0.012745
0.007358
0.000000
0.000000
0.014717
0.000000
0.000000
0.000000
0.009860
0.00000
0.00000
0.00000
Snijder, H.J.
Van Eerde, J.H.
Kingma, R.L.
Kalk, K.H.
Dekker, N.
Egmond, M.R.
Dijkstra, B.W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
78.462
78.462
101.424
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
C14 H28 O6
292.369
n
octyl beta-D-glucopyranoside
Beta-Octylglucoside; octyl beta-D-glucoside; octyl D-glucoside; octyl glucoside
D-saccharide
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
C6 H14 O2
118.174
(4S)-2-METHYL-2,4-PENTANEDIOL
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
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
R
C
N
75
N
O
N
76
R
C
N
77
N
O
N
78
S
C
N
79
N
O
N
80
S
C
N
81
N
O
N
82
R
C
N
83
N
O
N
84
N
C
N
85
N
O
N
86
N
C
N
87
N
C
N
88
N
C
N
89
N
C
N
90
N
C
N
91
N
C
N
92
N
C
N
93
N
C
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
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
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
N
N
123
S
C
N
124
N
C
N
125
N
O
N
126
N
C
N
127
N
C
N
128
N
C
N
129
N
O
N
130
N
N
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
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
N
N
143
S
C
N
144
N
C
N
145
N
O
N
146
N
C
N
147
N
C
N
148
N
C
N
149
N
O
N
150
N
O
N
151
N
O
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
N
N
162
N
C
N
163
N
C
N
164
N
O
N
165
N
O
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
N
N
172
S
C
N
173
N
C
N
174
N
O
N
175
N
C
Y
176
N
C
Y
177
N
N
Y
178
N
C
Y
179
N
C
Y
180
N
N
N
181
N
O
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
O
N
193
N
H
N
194
N
H
N
195
N
N
N
196
S
C
N
197
N
C
N
198
N
O
N
199
S
C
N
200
N
C
N
201
N
C
N
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
N
N
218
S
C
N
219
N
C
N
220
N
O
N
221
N
C
N
222
N
C
N
223
N
C
N
224
N
C
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
N
N
240
S
C
N
241
N
C
N
242
N
O
N
243
N
C
N
244
N
C
N
245
N
C
N
246
N
C
N
247
N
N
N
248
N
O
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
H
N
264
N
N
N
265
S
C
N
266
N
C
N
267
N
O
N
268
N
C
N
269
N
C
N
270
N
S
N
271
N
C
N
272
N
O
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
C
N
285
N
C
N
286
N
O
N
287
N
C
N
288
N
C
N
289
S
C
N
290
N
O
N
291
N
C
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
H
N
299
N
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
N
N
307
S
C
N
308
N
C
N
309
N
O
N
310
N
C
Y
311
N
C
Y
312
N
C
Y
313
N
C
Y
314
N
C
Y
315
N
C
Y
316
N
C
N
317
N
O
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
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
N
N
330
S
C
N
331
N
C
N
332
N
O
N
333
N
C
N
334
N
C
N
335
N
C
N
336
N
O
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
H
N
346
N
N
N
347
S
C
N
348
N
C
N
349
N
O
N
350
N
C
N
351
N
O
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
N
N
361
S
C
N
362
N
C
N
363
N
O
N
364
R
C
N
365
N
O
N
366
N
C
N
367
N
O
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
N
N
378
S
C
N
379
N
C
N
380
N
O
N
381
N
C
Y
382
N
C
Y
383
N
C
Y
384
N
C
Y
385
N
N
Y
386
N
C
Y
387
N
C
Y
388
N
C
Y
389
N
C
Y
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
H
N
402
N
H
N
403
N
H
N
404
N
N
N
405
S
C
N
406
N
C
N
407
N
O
N
408
N
C
Y
409
N
C
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
O
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
N
433
N
C
N
434
N
C
N
435
N
O
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
N
H
N
445
N
H
N
446
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
sing
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
sing
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
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
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
sing
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
doub
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
doub
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
doub
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
doub
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
sing
N
159
N
sing
N
160
N
sing
N
161
N
doub
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
doub
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
Y
175
N
sing
Y
176
N
doub
Y
177
N
doub
N
178
N
sing
Y
179
N
sing
N
180
N
sing
Y
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
doub
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
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
doub
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
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
doub
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
doub
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
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
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
doub
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
Y
304
N
doub
Y
305
N
sing
Y
306
N
sing
N
307
N
sing
Y
308
N
doub
N
309
N
sing
Y
310
N
doub
N
311
N
sing
Y
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
doub
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
doub
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
doub
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
sing
N
367
N
sing
N
368
N
doub
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
Y
373
N
doub
Y
374
N
sing
Y
375
N
sing
N
376
N
sing
Y
377
N
doub
Y
378
N
sing
Y
379
N
sing
N
380
N
sing
Y
381
N
sing
Y
382
N
doub
N
383
N
sing
Y
384
N
doub
N
385
N
sing
Y
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
N
396
N
doub
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
Y
401
N
doub
Y
402
N
sing
Y
403
N
sing
N
404
N
sing
Y
405
N
doub
N
406
N
sing
Y
407
N
doub
N
408
N
sing
Y
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
N
418
N
sing
N
419
N
sing
N
420
N
doub
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
US
Protein Sci.
PRCIEI
0795
0961-8368
10
1962
1969
10.1110/ps.17701
11567087
Structural investigations of the active-site mutant Asn156Ala of outer membrane phospholipase A: function of the Asn-His interaction in the catalytic triad.
2001
UK
Nature
NATUAS
0006
0028-0836
401
717
721
10.1038/44890
Structural Evidence for Dimerization-Regulated Activation of an Integral Membrane Phospholipase
1999
NE
FEBS Lett.
FEBLAL
0165
0014-5793
373
10
12
10.1016/0014-5793(95)01002-V
Crystallization and Preliminary X-Ray Analysis of Outer Membrane Phospholipase A from Escherichia Coli
1995
10.2210/pdb1im0/pdb
pdb_00001im0
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
120
1
mirrors
IMAGE PLATE
MAC Science DIP-2000
YALE MIRRORS + NI FILTER
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
ENRAF-NONIUS FR591
31493.852
OUTER MEMBRANE PHSOPHOLIPASE A
3.1.1.32
N156A
1
man
polymer
292.369
octyl beta-D-glucopyranoside
4
man
non-polymer
118.174
(4S)-2-METHYL-2,4-PENTANEDIOL
3
syn
non-polymer
18.015
water
19
nat
water
OMPLA, DETERGENT-RESISTANT PHOSPHOLIPASE A, DR-PHOSPHOLIPASE A, PHOSPHATIDYLCHOLINE 1-ACYLHYDROLASE
no
no
ARIRAPQEATVKEVHDAPAVRGSIIANMLQEHDNPFTLYPYDTNYLIYTQTSDLNKEAIASYDWAENARKDEVKFQLSLA
FPLWRGILGPNSVLGASYTQKSWWQLSNSEESSPFRETNYEPQLFLGFATDYRFAGWTLRDVEMGYNHDSNGRSDPTSRS
WARLYTRLMAENGNWLVEVKPWYVVGNTDDNPDITKYMGYYQLKIGYHLGDAVLSAKGQYNWNTGYGGAELGLSYPITKH
VRLYTQVYSGYGESLIDYNFNQTRVGVGVMLNDLF
ARIRAPQEATVKEVHDAPAVRGSIIANMLQEHDNPFTLYPYDTNYLIYTQTSDLNKEAIASYDWAENARKDEVKFQLSLA
FPLWRGILGPNSVLGASYTQKSWWQLSNSEESSPFRETNYEPQLFLGFATDYRFAGWTLRDVEMGYNHDSNGRSDPTSRS
WARLYTRLMAENGNWLVEVKPWYVVGNTDDNPDITKYMGYYQLKIGYHLGDAVLSAKGQYNWNTGYGGAELGLSYPITKH
VRLYTQVYSGYGESLIDYNFNQTRVGVGVMLNDLF
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
Escherichia
Escherichia
sample
562
Escherichia coli
562
Escherichia coli
1
2.86
57.00
VAPOR DIFFUSION, HANGING DROP
6.1
MPD, calcium chloride, bis-tris buffer pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
chem_comp
entity
pdbx_chem_comp_identifier
pdbx_entity_nonpoly
struct_site
struct_site_gen
chem_comp
database_2
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Carbohydrate remediation
repository
Remediation
Version format compliance
Version format compliance
Data collection
Derived calculations
Structure summary
Database references
Structure summary
Data collection
Refinement description
1
0
2001-10-03
1
1
2008-04-27
1
2
2011-07-13
1
3
2020-07-29
1
4
2022-12-21
1
5
2023-09-20
_chem_comp.mon_nstd_flag
_chem_comp.name
_chem_comp.type
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
b-octylglucoside
native OMPLA
native OMPLA Ca2+ bound
Dimeric inhibited OMPLA Ca2+ bound
dimeric inhibited OMPLA Ca2+ free
N156A OMPLA MUTANT AT pH 4.6
N156A OMPLA MUTANT AT pH 6.1
HETEROGEN
ATOMS C3'-C8' OF BOG 502 HAVE MISSING ELECTRON
DENSITY.
ATOMS C5'-C8' OF BOG 504, 505 LACK INTERPRETABLE
ELECTRON DENSITY.
RCSB
Y
RCSB
2001-05-09
REL
REL
BOG
octyl beta-D-glucopyranoside
MPD
(4S)-2-METHYL-2,4-PENTANEDIOL
HOH
water
1QD5
1QD5 WITH ACTIVE SITE RESIDUES TRUNCATED TO ALA. ALL WATER AND DETERGENT MOLECULES REMOVED. ALL ATOMS WERE GIVEN A RANDOM SHIFT OF ALMOST 0.5 ANGSTROM.
PDB
experimental model
BOG
500
2
BOG
BOG
500
A
OGT
502
2
BOG
BOG
502
A
OGF
504
2
BOG
BOG
504
A
OGF
505
2
BOG
BOG
505
A
MPD
600
3
MPD
MPD
600
A
MPD
601
3
MPD
MPD
601
A
MPD
602
3
MPD
MPD
602
A
TIP
300
4
HOH
HOH
300
A
TIP
301
4
HOH
HOH
301
A
TIP
303
4
HOH
HOH
303
A
TIP
304
4
HOH
HOH
304
A
TIP
305
4
HOH
HOH
305
A
TIP
306
4
HOH
HOH
306
A
TIP
307
4
HOH
HOH
307
A
TIP
308
4
HOH
HOH
308
A
TIP
309
4
HOH
HOH
309
A
TIP
310
4
HOH
HOH
310
A
TIP
311
4
HOH
HOH
311
A
TIP
312
4
HOH
HOH
312
A
TIP
313
4
HOH
HOH
313
A
TIP
314
4
HOH
HOH
314
A
TIP
315
4
HOH
HOH
315
A
TIP
317
4
HOH
HOH
317
A
TIP
318
4
HOH
HOH
318
A
TIP
319
4
HOH
HOH
319
A
TIP
320
4
HOH
HOH
320
A
n
1
-5
A
n
2
-4
A
n
3
-3
A
n
4
-2
A
n
5
-1
A
n
6
0
A
n
7
1
A
n
8
2
A
n
9
3
A
n
10
4
A
n
11
5
A
n
12
6
A
n
13
7
A
VAL
8
n
14
VAL
8
A
HIS
9
n
15
HIS
9
A
ASP
10
n
16
ASP
10
A
ALA
11
n
17
ALA
11
A
PRO
12
n
18
PRO
12
A
ALA
13
n
19
ALA
13
A
VAL
14
n
20
VAL
14
A
ARG
15
n
21
ARG
15
A
GLY
16
n
22
GLY
16
A
SER
17
n
23
SER
17
A
ILE
18
n
24
ILE
18
A
ILE
19
n
25
ILE
19
A
ALA
20
n
26
ALA
20
A
ASN
21
n
27
ASN
21
A
MET
22
n
28
MET
22
A
LEU
23
n
29
LEU
23
A
GLN
24
n
30
GLN
24
A
GLU
25
n
31
GLU
25
A
HIS
26
n
32
HIS
26
A
ASP
27
n
33
ASP
27
A
ASN
28
n
34
ASN
28
A
PRO
29
n
35
PRO
29
A
PHE
30
n
36
PHE
30
A
THR
31
n
37
THR
31
A
LEU
32
n
38
LEU
32
A
TYR
33
n
39
TYR
33
A
PRO
34
n
40
PRO
34
A
TYR
35
n
41
TYR
35
A
ASP
36
n
42
ASP
36
A
THR
37
n
43
THR
37
A
ASN
38
n
44
ASN
38
A
TYR
39
n
45
TYR
39
A
LEU
40
n
46
LEU
40
A
ILE
41
n
47
ILE
41
A
TYR
42
n
48
TYR
42
A
THR
43
n
49
THR
43
A
GLN
44
n
50
GLN
44
A
THR
45
n
51
THR
45
A
SER
46
n
52
SER
46
A
ASP
47
n
53
ASP
47
A
LEU
48
n
54
LEU
48
A
ASN
49
n
55
ASN
49
A
LYS
50
n
56
LYS
50
A
GLU
51
n
57
GLU
51
A
ALA
52
n
58
ALA
52
A
ILE
53
n
59
ILE
53
A
ALA
54
n
60
ALA
54
A
SER
55
n
61
SER
55
A
TYR
56
n
62
TYR
56
A
ASP
57
n
63
ASP
57
A
TRP
58
n
64
TRP
58
A
ALA
59
n
65
ALA
59
A
GLU
60
n
66
GLU
60
A
ASN
61
n
67
ASN
61
A
ALA
62
n
68
ALA
62
A
ARG
63
n
69
ARG
63
A
LYS
64
n
70
LYS
64
A
ASP
65
n
71
ASP
65
A
GLU
66
n
72
GLU
66
A
VAL
67
n
73
VAL
67
A
LYS
68
n
74
LYS
68
A
PHE
69
n
75
PHE
69
A
GLN
70
n
76
GLN
70
A
LEU
71
n
77
LEU
71
A
SER
72
n
78
SER
72
A
LEU
73
n
79
LEU
73
A
ALA
74
n
80
ALA
74
A
PHE
75
n
81
PHE
75
A
PRO
76
n
82
PRO
76
A
LEU
77
n
83
LEU
77
A
TRP
78
n
84
TRP
78
A
ARG
79
n
85
ARG
79
A
GLY
80
n
86
GLY
80
A
ILE
81
n
87
ILE
81
A
LEU
82
n
88
LEU
82
A
GLY
83
n
89
GLY
83
A
PRO
84
n
90
PRO
84
A
ASN
85
n
91
ASN
85
A
SER
86
n
92
SER
86
A
VAL
87
n
93
VAL
87
A
LEU
88
n
94
LEU
88
A
GLY
89
n
95
GLY
89
A
ALA
90
n
96
ALA
90
A
SER
91
n
97
SER
91
A
TYR
92
n
98
TYR
92
A
THR
93
n
99
THR
93
A
GLN
94
n
100
GLN
94
A
LYS
95
n
101
LYS
95
A
SER
96
n
102
SER
96
A
TRP
97
n
103
TRP
97
A
TRP
98
n
104
TRP
98
A
GLN
99
n
105
GLN
99
A
LEU
100
n
106
LEU
100
A
SER
101
n
107
SER
101
A
ASN
102
n
108
ASN
102
A
SER
103
n
109
SER
103
A
GLU
104
n
110
GLU
104
A
GLU
105
n
111
GLU
105
A
SER
106
n
112
SER
106
A
SER
107
n
113
SER
107
A
PRO
108
n
114
PRO
108
A
PHE
109
n
115
PHE
109
A
ARG
110
n
116
ARG
110
A
GLU
111
n
117
GLU
111
A
THR
112
n
118
THR
112
A
ASN
113
n
119
ASN
113
A
TYR
114
n
120
TYR
114
A
GLU
115
n
121
GLU
115
A
PRO
116
n
122
PRO
116
A
GLN
117
n
123
GLN
117
A
LEU
118
n
124
LEU
118
A
PHE
119
n
125
PHE
119
A
LEU
120
n
126
LEU
120
A
GLY
121
n
127
GLY
121
A
PHE
122
n
128
PHE
122
A
ALA
123
n
129
ALA
123
A
THR
124
n
130
THR
124
A
ASP
125
n
131
ASP
125
A
TYR
126
n
132
TYR
126
A
ARG
127
n
133
ARG
127
A
PHE
128
n
134
PHE
128
A
ALA
129
n
135
ALA
129
A
GLY
130
n
136
GLY
130
A
TRP
131
n
137
TRP
131
A
THR
132
n
138
THR
132
A
LEU
133
n
139
LEU
133
A
ARG
134
n
140
ARG
134
A
ASP
135
n
141
ASP
135
A
VAL
136
n
142
VAL
136
A
GLU
137
n
143
GLU
137
A
MET
138
n
144
MET
138
A
GLY
139
n
145
GLY
139
A
TYR
140
n
146
TYR
140
A
ASN
141
n
147
ASN
141
A
HIS
142
n
148
HIS
142
A
ASP
143
n
149
ASP
143
A
SER
144
n
150
SER
144
A
ASN
145
n
151
ASN
145
A
GLY
146
n
152
GLY
146
A
ARG
147
n
153
ARG
147
A
SER
148
n
154
SER
148
A
ASP
149
n
155
ASP
149
A
PRO
150
n
156
PRO
150
A
THR
151
n
157
THR
151
A
SER
152
n
158
SER
152
A
ARG
153
n
159
ARG
153
A
SER
154
n
160
SER
154
A
TRP
155
n
161
TRP
155
A
ALA
156
n
162
ALA
156
A
ARG
157
n
163
ARG
157
A
LEU
158
n
164
LEU
158
A
TYR
159
n
165
TYR
159
A
THR
160
n
166
THR
160
A
ARG
161
n
167
ARG
161
A
LEU
162
n
168
LEU
162
A
MET
163
n
169
MET
163
A
ALA
164
n
170
ALA
164
A
GLU
165
n
171
GLU
165
A
ASN
166
n
172
ASN
166
A
GLY
167
n
173
GLY
167
A
ASN
168
n
174
ASN
168
A
TRP
169
n
175
TRP
169
A
LEU
170
n
176
LEU
170
A
VAL
171
n
177
VAL
171
A
GLU
172
n
178
GLU
172
A
VAL
173
n
179
VAL
173
A
LYS
174
n
180
LYS
174
A
PRO
175
n
181
PRO
175
A
TRP
176
n
182
TRP
176
A
TYR
177
n
183
TYR
177
A
VAL
178
n
184
VAL
178
A
VAL
179
n
185
VAL
179
A
GLY
180
n
186
GLY
180
A
ASN
181
n
187
ASN
181
A
THR
182
n
188
THR
182
A
ASP
183
n
189
ASP
183
A
ASP
184
n
190
ASP
184
A
ASN
185
n
191
ASN
185
A
PRO
186
n
192
PRO
186
A
ASP
187
n
193
ASP
187
A
ILE
188
n
194
ILE
188
A
THR
189
n
195
THR
189
A
LYS
190
n
196
LYS
190
A
TYR
191
n
197
TYR
191
A
MET
192
n
198
MET
192
A
GLY
193
n
199
GLY
193
A
TYR
194
n
200
TYR
194
A
TYR
195
n
201
TYR
195
A
GLN
196
n
202
GLN
196
A
LEU
197
n
203
LEU
197
A
LYS
198
n
204
LYS
198
A
ILE
199
n
205
ILE
199
A
GLY
200
n
206
GLY
200
A
TYR
201
n
207
TYR
201
A
HIS
202
n
208
HIS
202
A
LEU
203
n
209
LEU
203
A
GLY
204
n
210
GLY
204
A
ASP
205
n
211
ASP
205
A
ALA
206
n
212
ALA
206
A
VAL
207
n
213
VAL
207
A
LEU
208
n
214
LEU
208
A
SER
209
n
215
SER
209
A
ALA
210
n
216
ALA
210
A
LYS
211
n
217
LYS
211
A
GLY
212
n
218
GLY
212
A
GLN
213
n
219
GLN
213
A
TYR
214
n
220
TYR
214
A
ASN
215
n
221
ASN
215
A
TRP
216
n
222
TRP
216
A
ASN
217
n
223
ASN
217
A
THR
218
n
224
THR
218
A
GLY
219
n
225
GLY
219
A
TYR
220
n
226
TYR
220
A
GLY
221
n
227
GLY
221
A
GLY
222
n
228
GLY
222
A
ALA
223
n
229
ALA
223
A
GLU
224
n
230
GLU
224
A
LEU
225
n
231
LEU
225
A
GLY
226
n
232
GLY
226
A
LEU
227
n
233
LEU
227
A
SER
228
n
234
SER
228
A
TYR
229
n
235
TYR
229
A
PRO
230
n
236
PRO
230
A
ILE
231
n
237
ILE
231
A
THR
232
n
238
THR
232
A
LYS
233
n
239
LYS
233
A
HIS
234
n
240
HIS
234
A
VAL
235
n
241
VAL
235
A
ARG
236
n
242
ARG
236
A
LEU
237
n
243
LEU
237
A
TYR
238
n
244
TYR
238
A
THR
239
n
245
THR
239
A
GLN
240
n
246
GLN
240
A
VAL
241
n
247
VAL
241
A
TYR
242
n
248
TYR
242
A
SER
243
n
249
SER
243
A
GLY
244
n
250
GLY
244
A
TYR
245
n
251
TYR
245
A
GLY
246
n
252
GLY
246
A
GLU
247
n
253
GLU
247
A
SER
248
n
254
SER
248
A
LEU
249
n
255
LEU
249
A
ILE
250
n
256
ILE
250
A
ASP
251
n
257
ASP
251
A
TYR
252
n
258
TYR
252
A
ASN
253
n
259
ASN
253
A
PHE
254
n
260
PHE
254
A
ASN
255
n
261
ASN
255
A
GLN
256
n
262
GLN
256
A
THR
257
n
263
THR
257
A
ARG
258
n
264
ARG
258
A
VAL
259
n
265
VAL
259
A
GLY
260
n
266
GLY
260
A
VAL
261
n
267
VAL
261
A
GLY
262
n
268
GLY
262
A
VAL
263
n
269
VAL
263
A
MET
264
n
270
MET
264
A
LEU
265
n
271
LEU
265
A
ASN
266
n
272
ASN
266
A
ASP
267
n
273
ASP
267
A
LEU
268
n
274
LEU
268
A
PHE
269
n
275
PHE
269
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
TYR
33
A
O
TYR
39
A
N
ALA
74
A
N
ALA
80
A
O
TRP
78
A
O
TRP
84
A
N
LEU
88
A
N
LEU
94
A
O
TRP
97
A
O
TRP
103
A
N
ARG
110
A
N
ARG
116
A
N
PHE
128
A
N
PHE
134
A
O
TRP
131
A
O
TRP
137
A
O
ASP
143
A
O
ASP
149
A
N
TRP
155
A
N
TRP
161
A
N
ASN
166
A
N
ASN
172
A
O
TRP
169
A
O
TRP
175
A
N
LYS
174
A
N
LYS
180
A
O
GLN
196
A
O
GLN
202
A
N
LEU
203
A
N
LEU
209
A
O
ALA
206
A
O
ALA
212
A
N
ASN
215
A
N
ASN
221
A
O
TYR
220
A
O
TYR
226
A
O
TYR
229
A
O
TYR
235
A
N
LEU
237
A
N
LEU
243
A
N
GLY
244
A
N
GLY
250
A
O
GLN
256
A
O
GLN
262
A
O
VAL
263
A
O
VAL
269
A
N
LEU
40
A
N
LEU
46
A
N
ILE
41
A
N
ILE
47
A
O
LYS
68
A
O
LYS
74
1
A
C3'
BOG
502
C
C3'
BOG
1
1
N
1
A
C4'
BOG
502
C
C4'
BOG
1
1
N
1
A
C5'
BOG
502
C
C5'
BOG
1
1
N
1
A
C6'
BOG
502
C
C6'
BOG
1
1
N
1
A
C7'
BOG
502
C
C7'
BOG
1
1
N
1
A
C8'
BOG
502
C
C8'
BOG
1
1
N
1
A
C5'
BOG
504
D
C5'
BOG
1
1
N
1
A
C6'
BOG
504
D
C6'
BOG
1
1
N
1
A
C7'
BOG
504
D
C7'
BOG
1
1
N
1
A
C8'
BOG
504
D
C8'
BOG
1
1
N
1
A
C5'
BOG
505
E
C5'
BOG
1
1
N
1
A
C6'
BOG
505
E
C6'
BOG
1
1
N
1
A
C7'
BOG
505
E
C7'
BOG
1
1
N
1
A
C8'
BOG
505
E
C8'
BOG
1
1
N
1
A
ALA
-5
A
ALA
1
1
Y
1
A
ARG
-4
A
ARG
2
1
Y
1
A
ILE
-3
A
ILE
3
1
Y
1
A
ARG
-2
A
ARG
4
1
Y
1
A
ALA
-1
A
ALA
5
1
Y
1
A
PRO
0
A
PRO
6
1
Y
1
A
GLN
1
A
GLN
7
1
Y
1
A
GLU
2
A
GLU
8
1
Y
1
A
ALA
3
A
ALA
9
1
Y
1
A
THR
4
A
THR
10
1
Y
1
A
VAL
5
A
VAL
11
1
Y
1
A
LYS
6
A
LYS
12
1
Y
1
A
GLU
7
A
GLU
13
1
Y
1
A
A
CD1
CD1
LEU
LEU
32
32
2.18
1_555
4_556
1
A
HIS
9
65.48
106.53
1
A
ALA
11
-25.76
117.37
1
A
VAL
14
50.56
105.72
1
A
TYR
35
-114.09
-80.56
1
A
ASN
49
-48.59
92.18
1
A
TRP
78
-175.01
97.31
1
A
LEU
82
-142.99
50.10
1
A
SER
107
35.63
65.97
1
A
GLU
111
-171.73
146.44
1
A
PHE
128
-110.69
56.23
1
A
ASP
149
-38.92
146.58
1
A
THR
182
-143.34
34.42
1
A
LEU
265
-94.06
-80.37
-6.429
-10.776
0
-6.429
0
12.858
BULK SOLVENT CORRECTION APPLIED
bulk solvent:
density level= 0.439543 e/A^3
B-factor= 81.1117 A^2
0.266
0.226
2.98
21
728
7725
7685
99.5
SAME SET AS USED FOR REFINEMENT
OF 1QD5. THAT SET WAS SELECTED
RANDOMLY.
1
ANISOTROPIC
THROUGHOUT
0
MOLECULAR REPLACEMENT
1QD5 WITH ACTIVE SITE RESIDUES
TRUNCATED TO ALA. ALL WATER AND
DETERGENT MOLECULES REMOVED. ALL
ATOMS WERE GIVEN A RANDOM SHIFT
OF ALMOST 0.5 ANGSTROM.
Engh & Huber
0.2
2.98
21
43
2237
66
0
2128
0.007
1.5
25.9
2.98
21
1IM0
106289
0
-3
0.081
0.081
1
24.5
13.7
99.6
0.340
2.98
3.03
7.9
372
0.340
100.0
phasing
AMoRE
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
data scaling
CCP4
(TRUNCATE)
OUTER MEMBRANE PHOSPHOLIPASE A FROM ESCHERICHIA COLI N156A ACTIVE SITE MUTANT PH 8.3
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
4
N
N
A
SER
17
A
SER
23
HELX_P
A
GLN
24
A
GLN
30
1
1
8
A
TRP
58
A
TRP
64
HELX_P
A
ALA
62
A
ALA
68
5
2
5
A
ASN
102
A
ASN
108
HELX_P
A
SER
106
A
SER
112
5
3
5
A
ASP
187
A
ASP
193
HELX_P
A
GLY
193
A
GLY
199
1
4
7
A
SER
248
A
SER
254
HELX_P
A
TYR
252
A
TYR
258
5
5
5
HYDROLASE, MEMBRANE PROTEIN
ANTI-PARALLEL BETA BARREL, MEMBRANE PHOSPHOLIPASE, MEMBRANE PROTEIN, SERINE HYDROLASE, CATALYTIC TRIAD, HYDROLASE
A
ASP
149
A
ASP
155
1
A
PRO
150
A
PRO
156
0.44
PA1_ECOLI
UNP
1
21
P0A921
QEATVKEVHDAPAVRGSIIANMLQEHDNPFTLYPYDTNYLIYTQTSDLNKEAIASYDWAENARKDEVKFQLSLAFPLWRG
ILGPNSVLGASYTQKSWWQLSNSEESSPFRETNYEPQLFLGFATDYRFAGWTLRDVEMGYNHDSNGRSDPTSRSWNRLYT
RLMAENGNWLVEVKPWYVVGNTDDNPDITKYMGYYQLKIGYHLGDAVLSAKGQYNWNTGYGGAELGLSYPITKHVRLYTQ
VYSGYGESLIDYNFNQTRVGVGVMLNDLF
21
289
1IM0
1
269
P0A921
A
1
7
275
1
expression tag
ALA
-5
1IM0
A
P0A921
UNP
1
1
expression tag
ARG
-4
1IM0
A
P0A921
UNP
2
1
expression tag
ILE
-3
1IM0
A
P0A921
UNP
3
1
expression tag
ARG
-2
1IM0
A
P0A921
UNP
4
1
expression tag
ALA
-1
1IM0
A
P0A921
UNP
5
1
expression tag
PRO
0
1IM0
A
P0A921
UNP
6
1
ASN
expression tag
ALA
156
1IM0
A
P0A921
UNP
176
162
14
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
TYR
33
A
TYR
39
A
PRO
34
A
PRO
40
A
VAL
67
A
VAL
73
A
ARG
79
A
ARG
85
A
SER
86
A
SER
92
A
TRP
98
A
TRP
104
A
PHE
109
A
PHE
115
A
PHE
128
A
PHE
134
A
TRP
131
A
TRP
137
A
SER
144
A
SER
150
A
SER
154
A
SER
160
A
ASN
166
A
ASN
172
A
TRP
169
A
TRP
175
A
VAL
179
A
VAL
185
A
TYR
195
A
TYR
201
A
LEU
203
A
LEU
209
A
ALA
206
A
ALA
212
A
ASN
215
A
ASN
221
A
TYR
220
A
TYR
226
A
PRO
230
A
PRO
236
A
ARG
236
A
ARG
242
A
TYR
245
A
TYR
251
A
ASN
255
A
ASN
261
A
MET
264
A
MET
270
A
TYR
39
A
TYR
45
A
THR
45
A
THR
51
A
VAL
67
A
VAL
73
A
ARG
79
A
ARG
85
152
P 31 2 1