochrome chromophore binding domain at 1.72 angstrom resolution
1
N
N
2
N
N
3
N
N
A
PRO
11
A
PRO
25
HELX_P
A
GLY
15
A
GLY
29
5
1
5
A
ASN
23
A
ASN
37
HELX_P
A
GLU
27
A
GLU
41
5
2
5
A
ASN
57
A
ASN
71
HELX_P
A
GLY
63
A
GLY
77
1
3
7
A
GLU
65
A
GLU
79
HELX_P
A
ARG
70
A
ARG
84
1
4
6
A
THR
73
A
THR
87
HELX_P
A
LEU
78
A
LEU
92
1
5
6
A
GLN
81
A
GLN
95
HELX_P
A
LEU
89
A
LEU
103
1
6
9
A
GLY
136
A
GLY
150
HELX_P
A
ALA
150
A
ALA
164
1
7
15
A
ASN
152
A
ASN
166
HELX_P
A
GLY
169
A
GLY
183
1
8
18
A
PRO
204
A
PRO
218
HELX_P
A
ILE
208
A
ILE
222
5
9
5
A
PRO
209
A
PRO
223
HELX_P
A
HIS
219
A
HIS
233
1
10
11
A
SER
257
A
SER
271
HELX_P
A
MET
267
A
MET
281
1
11
11
A
PRO
298
A
PRO
312
HELX_P
A
LEU
322
A
LEU
336
1
12
25
covale
1.839
none
A
CYS
24
A
SG
CYS
38
1_555
A
LBV
330
B
CBA
LBV
1_555
FLUORESCENT PROTEIN
BILIVERDIN, PAS, GAF, Phytochrome, bacteriophytochrome, Photoreceptor, Fluorescent Protein
A
ASP
235
A
ASP
249
1
A
PRO
236
A
PRO
250
-10.33
BPHY_DEIRA
UNP
1
1
Q9RZA4
MSRDPLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPE
QWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTEAWDSTGPHALRNAMFALESAPNLRALAEVA
TQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNP
QTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKE
A
1
321
3S7P
1
321
Q9RZA4
A
1
15
335
1
expression tag
MET
-13
3S7P
A
Q9RZA4
UNP
1
1
expression tag
ALA
-12
3S7P
A
Q9RZA4
UNP
2
1
expression tag
SER
-11
3S7P
A
Q9RZA4
UNP
3
1
expression tag
MET
-10
3S7P
A
Q9RZA4
UNP
4
1
expression tag
THR
-9
3S7P
A
Q9RZA4
UNP
5
1
expression tag
GLY
-8
3S7P
A
Q9RZA4
UNP
6
1
expression tag
GLY
-7
3S7P
A
Q9RZA4
UNP
7
1
expression tag
GLN
-6
3S7P
A
Q9RZA4
UNP
8
1
expression tag
GLN
-5
3S7P
A
Q9RZA4
UNP
9
1
expression tag
MET
-4
3S7P
A
Q9RZA4
UNP
10
1
expression tag
GLY
-3
3S7P
A
Q9RZA4
UNP
11
1
expression tag
ARG
-2
3S7P
A
Q9RZA4
UNP
12
1
expression tag
GLY
-1
3S7P
A
Q9RZA4
UNP
13
1
expression tag
SER
0
3S7P
A
Q9RZA4
UNP
14
1
ASP
engineered mutation
HIS
207
3S7P
A
Q9RZA4
UNP
207
221
1
TYR
engineered mutation
SER
307
3S7P
A
Q9RZA4
UNP
307
321
1
expression tag
LEU
322
3S7P
A
Q9RZA4
UNP
336
1
expression tag
GLU
323
3S7P
A
Q9RZA4
UNP
337
1
expression tag
HIS
324
3S7P
A
Q9RZA4
UNP
338
1
expression tag
HIS
325
3S7P
A
Q9RZA4
UNP
339
1
expression tag
HIS
326
3S7P
A
Q9RZA4
UNP
340
1
expression tag
HIS
327
3S7P
A
Q9RZA4
UNP
341
1
expression tag
HIS
328
3S7P
A
Q9RZA4
UNP
342
1
expression tag
HIS
329
3S7P
A
Q9RZA4
UNP
343
7
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
SER
34
A
SER
48
A
ILE
35
A
ILE
49
A
VAL
232
A
VAL
246
A
ASP
235
A
ASP
249
A
VAL
51
A
VAL
65
A
SER
55
A
SER
69
A
ALA
40
A
ALA
54
A
ASP
45
A
ASP
59
A
LEU
121
A
LEU
135
A
THR
129
A
THR
143
A
HIS
110
A
HIS
124
A
VAL
118
A
VAL
132
A
TYR
99
A
TYR
113
A
LEU
103
A
LEU
117
A
ARG
202
A
ARG
216
A
PHE
203
A
PHE
217
A
GLY
184
A
GLY
198
A
ARG
191
A
ARG
205
A
ARG
172
A
ARG
186
A
PHE
178
A
PHE
192
A
GLN
282
A
GLN
296
A
HIS
291
A
HIS
305
A
SER
271
A
SER
285
A
VAL
279
A
VAL
293
A
LEU
221
A
LEU
235
A
THR
224
A
THR
238
BINDING SITE FOR RESIDUE LBV A 330
A
LBV
330
Software
23
A
CYS
24
A
CYS
38
23
1_555
A
MET
174
A
MET
188
23
1_555
A
TYR
176
A
TYR
190
23
1_555
A
PHE
203
A
PHE
217
23
1_555
A
HIS
207
A
HIS
221
23
1_555
A
ILE
208
A
ILE
222
23
1_555
A
PRO
209
A
PRO
223
23
1_555
A
TYR
216
A
TYR
230
23
1_555
A
ARG
254
A
ARG
268
23
1_555
A
THR
256
A
THR
270
23
1_555
A
SER
257
A
SER
271
23
1_555
A
MET
259
A
MET
273
23
1_555
A
HIS
260
A
HIS
274
23
1_555
A
TYR
263
A
TYR
277
23
1_555
A
SER
272
A
SER
286
23
1_555
A
SER
274
A
SER
288
23
1_555
A
HIS
290
A
HIS
304
23
1_555
A
HOH
332
C
HOH
23
1_555
A
HOH
338
C
HOH
23
1_555
A
HOH
339
C
HOH
23
1_555
A
HOH
347
C
HOH
23
1_555
A
HOH
349
C
HOH
23
1_555
A
HOH
609
C
HOH
23
1_555
5
C 1 2 1