0.024398
0.014086
0.000000
0.000000
0.028172
0.000000
0.000000
0.000000
0.008527
0.000000
0.000000
0.000000
Anderson, S.
Crosson, S.
Moffat, K.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
40.987
40.987
117.277
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
C9 H8 O3
164.158
4'-HYDROXYCINNAMIC ACID
PARA-COUMARIC ACID
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
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
C
N
138
N
O
N
139
N
O
N
140
N
C
N
141
N
C
Y
142
N
C
Y
143
N
C
Y
144
N
C
Y
145
N
C
Y
146
N
C
Y
147
N
C
N
148
N
O
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
N
N
158
S
C
N
159
N
C
N
160
N
O
N
161
N
C
Y
162
N
C
Y
163
N
N
Y
164
N
C
Y
165
N
C
Y
166
N
N
N
167
N
O
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
O
N
179
N
H
N
180
N
H
N
181
N
N
N
182
S
C
N
183
N
C
N
184
N
O
N
185
S
C
N
186
N
C
N
187
N
C
N
188
N
C
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
H
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
N
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
N
N
234
N
O
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
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
C
N
255
N
C
N
256
N
S
N
257
N
C
N
258
N
O
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
N
N
271
S
C
N
272
N
C
N
273
N
O
N
274
N
C
Y
275
N
C
Y
276
N
C
Y
277
N
C
Y
278
N
C
Y
279
N
C
Y
280
N
C
N
281
N
O
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
H
N
293
N
N
N
294
S
C
N
295
N
C
N
296
N
O
N
297
N
C
N
298
N
C
N
299
N
C
N
300
N
O
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
O
N
316
N
O
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
R
C
N
329
N
O
N
330
N
C
N
331
N
O
N
332
N
H
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
N
N
342
S
C
N
343
N
C
N
344
N
O
N
345
N
C
Y
346
N
C
Y
347
N
C
Y
348
N
C
Y
349
N
N
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
Y
354
N
C
N
355
N
O
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
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
Y
373
N
C
Y
374
N
C
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
378
N
C
N
379
N
O
N
380
N
O
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
H
N
392
N
N
N
393
S
C
N
394
N
C
N
395
N
O
N
396
N
C
N
397
N
C
N
398
N
C
N
399
N
O
N
400
N
H
N
401
N
H
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
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
doub
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
E
doub
N
134
N
sing
N
135
N
sing
N
136
N
sing
Y
137
N
doub
Y
138
N
sing
Y
139
N
sing
N
140
N
sing
Y
141
N
doub
N
142
N
sing
Y
143
N
sing
N
144
N
sing
Y
145
N
doub
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
sing
N
153
N
sing
N
154
N
sing
N
155
N
doub
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
Y
160
N
sing
Y
161
N
doub
Y
162
N
doub
N
163
N
sing
Y
164
N
sing
N
165
N
sing
Y
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
doub
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
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
doub
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
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
doub
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
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
doub
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
Y
268
N
doub
Y
269
N
sing
Y
270
N
sing
N
271
N
sing
Y
272
N
doub
N
273
N
sing
Y
274
N
doub
N
275
N
sing
Y
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
doub
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
doub
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
doub
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
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
doub
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
Y
337
N
doub
Y
338
N
sing
Y
339
N
sing
N
340
N
sing
Y
341
N
doub
Y
342
N
sing
Y
343
N
sing
N
344
N
sing
Y
345
N
sing
Y
346
N
doub
N
347
N
sing
Y
348
N
doub
N
349
N
sing
Y
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
doub
N
361
N
sing
N
362
N
sing
N
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
doub
N
370
N
sing
Y
371
N
doub
N
372
N
sing
Y
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
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
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
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
60
1008
1016
10.1107/S090744490400616X
15159559
Short hydrogen bonds in photoactive yellow protein.
2004
10.2210/pdb1oti/pdb
pdb_00001oti
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
295
1
CCD
2001-05-15
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
0.9
1.0
14-BM-C
APS
0.9
SYNCHROTRON
APS BEAMLINE 14-BM-C
13887.591
Photoactive yellow protein
E46Q
1
man
polymer
164.158
4'-HYDROXYCINNAMIC ACID
1
syn
non-polymer
18.015
water
117
nat
water
PYP
no
no
MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAQGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK
EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV
MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAQGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK
EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV
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
Halorhodospira
Escherichia
sample
PYP
1053
Halorhodospira halophila
562
Escherichia coli
1
2.05
39.91
VAPOR DIFFUSION, HANGING DROP
6.5
PEG 2000, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
295
software
struct_conn
database_2
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Data collection
Derived calculations
Refinement description
Database references
Derived calculations
Data collection
Refinement description
1
0
2004-05-11
1
1
2008-04-29
1
2
2011-07-13
1
3
2019-07-24
1
4
2021-10-27
1
5
2023-08-16
_software.classification
_software.name
_struct_conn.pdbx_leaving_atom_flag
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Photoactive Yellow Protein, Dark State (Unbleached)
E46Q Mutant of Photoactive Yellow Protein, P63 AT 295K
Wild Type Photoactive Yellow Protein, P63 AT 295K
Strong Hydrogen Bonds in Photoactive Yellow Protein and their Role in its Photocycle
E46Q mutant of photoactive yellow protein, P65 at 110K
RCSB
Y
RCSB
2003-03-21
REL
REL
HC4
4'-HYDROXYCINNAMIC ACID
HOH
water
2PHY
PDB ENTRY 2PHY
PDB
experimental model
HC4
169
2
HC4
HC4
169
A
HOH
1001
3
HOH
HOH
1001
A
HOH
1002
3
HOH
HOH
1002
A
HOH
1003
3
HOH
HOH
1003
A
HOH
1004
3
HOH
HOH
1004
A
HOH
1005
3
HOH
HOH
1005
A
HOH
1006
3
HOH
HOH
1006
A
HOH
1007
3
HOH
HOH
1007
A
HOH
1008
3
HOH
HOH
1008
A
HOH
1009
3
HOH
HOH
1009
A
HOH
1010
3
HOH
HOH
1010
A
HOH
1011
3
HOH
HOH
1011
A
HOH
1012
3
HOH
HOH
1012
A
HOH
1013
3
HOH
HOH
1013
A
HOH
1014
3
HOH
HOH
1014
A
HOH
1015
3
HOH
HOH
1015
A
HOH
1016
3
HOH
HOH
1016
A
HOH
1017
3
HOH
HOH
1017
A
HOH
1018
3
HOH
HOH
1018
A
HOH
1019
3
HOH
HOH
1019
A
HOH
1020
3
HOH
HOH
1020
A
HOH
1021
3
HOH
HOH
1021
A
HOH
1022
3
HOH
HOH
1022
A
HOH
1023
3
HOH
HOH
1023
A
HOH
1024
3
HOH
HOH
1024
A
HOH
1025
3
HOH
HOH
1025
A
HOH
1026
3
HOH
HOH
1026
A
HOH
1027
3
HOH
HOH
1027
A
HOH
1028
3
HOH
HOH
1028
A
HOH
1029
3
HOH
HOH
1029
A
HOH
1030
3
HOH
HOH
1030
A
HOH
1031
3
HOH
HOH
1031
A
HOH
1032
3
HOH
HOH
1032
A
HOH
1033
3
HOH
HOH
1033
A
HOH
1034
3
HOH
HOH
1034
A
HOH
1035
3
HOH
HOH
1035
A
HOH
1036
3
HOH
HOH
1036
A
HOH
1037
3
HOH
HOH
1037
A
HOH
1038
3
HOH
HOH
1038
A
HOH
1039
3
HOH
HOH
1039
A
HOH
1040
3
HOH
HOH
1040
A
HOH
1041
3
HOH
HOH
1041
A
HOH
1042
3
HOH
HOH
1042
A
HOH
1043
3
HOH
HOH
1043
A
HOH
1044
3
HOH
HOH
1044
A
HOH
1045
3
HOH
HOH
1045
A
HOH
1046
3
HOH
HOH
1046
A
HOH
1047
3
HOH
HOH
1047
A
HOH
1048
3
HOH
HOH
1048
A
HOH
1049
3
HOH
HOH
1049
A
HOH
1050
3
HOH
HOH
1050
A
HOH
1051
3
HOH
HOH
1051
A
HOH
1052
3
HOH
HOH
1052
A
HOH
1053
3
HOH
HOH
1053
A
HOH
1054
3
HOH
HOH
1054
A
HOH
1055
3
HOH
HOH
1055
A
HOH
1056
3
HOH
HOH
1056
A
HOH
1057
3
HOH
HOH
1057
A
HOH
1058
3
HOH
HOH
1058
A
HOH
1059
3
HOH
HOH
1059
A
HOH
1060
3
HOH
HOH
1060
A
HOH
1061
3
HOH
HOH
1061
A
HOH
1062
3
HOH
HOH
1062
A
HOH
1063
3
HOH
HOH
1063
A
HOH
1064
3
HOH
HOH
1064
A
HOH
1065
3
HOH
HOH
1065
A
HOH
1066
3
HOH
HOH
1066
A
HOH
1067
3
HOH
HOH
1067
A
HOH
1068
3
HOH
HOH
1068
A
HOH
1069
3
HOH
HOH
1069
A
HOH
1070
3
HOH
HOH
1070
A
HOH
1071
3
HOH
HOH
1071
A
HOH
1072
3
HOH
HOH
1072
A
HOH
1073
3
HOH
HOH
1073
A
HOH
1074
3
HOH
HOH
1074
A
HOH
1075
3
HOH
HOH
1075
A
HOH
1076
3
HOH
HOH
1076
A
HOH
1077
3
HOH
HOH
1077
A
HOH
1078
3
HOH
HOH
1078
A
HOH
1079
3
HOH
HOH
1079
A
HOH
1080
3
HOH
HOH
1080
A
HOH
1081
3
HOH
HOH
1081
A
HOH
1082
3
HOH
HOH
1082
A
HOH
1083
3
HOH
HOH
1083
A
HOH
1084
3
HOH
HOH
1084
A
HOH
1085
3
HOH
HOH
1085
A
HOH
1086
3
HOH
HOH
1086
A
HOH
1087
3
HOH
HOH
1087
A
HOH
1088
3
HOH
HOH
1088
A
HOH
1089
3
HOH
HOH
1089
A
HOH
1090
3
HOH
HOH
1090
A
HOH
1091
3
HOH
HOH
1091
A
HOH
1092
3
HOH
HOH
1092
A
HOH
1093
3
HOH
HOH
1093
A
HOH
1094
3
HOH
HOH
1094
A
HOH
1095
3
HOH
HOH
1095
A
HOH
1096
3
HOH
HOH
1096
A
HOH
1097
3
HOH
HOH
1097
A
HOH
1098
3
HOH
HOH
1098
A
HOH
1099
3
HOH
HOH
1099
A
HOH
1100
3
HOH
HOH
1100
A
HOH
1101
3
HOH
HOH
1101
A
HOH
1102
3
HOH
HOH
1102
A
HOH
1103
3
HOH
HOH
1103
A
HOH
1104
3
HOH
HOH
1104
A
HOH
1105
3
HOH
HOH
1105
A
HOH
1106
3
HOH
HOH
1106
A
HOH
1107
3
HOH
HOH
1107
A
HOH
1108
3
HOH
HOH
1108
A
HOH
1109
3
HOH
HOH
1109
A
HOH
1110
3
HOH
HOH
1110
A
HOH
1111
3
HOH
HOH
1111
A
HOH
1112
3
HOH
HOH
1112
A
HOH
1113
3
HOH
HOH
1113
A
HOH
1114
3
HOH
HOH
1114
A
HOH
1115
3
HOH
HOH
1115
A
HOH
1116
3
HOH
HOH
1116
A
HOH
1117
3
HOH
HOH
1117
A
MET
1
n
1
MET
1
A
GLU
2
n
2
GLU
2
A
HIS
3
n
3
HIS
3
A
VAL
4
n
4
VAL
4
A
ALA
5
n
5
ALA
5
A
PHE
6
n
6
PHE
6
A
GLY
7
n
7
GLY
7
A
SER
8
n
8
SER
8
A
GLU
9
n
9
GLU
9
A
ASP
10
n
10
ASP
10
A
ILE
11
n
11
ILE
11
A
GLU
12
n
12
GLU
12
A
ASN
13
n
13
ASN
13
A
THR
14
n
14
THR
14
A
LEU
15
n
15
LEU
15
A
ALA
16
n
16
ALA
16
A
LYS
17
n
17
LYS
17
A
MET
18
n
18
MET
18
A
ASP
19
n
19
ASP
19
A
ASP
20
n
20
ASP
20
A
GLY
21
n
21
GLY
21
A
GLN
22
n
22
GLN
22
A
LEU
23
n
23
LEU
23
A
ASP
24
n
24
ASP
24
A
GLY
25
n
25
GLY
25
A
LEU
26
n
26
LEU
26
A
ALA
27
n
27
ALA
27
A
PHE
28
n
28
PHE
28
A
GLY
29
n
29
GLY
29
A
ALA
30
n
30
ALA
30
A
ILE
31
n
31
ILE
31
A
GLN
32
n
32
GLN
32
A
LEU
33
n
33
LEU
33
A
ASP
34
n
34
ASP
34
A
GLY
35
n
35
GLY
35
A
ASP
36
n
36
ASP
36
A
GLY
37
n
37
GLY
37
A
ASN
38
n
38
ASN
38
A
ILE
39
n
39
ILE
39
A
LEU
40
n
40
LEU
40
A
GLN
41
n
41
GLN
41
A
TYR
42
n
42
TYR
42
A
ASN
43
n
43
ASN
43
A
ALA
44
n
44
ALA
44
A
ALA
45
n
45
ALA
45
A
GLN
46
n
46
GLN
46
A
GLY
47
n
47
GLY
47
A
ASP
48
n
48
ASP
48
A
ILE
49
n
49
ILE
49
A
THR
50
n
50
THR
50
A
GLY
51
n
51
GLY
51
A
ARG
52
n
52
ARG
52
A
ASP
53
n
53
ASP
53
A
PRO
54
n
54
PRO
54
A
LYS
55
n
55
LYS
55
A
GLN
56
n
56
GLN
56
A
VAL
57
n
57
VAL
57
A
ILE
58
n
58
ILE
58
A
GLY
59
n
59
GLY
59
A
LYS
60
n
60
LYS
60
A
ASN
61
n
61
ASN
61
A
PHE
62
n
62
PHE
62
A
PHE
63
n
63
PHE
63
A
LYS
64
n
64
LYS
64
A
ASP
65
n
65
ASP
65
A
VAL
66
n
66
VAL
66
A
ALA
67
n
67
ALA
67
A
PRO
68
n
68
PRO
68
A
CYS
69
n
69
CYS
69
A
THR
70
n
70
THR
70
A
ASP
71
n
71
ASP
71
A
SER
72
n
72
SER
72
A
PRO
73
n
73
PRO
73
A
GLU
74
n
74
GLU
74
A
PHE
75
n
75
PHE
75
A
TYR
76
n
76
TYR
76
A
GLY
77
n
77
GLY
77
A
LYS
78
n
78
LYS
78
A
PHE
79
n
79
PHE
79
A
LYS
80
n
80
LYS
80
A
GLU
81
n
81
GLU
81
A
GLY
82
n
82
GLY
82
A
VAL
83
n
83
VAL
83
A
ALA
84
n
84
ALA
84
A
SER
85
n
85
SER
85
A
GLY
86
n
86
GLY
86
A
ASN
87
n
87
ASN
87
A
LEU
88
n
88
LEU
88
A
ASN
89
n
89
ASN
89
A
THR
90
n
90
THR
90
A
MET
91
n
91
MET
91
A
PHE
92
n
92
PHE
92
A
GLU
93
n
93
GLU
93
A
TYR
94
n
94
TYR
94
A
THR
95
n
95
THR
95
A
PHE
96
n
96
PHE
96
A
ASP
97
n
97
ASP
97
A
TYR
98
n
98
TYR
98
A
GLN
99
n
99
GLN
99
A
MET
100
n
100
MET
100
A
THR
101
n
101
THR
101
A
PRO
102
n
102
PRO
102
A
THR
103
n
103
THR
103
A
LYS
104
n
104
LYS
104
A
VAL
105
n
105
VAL
105
A
LYS
106
n
106
LYS
106
A
VAL
107
n
107
VAL
107
A
HIS
108
n
108
HIS
108
A
MET
109
n
109
MET
109
A
LYS
110
n
110
LYS
110
A
LYS
111
n
111
LYS
111
A
ALA
112
n
112
ALA
112
A
LEU
113
n
113
LEU
113
A
SER
114
n
114
SER
114
A
GLY
115
n
115
GLY
115
A
ASP
116
n
116
ASP
116
A
SER
117
n
117
SER
117
A
TYR
118
n
118
TYR
118
A
TRP
119
n
119
TRP
119
A
VAL
120
n
120
VAL
120
A
PHE
121
n
121
PHE
121
A
VAL
122
n
122
VAL
122
A
LYS
123
n
123
LYS
123
A
ARG
124
n
124
ARG
124
A
VAL
125
n
125
VAL
125
A
author_defined_assembly
1
monomeric
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
O
LEU
40
A
O
LEU
40
A
N
GLN
32
A
N
GLN
32
A
N
LEU
33
A
N
LEU
33
A
O
TYR
118
A
O
TYR
118
A
O
TRP
119
A
O
TRP
119
A
N
LYS
110
A
N
LYS
110
A
O
VAL
107
A
O
VAL
107
A
N
PHE
92
A
N
PHE
92
1
6.36
0.90
118.30
124.66
A
A
A
CB
CG
OD1
ASP
ASP
ASP
20
20
20
N
1
-6.40
0.90
118.30
111.90
A
A
A
CB
CG
OD2
ASP
ASP
ASP
36
36
36
N
1
23.13
2.30
111.70
134.83
A
A
A
CD
CE
NZ
LYS
LYS
LYS
64
64
64
N
1
8.24
0.90
118.30
126.54
A
A
A
CB
CG
OD2
ASP
ASP
ASP
65
65
65
N
1
-4.46
0.60
121.00
116.54
A
A
A
CB
CG
CD2
TYR
TYR
TYR
76
76
76
N
1
4.25
0.60
121.00
125.25
A
A
A
CB
CG
CD1
TYR
TYR
TYR
76
76
76
N
1
A
PHE
75
-130.82
-77.74
1
A
ASN
89
-167.05
94.45
1
A
ASP
97
-143.63
18.42
0.161
0.131
0.133
0.133
1.40
20.0
1074
21402
20328
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
PDB ENTRY 2PHY
derived from 0.95A 110K E46Q mutant ground state structure
1.40
20.0
117
1104
11
0
976
0.014
2.55
1.40
100.00
1OTI
21402
21402
2
2
0.088
1
12.4
23.1
95.4
0.568
1.40
1.45
2.6
96.8
refinement
SHELXL-97
data scaling
SCALEPACK
refinement
CNS
data reduction
DENZO
phasing
CNS
E46Q MUTANT OF PHOTOACTIVE YELLOW PROTEIN, P65 AT 295K
1
N
N
2
N
N
3
N
N
A
ASP
10
A
ASP
10
HELX_P
A
LYS
17
A
LYS
17
1
1
8
A
ASP
19
A
ASP
19
HELX_P
A
ASP
24
A
ASP
24
1
2
6
A
ASN
43
A
ASN
43
HELX_P
A
GLY
51
A
GLY
51
1
3
9
A
ASP
53
A
ASP
53
HELX_P
A
ILE
58
A
ILE
58
1
4
6
A
ALA
67
A
ALA
67
HELX_P
A
ASP
71
A
ASP
71
5
5
5
A
PHE
75
A
PHE
75
HELX_P
A
GLY
86
A
GLY
86
1
6
12
covale
1.744
one
A
CYS
69
A
SG
CYS
69
1_555
A
HC4
169
B
C1
HC4
1_555
SIGNALING PROTEIN
PYP, SIGNALING PROTEIN
PYP_ECTHA
UNP
1
1
P16113
MEHVAFGSEDIENTLAKMDDGQLDGLAFGAIQLDGDGNILQYNAAEGDITGRDPKQVIGKNFFKDVAPCTDSPEFYGKFK
EGVASGNLNTMFEYTFDYQMTPTKVKVHMKKALSGDSYWVFVKRV
1
125
1OTI
1
125
P16113
A
1
1
125
1
GLU
engineered mutation
GLN
46
1OTI
A
P16113
UNP
46
46
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ILE
39
A
ILE
39
A
TYR
42
A
TYR
42
A
GLY
29
A
GLY
29
A
LEU
33
A
LEU
33
A
TYR
118
A
TYR
118
A
ARG
124
A
ARG
124
A
THR
103
A
THR
103
A
LYS
111
A
LYS
111
A
ASN
89
A
ASN
89
A
PHE
96
A
PHE
96
BINDING SITE FOR RESIDUE HC4 A 169
A
HC4
169
Software
8
A
TYR
42
A
TYR
42
8
1_555
A
GLN
46
A
GLN
46
8
1_555
A
THR
50
A
THR
50
8
1_555
A
ALA
67
A
ALA
67
8
1_555
A
PRO
68
A
PRO
68
8
1_555
A
CYS
69
A
CYS
69
8
1_555
A
PHE
96
A
PHE
96
8
1_555
A
TYR
98
A
TYR
98
8
1_555
170
P 65