0.012583
0.000000
0.008799
0.000000
0.018878
0.000000
0.000000
0.000000
0.022137
0.000000
0.000000
0.000000
Malashkevich, V.N.
Toro, R.
Meyer, A.J.
0000-0002-0254-4955
Sauder, J.M.
0000-0002-2487-9713
Burley, S.K.
Almo, S.C.
New York SGX Research Center for Structural Genomics (NYSGXRC)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.000
124.960
90.000
79.474
52.973
55.124
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
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
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
N
261
N
O
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
N
N
274
S
C
N
275
N
C
N
276
N
O
N
277
N
C
N
278
N
C
N
279
N
C
N
280
N
O
N
281
N
H
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
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
N
C
N
295
N
O
N
296
N
O
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
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
R
C
N
309
N
O
N
310
N
C
N
311
N
O
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
N
N
322
S
C
N
323
N
C
N
324
N
O
N
325
N
C
Y
326
N
C
Y
327
N
C
Y
328
N
C
Y
329
N
N
Y
330
N
C
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
334
N
C
N
335
N
O
N
336
N
H
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
N
N
349
S
C
N
350
N
C
N
351
N
O
N
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
Y
356
N
C
Y
357
N
C
Y
358
N
C
N
359
N
O
N
360
N
O
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
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
N
N
373
S
C
N
374
N
C
N
375
N
O
N
376
N
C
N
377
N
C
N
378
N
C
N
379
N
O
N
380
N
H
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
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
Crystal structure of an uncharacterized protein Q2BKU2 from Neptuniibacter caesariensis.
0000-0002-2487-9713
10.2210/pdb2rjn/pdb
pdb_00002rjn
100
1
X29
CCD
2007-10-11
ADSC QUANTUM 315
SINGLE WAVELENGTH
M
x-ray
1
0.97900
1.0
14.60
68890
0.059
2.37
2.000
50.000
19935
79.90
3.50
X29A
NSLS
0.97900
SYNCHROTRON
NSLS BEAMLINE X29A
17657.207
Response regulator receiver:Metal-dependent phosphohydrolase, HD subdomain
Residues 2-144
1
man
polymer
18.015
water
64
nat
water
no
no
MSLNYKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLVISDMRMPEMGGEVFLEQVAKSYPDI
ERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLAFLREENLRLQEETEAKNKQEGHHHHHH
MSLNYKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLVISDMRMPEMGGEVFLEQVAKSYPDI
ERVVISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLAFLREENLRLQEETEAKNKQEGHHHHHH
A
NYSGXRC-11008k
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
Neptuniibacter
MED92
Escherichia
sample
MED92_01309
207954
Neptuniibacter caesariensis
562
Escherichia coli
BL21(DE3)Codon+RIL
Plasmid
BC-pSGX3(BC)
1
2.69
54.32
VAPOR DIFFUSION, SITTING DROP
4 M Sodium formate, 0.01M Spermine tetrachloride, VAPOR DIFFUSION, SITTING DROP, temperature 294K
294
New York SGX Research Center for Structural Genomics
NYSGXRC
PSI, Protein Structure Initiative
software
audit_author
audit_author
citation_author
struct_ref_seq_dif
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Advisory
Version format compliance
Refinement description
Data collection
Structure summary
Database references
Structure summary
Data collection
Database references
1
0
2007-10-23
1
1
2011-07-13
1
2
2017-10-25
1
3
2018-11-14
1
4
2021-02-03
1
5
2024-02-21
_audit_author.identifier_ORCID
_audit_author.identifier_ORCID
_citation_author.identifier_ORCID
_struct_ref_seq_dif.details
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
Y
RCSB
Y
RCSB
2007-10-15
REL
REL
0.046
4.774
98.90
3.80
0.053
4.104
100.00
3.80
0.070
2.827
100.00
3.80
0.084
1.801
99.40
3.70
0.096
1.379
93.20
3.50
0.106
1.171
81.00
3.30
0.120
0.976
69.60
3.20
0.130
0.931
61.20
3.00
0.154
0.800
52.70
2.90
0.188
0.698
42.40
2.60
HOH
water
HOH
3
2
HOH
HOH
155
A
HOH
6
2
HOH
HOH
156
A
HOH
8
2
HOH
HOH
157
A
HOH
10
2
HOH
HOH
158
A
HOH
11
2
HOH
HOH
159
A
HOH
12
2
HOH
HOH
160
A
HOH
13
2
HOH
HOH
161
A
HOH
14
2
HOH
HOH
162
A
HOH
19
2
HOH
HOH
163
A
HOH
20
2
HOH
HOH
164
A
HOH
21
2
HOH
HOH
165
A
HOH
25
2
HOH
HOH
166
A
HOH
26
2
HOH
HOH
167
A
HOH
27
2
HOH
HOH
168
A
HOH
30
2
HOH
HOH
169
A
HOH
32
2
HOH
HOH
170
A
HOH
33
2
HOH
HOH
171
A
HOH
35
2
HOH
HOH
172
A
HOH
43
2
HOH
HOH
173
A
HOH
48
2
HOH
HOH
174
A
HOH
52
2
HOH
HOH
175
A
HOH
53
2
HOH
HOH
176
A
HOH
54
2
HOH
HOH
177
A
HOH
57
2
HOH
HOH
178
A
HOH
59
2
HOH
HOH
179
A
HOH
60
2
HOH
HOH
180
A
HOH
63
2
HOH
HOH
181
A
HOH
69
2
HOH
HOH
182
A
HOH
73
2
HOH
HOH
183
A
HOH
74
2
HOH
HOH
184
A
HOH
75
2
HOH
HOH
185
A
HOH
76
2
HOH
HOH
186
A
HOH
77
2
HOH
HOH
187
A
HOH
78
2
HOH
HOH
188
A
HOH
79
2
HOH
HOH
189
A
HOH
80
2
HOH
HOH
190
A
HOH
81
2
HOH
HOH
191
A
HOH
82
2
HOH
HOH
192
A
HOH
83
2
HOH
HOH
193
A
HOH
84
2
HOH
HOH
194
A
HOH
85
2
HOH
HOH
195
A
HOH
86
2
HOH
HOH
196
A
HOH
87
2
HOH
HOH
197
A
HOH
88
2
HOH
HOH
198
A
HOH
89
2
HOH
HOH
199
A
HOH
90
2
HOH
HOH
200
A
HOH
91
2
HOH
HOH
201
A
HOH
92
2
HOH
HOH
202
A
HOH
95
2
HOH
HOH
203
A
HOH
96
2
HOH
HOH
204
A
HOH
97
2
HOH
HOH
205
A
HOH
98
2
HOH
HOH
206
A
HOH
99
2
HOH
HOH
207
A
HOH
100
2
HOH
HOH
208
A
HOH
101
2
HOH
HOH
209
A
HOH
102
2
HOH
HOH
210
A
HOH
103
2
HOH
HOH
211
A
HOH
104
2
HOH
HOH
212
A
HOH
105
2
HOH
HOH
213
A
HOH
106
2
HOH
HOH
214
A
HOH
107
2
HOH
HOH
215
A
HOH
108
2
HOH
HOH
216
A
HOH
109
2
HOH
HOH
217
A
HOH
110
2
HOH
HOH
218
A
n
1
1
A
n
2
2
A
n
3
3
A
ASN
4
n
4
ASN
4
A
TYR
5
n
5
TYR
5
A
LYS
6
n
6
LYS
6
A
ASN
7
n
7
ASN
7
A
TYR
8
n
8
TYR
8
A
THR
9
n
9
THR
9
A
VAL
10
n
10
VAL
10
A
MET
11
n
11
MET
11
A
LEU
12
n
12
LEU
12
A
VAL
13
n
13
VAL
13
A
ASP
14
n
14
ASP
14
A
ASP
15
n
15
ASP
15
A
GLU
16
n
16
GLU
16
A
GLN
17
n
17
GLN
17
A
PRO
18
n
18
PRO
18
A
ILE
19
n
19
ILE
19
A
LEU
20
n
20
LEU
20
A
ASN
21
n
21
ASN
21
A
SER
22
n
22
SER
22
A
LEU
23
n
23
LEU
23
A
LYS
24
n
24
LYS
24
A
ARG
25
n
25
ARG
25
A
LEU
26
n
26
LEU
26
A
ILE
27
n
27
ILE
27
A
LYS
28
n
28
LYS
28
A
ARG
29
n
29
ARG
29
A
LEU
30
n
30
LEU
30
A
GLY
31
n
31
GLY
31
A
CYS
32
n
32
CYS
32
A
ASN
33
n
33
ASN
33
A
ILE
34
n
34
ILE
34
A
ILE
35
n
35
ILE
35
A
THR
36
n
36
THR
36
A
PHE
37
n
37
PHE
37
A
THR
38
n
38
THR
38
A
SER
39
n
39
SER
39
A
PRO
40
n
40
PRO
40
A
LEU
41
n
41
LEU
41
A
ASP
42
n
42
ASP
42
A
ALA
43
n
43
ALA
43
A
LEU
44
n
44
LEU
44
A
GLU
45
n
45
GLU
45
A
ALA
46
n
46
ALA
46
A
LEU
47
n
47
LEU
47
A
LYS
48
n
48
LYS
48
A
GLY
49
n
49
GLY
49
A
THR
50
n
50
THR
50
A
SER
51
n
51
SER
51
A
VAL
52
n
52
VAL
52
A
GLN
53
n
53
GLN
53
A
LEU
54
n
54
LEU
54
A
VAL
55
n
55
VAL
55
A
ILE
56
n
56
ILE
56
A
SER
57
n
57
SER
57
A
ASP
58
n
58
ASP
58
A
MET
59
n
59
MET
59
A
ARG
60
n
60
ARG
60
A
MET
61
n
61
MET
61
A
PRO
62
n
62
PRO
62
A
GLU
63
n
63
GLU
63
A
MET
64
n
64
MET
64
A
GLY
65
n
65
GLY
65
A
GLY
66
n
66
GLY
66
A
GLU
67
n
67
GLU
67
A
VAL
68
n
68
VAL
68
A
PHE
69
n
69
PHE
69
A
LEU
70
n
70
LEU
70
A
GLU
71
n
71
GLU
71
A
GLN
72
n
72
GLN
72
A
VAL
73
n
73
VAL
73
A
ALA
74
n
74
ALA
74
A
LYS
75
n
75
LYS
75
A
SER
76
n
76
SER
76
A
TYR
77
n
77
TYR
77
A
PRO
78
n
78
PRO
78
A
ASP
79
n
79
ASP
79
A
ILE
80
n
80
ILE
80
A
GLU
81
n
81
GLU
81
A
ARG
82
n
82
ARG
82
A
VAL
83
n
83
VAL
83
A
VAL
84
n
84
VAL
84
A
ILE
85
n
85
ILE
85
A
SER
86
n
86
SER
86
A
GLY
87
n
87
GLY
87
A
TYR
88
n
88
TYR
88
A
ALA
89
n
89
ALA
89
A
ASP
90
n
90
ASP
90
A
ALA
91
n
91
ALA
91
A
GLN
92
n
92
GLN
92
A
ALA
93
n
93
ALA
93
A
THR
94
n
94
THR
94
A
ILE
95
n
95
ILE
95
A
ASP
96
n
96
ASP
96
A
ALA
97
n
97
ALA
97
A
VAL
98
n
98
VAL
98
A
ASN
99
n
99
ASN
99
A
ARG
100
n
100
ARG
100
A
GLY
101
n
101
GLY
101
A
LYS
102
n
102
LYS
102
A
ILE
103
n
103
ILE
103
A
SER
104
n
104
SER
104
A
ARG
105
n
105
ARG
105
A
PHE
106
n
106
PHE
106
A
LEU
107
n
107
LEU
107
A
LEU
108
n
108
LEU
108
A
LYS
109
n
109
LYS
109
A
PRO
110
n
110
PRO
110
A
TRP
111
n
111
TRP
111
A
GLU
112
n
112
GLU
112
A
ASP
113
n
113
ASP
113
A
GLU
114
n
114
GLU
114
A
ASP
115
n
115
ASP
115
A
VAL
116
n
116
VAL
116
A
PHE
117
n
117
PHE
117
A
LYS
118
n
118
LYS
118
A
VAL
119
n
119
VAL
119
A
VAL
120
n
120
VAL
120
A
GLU
121
n
121
GLU
121
A
LYS
122
n
122
LYS
122
A
GLY
123
n
123
GLY
123
A
LEU
124
n
124
LEU
124
A
GLN
125
n
125
GLN
125
A
LEU
126
n
126
LEU
126
A
ALA
127
n
127
ALA
127
A
PHE
128
n
128
PHE
128
A
LEU
129
n
129
LEU
129
A
ARG
130
n
130
ARG
130
A
GLU
131
n
131
GLU
131
A
GLU
132
n
132
GLU
132
A
ASN
133
n
133
ASN
133
A
LEU
134
n
134
LEU
134
A
ARG
135
n
135
ARG
135
A
LEU
136
n
136
LEU
136
A
GLN
137
n
137
GLN
137
A
GLU
138
n
138
GLU
138
A
n
139
139
A
n
140
140
A
n
141
141
A
n
142
142
A
n
143
143
A
n
144
144
A
n
145
145
A
n
146
146
A
n
147
147
A
n
148
148
A
n
149
149
A
n
150
150
A
n
151
151
A
n
152
152
A
n
153
153
A
n
154
154
A
1.9996
-0.0959
0.5858
4.3592
-0.1243
6.1434
0.0077
0.0076
0.0441
-0.3241
-0.0435
0.3447
0.0147
-0.7191
0.0358
-0.1617
-0.0052
-0.0095
-0.0738
-0.0040
-0.0947
refined
-0.8908
21.1673
31.9980
X-RAY DIFFRACTION
A
4
A
4
A
138
A
138
X-RAY DIFFRACTION
1
software_defined_assembly
PISA
1
monomeric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
O
ILE
35
A
O
ILE
35
A
N
LEU
12
A
N
LEU
12
A
N
MET
11
A
N
MET
11
A
O
LEU
54
A
O
LEU
54
A
N
VAL
55
A
N
VAL
55
A
O
GLU
81
A
O
GLU
81
A
N
VAL
84
A
N
VAL
84
A
O
LEU
107
A
O
LEU
107
1
A
HOH
188
B
HOH
1
A
MET
1
A
MET
1
1
Y
1
A
SER
2
A
SER
2
1
Y
1
A
LEU
3
A
LEU
3
1
Y
1
A
GLU
139
A
GLU
139
1
Y
1
A
THR
140
A
THR
140
1
Y
1
A
GLU
141
A
GLU
141
1
Y
1
A
ALA
142
A
ALA
142
1
Y
1
A
LYS
143
A
LYS
143
1
Y
1
A
ASN
144
A
ASN
144
1
Y
1
A
LYS
145
A
LYS
145
1
Y
1
A
GLN
146
A
GLN
146
1
Y
1
A
GLU
147
A
GLU
147
1
Y
1
A
GLY
148
A
GLY
148
1
Y
1
A
HIS
149
A
HIS
149
1
Y
1
A
HIS
150
A
HIS
150
1
Y
1
A
HIS
151
A
HIS
151
1
Y
1
A
HIS
152
A
HIS
152
1
Y
1
A
HIS
153
A
HIS
153
1
Y
1
A
HIS
154
A
HIS
154
1
Y
1
A
A
NH1
O
ARG
HOH
130
190
2.13
1
A
A
N
O
GLU
HOH
63
161
2.16
1
A
A
LYS
ASN
6
7
147.91
1
-6.33
0.50
120.30
113.97
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
130
130
130
N
1
4.75
0.50
120.30
125.05
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
130
130
130
N
1
A
A
C
O
GLU
GLU
138
138
0.276
0.019
1.229
1.505
N
1
A
TYR
5
-127.68
-158.61
1
A
LYS
6
-68.93
63.69
1
A
LEU
134
79.02
-11.23
39.612
-0.330
0.000
-0.930
-0.520
0.000
-0.210
0.956
0.921
The Bijvoet differences were used in phasing. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.236
0.185
0.187
2.100
19.230
481
9628
5.000
100.000
9.360
0.116
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
0.00
SAD
0.197
0.178
0.800
0.800
1.200
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
2.100
19.230
64
1142
0
0
1078
0.020
0.022
1093
1.867
1.991
1475
6.982
5.000
134
41.755
24.902
51
19.235
15.000
210
14.405
15.000
8
0.130
0.200
171
0.007
0.020
805
0.226
0.200
493
0.313
0.200
741
0.222
0.200
63
0.245
0.200
45
0.233
0.200
9
1.702
1.500
689
4.835
20.000
1089
9.877
20.000
447
5.684
4.500
386
0.297
0.194
2.154
22
432
454
20
100.000
2.000
50.000
2RJN
19935
0.059
2.372
1
14.600
3.500
79.900
0.188
2.00
2.07
1061
0.698
1
2.60
42.40
0.154
2.07
2.15
1308
0.800
1
2.90
52.70
0.130
2.15
2.25
1521
0.931
1
3.00
61.20
0.120
2.25
2.37
1737
0.976
1
3.20
69.60
0.106
2.37
2.52
2041
1.171
1
3.30
81.00
0.096
2.52
2.71
2285
1.379
1
3.50
93.20
0.084
2.71
2.99
2529
1.801
1
3.70
99.40
0.070
2.99
3.42
2491
2.827
1
3.80
100.00
0.053
3.42
4.31
2481
4.104
1
3.80
100.00
0.046
4.31
50.00
2481
4.774
1
3.80
98.90
data reduction
Zbyszek Otwinowski
zbyszek@mix.swmed.edu
http://www.lnls.br/infra/linhasluz/denzo-hkl.htm
DENZO
package
data scaling
Zbyszek Otwinowski
zbyszek@mix.swmed.edu
http://www.lnls.br/infra/linhasluz/denzo-hkl.htm
SCALEPACK
package
phasing
George Sheldrick
gsheldr@shelx.uni-ac.gwdg.de
Fortran_77
http://shelx.uni-ac.gwdg.de/SHELX/
SHELX
package
refinement
Murshudov, G.N.
ccp4@dl.ac.uk
Fortran_77
http://www.ccp4.ac.uk/main.html
REFMAC
program
data extraction
PDB
sw-help@rcsb.rutgers.edu
July 2, 2007
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
3.000
data collection
CBASS
phasing
SHELXD
Crystal structure of an uncharacterized protein Q2BKU2 from Neptuniibacter caesariensis
1
N
N
2
N
N
Authors state that the biological unit is unknown.
A
GLU
16
A
GLU
16
HELX_P
A
ARG
29
A
ARG
29
1
1
14
A
SER
39
A
SER
39
HELX_P
A
LYS
48
A
LYS
48
1
2
10
A
GLY
65
A
GLY
65
HELX_P
A
TYR
77
A
TYR
77
1
3
13
A
GLY
87
A
GLY
87
HELX_P
A
ALA
89
A
ALA
89
5
4
3
A
ASP
90
A
ASP
90
HELX_P
A
ARG
100
A
ARG
100
1
5
11
A
GLU
112
A
GLU
112
HELX_P
A
ASN
133
A
ASN
133
1
6
22
HYDROLASE
STRUCTURAL GENOMICS, Oceanospirillum sp. MED92, Neptuniibacter caesariensis, PSI-2, PROTEIN STRUCTURE INITIATIVE, New York SGX Research Center for Structural Genomics, NYSGXRC, Hydrolase
A
LYS
109
A
LYS
109
1
A
PRO
110
A
PRO
110
0.78
Q2BKU2_9GAMM
UNP
1
2
Q2BKU2
NYKNYTVMLVDDEQPILNSLKRLIKRLGCNIITFTSPLDALEALKGTSVQLVISDMRMPEMGGEVFLEQVAKSYPDIERV
VISGYADAQATIDAVNRGKISRFLLKPWEDEDVFKVVEKGLQLAFLREENLRLQEETEAKNKQ
2
144
2RJN
4
146
Q2BKU2
A
1
4
146
1
expression tag
MET
1
2RJN
A
Q2BKU2
UNP
1
1
expression tag
SER
2
2RJN
A
Q2BKU2
UNP
2
1
expression tag
LEU
3
2RJN
A
Q2BKU2
UNP
3
1
expression tag
GLU
147
2RJN
A
Q2BKU2
UNP
147
1
expression tag
GLY
148
2RJN
A
Q2BKU2
UNP
148
1
expression tag
HIS
149
2RJN
A
Q2BKU2
UNP
149
1
expression tag
HIS
150
2RJN
A
Q2BKU2
UNP
150
1
expression tag
HIS
151
2RJN
A
Q2BKU2
UNP
151
1
expression tag
HIS
152
2RJN
A
Q2BKU2
UNP
152
1
expression tag
HIS
153
2RJN
A
Q2BKU2
UNP
153
1
expression tag
HIS
154
2RJN
A
Q2BKU2
UNP
154
5
parallel
parallel
parallel
parallel
A
ASN
33
A
ASN
33
A
PHE
37
A
PHE
37
A
THR
9
A
THR
9
A
VAL
13
A
VAL
13
A
LEU
54
A
LEU
54
A
ASP
58
A
ASP
58
A
GLU
81
A
GLU
81
A
SER
86
A
SER
86
A
ARG
105
A
ARG
105
A
LEU
108
A
LEU
108
5
C 1 2 1