0.013761
0.000000
0.000955
0.000000
0.026876
0.000000
0.000000
0.000000
0.012561
0.00000
0.00000
0.00000
Kuzin, A.P.
Chen, Y.
Vorobiev, S.M.
Acton, T.B.
Ma, L.-C.
Xiao, R.
Montelione, G.T.
Hunt, J.F.
Tong, L.
Northeast Structural Genomics Consortium (NESG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
93.97
90.00
72.669
37.208
79.801
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
N
N
75
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
O
N
141
N
C
Y
142
N
C
Y
143
N
N
Y
144
N
C
Y
145
N
C
Y
146
N
N
N
147
N
O
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
O
N
159
N
H
N
160
N
H
N
161
N
N
N
162
S
C
N
163
N
C
N
164
N
O
N
165
S
C
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
N
N
184
S
C
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
O
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
N
214
N
O
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
S
N
237
N
C
N
238
N
O
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
SE
N
258
N
C
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
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
doub
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
doub
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
sing
N
262
N
doub
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
Y
267
N
doub
Y
268
N
sing
Y
269
N
sing
N
270
N
sing
Y
271
N
doub
N
272
N
sing
Y
273
N
doub
N
274
N
sing
Y
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
doub
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
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
doub
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
sing
N
313
N
sing
N
314
N
sing
N
315
N
doub
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
sing
N
330
N
sing
N
331
N
doub
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
Y
336
N
doub
Y
337
N
sing
Y
338
N
sing
N
339
N
sing
Y
340
N
doub
Y
341
N
sing
Y
342
N
sing
N
343
N
sing
Y
344
N
sing
Y
345
N
doub
N
346
N
sing
Y
347
N
doub
N
348
N
sing
Y
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
sing
N
359
N
doub
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
Y
364
N
doub
Y
365
N
sing
Y
366
N
sing
N
367
N
sing
Y
368
N
doub
N
369
N
sing
Y
370
N
doub
N
371
N
sing
Y
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
N
376
N
sing
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
doub
N
384
N
sing
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
To be Published
0353
X-ray structure of putative lactam utilization protein YBGL.
Northeast Structural Genomics Consortium target ET90.
10.2210/pdb1xw8/pdb
pdb_00001xw8
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
2004-09-21
ADSC QUANTUM 4
MAD
M
x-ray
1
0.97909
1.0
0.97928
1.0
0.96742
1.0
X4A
NSLS
0.97909, 0.97928, 0.96742
SYNCHROTRON
NSLS BEAMLINE X4A
27180.857
UPF0271 protein ybgL
1
man
polymer
18.015
water
59
nat
water
no
yes
(MSE)KIDLNADLGEGCASDAELLTLVSSANIACGFHAGDAQI(MSE)QACVREAIKNGVAIGAHPSFPDRENFGRSA
(MSE)QLPPETVYAQTLYQIGALATIARAQGGV(MSE)RHVKPHG(MSE)LYNQAAKEAQLADAIARAVYACDPALILVG
LAGSELIRAGKQYGLTTREEVFADRGYQADGSLVPRSQSGALIENEEQALAQTLE(MSE)VQHGRVKSITGEWATVAAQT
VCLHGDGEHALAFARRLRSAFAEKGIVVAALEHHHHHH
MKIDLNADLGEGCASDAELLTLVSSANIACGFHAGDAQIMQACVREAIKNGVAIGAHPSFPDRENFGRSAMQLPPETVYA
QTLYQIGALATIARAQGGVMRHVKPHGMLYNQAAKEAQLADAIARAVYACDPALILVGLAGSELIRAGKQYGLTTREEVF
ADRGYQADGSLVPRSQSGALIENEEQALAQTLEMVQHGRVKSITGEWATVAAQTVCLHGDGEHALAFARRLRSAFAEKGI
VVAALEHHHHHH
A
ET90
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
Escherichia
Escherichia
sample
ybgL
562
Escherichia coli
562
Escherichia coli
BL21(DE3)+Magic
1
2.1
42
VAPOR DIFFUSION, HANGING DROP
7.2
0.2 M Sodium tartrate, 20% PEG 3350, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
Northeast Structural Genomics Consortium
NESG
PSI, Protein Structure Initiative
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_related
struct_conn
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2004-11-09
1
1
2008-04-30
1
2
2011-07-13
1
3
2024-03-06
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_related.db_name
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
Crystal Structure of Lactam Utilization Protein from Pyrococcus horikoshii Ot3
Y
RCSB
Y
RCSB
2004-10-29
REL
REL
HOH
water
HOH
1
2
HOH
HOH
253
A
HOH
2
2
HOH
HOH
254
A
HOH
3
2
HOH
HOH
255
A
HOH
4
2
HOH
HOH
256
A
HOH
5
2
HOH
HOH
257
A
HOH
6
2
HOH
HOH
258
A
HOH
8
2
HOH
HOH
259
A
HOH
9
2
HOH
HOH
260
A
HOH
11
2
HOH
HOH
261
A
HOH
12
2
HOH
HOH
262
A
HOH
13
2
HOH
HOH
263
A
HOH
14
2
HOH
HOH
264
A
HOH
15
2
HOH
HOH
265
A
HOH
16
2
HOH
HOH
266
A
HOH
17
2
HOH
HOH
267
A
HOH
19
2
HOH
HOH
268
A
HOH
20
2
HOH
HOH
269
A
HOH
21
2
HOH
HOH
270
A
HOH
22
2
HOH
HOH
271
A
HOH
23
2
HOH
HOH
272
A
HOH
25
2
HOH
HOH
273
A
HOH
26
2
HOH
HOH
274
A
HOH
27
2
HOH
HOH
275
A
HOH
28
2
HOH
HOH
276
A
HOH
29
2
HOH
HOH
277
A
HOH
30
2
HOH
HOH
278
A
HOH
31
2
HOH
HOH
279
A
HOH
32
2
HOH
HOH
280
A
HOH
33
2
HOH
HOH
281
A
HOH
34
2
HOH
HOH
282
A
HOH
35
2
HOH
HOH
283
A
HOH
36
2
HOH
HOH
284
A
HOH
37
2
HOH
HOH
285
A
HOH
38
2
HOH
HOH
286
A
HOH
39
2
HOH
HOH
287
A
HOH
40
2
HOH
HOH
288
A
HOH
41
2
HOH
HOH
289
A
HOH
42
2
HOH
HOH
290
A
HOH
43
2
HOH
HOH
291
A
HOH
44
2
HOH
HOH
292
A
HOH
45
2
HOH
HOH
293
A
HOH
46
2
HOH
HOH
294
A
HOH
48
2
HOH
HOH
295
A
HOH
49
2
HOH
HOH
296
A
HOH
50
2
HOH
HOH
297
A
HOH
51
2
HOH
HOH
298
A
HOH
52
2
HOH
HOH
299
A
HOH
53
2
HOH
HOH
300
A
HOH
54
2
HOH
HOH
301
A
HOH
55
2
HOH
HOH
302
A
HOH
56
2
HOH
HOH
303
A
HOH
57
2
HOH
HOH
304
A
HOH
58
2
HOH
HOH
305
A
HOH
59
2
HOH
HOH
306
A
HOH
60
2
HOH
HOH
307
A
HOH
61
2
HOH
HOH
308
A
HOH
62
2
HOH
HOH
309
A
HOH
63
2
HOH
HOH
310
A
HOH
64
2
HOH
HOH
311
A
MSE
1
n
1
MSE
1
A
LYS
2
n
2
LYS
2
A
ILE
3
n
3
ILE
3
A
ASP
4
n
4
ASP
4
A
LEU
5
n
5
LEU
5
A
ASN
6
n
6
ASN
6
A
ALA
7
n
7
ALA
7
A
ASP
8
n
8
ASP
8
A
LEU
9
n
9
LEU
9
A
GLY
10
n
10
GLY
10
A
GLU
11
n
11
GLU
11
A
GLY
12
n
12
GLY
12
A
CYS
13
n
13
CYS
13
A
ALA
14
n
14
ALA
14
A
SER
15
n
15
SER
15
A
ASP
16
n
16
ASP
16
A
ALA
17
n
17
ALA
17
A
GLU
18
n
18
GLU
18
A
LEU
19
n
19
LEU
19
A
LEU
20
n
20
LEU
20
A
THR
21
n
21
THR
21
A
LEU
22
n
22
LEU
22
A
VAL
23
n
23
VAL
23
A
SER
24
n
24
SER
24
A
SER
25
n
25
SER
25
A
ALA
26
n
26
ALA
26
A
ASN
27
n
27
ASN
27
A
ILE
28
n
28
ILE
28
A
ALA
29
n
29
ALA
29
A
CYS
30
n
30
CYS
30
A
GLY
31
n
31
GLY
31
A
PHE
32
n
32
PHE
32
A
HIS
33
n
33
HIS
33
A
ALA
34
n
34
ALA
34
A
GLY
35
n
35
GLY
35
A
ASP
36
n
36
ASP
36
A
ALA
37
n
37
ALA
37
A
GLN
38
n
38
GLN
38
A
ILE
39
n
39
ILE
39
A
MSE
40
n
40
MSE
40
A
GLN
41
n
41
GLN
41
A
ALA
42
n
42
ALA
42
A
CYS
43
n
43
CYS
43
A
VAL
44
n
44
VAL
44
A
ARG
45
n
45
ARG
45
A
GLU
46
n
46
GLU
46
A
ALA
47
n
47
ALA
47
A
ILE
48
n
48
ILE
48
A
LYS
49
n
49
LYS
49
A
ASN
50
n
50
ASN
50
A
GLY
51
n
51
GLY
51
A
VAL
52
n
52
VAL
52
A
ALA
53
n
53
ALA
53
A
ILE
54
n
54
ILE
54
A
GLY
55
n
55
GLY
55
A
ALA
56
n
56
ALA
56
A
HIS
57
n
57
HIS
57
A
PRO
58
n
58
PRO
58
A
SER
59
n
59
SER
59
A
PHE
60
n
60
PHE
60
A
PRO
61
n
61
PRO
61
A
n
62
62
A
n
63
63
A
n
64
64
A
n
65
65
A
n
66
66
A
n
67
67
A
n
68
68
A
SER
69
n
69
SER
69
A
ALA
70
n
70
ALA
70
A
MSE
71
n
71
MSE
71
A
GLN
72
n
72
GLN
72
A
LEU
73
n
73
LEU
73
A
PRO
74
n
74
PRO
74
A
PRO
75
n
75
PRO
75
A
GLU
76
n
76
GLU
76
A
THR
77
n
77
THR
77
A
VAL
78
n
78
VAL
78
A
TYR
79
n
79
TYR
79
A
ALA
80
n
80
ALA
80
A
GLN
81
n
81
GLN
81
A
THR
82
n
82
THR
82
A
LEU
83
n
83
LEU
83
A
TYR
84
n
84
TYR
84
A
GLN
85
n
85
GLN
85
A
ILE
86
n
86
ILE
86
A
GLY
87
n
87
GLY
87
A
ALA
88
n
88
ALA
88
A
LEU
89
n
89
LEU
89
A
ALA
90
n
90
ALA
90
A
THR
91
n
91
THR
91
A
ILE
92
n
92
ILE
92
A
ALA
93
n
93
ALA
93
A
ARG
94
n
94
ARG
94
A
ALA
95
n
95
ALA
95
A
GLN
96
n
96
GLN
96
A
GLY
97
n
97
GLY
97
A
GLY
98
n
98
GLY
98
A
VAL
99
n
99
VAL
99
A
MSE
100
n
100
MSE
100
A
ARG
101
n
101
ARG
101
A
HIS
102
n
102
HIS
102
A
VAL
103
n
103
VAL
103
A
LYS
104
n
104
LYS
104
A
PRO
105
n
105
PRO
105
A
HIS
106
n
106
HIS
106
A
GLY
107
n
107
GLY
107
A
MSE
108
n
108
MSE
108
A
LEU
109
n
109
LEU
109
A
TYR
110
n
110
TYR
110
A
ASN
111
n
111
ASN
111
A
GLN
112
n
112
GLN
112
A
ALA
113
n
113
ALA
113
A
ALA
114
n
114
ALA
114
A
LYS
115
n
115
LYS
115
A
GLU
116
n
116
GLU
116
A
ALA
117
n
117
ALA
117
A
GLN
118
n
118
GLN
118
A
LEU
119
n
119
LEU
119
A
ALA
120
n
120
ALA
120
A
ASP
121
n
121
ASP
121
A
ALA
122
n
122
ALA
122
A
ILE
123
n
123
ILE
123
A
ALA
124
n
124
ALA
124
A
ARG
125
n
125
ARG
125
A
ALA
126
n
126
ALA
126
A
VAL
127
n
127
VAL
127
A
TYR
128
n
128
TYR
128
A
ALA
129
n
129
ALA
129
A
CYS
130
n
130
CYS
130
A
ASP
131
n
131
ASP
131
A
PRO
132
n
132
PRO
132
A
ALA
133
n
133
ALA
133
A
LEU
134
n
134
LEU
134
A
ILE
135
n
135
ILE
135
A
LEU
136
n
136
LEU
136
A
VAL
137
n
137
VAL
137
A
GLY
138
n
138
GLY
138
A
LEU
139
n
139
LEU
139
A
ALA
140
n
140
ALA
140
A
GLY
141
n
141
GLY
141
A
SER
142
n
142
SER
142
A
GLU
143
n
143
GLU
143
A
LEU
144
n
144
LEU
144
A
ILE
145
n
145
ILE
145
A
ARG
146
n
146
ARG
146
A
ALA
147
n
147
ALA
147
A
GLY
148
n
148
GLY
148
A
LYS
149
n
149
LYS
149
A
GLN
150
n
150
GLN
150
A
TYR
151
n
151
TYR
151
A
GLY
152
n
152
GLY
152
A
LEU
153
n
153
LEU
153
A
THR
154
n
154
THR
154
A
THR
155
n
155
THR
155
A
ARG
156
n
156
ARG
156
A
GLU
157
n
157
GLU
157
A
GLU
158
n
158
GLU
158
A
VAL
159
n
159
VAL
159
A
PHE
160
n
160
PHE
160
A
ALA
161
n
161
ALA
161
A
ASP
162
n
162
ASP
162
A
ARG
163
n
163
ARG
163
A
GLY
164
n
164
GLY
164
A
TYR
165
n
165
TYR
165
A
GLN
166
n
166
GLN
166
A
ALA
167
n
167
ALA
167
A
ASP
168
n
168
ASP
168
A
GLY
169
n
169
GLY
169
A
SER
170
n
170
SER
170
A
LEU
171
n
171
LEU
171
A
VAL
172
n
172
VAL
172
A
PRO
173
n
173
PRO
173
A
ARG
174
n
174
ARG
174
A
SER
175
n
175
SER
175
A
GLN
176
n
176
GLN
176
A
SER
177
n
177
SER
177
A
GLY
178
n
178
GLY
178
A
n
179
179
A
n
180
180
A
n
181
181
A
n
182
182
A
n
183
183
A
GLU
184
n
184
GLU
184
A
GLU
185
n
185
GLU
185
A
GLN
186
n
186
GLN
186
A
ALA
187
n
187
ALA
187
A
LEU
188
n
188
LEU
188
A
ALA
189
n
189
ALA
189
A
GLN
190
n
190
GLN
190
A
THR
191
n
191
THR
191
A
LEU
192
n
192
LEU
192
A
GLU
193
n
193
GLU
193
A
MSE
194
n
194
MSE
194
A
VAL
195
n
195
VAL
195
A
GLN
196
n
196
GLN
196
A
HIS
197
n
197
HIS
197
A
GLY
198
n
198
GLY
198
A
ARG
199
n
199
ARG
199
A
VAL
200
n
200
VAL
200
A
LYS
201
n
201
LYS
201
A
SER
202
n
202
SER
202
A
ILE
203
n
203
ILE
203
A
THR
204
n
204
THR
204
A
GLY
205
n
205
GLY
205
A
GLU
206
n
206
GLU
206
A
TRP
207
n
207
TRP
207
A
ALA
208
n
208
ALA
208
A
THR
209
n
209
THR
209
A
VAL
210
n
210
VAL
210
A
ALA
211
n
211
ALA
211
A
ALA
212
n
212
ALA
212
A
GLN
213
n
213
GLN
213
A
THR
214
n
214
THR
214
A
VAL
215
n
215
VAL
215
A
CYS
216
n
216
CYS
216
A
LEU
217
n
217
LEU
217
A
HIS
218
n
218
HIS
218
A
GLY
219
n
219
GLY
219
A
ASP
220
n
220
ASP
220
A
GLY
221
n
221
GLY
221
A
n
222
222
A
HIS
223
n
223
HIS
223
A
ALA
224
n
224
ALA
224
A
LEU
225
n
225
LEU
225
A
ALA
226
n
226
ALA
226
A
PHE
227
n
227
PHE
227
A
ALA
228
n
228
ALA
228
A
ARG
229
n
229
ARG
229
A
ARG
230
n
230
ARG
230
A
LEU
231
n
231
LEU
231
A
ARG
232
n
232
ARG
232
A
SER
233
n
233
SER
233
A
ALA
234
n
234
ALA
234
A
PHE
235
n
235
PHE
235
A
n
236
236
A
n
237
237
A
n
238
238
A
n
239
239
A
ILE
240
n
240
ILE
240
A
VAL
241
n
241
VAL
241
A
VAL
242
n
242
VAL
242
A
ALA
243
n
243
ALA
243
A
ALA
244
n
244
ALA
244
A
LEU
245
n
245
LEU
245
A
GLU
246
n
246
GLU
246
A
HIS
247
n
247
HIS
247
A
n
248
248
A
n
249
249
A
n
250
250
A
n
251
251
A
n
252
252
A
author_defined_assembly
2
dimeric
A
MSE
1
SELENOMETHIONINE
A
MSE
1
MET
A
MSE
40
SELENOMETHIONINE
A
MSE
40
MET
A
MSE
71
SELENOMETHIONINE
A
MSE
71
MET
A
MSE
100
SELENOMETHIONINE
A
MSE
100
MET
A
MSE
108
SELENOMETHIONINE
A
MSE
108
MET
A
MSE
194
SELENOMETHIONINE
A
MSE
194
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
2_656
-x+1,y,-z+1
crystal symmetry operation
67.1440463228
0.0000000000
79.6095125463
A
N
LEU
9
A
N
LEU
9
A
O
ASN
27
A
O
ASN
27
A
N
ILE
28
A
N
ILE
28
A
O
GLY
55
A
O
GLY
55
A
N
ILE
54
A
N
ILE
54
A
O
ARG
101
A
O
ARG
101
A
N
VAL
103
A
N
VAL
103
A
O
VAL
137
A
O
VAL
137
A
N
GLY
138
A
N
GLY
138
A
O
GLU
158
A
O
GLU
158
A
N
VAL
159
A
N
VAL
159
A
O
THR
214
A
O
THR
214
A
O
VAL
215
A
O
VAL
215
A
N
ASP
4
A
N
ASP
4
A
N
VAL
200
A
N
VAL
200
A
O
ALA
208
A
O
ALA
208
1
A
ASP
62
A
ASP
62
1
Y
1
A
ARG
63
A
ARG
63
1
Y
1
A
GLU
64
A
GLU
64
1
Y
1
A
ASN
65
A
ASN
65
1
Y
1
A
PHE
66
A
PHE
66
1
Y
1
A
GLY
67
A
GLY
67
1
Y
1
A
ARG
68
A
ARG
68
1
Y
1
A
ALA
179
A
ALA
179
1
Y
1
A
LEU
180
A
LEU
180
1
Y
1
A
ILE
181
A
ILE
181
1
Y
1
A
GLU
182
A
GLU
182
1
Y
1
A
ASN
183
A
ASN
183
1
Y
1
A
GLU
222
A
GLU
222
1
Y
1
A
ALA
236
A
ALA
236
1
Y
1
A
GLU
237
A
GLU
237
1
Y
1
A
LYS
238
A
LYS
238
1
Y
1
A
GLY
239
A
GLY
239
1
Y
1
A
HIS
248
A
HIS
248
1
Y
1
A
HIS
249
A
HIS
249
1
Y
1
A
HIS
250
A
HIS
250
1
Y
1
A
HIS
251
A
HIS
251
1
Y
1
A
HIS
252
A
HIS
252
1
Y
1
A
ALA
14
56.41
-166.13
1
A
PHE
32
-90.51
-78.78
1
A
ASP
131
-166.58
111.76
1
A
ARG
174
-40.70
151.27
1
A
SER
175
78.67
-88.51
1
A
GLN
176
-166.97
24.64
1
A
SER
177
71.97
101.91
1
A
ALA
212
36.79
75.51
1
A
VAL
241
40.59
106.24
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
39.3
-1.76
0.00
-1.42
6.46
0.00
-4.70
0.265
0.008
0.241
0.241
2.00
25.86
1110
23238
4.8
82.5
RANDOM
659812.94
0.000000
1
RESTRAINED
THROUGHOUT
2.0
MAD
Engh & Huber
FLAT MODEL
39.5754
0.305929
0.34
0.28
5.00
0.25
0.12
2.00
25.86
59
1758
0
0
1699
0.006
1.2
21.8
0.70
0.304
0.024
0.252
2.13
164
3568
6
4.4
79.7
33.3
2.0
30
1XW8
24348
-3.0
0.038
1
30.5
3.6
86.7
2.0
2.07
0.142
90.6
refinement
CNS
1.1
data reduction
DENZO
data scaling
SCALEPACK
phasing
SOLVE
X-ray structure of putative lactam utilization protein YBGL. Northeast Structural Genomics Consortium target ET90.
1
N
N
2
N
N
A
SER
15
A
SER
15
HELX_P
A
VAL
23
A
VAL
23
1
1
9
A
ASP
36
A
ASP
36
HELX_P
A
GLY
51
A
GLY
51
1
2
16
A
PRO
74
A
PRO
74
HELX_P
A
GLN
96
A
GLN
96
1
3
23
A
HIS
106
A
HIS
106
HELX_P
A
ALA
114
A
ALA
114
1
4
9
A
GLU
116
A
GLU
116
HELX_P
A
ASP
131
A
ASP
131
1
5
16
A
SER
142
A
SER
142
HELX_P
A
TYR
151
A
TYR
151
1
6
10
A
GLN
186
A
GLN
186
HELX_P
A
GLY
198
A
GLY
198
1
7
13
A
ALA
224
A
ALA
224
HELX_P
A
PHE
235
A
PHE
235
1
8
12
covale
1.330
both
A
MSE
1
A
C
MSE
1
1_555
A
LYS
2
A
N
LYS
2
1_555
covale
1.328
both
A
ILE
39
A
C
ILE
39
1_555
A
MSE
40
A
N
MSE
40
1_555
covale
1.329
both
A
MSE
40
A
C
MSE
40
1_555
A
GLN
41
A
N
GLN
41
1_555
covale
1.329
both
A
ALA
70
A
C
ALA
70
1_555
A
MSE
71
A
N
MSE
71
1_555
covale
1.326
both
A
MSE
71
A
C
MSE
71
1_555
A
GLN
72
A
N
GLN
72
1_555
covale
1.326
both
A
VAL
99
A
C
VAL
99
1_555
A
MSE
100
A
N
MSE
100
1_555
covale
1.331
both
A
MSE
100
A
C
MSE
100
1_555
A
ARG
101
A
N
ARG
101
1_555
covale
1.332
both
A
GLY
107
A
C
GLY
107
1_555
A
MSE
108
A
N
MSE
108
1_555
covale
1.331
both
A
MSE
108
A
C
MSE
108
1_555
A
LEU
109
A
N
LEU
109
1_555
covale
1.331
both
A
GLU
193
A
C
GLU
193
1_555
A
MSE
194
A
N
MSE
194
1_555
covale
1.328
both
A
MSE
194
A
C
MSE
194
1_555
A
VAL
195
A
N
VAL
195
1_555
STRUCTURAL GENOMICS, UNKNOWN FUNCTION
NESG, Northeast Structural Genomics Consortium, Structural Genomics, Protein Structure Initiative, PSI, UNKNOWN FUNCTION
YBGL_ECOLI
UNP
1
1
P75746
MKIDLNADLGEGCASDAELLTLVSSANIACGFHAGDAQIMQACVREAIKNGVAIGAHPSFPDRENFGRSAMQLPPETVYA
QTLYQIGALATIARAQGGVMRHVKPHGMLYNQAAKEAQLADAIARAVYACDPALILVGLAGSELIRAGKQYGLTTREEVF
ADRGYQADGSLVPRSQSGALIENEEQALAQTLEMVQHGRVKSITGEWATVAAQTVCLHGDGEHALAFARRLRSAFAEKGI
VVAA
1
244
1XW8
1
244
P75746
A
1
1
244
1
MET
modified residue
MSE
1
1XW8
A
P75746
UNP
1
1
1
MET
modified residue
MSE
40
1XW8
A
P75746
UNP
40
40
1
MET
modified residue
MSE
71
1XW8
A
P75746
UNP
71
71
1
MET
modified residue
MSE
100
1XW8
A
P75746
UNP
100
100
1
MET
modified residue
MSE
108
1XW8
A
P75746
UNP
108
108
1
MET
modified residue
MSE
194
1XW8
A
P75746
UNP
194
194
1
expression tag
LEU
245
1XW8
A
P75746
UNP
245
1
expression tag
GLU
246
1XW8
A
P75746
UNP
246
1
expression tag
HIS
247
1XW8
A
P75746
UNP
247
1
expression tag
HIS
248
1XW8
A
P75746
UNP
248
1
expression tag
HIS
249
1XW8
A
P75746
UNP
249
1
expression tag
HIS
250
1XW8
A
P75746
UNP
250
1
expression tag
HIS
251
1XW8
A
P75746
UNP
251
1
expression tag
HIS
252
1XW8
A
P75746
UNP
252
8
2
parallel
parallel
parallel
parallel
parallel
parallel
parallel
anti-parallel
A
ASP
4
A
ASP
4
A
LEU
9
A
LEU
9
A
SER
25
A
SER
25
A
ALA
29
A
ALA
29
A
ALA
53
A
ALA
53
A
HIS
57
A
HIS
57
A
MSE
100
A
MSE
100
A
VAL
103
A
VAL
103
A
ILE
135
A
ILE
135
A
LEU
139
A
LEU
139
A
THR
155
A
THR
155
A
VAL
159
A
VAL
159
A
THR
214
A
THR
214
A
CYS
216
A
CYS
216
A
ASP
4
A
ASP
4
A
LEU
9
A
LEU
9
A
ARG
199
A
ARG
199
A
LYS
201
A
LYS
201
A
TRP
207
A
TRP
207
A
THR
209
A
THR
209
5
C 1 2 1