0.007829
0.000000
0.000000
0.000000
0.007829
0.000000
0.000000
0.000000
0.007829
0.00000
0.00000
0.00000
Zhang, R.
Joachimiak, A.
Edwards, A.
Savchenko, A.
Xu, L.
Midwest Center for Structural Genomics (MCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
24
90.00
90.00
90.00
127.737
127.737
127.737
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
Hg 2
200.590
MERCURY (II) ION
non-polymer
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
N
8
N
H
N
9
N
H
N
10
N
H
N
11
N
H
N
12
N
H
N
13
N
H
N
14
N
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
N
50
N
H
N
51
N
H
N
52
N
H
N
53
N
H
N
54
N
H
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
N
N
75
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
N
81
N
H
N
82
N
H
N
83
N
H
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
N
N
89
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
N
116
N
O
N
117
N
O
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
HG
N
138
N
N
N
139
S
C
N
140
N
C
N
141
N
O
N
142
N
C
Y
143
N
C
Y
144
N
N
Y
145
N
C
Y
146
N
C
Y
147
N
N
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
O
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
S
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
N
N
185
S
C
N
186
N
C
N
187
N
O
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
C
N
192
N
O
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
H
N
206
N
N
N
207
S
C
N
208
N
C
N
209
N
O
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
C
N
214
N
N
N
215
N
O
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
H
N
231
N
N
N
232
S
C
N
233
N
C
N
234
N
O
N
235
N
C
N
236
N
C
N
237
N
S
N
238
N
C
N
239
N
O
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
H
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
Y
261
N
C
N
262
N
O
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
N
N
275
S
C
N
276
N
C
N
277
N
O
N
278
N
C
N
279
N
C
N
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
N
N
292
S
C
N
293
N
C
N
294
N
O
N
295
N
C
N
296
N
O
N
297
N
O
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
N
N
306
S
C
N
307
N
C
N
308
N
O
N
309
R
C
N
310
N
O
N
311
N
C
N
312
N
O
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
N
N
323
S
C
N
324
N
C
N
325
N
O
N
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
N
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
C
Y
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
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
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
Y
358
N
C
Y
359
N
C
N
360
N
O
N
361
N
O
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
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
N
N
374
S
C
N
375
N
C
N
376
N
O
N
377
N
C
N
378
N
C
N
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
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
Y
248
N
doub
Y
249
N
sing
Y
250
N
sing
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
doub
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
doub
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
doub
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
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
Y
317
N
doub
Y
318
N
sing
Y
319
N
sing
N
320
N
sing
Y
321
N
doub
Y
322
N
sing
Y
323
N
sing
N
324
N
sing
Y
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
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
doub
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
Y
345
N
doub
Y
346
N
sing
Y
347
N
sing
N
348
N
sing
Y
349
N
doub
N
350
N
sing
Y
351
N
doub
N
352
N
sing
Y
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
doub
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
N
374
N
sing
N
375
N
sing
To be Published
0353
The 2.5A crystal structure of protein YJGH from E. Coli
10.2210/pdb1pf5/pdb
pdb_00001pf5
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
Si 111 Channel
CCD
2002-09-01
SBC-2
Si 111 Channel
SINGLE WAVELENGTH
M
x-ray
1
0.9793
1.0
19-ID
APS
0.9793
SYNCHROTRON
APS BEAMLINE 19-ID
14603.198
Hypothetical protein yjgH
1
man
polymer
200.590
MERCURY (II) ION
1
syn
non-polymer
18.015
water
71
nat
water
no
no
MVERTAVFPAGRHSLYAEHRYSAAIRSGDLLFVSGQVGSREDGTPEPDFQQQVRLAFDNLHATLAAAGCTFDDIIDVTSF
HTDPENQFEDIMTVKNEIFSAPPYPNWTAVGVTWLAGFDFEIKVIARIPEQ
MVERTAVFPAGRHSLYAEHRYSAAIRSGDLLFVSGQVGSREDGTPEPDFQQQVRLAFDNLHATLAAAGCTFDDIIDVTSF
HTDPENQFEDIMTVKNEIFSAPPYPNWTAVGVTWLAGFDFEIKVIARIPEQ
A
APC5516
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
Escherichia
Escherichia
sample
YJGH
562
Escherichia coli
562
Escherichia coli
BL21 (DE3) star
PLASMID
pET15b
1
VAPOR DIFFUSION, HANGING DROP
6.0
0.2 M Lithium sulphate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
Midwest Center for Structural Genomics
MCSG
PSI, Protein Structure Initiative
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Refinement description
Data collection
Database references
Derived calculations
1
0
2003-12-09
1
1
2008-04-29
1
2
2011-07-13
1
3
2017-10-11
1
4
2024-02-14
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_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
Y
RCSB
Y
RCSB
2003-05-23
REL
REL
HG
MERCURY (II) ION
HOH
water
HG
1
2
HG
HG
132
A
TIP
414
3
HOH
HOH
414
A
TIP
415
3
HOH
HOH
415
A
TIP
416
3
HOH
HOH
416
A
TIP
417
3
HOH
HOH
417
A
TIP
418
3
HOH
HOH
418
A
TIP
419
3
HOH
HOH
419
A
TIP
420
3
HOH
HOH
420
A
TIP
421
3
HOH
HOH
421
A
TIP
422
3
HOH
HOH
422
A
TIP
423
3
HOH
HOH
423
A
TIP
424
3
HOH
HOH
424
A
TIP
425
3
HOH
HOH
425
A
TIP
426
3
HOH
HOH
426
A
TIP
427
3
HOH
HOH
427
A
TIP
428
3
HOH
HOH
428
A
TIP
429
3
HOH
HOH
429
A
TIP
430
3
HOH
HOH
430
A
TIP
431
3
HOH
HOH
431
A
TIP
432
3
HOH
HOH
432
A
TIP
434
3
HOH
HOH
434
A
TIP
435
3
HOH
HOH
435
A
TIP
437
3
HOH
HOH
437
A
TIP
438
3
HOH
HOH
438
A
TIP
440
3
HOH
HOH
440
A
TIP
441
3
HOH
HOH
441
A
TIP
442
3
HOH
HOH
442
A
TIP
443
3
HOH
HOH
443
A
TIP
444
3
HOH
HOH
444
A
TIP
447
3
HOH
HOH
447
A
TIP
449
3
HOH
HOH
449
A
TIP
450
3
HOH
HOH
450
A
TIP
451
3
HOH
HOH
451
A
TIP
452
3
HOH
HOH
452
A
TIP
454
3
HOH
HOH
454
A
TIP
455
3
HOH
HOH
455
A
TIP
456
3
HOH
HOH
456
A
TIP
457
3
HOH
HOH
457
A
TIP
458
3
HOH
HOH
458
A
TIP
459
3
HOH
HOH
459
A
TIP
460
3
HOH
HOH
460
A
TIP
461
3
HOH
HOH
461
A
TIP
462
3
HOH
HOH
462
A
TIP
463
3
HOH
HOH
463
A
TIP
464
3
HOH
HOH
464
A
TIP
465
3
HOH
HOH
465
A
TIP
466
3
HOH
HOH
466
A
TIP
467
3
HOH
HOH
467
A
TIP
469
3
HOH
HOH
469
A
TIP
470
3
HOH
HOH
470
A
TIP
471
3
HOH
HOH
471
A
TIP
472
3
HOH
HOH
472
A
TIP
473
3
HOH
HOH
473
A
TIP
474
3
HOH
HOH
474
A
TIP
475
3
HOH
HOH
475
A
TIP
476
3
HOH
HOH
476
A
TIP
477
3
HOH
HOH
477
A
TIP
478
3
HOH
HOH
478
A
TIP
480
3
HOH
HOH
480
A
TIP
481
3
HOH
HOH
481
A
TIP
482
3
HOH
HOH
482
A
TIP
483
3
HOH
HOH
483
A
TIP
484
3
HOH
HOH
484
A
TIP
485
3
HOH
HOH
485
A
TIP
486
3
HOH
HOH
486
A
TIP
487
3
HOH
HOH
487
A
TIP
488
3
HOH
HOH
488
A
TIP
489
3
HOH
HOH
489
A
TIP
490
3
HOH
HOH
490
A
TIP
491
3
HOH
HOH
491
A
TIP
492
3
HOH
HOH
492
A
TIP
493
3
HOH
HOH
493
A
n
1
1
A
VAL
2
n
2
VAL
2
A
GLU
3
n
3
GLU
3
A
ALA
4
n
4
ARG
4
A
THR
5
n
5
THR
5
A
ALA
6
n
6
ALA
6
A
VAL
7
n
7
VAL
7
A
PHE
8
n
8
PHE
8
A
PRO
9
n
9
PRO
9
A
ALA
10
n
10
ALA
10
A
GLY
11
n
11
GLY
11
A
ALA
12
n
12
ARG
12
A
HIS
13
n
13
HIS
13
A
SER
14
n
14
SER
14
A
LEU
15
n
15
LEU
15
A
TYR
16
n
16
TYR
16
A
ALA
17
n
17
ALA
17
A
GLU
18
n
18
GLU
18
A
HIS
19
n
19
HIS
19
A
ARG
20
n
20
ARG
20
A
TYR
21
n
21
TYR
21
A
SER
22
n
22
SER
22
A
ALA
23
n
23
ALA
23
A
ALA
24
n
24
ALA
24
A
ILE
25
n
25
ILE
25
A
ARG
26
n
26
ARG
26
A
SER
27
n
27
SER
27
A
GLY
28
n
28
GLY
28
A
ASP
29
n
29
ASP
29
A
LEU
30
n
30
LEU
30
A
LEU
31
n
31
LEU
31
A
PHE
32
n
32
PHE
32
A
VAL
33
n
33
VAL
33
A
SER
34
n
34
SER
34
A
GLY
35
n
35
GLY
35
A
GLN
36
n
36
GLN
36
A
VAL
37
n
37
VAL
37
A
GLY
38
n
38
GLY
38
A
SER
39
n
39
SER
39
A
ARG
40
n
40
ARG
40
A
GLU
41
n
41
GLU
41
A
ASP
42
n
42
ASP
42
A
GLY
43
n
43
GLY
43
A
THR
44
n
44
THR
44
A
PRO
45
n
45
PRO
45
A
GLU
46
n
46
GLU
46
A
PRO
47
n
47
PRO
47
A
ASP
48
n
48
ASP
48
A
PHE
49
n
49
PHE
49
A
GLN
50
n
50
GLN
50
A
GLN
51
n
51
GLN
51
A
GLN
52
n
52
GLN
52
A
VAL
53
n
53
VAL
53
A
ARG
54
n
54
ARG
54
A
LEU
55
n
55
LEU
55
A
ALA
56
n
56
ALA
56
A
PHE
57
n
57
PHE
57
A
ASP
58
n
58
ASP
58
A
ASN
59
n
59
ASN
59
A
LEU
60
n
60
LEU
60
A
HIS
61
n
61
HIS
61
A
ALA
62
n
62
ALA
62
A
THR
63
n
63
THR
63
A
LEU
64
n
64
LEU
64
A
ALA
65
n
65
ALA
65
A
ALA
66
n
66
ALA
66
A
ALA
67
n
67
ALA
67
A
GLY
68
n
68
GLY
68
A
CYS
69
n
69
CYS
69
A
THR
70
n
70
THR
70
A
PHE
71
n
71
PHE
71
A
ASP
72
n
72
ASP
72
A
ASP
73
n
73
ASP
73
A
ILE
74
n
74
ILE
74
A
ILE
75
n
75
ILE
75
A
ASP
76
n
76
ASP
76
A
VAL
77
n
77
VAL
77
A
THR
78
n
78
THR
78
A
SER
79
n
79
SER
79
A
PHE
80
n
80
PHE
80
A
HIS
81
n
81
HIS
81
A
THR
82
n
82
THR
82
A
ASP
83
n
83
ASP
83
A
PRO
84
n
84
PRO
84
A
GLU
85
n
85
GLU
85
A
ASN
86
n
86
ASN
86
A
GLN
87
n
87
GLN
87
A
PHE
88
n
88
PHE
88
A
GLU
89
n
89
GLU
89
A
ASP
90
n
90
ASP
90
A
ILE
91
n
91
ILE
91
A
MET
92
n
92
MET
92
A
THR
93
n
93
THR
93
A
VAL
94
n
94
VAL
94
A
LYS
95
n
95
LYS
95
A
ASN
96
n
96
ASN
96
A
GLU
97
n
97
GLU
97
A
ILE
98
n
98
ILE
98
A
PHE
99
n
99
PHE
99
A
SER
100
n
100
SER
100
A
ALA
101
n
101
ALA
101
A
PRO
102
n
102
PRO
102
A
PRO
103
n
103
PRO
103
A
TYR
104
n
104
TYR
104
A
PRO
105
n
105
PRO
105
A
ASN
106
n
106
ASN
106
A
TRP
107
n
107
TRP
107
A
THR
108
n
108
THR
108
A
ALA
109
n
109
ALA
109
A
VAL
110
n
110
VAL
110
A
GLY
111
n
111
GLY
111
A
VAL
112
n
112
VAL
112
A
THR
113
n
113
THR
113
A
TRP
114
n
114
TRP
114
A
LEU
115
n
115
LEU
115
A
ALA
116
n
116
ALA
116
A
GLY
117
n
117
GLY
117
A
PHE
118
n
118
PHE
118
A
ASP
119
n
119
ASP
119
A
PHE
120
n
120
PHE
120
A
GLU
121
n
121
GLU
121
A
ILE
122
n
122
ILE
122
A
LYS
123
n
123
LYS
123
A
VAL
124
n
124
VAL
124
A
ILE
125
n
125
ILE
125
A
ALA
126
n
126
ALA
126
A
ARG
127
n
127
ARG
127
A
ILE
128
n
128
ILE
128
A
PRO
129
n
129
PRO
129
A
GLU
130
n
130
GLU
130
A
GLN
131
n
131
GLN
131
A
author_and_software_defined_assembly
PISA,PQS
3
trimeric
6710
-107
15630
A
CYS
69
A
SG
CYS
69
1_555
A
HG
132
B
HG
HG
1_555
A
ASP
73
A
OD2
ASP
73
1_555
99.6
A
CYS
69
A
SG
CYS
69
1_555
A
HG
132
B
HG
HG
1_555
A
ARG
127
A
O
ARG
127
1_555
96.5
A
ASP
73
A
OD2
ASP
73
1_555
A
HG
132
B
HG
HG
1_555
A
ARG
127
A
O
ARG
127
1_555
100.1
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
0.0000000000
0.0000000000
1.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
5_456
z-1,x,y+1
crystal symmetry operation
-127.7370000000
0.0000000000
127.7370000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1.0000000000
0.0000000000
0.0000000000
9_546
y,z-1,x+1
crystal symmetry operation
0.0000000000
-127.7370000000
127.7370000000
A
N
VAL
7
A
N
VAL
7
A
O
ALA
24
A
O
ALA
24
A
N
SER
27
A
N
SER
27
A
O
LEU
30
A
O
LEU
30
A
N
LEU
31
A
N
LEU
31
A
O
ALA
126
A
O
ALA
126
A
O
LYS
123
A
O
LYS
123
A
N
THR
78
A
N
THR
78
A
N
SER
79
A
N
SER
79
A
O
THR
108
A
O
THR
108
1
A
CG
ARG
4
A
CG
ARG
4
1
Y
1
A
CD
ARG
4
A
CD
ARG
4
1
Y
1
A
NE
ARG
4
A
NE
ARG
4
1
Y
1
A
CZ
ARG
4
A
CZ
ARG
4
1
Y
1
A
NH1
ARG
4
A
NH1
ARG
4
1
Y
1
A
NH2
ARG
4
A
NH2
ARG
4
1
Y
1
A
CG
ARG
12
A
CG
ARG
12
1
Y
1
A
CD
ARG
12
A
CD
ARG
12
1
Y
1
A
NE
ARG
12
A
NE
ARG
12
1
Y
1
A
CZ
ARG
12
A
CZ
ARG
12
1
Y
1
A
NH1
ARG
12
A
NH1
ARG
12
1
Y
1
A
NH2
ARG
12
A
NH2
ARG
12
1
Y
1
A
MET
1
A
MET
1
1
Y
1
A
ARG
4
-56.42
82.78
1
A
LEU
15
-147.44
-33.20
1
A
ARG
20
55.06
73.83
1
A
ASP
83
-160.85
63.00
1
A
PHE
99
-107.10
78.47
1
A
TRP
107
-172.87
140.16
1
A
LEU
115
-147.33
46.03
PROTEIN_REP.PARAM
PROTEIN.TOP
WATER_REP.PARAM
ION.PARAM
46.7
0.00
0.00
0.00
0.00
0.00
0.00
Freidel pairs were used in refinement.
0.218
0.007
0.196
0.196
2.50
45.16
1045
23348
21480
4.9
92.0
RANDOM
1
RESTRAINED
THROUGHOUT
0.0
0
SAD
Engh & Huber
FLAT MODEL
50.2691
0.339192
0.34
0.50
2.50
45.16
71
1084
1
0
1012
0.007
1.3
24.5
0.84
2.15
1.50
3.84
2.00
2.72
2.00
4.44
2.50
0.373
0.030
0.343
2.66
159
2984
6
5.1
80.4
13
2.5
50
1PF5
12174
11955
2.0
2.0
0.092
1
22.04
8.31
98.2
0.872
2.5
2.59
1.68
1197
1
5.0
99.5
refinement
CNS
0.9
data reduction
d*TREK
data scaling
HKL-2000
phasing
CNS
Structural Genomics, Protein YJGH
1
N
N
2
N
N
3
N
N
This protein exists as trimer which related by the crystallographic 3-fold axis.
The trimer form the beta barrel
A
ASP
48
A
ASP
48
HELX_P
A
ALA
66
A
ALA
66
1
1
19
A
THR
70
A
THR
70
HELX_P
A
ASP
72
A
ASP
72
5
2
3
A
ASP
83
A
ASP
83
HELX_P
A
ASN
86
A
ASN
86
5
3
4
A
GLN
87
A
GLN
87
HELX_P
A
PHE
99
A
PHE
99
1
4
13
metalc
2.733
A
CYS
69
A
SG
CYS
69
1_555
A
HG
132
B
HG
HG
1_555
metalc
3.388
A
ASP
73
A
OD2
ASP
73
1_555
A
HG
132
B
HG
HG
1_555
metalc
3.285
A
ARG
127
A
O
ARG
127
1_555
A
HG
132
B
HG
HG
1_555
STRUCTURAL GENOMICS, UNKNOWN FUNCTION
STRUCTURAL GENOMICS, BETA BARREL, PSI, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION
A
PRO
102
A
PRO
102
1
A
PRO
103
A
PRO
103
0.14
YJGH_ECOLI
UNP
1
1
P39332
MVERTAVFPAGRHSLYAEHRYSAAIRSGDLLFVSGQVGSREDGTPEPDFQQQVRLAFDNLHATLAAAGCTFDDIIDVTSF
HTDPENQFEDIMTVKNEIFSAPPYPNWTAVGVTWLAGFDFEIKVIARIPEQ
1
131
1PF5
1
131
P39332
A
1
1
131
6
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
A
THR
5
A
THR
5
A
VAL
7
A
VAL
7
A
ALA
24
A
ALA
24
A
SER
27
A
SER
27
A
LEU
30
A
LEU
30
A
GLN
36
A
GLN
36
A
PHE
120
A
PHE
120
A
ARG
127
A
ARG
127
A
ILE
74
A
ILE
74
A
HIS
81
A
HIS
81
A
THR
108
A
THR
108
A
GLY
111
A
GLY
111
BINDING SITE FOR RESIDUE HG A 132
A
HG
132
Software
3
A
CYS
69
A
CYS
69
3
1_555
A
ASP
73
A
ASP
73
3
1_555
A
ARG
127
A
ARG
127
3
1_555
199
I 21 3