0.017919
0.010345
0.000000
0.000000
0.020691
0.000000
0.000000
0.000000
0.009244
0.00000
0.00000
0.00000
Jia, X.
Geiger, J.H.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
55.808
55.808
108.177
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
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
C18 H21 N O
267.365
(2E,4E,6E)-3-methyl-6-(1,3,3-trimethyl-1,3-dihydro-2H-indol-2-ylidene)hexa-2,4-dienal
(2E,4E,6Z)-3-methyl-6-(1,3,3-trimethylindolin-2-ylidene)hexa-2,4-dienal
non-polymer
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C6 H13 N O4 S
195.237
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
non-polymer
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
O
N
138
N
H
N
139
N
H
N
140
N
N
N
141
S
C
N
142
N
C
N
143
N
O
N
144
S
C
N
145
N
C
N
146
N
C
N
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
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
N
N
163
S
C
N
164
N
C
N
165
N
O
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
C
N
170
N
O
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
H
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
C
N
192
N
C
N
193
N
C
N
194
N
C
Y
195
N
C
Y
196
N
C
N
197
N
N
N
198
N
C
Y
199
N
C
Y
200
N
C
Y
201
N
C
Y
202
N
C
N
203
N
O
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
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
O
N
251
N
C
N
252
N
C
N
253
N
N
N
254
N
C
N
255
N
C
N
256
N
C
N
257
N
C
N
258
N
S
N
259
N
O
N
260
N
O
N
261
N
O
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
N
N
276
S
C
N
277
N
C
N
278
N
O
N
279
N
C
N
280
N
C
N
281
N
S
N
282
N
C
N
283
N
O
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
H
N
294
N
H
N
295
N
N
N
296
S
C
N
297
N
C
N
298
N
O
N
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
N
306
N
O
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
N
N
319
S
C
N
320
N
C
N
321
N
O
N
322
N
C
N
323
N
C
N
324
N
C
N
325
N
O
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
N
N
336
S
C
N
337
N
C
N
338
N
O
N
339
N
C
N
340
N
O
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
N
N
350
S
C
N
351
N
C
N
352
N
O
N
353
R
C
N
354
N
O
N
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
N
N
367
S
C
N
368
N
C
N
369
N
O
N
370
N
C
Y
371
N
C
Y
372
N
C
Y
373
N
C
Y
374
N
N
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
378
N
C
Y
379
N
C
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
H
N
393
N
N
N
394
S
C
N
395
N
C
N
396
N
O
N
397
N
C
Y
398
N
C
Y
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
N
404
N
O
N
405
N
O
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
H
N
413
N
H
N
414
N
H
N
415
N
H
N
416
N
H
N
417
N
N
N
418
S
C
N
419
N
C
N
420
N
O
N
421
N
C
N
422
N
C
N
423
N
C
N
424
N
O
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
H
N
435
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
sing
N
136
N
sing
N
137
N
doub
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
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
doub
N
175
N
sing
N
176
N
sing
N
177
E
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
doub
N
184
E
sing
N
185
N
sing
N
186
N
sing
N
187
N
doub
N
188
E
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
Y
199
N
sing
Y
200
N
doub
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
Y
206
N
doub
Y
207
N
sing
N
208
N
sing
Y
209
N
doub
N
210
N
sing
Y
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
doub
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
doub
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
doub
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
doub
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
Y
294
N
doub
Y
295
N
sing
Y
296
N
sing
N
297
N
sing
Y
298
N
doub
N
299
N
sing
Y
300
N
doub
N
301
N
sing
Y
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
doub
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
doub
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
sing
N
342
N
doub
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
doub
N
359
N
sing
N
360
N
sing
N
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
doub
Y
368
N
sing
Y
369
N
sing
N
370
N
sing
Y
371
N
sing
Y
372
N
doub
N
373
N
sing
Y
374
N
doub
N
375
N
sing
Y
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
sing
N
385
N
sing
N
386
N
doub
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
Y
391
N
doub
Y
392
N
sing
Y
393
N
sing
N
394
N
sing
Y
395
N
doub
N
396
N
sing
Y
397
N
doub
N
398
N
sing
Y
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
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
US
J.Am.Chem.Soc.
JACSAT
0004
0002-7863
137
1073
1080
10.1021/ja506376j
25534273
"Turn-on" protein fluorescence: in situ formation of cyanine dyes.
2015
10.2210/pdb3fep/pdb
pdb_00003fep
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
2007-10-26
MARMOSAIC 225 mm CCD
C(111)
SINGLE WAVELENGTH
M
x-ray
1
0.97850
1.0
21-ID-F
APS
0.97850
SYNCHROTRON
APS BEAMLINE 21-ID-F
15554.726
Cellular retinoic acid-binding protein 2
R132K, R111L, L121E, R59W
1
man
polymer
267.365
(2E,4E,6E)-3-methyl-6-(1,3,3-trimethyl-1,3-dihydro-2H-indol-2-ylidene)hexa-2,4-dienal
1
syn
non-polymer
195.237
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
1
syn
non-polymer
18.015
water
39
nat
water
Cellular retinoic acid-binding protein II, CRABP-II
no
no
PNFSGNWKIIRSENFEELLKVLGVNVMLRKIAVAAASKPAVEIKQEGDTFYIKTSTTVWTTEINFKVGEEFEEQTVDGRP
CKSLVKWESENKMVCEQKLLKGEGPKTSWTLELTNDGELIETMTADDVVCTKVYVRE
PNFSGNWKIIRSENFEELLKVLGVNVMLRKIAVAAASKPAVEIKQEGDTFYIKTSTTVWTTEINFKVGEEFEEQTVDGRP
CKSLVKWESENKMVCEQKLLKGEGPKTSWTLELTNDGELIETMTADDVVCTKVYVRE
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
Human
sample
CRABP2
9606
Homo sapiens
562
Escherichia coli
BL21(DE3)pLysS
plasmid
CRABPII-pET17b-KLE-R59W
1
3.13
60.66
VAPOR DIFFUSION, HANGING DROP
6.3
0.1M MES, 0.2M ammonium sulfate, 30% PEGMME 5000, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
277
struct
struct_conn
struct_site
database_2
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Database references
Database references
Structure summary
Derived calculations
Structure summary
Database references
Data collection
Refinement description
1
0
2009-11-10
1
1
2011-07-13
1
2
2015-02-04
1
3
2015-02-11
1
4
2016-12-28
1
5
2020-09-09
1
6
2021-10-20
1
7
2023-09-06
_struct.title
_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.ptnr2_label_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
Wild-type CRABPII complexed with retinoic acid
apo-wild-type CRABPII
CRABPII mutant complexed with all-trans-retinal
The same CRABPII mutant complexed with a shorter retinal analog
CRABPII R132K:Y134F:R111L:L121D:T54V mutant
CRABPII R132K:R111L:T54E mutant
CRABPII R132K:R111L:A32E mutant
RCSB
Y
RCSB
2008-11-30
REL
REL
LMC
(2E,4E,6E)-3-methyl-6-(1,3,3-trimethyl-1,3-dihydro-2H-indol-2-ylidene)hexa-2,4-dienal
MES
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
HOH
water
2G7B
PDB entry 2G7B
PDB
experimental model
LMC
139
2
LMC
LMC
139
A
MES
138
3
MES
MES
138
A
HOH
2
4
HOH
HOH
140
A
HOH
3
4
HOH
HOH
141
A
HOH
5
4
HOH
HOH
142
A
HOH
6
4
HOH
HOH
143
A
HOH
15
4
HOH
HOH
144
A
HOH
18
4
HOH
HOH
145
A
HOH
20
4
HOH
HOH
146
A
HOH
21
4
HOH
HOH
147
A
HOH
22
4
HOH
HOH
148
A
HOH
23
4
HOH
HOH
149
A
HOH
24
4
HOH
HOH
150
A
HOH
25
4
HOH
HOH
151
A
HOH
27
4
HOH
HOH
152
A
HOH
31
4
HOH
HOH
153
A
HOH
37
4
HOH
HOH
154
A
HOH
38
4
HOH
HOH
155
A
HOH
39
4
HOH
HOH
156
A
HOH
40
4
HOH
HOH
157
A
HOH
46
4
HOH
HOH
158
A
HOH
48
4
HOH
HOH
159
A
HOH
50
4
HOH
HOH
160
A
HOH
55
4
HOH
HOH
161
A
HOH
56
4
HOH
HOH
162
A
HOH
57
4
HOH
HOH
163
A
HOH
59
4
HOH
HOH
164
A
HOH
60
4
HOH
HOH
165
A
HOH
62
4
HOH
HOH
166
A
HOH
63
4
HOH
HOH
167
A
HOH
65
4
HOH
HOH
168
A
HOH
66
4
HOH
HOH
169
A
HOH
67
4
HOH
HOH
170
A
HOH
70
4
HOH
HOH
171
A
HOH
71
4
HOH
HOH
172
A
HOH
73
4
HOH
HOH
173
A
HOH
74
4
HOH
HOH
174
A
HOH
76
4
HOH
HOH
175
A
HOH
78
4
HOH
HOH
176
A
HOH
79
4
HOH
HOH
177
A
HOH
80
4
HOH
HOH
178
A
PRO
1
n
1
PRO
1
A
ASN
2
n
2
ASN
2
A
PHE
3
n
3
PHE
3
A
SER
4
n
4
SER
4
A
GLY
5
n
5
GLY
5
A
ASN
6
n
6
ASN
6
A
TRP
7
n
7
TRP
7
A
LYS
8
n
8
LYS
8
A
ILE
9
n
9
ILE
9
A
ILE
10
n
10
ILE
10
A
ARG
11
n
11
ARG
11
A
SER
12
n
12
SER
12
A
GLU
13
n
13
GLU
13
A
ASN
14
n
14
ASN
14
A
PHE
15
n
15
PHE
15
A
GLU
16
n
16
GLU
16
A
GLU
17
n
17
GLU
17
A
LEU
18
n
18
LEU
18
A
LEU
19
n
19
LEU
19
A
LYS
20
n
20
LYS
20
A
VAL
21
n
21
VAL
21
A
LEU
22
n
22
LEU
22
A
GLY
23
n
23
GLY
23
A
VAL
24
n
24
VAL
24
A
ASN
25
n
25
ASN
25
A
VAL
26
n
26
VAL
26
A
MET
27
n
27
MET
27
A
LEU
28
n
28
LEU
28
A
ARG
29
n
29
ARG
29
A
LYS
30
n
30
LYS
30
A
ILE
31
n
31
ILE
31
A
ALA
32
n
32
ALA
32
A
VAL
33
n
33
VAL
33
A
ALA
34
n
34
ALA
34
A
ALA
35
n
35
ALA
35
A
ALA
36
n
36
ALA
36
A
SER
37
n
37
SER
37
A
LYS
38
n
38
LYS
38
A
PRO
39
n
39
PRO
39
A
ALA
40
n
40
ALA
40
A
VAL
41
n
41
VAL
41
A
GLU
42
n
42
GLU
42
A
ILE
43
n
43
ILE
43
A
LYS
44
n
44
LYS
44
A
GLN
45
n
45
GLN
45
A
GLU
46
n
46
GLU
46
A
GLY
47
n
47
GLY
47
A
ASP
48
n
48
ASP
48
A
THR
49
n
49
THR
49
A
PHE
50
n
50
PHE
50
A
TYR
51
n
51
TYR
51
A
ILE
52
n
52
ILE
52
A
LYS
53
n
53
LYS
53
A
THR
54
n
54
THR
54
A
SER
55
n
55
SER
55
A
THR
56
n
56
THR
56
A
THR
57
n
57
THR
57
A
VAL
58
n
58
VAL
58
A
TRP
59
n
59
TRP
59
A
THR
60
n
60
THR
60
A
THR
61
n
61
THR
61
A
GLU
62
n
62
GLU
62
A
ILE
63
n
63
ILE
63
A
ASN
64
n
64
ASN
64
A
PHE
65
n
65
PHE
65
A
LYS
66
n
66
LYS
66
A
VAL
67
n
67
VAL
67
A
GLY
68
n
68
GLY
68
A
GLU
69
n
69
GLU
69
A
GLU
70
n
70
GLU
70
A
PHE
71
n
71
PHE
71
A
GLU
72
n
72
GLU
72
A
GLU
73
n
73
GLU
73
A
GLN
74
n
74
GLN
74
A
THR
75
n
75
THR
75
A
VAL
76
n
76
VAL
76
A
ASP
77
n
77
ASP
77
A
GLY
78
n
78
GLY
78
A
ARG
79
n
79
ARG
79
A
PRO
80
n
80
PRO
80
A
CYS
81
n
81
CYS
81
A
LYS
82
n
82
LYS
82
A
SER
83
n
83
SER
83
A
LEU
84
n
84
LEU
84
A
VAL
85
n
85
VAL
85
A
LYS
86
n
86
LYS
86
A
TRP
87
n
87
TRP
87
A
GLU
88
n
88
GLU
88
A
SER
89
n
89
SER
89
A
GLU
90
n
90
GLU
90
A
ASN
91
n
91
ASN
91
A
LYS
92
n
92
LYS
92
A
MET
93
n
93
MET
93
A
VAL
94
n
94
VAL
94
A
CYS
95
n
95
CYS
95
A
GLU
96
n
96
GLU
96
A
GLN
97
n
97
GLN
97
A
LYS
98
n
98
LYS
98
A
LEU
99
n
99
LEU
99
A
LEU
100
n
100
LEU
100
A
LYS
101
n
101
LYS
101
A
GLY
102
n
102
GLY
102
A
GLU
103
n
103
GLU
103
A
GLY
104
n
104
GLY
104
A
PRO
105
n
105
PRO
105
A
LYS
106
n
106
LYS
106
A
THR
107
n
107
THR
107
A
SER
108
n
108
SER
108
A
TRP
109
n
109
TRP
109
A
THR
110
n
110
THR
110
A
LEU
111
n
111
LEU
111
A
GLU
112
n
112
GLU
112
A
LEU
113
n
113
LEU
113
A
THR
114
n
114
THR
114
A
ASN
115
n
115
ASN
115
A
ASP
116
n
116
ASP
116
A
GLY
117
n
117
GLY
117
A
GLU
118
n
118
GLU
118
A
LEU
119
n
119
LEU
119
A
ILE
120
n
120
ILE
120
A
GLU
121
n
121
GLU
121
A
THR
122
n
122
THR
122
A
MET
123
n
123
MET
123
A
THR
124
n
124
THR
124
A
ALA
125
n
125
ALA
125
A
ASP
126
n
126
ASP
126
A
ASP
127
n
127
ASP
127
A
VAL
128
n
128
VAL
128
A
VAL
129
n
129
VAL
129
A
CYS
130
n
130
CYS
130
A
THR
131
n
131
THR
131
A
LYS
132
n
132
LYS
132
A
VAL
133
n
133
VAL
133
A
TYR
134
n
134
TYR
134
A
VAL
135
n
135
VAL
135
A
ARG
136
n
136
ARG
136
A
GLU
137
n
137
GLU
137
A
author_and_software_defined_assembly
PISA
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
PHE
65
A
O
PHE
65
A
N
PHE
50
A
N
PHE
50
A
O
TYR
51
A
O
TYR
51
A
N
LYS
44
A
N
LYS
44
A
O
VAL
41
A
O
VAL
41
A
N
TRP
7
A
N
TRP
7
A
N
LYS
8
A
N
LYS
8
A
O
VAL
135
A
O
VAL
135
A
O
CYS
130
A
O
CYS
130
A
N
MET
123
A
N
MET
123
A
O
ILE
120
A
O
ILE
120
A
N
GLU
112
A
N
GLU
112
A
O
TRP
109
A
O
TRP
109
A
N
CYS
95
A
N
CYS
95
A
O
LYS
98
A
O
LYS
98
A
N
LYS
82
A
N
LYS
82
A
O
SER
83
A
O
SER
83
A
N
PHE
71
A
N
PHE
71
1
A
ASN
2
-49.82
96.64
1
A
SER
4
-49.63
157.65
1
A
ARG
11
-175.75
149.45
1
A
SER
12
-166.12
114.10
1
A
THR
56
-103.76
-152.15
1
A
GLU
73
-176.10
-173.00
1
A
THR
75
-66.05
-171.34
1
A
SER
89
-138.74
-156.86
1
A
ASP
116
-79.95
26.64
1
A
ASP
126
50.29
-122.10
38.880
3.76
1.88
0.00
3.76
0.00
-5.65
0.940
0.913
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.29309
0.23246
0.23540
0.23540
2.60
44.13
260
5394
4.6
88.50
29.520
0.300
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.827
0.376
0.80
0.80
1.20
PDB entry 2G7B
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
2.60
44.13
39
1160
31
0
1090
0.006
0.022
1151
0.886
2.002
1556
5.968
5.000
136
37.839
26.042
48
16.339
15.000
213
9.159
15.000
4
0.044
0.200
177
0.003
0.020
828
0.274
0.300
493
0.328
0.500
762
0.261
0.500
66
0.233
0.300
25
0.360
0.500
3
0.447
2.000
709
0.739
3.000
1110
0.280
2.000
527
0.429
3.000
445
0.904
0.370
2.669
6
172
172
20
37.87
38.6
2.60
48.34
3FEP
5671
1
0.058
1
43.3
9.2
88.4
0.544
2.60
2.69
1.9
265
1
4.5
41.3
data collection
HKL-2000
phasing
MOLREP
refinement
REFMAC
5.2.0005
data reduction
HKL-2000
data scaling
HKL-2000
Crystal structure of the R132K:R111L:L121E:R59W-CRABPII mutant complexed with a synthetic ligand (merocyanin) at 2.60 angstrom resolution.
1
N
N
2
N
N
3
N
N
4
N
N
A
ASN
14
A
ASN
14
HELX_P
A
GLY
23
A
GLY
23
1
1
10
A
ASN
25
A
ASN
25
HELX_P
A
VAL
33
A
VAL
33
1
2
9
covale
1.257
one
A
LYS
132
A
NZ
LYS
132
1_555
A
LMC
139
B
C18
LMC
1_555
TRANSPORT PROTEIN
merocyanin, CRABPII, retinoic acid, retinoid, PSB, protonated Schiff base, fluorescence, CRABP, Nucleus, Retinol-binding, Transport, Vitamin A, TRANSPORT PROTEIN
RABP2_HUMAN
UNP
1
2
P29373
PNFSGNWKIIRSENFEELLKVLGVNVMLRKIAVAAASKPAVEIKQEGDTFYIKTSTTVRTTEINFKVGEEFEEQTVDGRP
CKSLVKWESENKMVCEQKLLKGEGPKTSWTRELTNDGELILTMTADDVVCTRVYVRE
2
138
3FEP
1
137
P29373
A
1
1
137
1
ARG
engineered mutation
TRP
59
3FEP
A
P29373
UNP
60
59
1
ARG
engineered mutation
LEU
111
3FEP
A
P29373
UNP
112
111
1
LEU
engineered mutation
GLU
121
3FEP
A
P29373
UNP
122
121
1
ARG
engineered mutation
LYS
132
3FEP
A
P29373
UNP
133
132
10
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
THR
60
A
THR
60
A
LYS
66
A
LYS
66
A
THR
49
A
THR
49
A
SER
55
A
SER
55
A
ALA
40
A
ALA
40
A
GLU
46
A
GLU
46
A
GLY
5
A
GLY
5
A
GLU
13
A
GLU
13
A
VAL
128
A
VAL
128
A
ARG
136
A
ARG
136
A
LEU
119
A
LEU
119
A
ALA
125
A
ALA
125
A
THR
107
A
THR
107
A
LEU
113
A
LEU
113
A
LYS
92
A
LYS
92
A
LEU
99
A
LEU
99
A
PRO
80
A
PRO
80
A
TRP
87
A
TRP
87
A
PHE
71
A
PHE
71
A
GLN
74
A
GLN
74
BINDING SITE FOR RESIDUE LMC A 139
A
LMC
139
Software
8
BINDING SITE FOR RESIDUE MES A 138
A
MES
138
Software
9
A
PHE
15
A
PHE
15
8
1_555
A
MET
27
A
MET
27
8
1_555
A
ALA
32
A
ALA
32
8
1_555
A
SER
37
A
SER
37
8
1_555
A
PRO
39
A
PRO
39
8
1_555
A
THR
56
A
THR
56
8
1_555
A
TRP
59
A
TRP
59
8
1_555
A
LYS
132
A
LYS
132
8
1_555
A
ILE
52
A
ILE
52
9
1_555
A
THR
54
A
THR
54
9
1_555
A
GLN
74
A
GLN
74
9
1_555
A
VAL
76
A
VAL
76
9
1_555
A
GLN
97
A
GLN
97
9
1_555
A
TRP
109
A
TRP
109
9
1_555
A
GLU
121
A
GLU
121
9
1_555
A
MET
123
A
MET
123
9
1_555
A
HOH
145
D
HOH
9
1_555
152
P 31 2 1