0.031540
0.000000
0.000000
-0.000000
0.014907
0.000000
0.000000
-0.000000
0.010526
0.00000
0.00000
0.00000
Akerboom, J.
Looger, L.L.
Schreiter, E.R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
31.706
67.081
95.001
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
C16 H17 N3 O4 S
347.389
n
{(4Z)-4-(4-hydroxybenzylidene)-2-[3-(methylthio)propanimidoyl]-5-oxo-4,5-dihydro-1H-imidazol-1-yl}acetic acid
CHROMOPHORE (MET-TYR-GLY)
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
N
N
184
S
C
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
O
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
N
214
N
O
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
S
N
237
N
C
N
238
N
O
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
N
N
251
N
C
N
252
N
S
N
253
N
C
N
254
N
C
N
255
N
C
N
256
N
C
N
257
N
N
N
258
N
O
Y
259
N
C
Y
260
N
C
Y
261
N
C
Y
262
N
C
Y
263
N
C
Y
264
N
C
N
265
N
C
N
266
N
C
N
267
N
C
N
268
N
O
N
269
N
N
N
270
N
C
N
271
N
C
N
272
N
O
N
273
N
O
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
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
N
N
292
S
C
N
293
N
C
N
294
N
O
N
295
N
C
Y
296
N
C
Y
297
N
C
Y
298
N
C
Y
299
N
C
Y
300
N
C
Y
301
N
C
N
302
N
O
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
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
N
N
315
S
C
N
316
N
C
N
317
N
O
N
318
N
C
N
319
N
C
N
320
N
C
N
321
N
O
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
H
N
331
N
N
N
332
S
C
N
333
N
C
N
334
N
O
N
335
N
C
N
336
N
O
N
337
N
O
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
R
C
N
350
N
O
N
351
N
C
N
352
N
O
N
353
N
H
N
354
N
H
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
N
N
363
S
C
N
364
N
C
N
365
N
O
N
366
N
C
Y
367
N
C
Y
368
N
C
Y
369
N
C
Y
370
N
N
Y
371
N
C
Y
372
N
C
Y
373
N
C
Y
374
N
C
Y
375
N
C
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
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
N
N
390
S
C
N
391
N
C
N
392
N
O
N
393
N
C
Y
394
N
C
Y
395
N
C
Y
396
N
C
Y
397
N
C
Y
398
N
C
Y
399
N
C
N
400
N
O
N
401
N
O
N
402
N
H
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
N
N
414
S
C
N
415
N
C
N
416
N
O
N
417
N
C
N
418
N
C
N
419
N
C
N
420
N
O
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
doub
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
doub
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
doub
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
doub
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
doub
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
doub
N
242
N
sing
N
243
N
doub
N
244
N
sing
N
245
N
sing
N
246
N
doub
N
247
N
sing
N
248
N
sing
Y
249
N
doub
Y
250
N
sing
N
251
N
sing
N
252
N
sing
Y
253
N
sing
Y
254
N
doub
N
255
N
doub
N
256
N
sing
N
257
N
sing
Y
258
N
sing
N
259
N
sing
N
260
N
doub
Y
261
N
doub
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
Z
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
sing
N
284
N
sing
N
285
N
doub
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
Y
290
N
doub
Y
291
N
sing
Y
292
N
sing
N
293
N
sing
Y
294
N
doub
N
295
N
sing
Y
296
N
doub
N
297
N
sing
Y
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
doub
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
doub
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
doub
N
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
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
doub
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
Y
359
N
doub
Y
360
N
sing
Y
361
N
sing
N
362
N
sing
Y
363
N
doub
Y
364
N
sing
Y
365
N
sing
N
366
N
sing
Y
367
N
sing
Y
368
N
doub
N
369
N
sing
Y
370
N
doub
N
371
N
sing
Y
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
doub
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
Y
387
N
doub
Y
388
N
sing
Y
389
N
sing
N
390
N
sing
Y
391
N
doub
N
392
N
sing
Y
393
N
doub
N
394
N
sing
Y
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
doub
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
CH
Front Mol Neurosci
1662-5099
6
2
2
10.3389/fnmol.2013.00002
23459413
Genetically encoded calcium indicators for multi-color neural activity imaging and combination with optogenetics.
2013
10.2210/pdb3u0m/pdb
pdb_00003u0m
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
CCD
2010-04-02
RAYONIX MX225HE
Diamond 111
SINGLE WAVELENGTH
M
x-ray
1
0.9793
1.0
31-ID
APS
0.9793
SYNCHROTRON
APS BEAMLINE 31-ID
25807.447
mRuby
D196S
1
man
polymer
18.015
water
146
nat
water
GFP-like chromoprotein
no
yes
DRWGSMNSLIKENMRMKVVLEGSVNGHQFKCTGEGEGNPYMGTQTMRIKVIEGGPLPFAFDILATSF(NRQ)SRTFIKYP
KGIPDFFKQSFPEGFTWERVTRYEDGGVITVMQDTSLEDGCLVYHAQVRGVNFPSNGAVMQKKTKGWEPNTEMMYPADGG
LRGYTHMALKVDGGGHLSCSFVTTYRSKKTVGNIKMPGIHAVSHRLERLEESDNEMFVVQREHAVAKFAGLGGG
DRWGSMNSLIKENMRMKVVLEGSVNGHQFKCTGEGEGNPYMGTQTMRIKVIEGGPLPFAFDILATSFMYGSRTFIKYPKG
IPDFFKQSFPEGFTWERVTRYEDGGVITVMQDTSLEDGCLVYHAQVRGVNFPSNGAVMQKKTKGWEPNTEMMYPADGGLR
GYTHMALKVDGGGHLSCSFVTTYRSKKTVGNIKMPGIHAVSHRLERLEESDNEMFVVQREHAVAKFAGLGGG
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
Bubble-tip anemone
sample
6118
Entacmaea quadricolor
562
Escherichia coli
1
1.96
37.16
VAPOR DIFFUSION, SITTING DROP
8.5
0.1 M Tris pH 8.5, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
repository
Initial release
Database references
Data collection
Database references
Derived calculations
Refinement description
Data collection
1
0
2012-10-03
1
1
2014-01-29
1
2
2023-09-13
1
3
2023-12-06
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
_chem_comp_atom.atom_id
_chem_comp_bond.atom_id_2
RCSB
Y
RCSB
2011-09-28
REL
REL
HOH
water
MRUBY IS THE ENGINEERED VARIANT OF THE RED FLUORESCENT PROTEIN EQFP611
1UIS
PDB entry 1UIS
PDB
experimental model
HOH
63
2
HOH
HOH
63
A
HOH
65
2
HOH
HOH
65
A
HOH
1
2
HOH
HOH
228
A
HOH
2
2
HOH
HOH
229
A
HOH
3
2
HOH
HOH
230
A
HOH
4
2
HOH
HOH
231
A
HOH
5
2
HOH
HOH
232
A
HOH
6
2
HOH
HOH
233
A
HOH
7
2
HOH
HOH
234
A
HOH
8
2
HOH
HOH
235
A
HOH
9
2
HOH
HOH
236
A
HOH
10
2
HOH
HOH
237
A
HOH
11
2
HOH
HOH
238
A
HOH
12
2
HOH
HOH
239
A
HOH
13
2
HOH
HOH
240
A
HOH
14
2
HOH
HOH
241
A
HOH
16
2
HOH
HOH
242
A
HOH
17
2
HOH
HOH
243
A
HOH
18
2
HOH
HOH
244
A
HOH
19
2
HOH
HOH
245
A
HOH
21
2
HOH
HOH
246
A
HOH
22
2
HOH
HOH
247
A
HOH
23
2
HOH
HOH
248
A
HOH
24
2
HOH
HOH
249
A
HOH
25
2
HOH
HOH
250
A
HOH
26
2
HOH
HOH
251
A
HOH
27
2
HOH
HOH
252
A
HOH
29
2
HOH
HOH
253
A
HOH
30
2
HOH
HOH
254
A
HOH
31
2
HOH
HOH
255
A
HOH
32
2
HOH
HOH
256
A
HOH
33
2
HOH
HOH
257
A
HOH
34
2
HOH
HOH
258
A
HOH
35
2
HOH
HOH
259
A
HOH
36
2
HOH
HOH
260
A
HOH
38
2
HOH
HOH
261
A
HOH
39
2
HOH
HOH
262
A
HOH
40
2
HOH
HOH
263
A
HOH
41
2
HOH
HOH
264
A
HOH
43
2
HOH
HOH
265
A
HOH
44
2
HOH
HOH
266
A
HOH
45
2
HOH
HOH
267
A
HOH
46
2
HOH
HOH
268
A
HOH
47
2
HOH
HOH
269
A
HOH
48
2
HOH
HOH
270
A
HOH
50
2
HOH
HOH
271
A
HOH
51
2
HOH
HOH
272
A
HOH
52
2
HOH
HOH
273
A
HOH
53
2
HOH
HOH
274
A
HOH
54
2
HOH
HOH
275
A
HOH
55
2
HOH
HOH
276
A
HOH
56
2
HOH
HOH
277
A
HOH
57
2
HOH
HOH
278
A
HOH
58
2
HOH
HOH
279
A
HOH
59
2
HOH
HOH
280
A
HOH
60
2
HOH
HOH
281
A
HOH
61
2
HOH
HOH
282
A
HOH
62
2
HOH
HOH
283
A
HOH
64
2
HOH
HOH
284
A
HOH
66
2
HOH
HOH
285
A
HOH
67
2
HOH
HOH
286
A
HOH
68
2
HOH
HOH
287
A
HOH
70
2
HOH
HOH
288
A
HOH
71
2
HOH
HOH
289
A
HOH
72
2
HOH
HOH
290
A
HOH
73
2
HOH
HOH
291
A
HOH
74
2
HOH
HOH
292
A
HOH
76
2
HOH
HOH
293
A
HOH
77
2
HOH
HOH
294
A
HOH
78
2
HOH
HOH
295
A
HOH
79
2
HOH
HOH
296
A
HOH
80
2
HOH
HOH
297
A
HOH
81
2
HOH
HOH
298
A
HOH
82
2
HOH
HOH
299
A
HOH
83
2
HOH
HOH
300
A
HOH
84
2
HOH
HOH
301
A
HOH
85
2
HOH
HOH
302
A
HOH
86
2
HOH
HOH
303
A
HOH
87
2
HOH
HOH
304
A
HOH
88
2
HOH
HOH
305
A
HOH
89
2
HOH
HOH
306
A
HOH
90
2
HOH
HOH
307
A
HOH
91
2
HOH
HOH
308
A
HOH
92
2
HOH
HOH
309
A
HOH
93
2
HOH
HOH
310
A
HOH
94
2
HOH
HOH
311
A
HOH
95
2
HOH
HOH
312
A
HOH
96
2
HOH
HOH
313
A
HOH
97
2
HOH
HOH
314
A
HOH
98
2
HOH
HOH
315
A
HOH
99
2
HOH
HOH
316
A
HOH
101
2
HOH
HOH
317
A
HOH
103
2
HOH
HOH
318
A
HOH
104
2
HOH
HOH
319
A
HOH
105
2
HOH
HOH
320
A
HOH
106
2
HOH
HOH
321
A
HOH
107
2
HOH
HOH
322
A
HOH
108
2
HOH
HOH
323
A
HOH
109
2
HOH
HOH
324
A
HOH
110
2
HOH
HOH
325
A
HOH
111
2
HOH
HOH
326
A
HOH
112
2
HOH
HOH
327
A
HOH
113
2
HOH
HOH
328
A
HOH
114
2
HOH
HOH
329
A
HOH
115
2
HOH
HOH
330
A
HOH
116
2
HOH
HOH
331
A
HOH
117
2
HOH
HOH
332
A
HOH
118
2
HOH
HOH
333
A
HOH
119
2
HOH
HOH
334
A
HOH
120
2
HOH
HOH
335
A
HOH
122
2
HOH
HOH
336
A
HOH
123
2
HOH
HOH
337
A
HOH
125
2
HOH
HOH
338
A
HOH
126
2
HOH
HOH
339
A
HOH
127
2
HOH
HOH
340
A
HOH
129
2
HOH
HOH
341
A
HOH
130
2
HOH
HOH
342
A
HOH
131
2
HOH
HOH
343
A
HOH
132
2
HOH
HOH
344
A
HOH
134
2
HOH
HOH
345
A
HOH
137
2
HOH
HOH
346
A
HOH
139
2
HOH
HOH
347
A
HOH
140
2
HOH
HOH
348
A
HOH
141
2
HOH
HOH
349
A
HOH
144
2
HOH
HOH
350
A
HOH
145
2
HOH
HOH
351
A
HOH
146
2
HOH
HOH
352
A
HOH
147
2
HOH
HOH
353
A
HOH
148
2
HOH
HOH
354
A
HOH
149
2
HOH
HOH
355
A
HOH
150
2
HOH
HOH
356
A
HOH
151
2
HOH
HOH
357
A
HOH
152
2
HOH
HOH
358
A
HOH
153
2
HOH
HOH
359
A
HOH
154
2
HOH
HOH
360
A
HOH
155
2
HOH
HOH
361
A
HOH
156
2
HOH
HOH
362
A
HOH
157
2
HOH
HOH
363
A
HOH
158
2
HOH
HOH
364
A
HOH
159
2
HOH
HOH
365
A
HOH
160
2
HOH
HOH
366
A
HOH
161
2
HOH
HOH
367
A
HOH
162
2
HOH
HOH
368
A
HOH
163
2
HOH
HOH
369
A
HOH
164
2
HOH
HOH
370
A
HOH
165
2
HOH
HOH
371
A
n
1
-4
A
n
2
-3
A
n
3
-2
A
n
4
-1
A
n
5
0
A
n
6
1
A
n
7
2
A
n
8
3
A
LEU
4
n
9
LEU
4
A
ILE
5
n
10
ILE
5
A
LYS
6
n
11
LYS
6
A
GLU
7
n
12
GLU
7
A
ASN
8
n
13
ASN
8
A
MET
9
n
14
MET
9
A
ARG
10
n
15
ARG
10
A
MET
11
n
16
MET
11
A
LYS
12
n
17
LYS
12
A
VAL
13
n
18
VAL
13
A
VAL
14
n
19
VAL
14
A
LEU
15
n
20
LEU
15
A
GLU
16
n
21
GLU
16
A
GLY
17
n
22
GLY
17
A
SER
18
n
23
SER
18
A
VAL
19
n
24
VAL
19
A
ASN
20
n
25
ASN
20
A
GLY
21
n
26
GLY
21
A
HIS
22
n
27
HIS
22
A
GLN
23
n
28
GLN
23
A
PHE
24
n
29
PHE
24
A
LYS
25
n
30
LYS
25
A
CYS
26
n
31
CYS
26
A
THR
27
n
32
THR
27
A
GLY
28
n
33
GLY
28
A
GLU
29
n
34
GLU
29
A
GLY
30
n
35
GLY
30
A
GLU
31
n
36
GLU
31
A
GLY
32
n
37
GLY
32
A
ASN
33
n
38
ASN
33
A
PRO
34
n
39
PRO
34
A
TYR
35
n
40
TYR
35
A
MET
36
n
41
MET
36
A
GLY
37
n
42
GLY
37
A
THR
38
n
43
THR
38
A
GLN
39
n
44
GLN
39
A
THR
40
n
45
THR
40
A
MET
41
n
46
MET
41
A
ARG
42
n
47
ARG
42
A
ILE
43
n
48
ILE
43
A
LYS
44
n
49
LYS
44
A
VAL
45
n
50
VAL
45
A
ILE
46
n
51
ILE
46
A
GLU
47
n
52
GLU
47
A
GLY
48
n
53
GLY
48
A
GLY
49
n
54
GLY
49
A
PRO
50
n
55
PRO
50
A
LEU
51
n
56
LEU
51
A
PRO
52
n
57
PRO
52
A
PHE
53
n
58
PHE
53
A
ALA
54
n
59
ALA
54
A
PHE
55
n
60
PHE
55
A
ASP
56
n
61
ASP
56
A
ILE
57
n
62
ILE
57
A
LEU
58
n
63
LEU
58
A
ALA
59
n
64
ALA
59
A
THR
60
n
65
THR
60
A
SER
61
n
66
SER
61
A
PHE
62
n
67
PHE
62
A
NRQ
64
n
68
NRQ
64
A
SER
66
n
69
SER
66
A
ARG
67
n
70
ARG
67
A
THR
68
n
71
THR
68
A
PHE
69
n
72
PHE
69
A
ILE
70
n
73
ILE
70
A
LYS
71
n
74
LYS
71
A
TYR
72
n
75
TYR
72
A
PRO
73
n
76
PRO
73
A
LYS
74
n
77
LYS
74
A
GLY
75
n
78
GLY
75
A
ILE
76
n
79
ILE
76
A
PRO
77
n
80
PRO
77
A
ASP
78
n
81
ASP
78
A
PHE
79
n
82
PHE
79
A
PHE
80
n
83
PHE
80
A
LYS
81
n
84
LYS
81
A
GLN
82
n
85
GLN
82
A
SER
83
n
86
SER
83
A
PHE
84
n
87
PHE
84
A
PRO
85
n
88
PRO
85
A
GLU
86
n
89
GLU
86
A
GLY
87
n
90
GLY
87
A
PHE
88
n
91
PHE
88
A
THR
89
n
92
THR
89
A
TRP
90
n
93
TRP
90
A
GLU
91
n
94
GLU
91
A
ARG
92
n
95
ARG
92
A
VAL
93
n
96
VAL
93
A
THR
94
n
97
THR
94
A
ARG
95
n
98
ARG
95
A
TYR
96
n
99
TYR
96
A
GLU
97
n
100
GLU
97
A
ASP
98
n
101
ASP
98
A
GLY
99
n
102
GLY
99
A
GLY
100
n
103
GLY
100
A
VAL
101
n
104
VAL
101
A
ILE
102
n
105
ILE
102
A
THR
103
n
106
THR
103
A
VAL
104
n
107
VAL
104
A
MET
105
n
108
MET
105
A
GLN
106
n
109
GLN
106
A
ASP
107
n
110
ASP
107
A
THR
108
n
111
THR
108
A
SER
109
n
112
SER
109
A
LEU
110
n
113
LEU
110
A
GLU
111
n
114
GLU
111
A
ASP
112
n
115
ASP
112
A
GLY
113
n
116
GLY
113
A
CYS
114
n
117
CYS
114
A
LEU
115
n
118
LEU
115
A
VAL
116
n
119
VAL
116
A
TYR
117
n
120
TYR
117
A
HIS
118
n
121
HIS
118
A
ALA
119
n
122
ALA
119
A
GLN
120
n
123
GLN
120
A
VAL
121
n
124
VAL
121
A
ARG
122
n
125
ARG
122
A
GLY
123
n
126
GLY
123
A
VAL
124
n
127
VAL
124
A
ASN
125
n
128
ASN
125
A
PHE
126
n
129
PHE
126
A
PRO
127
n
130
PRO
127
A
SER
128
n
131
SER
128
A
ASN
129
n
132
ASN
129
A
GLY
130
n
133
GLY
130
A
ALA
131
n
134
ALA
131
A
VAL
132
n
135
VAL
132
A
MET
133
n
136
MET
133
A
GLN
134
n
137
GLN
134
A
LYS
135
n
138
LYS
135
A
LYS
136
n
139
LYS
136
A
THR
137
n
140
THR
137
A
LYS
138
n
141
LYS
138
A
GLY
139
n
142
GLY
139
A
TRP
140
n
143
TRP
140
A
GLU
141
n
144
GLU
141
A
PRO
142
n
145
PRO
142
A
ASN
143
n
146
ASN
143
A
THR
144
n
147
THR
144
A
GLU
145
n
148
GLU
145
A
MET
146
n
149
MET
146
A
MET
147
n
150
MET
147
A
TYR
148
n
151
TYR
148
A
PRO
149
n
152
PRO
149
A
ALA
150
n
153
ALA
150
A
ASP
151
n
154
ASP
151
A
GLY
152
n
155
GLY
152
A
GLY
153
n
156
GLY
153
A
LEU
154
n
157
LEU
154
A
ARG
155
n
158
ARG
155
A
GLY
156
n
159
GLY
156
A
TYR
157
n
160
TYR
157
A
THR
158
n
161
THR
158
A
HIS
159
n
162
HIS
159
A
MET
160
n
163
MET
160
A
ALA
161
n
164
ALA
161
A
LEU
162
n
165
LEU
162
A
LYS
163
n
166
LYS
163
A
VAL
164
n
167
VAL
164
A
ASP
165
n
168
ASP
165
A
GLY
166
n
169
GLY
166
A
GLY
167
n
170
GLY
167
A
GLY
168
n
171
GLY
168
A
HIS
169
n
172
HIS
169
A
LEU
170
n
173
LEU
170
A
SER
171
n
174
SER
171
A
CYS
172
n
175
CYS
172
A
SER
173
n
176
SER
173
A
PHE
174
n
177
PHE
174
A
VAL
175
n
178
VAL
175
A
THR
176
n
179
THR
176
A
THR
177
n
180
THR
177
A
TYR
178
n
181
TYR
178
A
ARG
179
n
182
ARG
179
A
SER
180
n
183
SER
180
A
LYS
181
n
184
LYS
181
A
LYS
182
n
185
LYS
182
A
THR
183
n
186
THR
183
A
VAL
184
n
187
VAL
184
A
GLY
185
n
188
GLY
185
A
ASN
186
n
189
ASN
186
A
ILE
187
n
190
ILE
187
A
LYS
188
n
191
LYS
188
A
MET
189
n
192
MET
189
A
PRO
190
n
193
PRO
190
A
GLY
191
n
194
GLY
191
A
ILE
192
n
195
ILE
192
A
HIS
193
n
196
HIS
193
A
ALA
194
n
197
ALA
194
A
VAL
195
n
198
VAL
195
A
SER
196
n
199
SER
196
A
HIS
197
n
200
HIS
197
A
ARG
198
n
201
ARG
198
A
LEU
199
n
202
LEU
199
A
GLU
200
n
203
GLU
200
A
ARG
201
n
204
ARG
201
A
LEU
202
n
205
LEU
202
A
GLU
203
n
206
GLU
203
A
GLU
204
n
207
GLU
204
A
SER
205
n
208
SER
205
A
ASP
206
n
209
ASP
206
A
ASN
207
n
210
ASN
207
A
GLU
208
n
211
GLU
208
A
MET
209
n
212
MET
209
A
PHE
210
n
213
PHE
210
A
VAL
211
n
214
VAL
211
A
VAL
212
n
215
VAL
212
A
GLN
213
n
216
GLN
213
A
ARG
214
n
217
ARG
214
A
GLU
215
n
218
GLU
215
A
HIS
216
n
219
HIS
216
A
ALA
217
n
220
ALA
217
A
VAL
218
n
221
VAL
218
A
ALA
219
n
222
ALA
219
A
LYS
220
n
223
LYS
220
A
PHE
221
n
224
PHE
221
A
ALA
222
n
225
ALA
222
A
n
226
223
A
n
227
224
A
n
228
225
A
n
229
226
A
n
230
227
A
author_and_software_defined_assembly
PISA
1
monomeric
A
NRQ
64
A
NRQ
68
MET
A
NRQ
64
A
NRQ
68
TYR
A
NRQ
64
A
NRQ
68
GLY
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
139
A
N
GLY
142
A
O
LYS
163
A
O
LYS
166
A
N
MET
160
A
N
MET
163
A
O
CYS
172
A
O
CYS
175
A
O
THR
177
A
O
THR
180
A
N
GLU
91
A
N
GLU
94
A
N
THR
94
A
N
THR
97
A
O
ILE
102
A
O
ILE
105
A
N
SER
109
A
N
SER
112
A
O
VAL
116
A
O
VAL
119
A
O
TYR
117
A
O
TYR
120
A
N
LYS
12
A
N
LYS
17
A
N
LEU
15
A
N
LEU
20
A
O
CYS
26
A
O
CYS
31
A
N
GLU
29
A
N
GLU
34
A
O
ARG
42
A
O
ARG
47
A
N
ILE
43
A
N
ILE
48
A
O
VAL
211
A
O
VAL
214
A
O
VAL
218
A
O
VAL
221
A
N
SER
196
A
N
SER
199
A
O
HIS
197
A
O
HIS
200
A
N
ASN
143
A
N
ASN
146
A
N
ALA
150
A
N
ALA
153
A
O
GLY
153
A
O
GLY
156
1
A
ASP
-4
A
ASP
1
1
Y
1
A
ARG
-3
A
ARG
2
1
Y
1
A
TRP
-2
A
TRP
3
1
Y
1
A
GLY
-1
A
GLY
4
1
Y
1
A
SER
0
A
SER
5
1
Y
1
A
MET
1
A
MET
6
1
Y
1
A
ASN
2
A
ASN
7
1
Y
1
A
SER
3
A
SER
8
1
Y
1
A
GLY
223
A
GLY
226
1
Y
1
A
LEU
224
A
LEU
227
1
Y
1
A
GLY
225
A
GLY
228
1
Y
1
A
GLY
226
A
GLY
229
1
Y
1
A
GLY
227
A
GLY
230
1
Y
1
A
A
CZ
O
PHE
HOH
174
280
1.94
B
1
15.08
1.60
100.20
115.28
A
A
A
CG
SD
CE
MET
MET
MET
11
11
11
A
A
A
N
1
-9.76
1.60
100.20
90.44
A
A
A
CG
SD
CE
MET
MET
MET
11
11
11
B
B
B
N
1
3.82
0.50
120.30
124.12
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
42
42
42
N
1
-3.49
0.50
120.30
116.81
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
92
92
92
N
1
-9.66
1.60
100.20
90.54
A
A
A
CG
SD
CE
MET
MET
MET
105
105
105
A
A
A
N
1
13.18
2.00
110.40
123.58
A
A
A
CB
CA
C
HIS
HIS
HIS
159
159
159
N
1
A
A
CG
CD2
HIS
HIS
169
169
0.066
0.009
1.354
1.420
N
1
A
A
CG
CD2
HIS
HIS
197
197
0.062
0.009
1.354
1.416
N
1
A
PHE
69
-97.94
58.28
1
A
LYS
138
-149.48
42.02
17.841
0.22
-0.00
0.00
-1.00
-0.00
0.77
0.962
0.959
HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
0.20074
0.17232
0.17386
0.17386
1.65
27.44
1256
23892
23328
5.1
97.64
1.841
0.063
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.099
0.80
0.80
1.20
PDB entry 1UIS
MAXIMUM LIKELIHOOD
MASK
1.65
27.44
146
1864
0
0
1718
0.027
0.022
1882
0.001
0.020
1315
2.349
1.962
2560
1.086
3.000
3218
6.701
5.000
247
33.778
23.810
84
14.942
15.000
339
18.869
15.000
11
0.130
0.200
268
0.012
0.021
2134
0.002
0.020
404
0.269
0.234
1.693
84
1527
20
96.93
1.65
28.66
3U0M
25160
24632
0
0
1
97.9
1.65
1.74
1
96.9
data collection
SPEC
phasing
PHASER
refinement
REFMAC
5.6.0111
data reduction
MOSFLM
data scaling
SCALA
Crystal structure of the engineered fluorescent protein mRuby, crystal form 1, pH 8.5
1
N
N
2
N
N
A
PHE
55
A
PHE
60
HELX_P
A
THR
60
A
THR
65
1
1
6
A
ASP
78
A
ASP
81
HELX_P
A
SER
83
A
SER
86
1
2
6
covale
1.323
both
A
PHE
62
A
C
PHE
67
1_555
A
NRQ
64
A
N1
NRQ
68
1_555
covale
1.349
both
A
NRQ
64
A
C3
NRQ
68
1_555
A
SER
66
A
N
SER
69
1_555
FLUORESCENT PROTEIN
fluorescent protein
A
GLY
49
A
GLY
54
1
A
PRO
50
A
PRO
55
-2.29
A
PHE
84
A
PHE
87
1
A
PRO
85
A
PRO
88
7.26
3U0M
PDB
1
1
3U0M
MNSLIKENMRMKVVLEGSVNGHQFKCTGEGEGNPYMGTQTMRIKVIEGGPLPFAFDILATSFMYGSRTFIKYPKGIPDFF
KQSFPEGFTWERVTRYEDGGVITVMQDTSLEDGCLVYHAQVRGVNFPSNGAVMQKKTKGWEPNTEMMYPADGGLRGYTHM
ALKVDGGGHLSCSFVTTYRSKKTVGNIKMPGIHAVDHRLERLEESDNEMFVVQREHAVAKFAGLGGG
-4
227
3U0M
-4
227
3U0M
A
1
1
230
1
expression tag
ASP
-4
3U0M
A
3U0M
PDB
1
1
expression tag
ARG
-3
3U0M
A
3U0M
PDB
2
1
expression tag
TRP
-2
3U0M
A
3U0M
PDB
3
1
expression tag
GLY
-1
3U0M
A
3U0M
PDB
4
1
expression tag
SER
0
3U0M
A
3U0M
PDB
5
1
MET
chromophore
NRQ
64
3U0M
A
3U0M
PDB
63
68
1
TYR
chromophore
NRQ
64
3U0M
A
3U0M
PDB
64
68
1
GLY
chromophore
NRQ
64
3U0M
A
3U0M
PDB
65
68
1
ASP
engineered mutation
SER
196
3U0M
A
3U0M
PDB
196
199
13
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
THR
137
A
THR
140
A
TRP
140
A
TRP
143
A
GLY
153
A
GLY
156
A
VAL
164
A
VAL
167
A
GLY
168
A
GLY
171
A
SER
180
A
SER
183
A
PHE
88
A
PHE
91
A
TYR
96
A
TYR
99
A
VAL
101
A
VAL
104
A
GLU
111
A
GLU
114
A
CYS
114
A
CYS
117
A
VAL
124
A
VAL
127
A
MET
9
A
MET
14
A
VAL
19
A
VAL
24
A
HIS
22
A
HIS
27
A
ASN
33
A
ASN
38
A
THR
38
A
THR
43
A
GLU
47
A
GLU
52
A
PHE
210
A
PHE
213
A
LYS
220
A
LYS
223
A
HIS
193
A
HIS
196
A
GLU
204
A
GLU
207
A
ASN
143
A
ASN
146
A
ALA
150
A
ALA
153
A
GLY
153
A
GLY
156
A
VAL
164
A
VAL
167
19
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