0.018442
0.000000
0.000000
0.000000
0.012991
0.000000
0.000000
0.000000
0.007530
0.000000
0.000000
0.000000
Joint Center for Structural Genomics (JCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.000
90.000
90.000
54.223
76.978
132.800
C2 H3 O2 -1
59.044
ACETATE ION
non-polymer
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
C2 H6 O2
62.068
1,2-ETHANEDIOL
ETHYLENE GLYCOL
non-polymer
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 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C4 H10 O3
106.120
DI(HYDROXYETHYL)ETHER
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
To be Published
0353
Crystal structure of Putative glycerophosphoryl diester phosphodiesterase (NP_812074.1) from BACTEROIDES THETAIOTAOMICRON VPI-5482 at 1.35 A resolution
10.2210/pdb3i10/pdb
pdb_00003i10
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
100
1
Flat mirror (vertical focusing)
CCD
2009-03-27
MARMOSAIC 325 mm CCD
Single crystal Si(111) bent monochromator (horizontal focusing)
MAD
M
x-ray
1
0.91837
1.0
0.97993
1.0
0.97920
1.0
BL11-1
SSRL
0.91837,0.97993,0.97920
SYNCHROTRON
SSRL BEAMLINE BL11-1
31807.824
Putative Glycerophosphoryl diester phosphodiesterase
1
man
polymer
59.044
ACETATE ION
2
syn
non-polymer
62.068
1,2-ETHANEDIOL
18
syn
non-polymer
106.120
DI(HYDROXYETHYL)ETHER
1
syn
non-polymer
18.015
water
356
nat
water
no
yes
GHVETIKNTFLNPKSNKVLVVAHRGNWRSAPENSTAAIDSAIA(MSE)KVDIVEIDIQKTKDGQLIL(MSE)HDNTLDRT
TTGKGEIKNWTLADIKKLKLKDKDGKVTNYVVPTLEEALLTAKGKI(MSE)VNLDKAYDIFDDVYAILEKTETQNQVI
(MSE)KGGQPIETVKREFGSYLDKVLY(MSE)PVIDLGNKEAEKIITDYLKELRPAAFEIIYSDPKNPLPPKIKQLLFKK
SLIWYNTLWGSLAGNHDDNLALTDPEKSYGYLIEQLGARILQTDQPAYLLDYLRKKGWHN
GHVETIKNTFLNPKSNKVLVVAHRGNWRSAPENSTAAIDSAIAMKVDIVEIDIQKTKDGQLILMHDNTLDRTTTGKGEIK
NWTLADIKKLKLKDKDGKVTNYVVPTLEEALLTAKGKIMVNLDKAYDIFDDVYAILEKTETQNQVIMKGGQPIETVKREF
GSYLDKVLYMPVIDLGNKEAEKIITDYLKELRPAAFEIIYSDPKNPLPPKIKQLLFKKSLIWYNTLWGSLAGNHDDNLAL
TDPEKSYGYLIEQLGARILQTDQPAYLLDYLRKKGWHN
A
396197
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
BT_3162, NP_812074.1
226186
Bacteroides thetaiotaomicron VPI-5482
562
Escherichia Coli
HK100
Plasmid
SpeedET
1
2.18
43.53
VAPOR DIFFUSION, SITTING DROP
6.5
0.2000M NaOAc, 30.0000% PEG-8000, 0.1M Cacodylate pH 6.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
277
Joint Center for Structural Genomics
JCSG
PSI, Protein Structure Initiative
software
software
struct_conn
database_2
struct_ref_seq_dif
struct_site
repository
Initial release
Advisory
Version format compliance
Refinement description
Data collection
Derived calculations
Refinement description
Database references
Derived calculations
1
0
2009-07-21
1
1
2011-07-13
1
2
2017-11-01
1
3
2019-07-24
1
4
2023-02-01
_software.classification
_software.name
_software.classification
_software.contact_author
_software.contact_author_email
_software.language
_software.location
_software.name
_software.type
_software.version
_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
Y
RCSB
Y
RCSB
2009-06-25
REL
REL
ACT
ACETATE ION
EDO
1,2-ETHANEDIOL
PEG
DI(HYDROXYETHYL)ETHER
HOH
water
SEQUENCE THIS CONSTRUCT (RESIDUES 25-301) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE.
ACT
1
2
ACT
ACT
1
A
ACT
2
2
ACT
ACT
2
A
EDO
3
3
EDO
EDO
3
A
EDO
4
3
EDO
EDO
4
A
EDO
5
3
EDO
EDO
5
A
EDO
6
3
EDO
EDO
6
A
EDO
7
3
EDO
EDO
7
A
EDO
8
3
EDO
EDO
8
A
EDO
9
3
EDO
EDO
9
A
EDO
10
3
EDO
EDO
10
A
EDO
11
3
EDO
EDO
11
A
EDO
12
3
EDO
EDO
12
A
EDO
13
3
EDO
EDO
13
A
EDO
14
3
EDO
EDO
14
A
EDO
15
3
EDO
EDO
15
A
EDO
16
3
EDO
EDO
16
A
EDO
17
3
EDO
EDO
17
A
EDO
18
3
EDO
EDO
18
A
EDO
19
3
EDO
EDO
19
A
EDO
20
3
EDO
EDO
20
A
PEG
21
4
PEG
PEG
21
A
HOH
22
5
HOH
HOH
22
A
HOH
23
5
HOH
HOH
23
A
HOH
24
5
HOH
HOH
24
A
HOH
302
5
HOH
HOH
302
A
HOH
303
5
HOH
HOH
303
A
HOH
304
5
HOH
HOH
304
A
HOH
305
5
HOH
HOH
305
A
HOH
306
5
HOH
HOH
306
A
HOH
307
5
HOH
HOH
307
A
HOH
308
5
HOH
HOH
308
A
HOH
309
5
HOH
HOH
309
A
HOH
310
5
HOH
HOH
310
A
HOH
311
5
HOH
HOH
311
A
HOH
312
5
HOH
HOH
312
A
HOH
313
5
HOH
HOH
313
A
HOH
314
5
HOH
HOH
314
A
HOH
315
5
HOH
HOH
315
A
HOH
316
5
HOH
HOH
316
A
HOH
317
5
HOH
HOH
317
A
HOH
318
5
HOH
HOH
318
A
HOH
319
5
HOH
HOH
319
A
HOH
320
5
HOH
HOH
320
A
HOH
321
5
HOH
HOH
321
A
HOH
322
5
HOH
HOH
322
A
HOH
323
5
HOH
HOH
323
A
HOH
324
5
HOH
HOH
324
A
HOH
325
5
HOH
HOH
325
A
HOH
326
5
HOH
HOH
326
A
HOH
327
5
HOH
HOH
327
A
HOH
328
5
HOH
HOH
328
A
HOH
329
5
HOH
HOH
329
A
HOH
330
5
HOH
HOH
330
A
HOH
331
5
HOH
HOH
331
A
HOH
332
5
HOH
HOH
332
A
HOH
333
5
HOH
HOH
333
A
HOH
334
5
HOH
HOH
334
A
HOH
335
5
HOH
HOH
335
A
HOH
336
5
HOH
HOH
336
A
HOH
337
5
HOH
HOH
337
A
HOH
338
5
HOH
HOH
338
A
HOH
339
5
HOH
HOH
339
A
HOH
340
5
HOH
HOH
340
A
HOH
341
5
HOH
HOH
341
A
HOH
342
5
HOH
HOH
342
A
HOH
343
5
HOH
HOH
343
A
HOH
344
5
HOH
HOH
344
A
HOH
345
5
HOH
HOH
345
A
HOH
346
5
HOH
HOH
346
A
HOH
347
5
HOH
HOH
347
A
HOH
348
5
HOH
HOH
348
A
HOH
349
5
HOH
HOH
349
A
HOH
350
5
HOH
HOH
350
A
HOH
351
5
HOH
HOH
351
A
HOH
352
5
HOH
HOH
352
A
HOH
353
5
HOH
HOH
353
A
HOH
354
5
HOH
HOH
354
A
HOH
355
5
HOH
HOH
355
A
HOH
356
5
HOH
HOH
356
A
HOH
357
5
HOH
HOH
357
A
HOH
358
5
HOH
HOH
358
A
HOH
359
5
HOH
HOH
359
A
HOH
360
5
HOH
HOH
360
A
HOH
361
5
HOH
HOH
361
A
HOH
362
5
HOH
HOH
362
A
HOH
363
5
HOH
HOH
363
A
HOH
364
5
HOH
HOH
364
A
HOH
365
5
HOH
HOH
365
A
HOH
366
5
HOH
HOH
366
A
HOH
367
5
HOH
HOH
367
A
HOH
368
5
HOH
HOH
368
A
HOH
369
5
HOH
HOH
369
A
HOH
370
5
HOH
HOH
370
A
HOH
371
5
HOH
HOH
371
A
HOH
372
5
HOH
HOH
372
A
HOH
373
5
HOH
HOH
373
A
HOH
374
5
HOH
HOH
374
A
HOH
375
5
HOH
HOH
375
A
HOH
376
5
HOH
HOH
376
A
HOH
377
5
HOH
HOH
377
A
HOH
25
5
HOH
HOH
378
A
HOH
26
5
HOH
HOH
379
A
HOH
27
5
HOH
HOH
380
A
HOH
28
5
HOH
HOH
381
A
HOH
29
5
HOH
HOH
382
A
HOH
30
5
HOH
HOH
383
A
HOH
31
5
HOH
HOH
384
A
HOH
32
5
HOH
HOH
385
A
HOH
33
5
HOH
HOH
386
A
HOH
34
5
HOH
HOH
387
A
HOH
35
5
HOH
HOH
388
A
HOH
36
5
HOH
HOH
389
A
HOH
37
5
HOH
HOH
390
A
HOH
38
5
HOH
HOH
391
A
HOH
39
5
HOH
HOH
392
A
HOH
40
5
HOH
HOH
393
A
HOH
41
5
HOH
HOH
394
A
HOH
42
5
HOH
HOH
395
A
HOH
43
5
HOH
HOH
396
A
HOH
44
5
HOH
HOH
397
A
HOH
45
5
HOH
HOH
398
A
HOH
46
5
HOH
HOH
399
A
HOH
47
5
HOH
HOH
400
A
HOH
48
5
HOH
HOH
401
A
HOH
49
5
HOH
HOH
402
A
HOH
50
5
HOH
HOH
403
A
HOH
51
5
HOH
HOH
404
A
HOH
52
5
HOH
HOH
405
A
HOH
53
5
HOH
HOH
406
A
HOH
54
5
HOH
HOH
407
A
HOH
55
5
HOH
HOH
408
A
HOH
56
5
HOH
HOH
409
A
HOH
57
5
HOH
HOH
410
A
HOH
58
5
HOH
HOH
411
A
HOH
59
5
HOH
HOH
412
A
HOH
60
5
HOH
HOH
413
A
HOH
61
5
HOH
HOH
414
A
HOH
62
5
HOH
HOH
415
A
HOH
63
5
HOH
HOH
416
A
HOH
64
5
HOH
HOH
417
A
HOH
65
5
HOH
HOH
418
A
HOH
66
5
HOH
HOH
419
A
HOH
67
5
HOH
HOH
420
A
HOH
68
5
HOH
HOH
421
A
HOH
69
5
HOH
HOH
422
A
HOH
70
5
HOH
HOH
423
A
HOH
71
5
HOH
HOH
424
A
HOH
72
5
HOH
HOH
425
A
HOH
73
5
HOH
HOH
426
A
HOH
74
5
HOH
HOH
427
A
HOH
75
5
HOH
HOH
428
A
HOH
76
5
HOH
HOH
429
A
HOH
77
5
HOH
HOH
430
A
HOH
78
5
HOH
HOH
431
A
HOH
79
5
HOH
HOH
432
A
HOH
80
5
HOH
HOH
433
A
HOH
81
5
HOH
HOH
434
A
HOH
82
5
HOH
HOH
435
A
HOH
83
5
HOH
HOH
436
A
HOH
84
5
HOH
HOH
437
A
HOH
85
5
HOH
HOH
438
A
HOH
86
5
HOH
HOH
439
A
HOH
87
5
HOH
HOH
440
A
HOH
88
5
HOH
HOH
441
A
HOH
89
5
HOH
HOH
442
A
HOH
90
5
HOH
HOH
443
A
HOH
91
5
HOH
HOH
444
A
HOH
92
5
HOH
HOH
445
A
HOH
93
5
HOH
HOH
446
A
HOH
94
5
HOH
HOH
447
A
HOH
95
5
HOH
HOH
448
A
HOH
96
5
HOH
HOH
449
A
HOH
97
5
HOH
HOH
450
A
HOH
98
5
HOH
HOH
451
A
HOH
99
5
HOH
HOH
452
A
HOH
100
5
HOH
HOH
453
A
HOH
101
5
HOH
HOH
454
A
HOH
102
5
HOH
HOH
455
A
HOH
103
5
HOH
HOH
456
A
HOH
104
5
HOH
HOH
457
A
HOH
105
5
HOH
HOH
458
A
HOH
106
5
HOH
HOH
459
A
HOH
107
5
HOH
HOH
460
A
HOH
108
5
HOH
HOH
461
A
HOH
109
5
HOH
HOH
462
A
HOH
110
5
HOH
HOH
463
A
HOH
111
5
HOH
HOH
464
A
HOH
112
5
HOH
HOH
465
A
HOH
113
5
HOH
HOH
466
A
HOH
114
5
HOH
HOH
467
A
HOH
115
5
HOH
HOH
468
A
HOH
116
5
HOH
HOH
469
A
HOH
117
5
HOH
HOH
470
A
HOH
118
5
HOH
HOH
471
A
HOH
119
5
HOH
HOH
472
A
HOH
120
5
HOH
HOH
473
A
HOH
121
5
HOH
HOH
474
A
HOH
122
5
HOH
HOH
475
A
HOH
123
5
HOH
HOH
476
A
HOH
124
5
HOH
HOH
477
A
HOH
125
5
HOH
HOH
478
A
HOH
126
5
HOH
HOH
479
A
HOH
127
5
HOH
HOH
480
A
HOH
128
5
HOH
HOH
481
A
HOH
129
5
HOH
HOH
482
A
HOH
130
5
HOH
HOH
483
A
HOH
131
5
HOH
HOH
484
A
HOH
132
5
HOH
HOH
485
A
HOH
133
5
HOH
HOH
486
A
HOH
134
5
HOH
HOH
487
A
HOH
135
5
HOH
HOH
488
A
HOH
136
5
HOH
HOH
489
A
HOH
137
5
HOH
HOH
490
A
HOH
138
5
HOH
HOH
491
A
HOH
139
5
HOH
HOH
492
A
HOH
140
5
HOH
HOH
493
A
HOH
141
5
HOH
HOH
494
A
HOH
142
5
HOH
HOH
495
A
HOH
143
5
HOH
HOH
496
A
HOH
144
5
HOH
HOH
497
A
HOH
145
5
HOH
HOH
498
A
HOH
146
5
HOH
HOH
499
A
HOH
147
5
HOH
HOH
500
A
HOH
148
5
HOH
HOH
501
A
HOH
149
5
HOH
HOH
502
A
HOH
150
5
HOH
HOH
503
A
HOH
151
5
HOH
HOH
504
A
HOH
152
5
HOH
HOH
505
A
HOH
153
5
HOH
HOH
506
A
HOH
154
5
HOH
HOH
507
A
HOH
155
5
HOH
HOH
508
A
HOH
156
5
HOH
HOH
509
A
HOH
157
5
HOH
HOH
510
A
HOH
158
5
HOH
HOH
511
A
HOH
159
5
HOH
HOH
512
A
HOH
160
5
HOH
HOH
513
A
HOH
161
5
HOH
HOH
514
A
HOH
162
5
HOH
HOH
515
A
HOH
163
5
HOH
HOH
516
A
HOH
164
5
HOH
HOH
517
A
HOH
165
5
HOH
HOH
518
A
HOH
166
5
HOH
HOH
519
A
HOH
167
5
HOH
HOH
520
A
HOH
168
5
HOH
HOH
521
A
HOH
169
5
HOH
HOH
522
A
HOH
170
5
HOH
HOH
523
A
HOH
171
5
HOH
HOH
524
A
HOH
172
5
HOH
HOH
525
A
HOH
173
5
HOH
HOH
526
A
HOH
174
5
HOH
HOH
527
A
HOH
175
5
HOH
HOH
528
A
HOH
176
5
HOH
HOH
529
A
HOH
177
5
HOH
HOH
530
A
HOH
178
5
HOH
HOH
531
A
HOH
179
5
HOH
HOH
532
A
HOH
180
5
HOH
HOH
533
A
HOH
181
5
HOH
HOH
534
A
HOH
182
5
HOH
HOH
535
A
HOH
183
5
HOH
HOH
536
A
HOH
184
5
HOH
HOH
537
A
HOH
185
5
HOH
HOH
538
A
HOH
186
5
HOH
HOH
539
A
HOH
187
5
HOH
HOH
540
A
HOH
188
5
HOH
HOH
541
A
HOH
189
5
HOH
HOH
542
A
HOH
190
5
HOH
HOH
543
A
HOH
191
5
HOH
HOH
544
A
HOH
192
5
HOH
HOH
545
A
HOH
193
5
HOH
HOH
546
A
HOH
194
5
HOH
HOH
547
A
HOH
195
5
HOH
HOH
548
A
HOH
196
5
HOH
HOH
549
A
HOH
197
5
HOH
HOH
550
A
HOH
198
5
HOH
HOH
551
A
HOH
199
5
HOH
HOH
552
A
HOH
200
5
HOH
HOH
553
A
HOH
201
5
HOH
HOH
554
A
HOH
202
5
HOH
HOH
555
A
HOH
203
5
HOH
HOH
556
A
HOH
204
5
HOH
HOH
557
A
HOH
205
5
HOH
HOH
558
A
HOH
206
5
HOH
HOH
559
A
HOH
207
5
HOH
HOH
560
A
HOH
208
5
HOH
HOH
561
A
HOH
209
5
HOH
HOH
562
A
HOH
210
5
HOH
HOH
563
A
HOH
211
5
HOH
HOH
564
A
HOH
212
5
HOH
HOH
565
A
HOH
213
5
HOH
HOH
566
A
HOH
214
5
HOH
HOH
567
A
HOH
215
5
HOH
HOH
568
A
HOH
216
5
HOH
HOH
569
A
HOH
217
5
HOH
HOH
570
A
HOH
218
5
HOH
HOH
571
A
HOH
219
5
HOH
HOH
572
A
HOH
220
5
HOH
HOH
573
A
HOH
221
5
HOH
HOH
574
A
HOH
222
5
HOH
HOH
575
A
HOH
223
5
HOH
HOH
576
A
HOH
224
5
HOH
HOH
577
A
HOH
225
5
HOH
HOH
578
A
HOH
226
5
HOH
HOH
579
A
HOH
227
5
HOH
HOH
580
A
HOH
228
5
HOH
HOH
581
A
HOH
229
5
HOH
HOH
582
A
HOH
230
5
HOH
HOH
583
A
HOH
231
5
HOH
HOH
584
A
HOH
232
5
HOH
HOH
585
A
HOH
233
5
HOH
HOH
586
A
HOH
234
5
HOH
HOH
587
A
HOH
235
5
HOH
HOH
588
A
HOH
236
5
HOH
HOH
589
A
HOH
237
5
HOH
HOH
590
A
HOH
238
5
HOH
HOH
591
A
HOH
239
5
HOH
HOH
592
A
HOH
240
5
HOH
HOH
593
A
HOH
241
5
HOH
HOH
594
A
HOH
242
5
HOH
HOH
595
A
HOH
243
5
HOH
HOH
596
A
HOH
244
5
HOH
HOH
597
A
HOH
245
5
HOH
HOH
598
A
HOH
246
5
HOH
HOH
599
A
HOH
247
5
HOH
HOH
600
A
HOH
248
5
HOH
HOH
601
A
HOH
249
5
HOH
HOH
602
A
HOH
250
5
HOH
HOH
603
A
HOH
251
5
HOH
HOH
604
A
HOH
252
5
HOH
HOH
605
A
HOH
253
5
HOH
HOH
606
A
HOH
254
5
HOH
HOH
607
A
HOH
255
5
HOH
HOH
608
A
HOH
256
5
HOH
HOH
609
A
HOH
257
5
HOH
HOH
610
A
HOH
258
5
HOH
HOH
611
A
HOH
259
5
HOH
HOH
612
A
HOH
260
5
HOH
HOH
613
A
HOH
261
5
HOH
HOH
614
A
HOH
262
5
HOH
HOH
615
A
HOH
263
5
HOH
HOH
616
A
HOH
264
5
HOH
HOH
617
A
HOH
265
5
HOH
HOH
618
A
HOH
266
5
HOH
HOH
619
A
HOH
267
5
HOH
HOH
620
A
HOH
268
5
HOH
HOH
621
A
HOH
269
5
HOH
HOH
622
A
HOH
270
5
HOH
HOH
623
A
HOH
271
5
HOH
HOH
624
A
HOH
272
5
HOH
HOH
625
A
HOH
273
5
HOH
HOH
626
A
HOH
274
5
HOH
HOH
627
A
HOH
275
5
HOH
HOH
628
A
HOH
276
5
HOH
HOH
629
A
HOH
277
5
HOH
HOH
630
A
HOH
278
5
HOH
HOH
631
A
HOH
279
5
HOH
HOH
632
A
HOH
280
5
HOH
HOH
633
A
HOH
281
5
HOH
HOH
634
A
HOH
282
5
HOH
HOH
635
A
HOH
283
5
HOH
HOH
636
A
HOH
284
5
HOH
HOH
637
A
HOH
285
5
HOH
HOH
638
A
HOH
286
5
HOH
HOH
639
A
HOH
287
5
HOH
HOH
640
A
HOH
288
5
HOH
HOH
641
A
HOH
289
5
HOH
HOH
642
A
HOH
290
5
HOH
HOH
643
A
HOH
291
5
HOH
HOH
644
A
HOH
292
5
HOH
HOH
645
A
HOH
293
5
HOH
HOH
646
A
HOH
294
5
HOH
HOH
647
A
HOH
295
5
HOH
HOH
648
A
HOH
296
5
HOH
HOH
649
A
HOH
297
5
HOH
HOH
650
A
HOH
298
5
HOH
HOH
651
A
HOH
299
5
HOH
HOH
652
A
HOH
300
5
HOH
HOH
653
A
HOH
301
5
HOH
HOH
654
A
GLY
0
n
1
GLY
0
A
HIS
25
n
2
HIS
25
A
VAL
26
n
3
VAL
26
A
GLU
27
n
4
GLU
27
A
THR
28
n
5
THR
28
A
ILE
29
n
6
ILE
29
A
LYS
30
n
7
LYS
30
A
ASN
31
n
8
ASN
31
A
THR
32
n
9
THR
32
A
PHE
33
n
10
PHE
33
A
LEU
34
n
11
LEU
34
A
ASN
35
n
12
ASN
35
A
PRO
36
n
13
PRO
36
A
LYS
37
n
14
LYS
37
A
SER
38
n
15
SER
38
A
ASN
39
n
16
ASN
39
A
LYS
40
n
17
LYS
40
A
VAL
41
n
18
VAL
41
A
LEU
42
n
19
LEU
42
A
VAL
43
n
20
VAL
43
A
VAL
44
n
21
VAL
44
A
ALA
45
n
22
ALA
45
A
HIS
46
n
23
HIS
46
A
ARG
47
n
24
ARG
47
A
GLY
48
n
25
GLY
48
A
ASN
49
n
26
ASN
49
A
TRP
50
n
27
TRP
50
A
ARG
51
n
28
ARG
51
A
SER
52
n
29
SER
52
A
ALA
53
n
30
ALA
53
A
PRO
54
n
31
PRO
54
A
GLU
55
n
32
GLU
55
A
ASN
56
n
33
ASN
56
A
SER
57
n
34
SER
57
A
THR
58
n
35
THR
58
A
ALA
59
n
36
ALA
59
A
ALA
60
n
37
ALA
60
A
ILE
61
n
38
ILE
61
A
ASP
62
n
39
ASP
62
A
SER
63
n
40
SER
63
A
ALA
64
n
41
ALA
64
A
ILE
65
n
42
ILE
65
A
ALA
66
n
43
ALA
66
A
MSE
67
n
44
MSE
67
A
LYS
68
n
45
LYS
68
A
VAL
69
n
46
VAL
69
A
ASP
70
n
47
ASP
70
A
ILE
71
n
48
ILE
71
A
VAL
72
n
49
VAL
72
A
GLU
73
n
50
GLU
73
A
ILE
74
n
51
ILE
74
A
ASP
75
n
52
ASP
75
A
ILE
76
n
53
ILE
76
A
GLN
77
n
54
GLN
77
A
LYS
78
n
55
LYS
78
A
THR
79
n
56
THR
79
A
LYS
80
n
57
LYS
80
A
ASP
81
n
58
ASP
81
A
GLY
82
n
59
GLY
82
A
GLN
83
n
60
GLN
83
A
LEU
84
n
61
LEU
84
A
ILE
85
n
62
ILE
85
A
LEU
86
n
63
LEU
86
A
MSE
87
n
64
MSE
87
A
HIS
88
n
65
HIS
88
A
ASP
89
n
66
ASP
89
A
ASN
90
n
67
ASN
90
A
THR
91
n
68
THR
91
A
LEU
92
n
69
LEU
92
A
ASP
93
n
70
ASP
93
A
ARG
94
n
71
ARG
94
A
THR
95
n
72
THR
95
A
THR
96
n
73
THR
96
A
THR
97
n
74
THR
97
A
GLY
98
n
75
GLY
98
A
LYS
99
n
76
LYS
99
A
GLY
100
n
77
GLY
100
A
GLU
101
n
78
GLU
101
A
ILE
102
n
79
ILE
102
A
LYS
103
n
80
LYS
103
A
ASN
104
n
81
ASN
104
A
TRP
105
n
82
TRP
105
A
THR
106
n
83
THR
106
A
LEU
107
n
84
LEU
107
A
ALA
108
n
85
ALA
108
A
ASP
109
n
86
ASP
109
A
ILE
110
n
87
ILE
110
A
LYS
111
n
88
LYS
111
A
LYS
112
n
89
LYS
112
A
LEU
113
n
90
LEU
113
A
LYS
114
n
91
LYS
114
A
LEU
115
n
92
LEU
115
A
LYS
116
n
93
LYS
116
A
ASP
117
n
94
ASP
117
A
LYS
118
n
95
LYS
118
A
ASP
119
n
96
ASP
119
A
GLY
120
n
97
GLY
120
A
LYS
121
n
98
LYS
121
A
VAL
122
n
99
VAL
122
A
THR
123
n
100
THR
123
A
ASN
124
n
101
ASN
124
A
TYR
125
n
102
TYR
125
A
VAL
126
n
103
VAL
126
A
VAL
127
n
104
VAL
127
A
PRO
128
n
105
PRO
128
A
THR
129
n
106
THR
129
A
LEU
130
n
107
LEU
130
A
GLU
131
n
108
GLU
131
A
GLU
132
n
109
GLU
132
A
ALA
133
n
110
ALA
133
A
LEU
134
n
111
LEU
134
A
LEU
135
n
112
LEU
135
A
THR
136
n
113
THR
136
A
ALA
137
n
114
ALA
137
A
LYS
138
n
115
LYS
138
A
GLY
139
n
116
GLY
139
A
LYS
140
n
117
LYS
140
A
ILE
141
n
118
ILE
141
A
MSE
142
n
119
MSE
142
A
VAL
143
n
120
VAL
143
A
ASN
144
n
121
ASN
144
A
LEU
145
n
122
LEU
145
A
ASP
146
n
123
ASP
146
A
LYS
147
n
124
LYS
147
A
ALA
148
n
125
ALA
148
A
TYR
149
n
126
TYR
149
A
ASP
150
n
127
ASP
150
A
ILE
151
n
128
ILE
151
A
PHE
152
n
129
PHE
152
A
ASP
153
n
130
ASP
153
A
ASP
154
n
131
ASP
154
A
VAL
155
n
132
VAL
155
A
TYR
156
n
133
TYR
156
A
ALA
157
n
134
ALA
157
A
ILE
158
n
135
ILE
158
A
LEU
159
n
136
LEU
159
A
GLU
160
n
137
GLU
160
A
LYS
161
n
138
LYS
161
A
THR
162
n
139
THR
162
A
GLU
163
n
140
GLU
163
A
THR
164
n
141
THR
164
A
GLN
165
n
142
GLN
165
A
ASN
166
n
143
ASN
166
A
GLN
167
n
144
GLN
167
A
VAL
168
n
145
VAL
168
A
ILE
169
n
146
ILE
169
A
MSE
170
n
147
MSE
170
A
LYS
171
n
148
LYS
171
A
GLY
172
n
149
GLY
172
A
GLY
173
n
150
GLY
173
A
GLN
174
n
151
GLN
174
A
PRO
175
n
152
PRO
175
A
ILE
176
n
153
ILE
176
A
GLU
177
n
154
GLU
177
A
THR
178
n
155
THR
178
A
VAL
179
n
156
VAL
179
A
LYS
180
n
157
LYS
180
A
ARG
181
n
158
ARG
181
A
GLU
182
n
159
GLU
182
A
PHE
183
n
160
PHE
183
A
GLY
184
n
161
GLY
184
A
SER
185
n
162
SER
185
A
TYR
186
n
163
TYR
186
A
LEU
187
n
164
LEU
187
A
ASP
188
n
165
ASP
188
A
LYS
189
n
166
LYS
189
A
VAL
190
n
167
VAL
190
A
LEU
191
n
168
LEU
191
A
TYR
192
n
169
TYR
192
A
MSE
193
n
170
MSE
193
A
PRO
194
n
171
PRO
194
A
VAL
195
n
172
VAL
195
A
ILE
196
n
173
ILE
196
A
ASP
197
n
174
ASP
197
A
LEU
198
n
175
LEU
198
A
GLY
199
n
176
GLY
199
A
ASN
200
n
177
ASN
200
A
LYS
201
n
178
LYS
201
A
GLU
202
n
179
GLU
202
A
ALA
203
n
180
ALA
203
A
GLU
204
n
181
GLU
204
A
LYS
205
n
182
LYS
205
A
ILE
206
n
183
ILE
206
A
ILE
207
n
184
ILE
207
A
THR
208
n
185
THR
208
A
ASP
209
n
186
ASP
209
A
TYR
210
n
187
TYR
210
A
LEU
211
n
188
LEU
211
A
LYS
212
n
189
LYS
212
A
GLU
213
n
190
GLU
213
A
LEU
214
n
191
LEU
214
A
ARG
215
n
192
ARG
215
A
PRO
216
n
193
PRO
216
A
ALA
217
n
194
ALA
217
A
ALA
218
n
195
ALA
218
A
PHE
219
n
196
PHE
219
A
GLU
220
n
197
GLU
220
A
ILE
221
n
198
ILE
221
A
ILE
222
n
199
ILE
222
A
TYR
223
n
200
TYR
223
A
SER
224
n
201
SER
224
A
ASP
225
n
202
ASP
225
A
PRO
226
n
203
PRO
226
A
LYS
227
n
204
LYS
227
A
ASN
228
n
205
ASN
228
A
PRO
229
n
206
PRO
229
A
LEU
230
n
207
LEU
230
A
PRO
231
n
208
PRO
231
A
PRO
232
n
209
PRO
232
A
LYS
233
n
210
LYS
233
A
ILE
234
n
211
ILE
234
A
LYS
235
n
212
LYS
235
A
GLN
236
n
213
GLN
236
A
LEU
237
n
214
LEU
237
A
LEU
238
n
215
LEU
238
A
PHE
239
n
216
PHE
239
A
LYS
240
n
217
LYS
240
A
LYS
241
n
218
LYS
241
A
SER
242
n
219
SER
242
A
LEU
243
n
220
LEU
243
A
ILE
244
n
221
ILE
244
A
TRP
245
n
222
TRP
245
A
TYR
246
n
223
TYR
246
A
ASN
247
n
224
ASN
247
A
THR
248
n
225
THR
248
A
LEU
249
n
226
LEU
249
A
TRP
250
n
227
TRP
250
A
GLY
251
n
228
GLY
251
A
SER
252
n
229
SER
252
A
LEU
253
n
230
LEU
253
A
ALA
254
n
231
ALA
254
A
GLY
255
n
232
GLY
255
A
ASN
256
n
233
ASN
256
A
HIS
257
n
234
HIS
257
A
ASP
258
n
235
ASP
258
A
ASP
259
n
236
ASP
259
A
ASN
260
n
237
ASN
260
A
LEU
261
n
238
LEU
261
A
ALA
262
n
239
ALA
262
A
LEU
263
n
240
LEU
263
A
THR
264
n
241
THR
264
A
ASP
265
n
242
ASP
265
A
PRO
266
n
243
PRO
266
A
GLU
267
n
244
GLU
267
A
LYS
268
n
245
LYS
268
A
SER
269
n
246
SER
269
A
TYR
270
n
247
TYR
270
A
GLY
271
n
248
GLY
271
A
TYR
272
n
249
TYR
272
A
LEU
273
n
250
LEU
273
A
ILE
274
n
251
ILE
274
A
GLU
275
n
252
GLU
275
A
GLN
276
n
253
GLN
276
A
LEU
277
n
254
LEU
277
A
GLY
278
n
255
GLY
278
A
ALA
279
n
256
ALA
279
A
ARG
280
n
257
ARG
280
A
ILE
281
n
258
ILE
281
A
LEU
282
n
259
LEU
282
A
GLN
283
n
260
GLN
283
A
THR
284
n
261
THR
284
A
ASP
285
n
262
ASP
285
A
GLN
286
n
263
GLN
286
A
PRO
287
n
264
PRO
287
A
ALA
288
n
265
ALA
288
A
TYR
289
n
266
TYR
289
A
LEU
290
n
267
LEU
290
A
LEU
291
n
268
LEU
291
A
ASP
292
n
269
ASP
292
A
TYR
293
n
270
TYR
293
A
LEU
294
n
271
LEU
294
A
ARG
295
n
272
ARG
295
A
LYS
296
n
273
LYS
296
A
LYS
297
n
274
LYS
297
A
GLY
298
n
275
GLY
298
A
TRP
299
n
276
TRP
299
A
HIS
300
n
277
HIS
300
A
ASN
301
n
278
ASN
301
A
0.3700
0.1386
0.2192
0.3634
0.1772
0.7100
0.0024
-0.0053
0.0111
0.0107
-0.0123
0.0321
0.0368
-0.0480
0.0098
0.0233
-0.0037
-0.0026
0.0184
-0.0027
0.0068
refined
3.4030
16.0180
11.1080
X-RAY DIFFRACTION
0.9101
-0.0711
-0.1399
1.0082
0.1808
0.4214
0.0310
-0.0092
0.0735
0.0341
-0.0125
0.0690
-0.0584
0.0396
-0.0185
0.0320
-0.0077
0.0012
0.0267
0.0013
0.0163
refined
11.1900
32.1640
21.0390
X-RAY DIFFRACTION
A
0
A
169
X-RAY DIFFRACTION
1
A
170
A
301
X-RAY DIFFRACTION
2
author_and_software_defined_assembly
PISA
1
monomeric
A
MSE
67
SELENOMETHIONINE
A
MSE
44
MET
A
MSE
87
SELENOMETHIONINE
A
MSE
64
MET
A
MSE
142
SELENOMETHIONINE
A
MSE
119
MET
A
MSE
170
SELENOMETHIONINE
A
MSE
147
MET
A
MSE
193
SELENOMETHIONINE
A
MSE
170
MET
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
ILE
85
A
O
ILE
62
A
N
GLN
77
A
N
GLN
54
A
N
VAL
72
A
N
VAL
49
A
O
ASN
144
A
O
ASN
121
A
N
VAL
143
A
N
VAL
120
A
O
ILE
169
A
O
ILE
146
A
N
MSE
170
A
N
MSE
147
A
O
LEU
191
A
O
LEU
168
A
N
PRO
194
A
N
PRO
171
A
O
GLU
220
A
O
GLU
197
A
N
PHE
219
A
N
PHE
196
A
O
TRP
245
A
O
TRP
222
A
N
ILE
244
A
N
ILE
221
A
O
ARG
280
A
O
ARG
257
A
O
LEU
282
A
O
LEU
259
A
N
VAL
44
A
N
VAL
21
A
N
ALA
45
A
N
ALA
22
A
O
ILE
71
A
O
ILE
48
1
A
CE
LYS
68
A
CE
LYS
45
1
Y
1
A
NZ
LYS
68
A
NZ
LYS
45
1
Y
1
A
CG
LYS
201
A
CG
LYS
178
1
Y
1
A
CD
LYS
201
A
CD
LYS
178
1
Y
1
A
CE
LYS
201
A
CE
LYS
178
1
Y
1
A
NZ
LYS
201
A
NZ
LYS
178
1
Y
1
A
A
NZ
O
LYS
HOH
116
516
2.17
B
1
5.49
0.90
118.30
123.79
A
A
A
CB
CG
OD1
ASP
ASP
ASP
265
265
265
N
1
A
MSE
87
-174.40
130.74
1
A
MSE
87
-175.15
131.94
1
A
PHE
183
-140.73
33.52
1
A
ALA
254
-149.65
50.35
1
A
SER
269
-108.98
-75.30
50.06
10.685
2.00
-0.090
0.000
0.000
0.170
0.000
-0.080
0.972
0.962
1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. ACETATE (ACT), ETHYLENE GLYCOL (EDO), AND POLYETHYLENE GLYCOL (PEG) FROM THE CRYSTALLIZATION/CRYOPROTECTANT SOLUTIONS HAVE BEEN MODELED INTO THE SOLVENT STRUCTURE. 5. TLS GROUPS WERE ASSIGNED WITH THE AID OF THE TLSMD SERVER.
0.172
0.150
0.151
1.350
29.050
3109
61269
5.100
99.960
1.00
0.15
1.738
0.032
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
0.00
MAD
0.051
0.053
0.800
0.800
1.400
MAXIMUM LIKELIHOOD WITH PHASES
MASK
1.350
29.050
356
2661
87
0
2218
0.017
0.022
2565
0.003
0.020
1813
1.710
1.994
3488
1.199
3.000
4516
4.476
5.000
346
34.468
26.250
112
10.233
15.000
503
18.009
15.000
7
0.098
0.200
398
0.008
0.021
2797
0.002
0.020
445
0.809
1.500
1509
0.236
1.500
598
1.386
2.000
2492
2.287
3.000
1056
3.598
4.500
961
0.262
0.264
1.385
242
4253
4495
20
99.800
10.639
1.35
29.050
3I10
61313
0.085
0.085
1
9.7
3.600
100.000
0.590
1.35
1.39
1.9
14135
4503
0.590
1
3.10
100.00
0.525
1.39
1.42
2.3
15862
4379
0.525
1
3.60
100.00
0.438
1.42
1.46
2.8
15316
4212
0.438
1
3.60
100.00
0.359
1.46
1.51
3.4
15137
4151
0.359
1
3.60
100.00
0.290
1.51
1.56
4.3
14626
4001
0.290
1
3.70
100.00
0.253
1.56
1.61
4.9
14185
3875
0.253
1
3.70
100.00
0.212
1.61
1.67
5.8
13782
3762
0.212
1
3.70
100.00
0.183
1.67
1.74
6.9
13396
3641
0.183
1
3.70
100.00
0.146
1.74
1.82
8.6
12669
3449
0.146
1
3.70
100.00
0.114
1.82
1.91
10.5
12182
3301
0.114
1
3.70
100.00
0.092
1.91
2.01
12.5
11765
3182
0.092
1
3.70
100.00
0.078
2.01
2.13
14.2
11143
3030
0.078
1
3.70
100.00
0.078
2.13
2.28
16.0
10358
2806
0.078
1
3.70
100.00
0.079
2.28
2.46
18.0
9756
2649
0.079
1
3.70
100.00
0.067
2.46
2.70
19.2
8908
2415
0.067
1
3.70
100.00
0.056
2.70
3.02
20.5
8191
2227
0.056
1
3.70
100.00
0.046
3.02
3.49
22.9
7151
1958
0.046
1
3.70
100.00
0.043
3.49
4.27
25.0
6183
1700
0.043
1
3.60
100.00
0.043
4.27
6.04
24.3
4694
1317
0.043
1
3.60
100.00
0.045
6.04
29.05
23.2
2525
755
0.045
1
3.30
98.60
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.5.0053
refinement
P.D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
phasing
George M. Sheldrick
gsheldr@shelx.uni-ac.gwdg.de
Fortran_77
http://shelx.uni-ac.gwdg.de/SHELX/
SHELX
package
model building
D.C. & J.S. Richardson lab
molprobity@kinemage.biochem.duke.edu
http://kinemage.biochem.duke.edu/molprobity/
MolProbity
package
3beta29
data scaling
Phil R. Evans
pre@mrc-lmb.cam.ac.uk
5/04/2004
Fortran_77
http://www.ccp4.ac.uk/dist/html/scala.html
SCALA
other
3.2.5
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.006
data reduction
MOSFLM
phasing
SHELXD
phasing
autoSHARP
Crystal structure of Putative glycerophosphoryl diester phosphodiesterase (NP_812074.1) from BACTEROIDES THETAIOTAOMICRON VPI-5482 at 1.35 A resolution
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
5
N
N
A
GLY
0
A
GLY
1
HELX_P
A
LEU
34
A
LEU
11
1
1
11
A
SER
57
A
SER
34
HELX_P
A
MSE
67
A
MSE
44
1
2
11
A
GLU
101
A
GLU
78
HELX_P
A
TRP
105
A
TRP
82
5
3
5
A
THR
106
A
THR
83
HELX_P
A
LYS
111
A
LYS
88
1
4
6
A
THR
129
A
THR
106
HELX_P
A
LYS
138
A
LYS
115
1
5
10
A
ALA
148
A
ALA
125
HELX_P
A
ASP
150
A
ASP
127
5
6
3
A
ILE
151
A
ILE
128
HELX_P
A
GLU
163
A
GLU
140
1
7
13
A
THR
164
A
THR
141
HELX_P
A
ASN
166
A
ASN
143
5
8
3
A
PRO
175
A
PRO
152
HELX_P
A
GLY
184
A
GLY
161
1
9
10
A
SER
185
A
SER
162
HELX_P
A
LEU
187
A
LEU
164
5
10
3
A
GLU
202
A
GLU
179
HELX_P
A
LEU
214
A
LEU
191
1
11
13
A
LEU
230
A
LEU
207
HELX_P
A
PHE
239
A
PHE
216
1
12
10
A
TRP
250
A
TRP
227
HELX_P
A
ALA
254
A
ALA
231
5
13
5
A
ASP
258
A
ASP
235
HELX_P
A
ASP
265
A
ASP
242
1
14
8
A
ASP
265
A
ASP
242
HELX_P
A
GLN
276
A
GLN
253
1
15
12
A
GLN
286
A
GLN
263
HELX_P
A
LYS
297
A
LYS
274
1
16
12
covale
1.330
both
A
ALA
66
A
C
ALA
43
1_555
A
MSE
67
A
N
MSE
44
1_555
covale
1.320
both
A
MSE
67
A
C
MSE
44
1_555
A
LYS
68
A
N
LYS
45
1_555
covale
1.314
both
A
LEU
86
A
C
LEU
63
1_555
A
MSE
87
A
N
MSE
64
1_555
covale
1.326
both
A
MSE
87
A
C
MSE
64
1_555
A
HIS
88
A
N
HIS
65
1_555
covale
1.338
both
A
ILE
141
A
C
ILE
118
1_555
A
MSE
142
A
N
MSE
119
1_555
covale
1.324
both
A
MSE
142
A
C
MSE
119
1_555
A
VAL
143
A
N
VAL
120
1_555
covale
1.326
both
A
ILE
169
A
C
ILE
146
1_555
A
MSE
170
A
N
MSE
147
1_555
covale
1.332
both
A
MSE
170
A
C
MSE
147
1_555
A
LYS
171
A
N
LYS
148
1_555
covale
1.330
both
A
TYR
192
A
C
TYR
169
1_555
A
MSE
193
A
N
MSE
170
1_555
covale
1.330
both
A
MSE
193
A
C
MSE
170
1_555
A
PRO
194
A
N
PRO
171
1_555
HYDROLASE
NP_812074.1, Putative glycerophosphoryl diester phosphodiesterase, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, HYDROLASE
Q8A2Z3_BACTN
UNP
1
25
Q8A2Z3
HVETIKNTFLNPKSNKVLVVAHRGNWRSAPENSTAAIDSAIAMKVDIVEIDIQKTKDGQLILMHDNTLDRTTTGKGEIKN
WTLADIKKLKLKDKDGKVTNYVVPTLEEALLTAKGKIMVNLDKAYDIFDDVYAILEKTETQNQVIMKGGQPIETVKREFG
SYLDKVLYMPVIDLGNKEAEKIITDYLKELRPAAFEIIYSDPKNPLPPKIKQLLFKKSLIWYNTLWGSLAGNHDDNLALT
DPEKSYGYLIEQLGARILQTDQPAYLLDYLRKKGWHN
25
301
3I10
25
301
Q8A2Z3
A
1
2
278
1
expression tag
GLY
0
3I10
A
Q8A2Z3
UNP
1
10
anti-parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
parallel
A
LEU
84
A
LEU
61
A
LEU
86
A
LEU
63
A
ILE
71
A
ILE
48
A
LYS
78
A
LYS
55
A
MSE
142
A
MSE
119
A
ASP
146
A
ASP
123
A
VAL
168
A
VAL
145
A
GLY
172
A
GLY
149
A
LEU
191
A
LEU
168
A
ASP
197
A
ASP
174
A
ALA
218
A
ALA
195
A
ILE
222
A
ILE
199
A
LEU
243
A
LEU
220
A
ASN
247
A
ASN
224
A
ALA
279
A
ALA
256
A
THR
284
A
THR
261
A
LEU
42
A
LEU
19
A
HIS
46
A
HIS
23
A
ILE
71
A
ILE
48
A
LYS
78
A
LYS
55
BINDING SITE FOR RESIDUE ACT A 1
A
ACT
1
Software
7
BINDING SITE FOR RESIDUE ACT A 2
A
ACT
2
Software
3
BINDING SITE FOR RESIDUE EDO A 3
A
EDO
3
Software
4
BINDING SITE FOR RESIDUE EDO A 4
A
EDO
4
Software
6
BINDING SITE FOR RESIDUE EDO A 5
A
EDO
5
Software
5
BINDING SITE FOR RESIDUE EDO A 6
A
EDO
6
Software
7
BINDING SITE FOR RESIDUE EDO A 7
A
EDO
7
Software
6
BINDING SITE FOR RESIDUE EDO A 8
A
EDO
8
Software
4
BINDING SITE FOR RESIDUE EDO A 9
A
EDO
9
Software
5
BINDING SITE FOR RESIDUE EDO A 10
A
EDO
10
Software
7
BINDING SITE FOR RESIDUE EDO A 11
A
EDO
11
Software
8
BINDING SITE FOR RESIDUE EDO A 12
A
EDO
12
Software
3
BINDING SITE FOR RESIDUE EDO A 13
A
EDO
13
Software
5
BINDING SITE FOR RESIDUE EDO A 14
A
EDO
14
Software
9
BINDING SITE FOR RESIDUE EDO A 15
A
EDO
15
Software
9
BINDING SITE FOR RESIDUE EDO A 16
A
EDO
16
Software
3
BINDING SITE FOR RESIDUE EDO A 17
A
EDO
17
Software
6
BINDING SITE FOR RESIDUE EDO A 18
A
EDO
18
Software
5
BINDING SITE FOR RESIDUE EDO A 19
A
EDO
19
Software
5
BINDING SITE FOR RESIDUE EDO A 20
A
EDO
20
Software
3
BINDING SITE FOR RESIDUE PEG A 21
A
PEG
21
Software
7
A
ARG
51
A
ARG
28
7
1_555
A
SER
52
A
SER
29
7
1_555
A
ALA
53
A
ALA
30
7
1_555
A
ASP
117
A
ASP
94
7
1_555
A
LYS
118
A
LYS
95
7
1_555
A
HOH
402
W
HOH
7
1_555
A
HOH
524
W
HOH
7
1_555
A
THR
123
A
THR
100
3
1_555
A
ASN
124
A
ASN
101
3
1_555
A
TYR
125
A
TYR
102
3
1_555
A
EDO
5
F
EDO
4
5_445
A
THR
58
A
THR
35
4
1_555
A
HOH
382
W
HOH
4
1_555
A
HOH
421
W
HOH
4
1_555
A
LYS
161
A
LYS
138
6
5_555
A
LEU
198
A
LEU
175
6
1_555
A
PRO
229
A
PRO
206
6
1_555
A
HOH
318
W
HOH
6
5_555
A
HOH
438
W
HOH
6
5_555
A
HOH
574
W
HOH
6
1_555
A
EDO
3
D
EDO
5
5_555
A
GLU
132
A
GLU
109
5
5_555
A
THR
136
A
THR
113
5
5_555
A
ASP
225
A
ASP
202
5
1_555
A
HOH
479
W
HOH
5
1_555
A
LEU
42
A
LEU
19
7
1_555
A
ASP
70
A
ASP
47
7
1_555
A
HIS
300
A
HIS
277
7
1_555
A
ASN
301
A
ASN
278
7
1_555
A
HOH
341
W
HOH
7
1_555
A
HOH
455
W
HOH
7
1_555
A
HOH
494
W
HOH
7
1_555
A
EDO
16
Q
EDO
6
1_555
A
TYR
289
A
TYR
266
6
1_555
A
ASP
292
A
ASP
269
6
1_555
A
TYR
293
A
TYR
270
6
1_555
A
LYS
296
A
LYS
273
6
1_555
A
HOH
583
W
HOH
6
1_555
A
GLY
173
A
GLY
150
4
1_555
A
VAL
195
A
VAL
172
4
1_555
A
ASP
197
A
ASP
174
4
1_555
A
HOH
572
W
HOH
4
1_555
A
ASN
39
A
ASN
16
5
1_555
A
ARG
280
A
ARG
257
5
1_555
A
TRP
299
A
TRP
276
5
1_555
A
HOH
303
W
HOH
5
1_555
A
HOH
613
W
HOH
5
1_555
A
EDO
11
L
EDO
7
1_555
A
ARG
47
A
ARG
24
7
1_555
A
GLU
55
A
GLU
32
7
1_555
A
LYS
80
A
LYS
57
7
8_555
A
ARG
94
A
ARG
71
7
1_555
A
HOH
468
W
HOH
7
1_555
A
HOH
490
W
HOH
7
1_555
A
EDO
10
K
EDO
8
1_555
A
HOH
22
W
HOH
8
1_555
A
PRO
54
A
PRO
31
8
1_555
A
GLU
55
A
GLU
32
8
1_555
A
THR
95
A
THR
72
8
1_555
A
LYS
116
A
LYS
93
8
1_555
A
ASP
117
A
ASP
94
8
1_555
A
LYS
118
A
LYS
95
8
1_555
A
GLY
255
A
GLY
232
3
1_555
A
HIS
257
A
HIS
234
3
1_555
A
HOH
495
W
HOH
3
1_555
A
PRO
36
A
PRO
13
5
1_555
A
LYS
37
A
LYS
14
5
1_555
A
LEU
191
A
LEU
168
5
3_555
A
HOH
503
W
HOH
5
1_555
A
HOH
592
W
HOH
5
1_555
A
PRO
36
A
PRO
13
9
1_555
A
LYS
37
A
LYS
14
9
1_555
A
SER
38
A
SER
15
9
1_555
A
PHE
239
A
PHE
216
9
1_555
A
LYS
240
A
LYS
217
9
1_555
A
ARG
280
A
ARG
257
9
1_555
A
HOH
358
W
HOH
9
1_555
A
HOH
440
W
HOH
9
1_555
A
HOH
533
W
HOH
9
1_555
A
LYS
99
A
LYS
76
9
1_555
A
GLY
100
A
GLY
77
9
1_555
A
TRP
105
A
TRP
82
9
1_555
A
ASN
260
A
ASN
237
9
8_455
A
LEU
263
A
LEU
240
9
8_455
A
THR
264
A
THR
241
9
8_455
A
HOH
385
W
HOH
9
8_455
A
HOH
493
W
HOH
9
8_455
A
HOH
612
W
HOH
9
1_555
A
EDO
7
H
EDO
3
1_555
A
LYS
205
A
LYS
182
3
5_545
A
TYR
289
A
TYR
266
3
1_555
A
ASP
197
A
ASP
174
6
1_555
A
ILE
222
A
ILE
199
6
1_555
A
SER
224
A
SER
201
6
1_555
A
SER
252
A
SER
229
6
1_555
A
HOH
373
W
HOH
6
1_555
A
HOH
513
W
HOH
6
1_555
A
LYS
30
A
LYS
7
5
1_555
A
ASN
166
A
ASN
143
5
1_555
A
LEU
191
A
LEU
168
5
1_555
A
HOH
372
W
HOH
5
1_555
A
HOH
410
W
HOH
5
1_555
A
GLN
77
A
GLN
54
5
1_555
A
LYS
78
A
LYS
55
5
1_555
A
LYS
103
A
LYS
80
5
1_555
A
HOH
474
W
HOH
5
1_555
A
HOH
593
W
HOH
5
1_555
A
ASN
90
A
ASN
67
3
1_555
A
THR
91
A
THR
68
3
1_555
A
HOH
492
W
HOH
3
1_555
A
LYS
171
A
LYS
148
7
1_555
A
GLU
220
A
GLU
197
7
1_555
A
ASN
247
A
ASN
224
7
1_555
A
HOH
353
W
HOH
7
1_555
A
HOH
406
W
HOH
7
1_555
A
HOH
508
W
HOH
7
1_555
A
HOH
555
W
HOH
7
1_555
20
C 2 2 21