0.018318
0.010576
0.000000
0.000000
0.021152
0.000000
0.000000
0.000000
0.012041
0.00000
0.00000
0.00000
Leveles, I.
Harmat, V.
Pecsi, I.
Lopata, A.
Vertessy, B.G.
Toth, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
54.591
54.591
83.051
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
C9 H16 N3 O13 P3
467.157
2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
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
Mg 2
24.305
MAGNESIUM ION
non-polymer
Mn 2
54.938
MANGANESE (II) ION
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
C4 H12 N O3 1
122.143
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER
non-polymer
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
O
Y
75
N
C
Y
76
N
C
Y
77
N
C
Y
78
N
N
Y
79
N
C
N
80
N
O
Y
81
N
N
N
82
R
C
N
83
N
C
N
84
S
C
N
85
N
O
N
86
N
O
N
87
R
C
N
88
N
C
N
89
N
O
N
90
S
P
N
91
N
O
N
92
N
O
N
93
N
N
N
94
R
P
N
95
N
O
N
96
N
O
N
97
N
O
N
98
N
P
N
99
N
O
N
100
N
O
N
101
N
O
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
N
N
119
S
C
N
120
N
C
N
121
N
O
N
122
N
C
N
123
N
C
N
124
N
C
N
125
N
O
N
126
N
N
N
127
N
O
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
N
N
139
S
C
N
140
N
C
N
141
N
O
N
142
N
C
N
143
N
C
N
144
N
C
N
145
N
O
N
146
N
O
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
N
N
158
N
C
N
159
N
C
N
160
N
O
N
161
N
O
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
C
N
168
N
O
N
169
N
C
N
170
N
O
N
171
N
C
N
172
N
O
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
N
N
182
S
C
N
183
N
C
N
184
N
O
N
185
N
C
Y
186
N
C
Y
187
N
N
Y
188
N
C
Y
189
N
C
Y
190
N
N
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
O
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
S
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
O
N
214
N
H
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
N
N
228
S
C
N
229
N
C
N
230
N
O
N
231
N
C
N
232
N
C
N
233
N
C
N
234
N
C
N
235
N
O
N
236
N
H
N
237
N
H
N
238
N
H
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
N
N
250
S
C
N
251
N
C
N
252
N
O
N
253
N
C
N
254
N
C
N
255
N
C
N
256
N
C
N
257
N
N
N
258
N
O
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
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
S
N
281
N
C
N
282
N
O
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
H
N
294
N
MG
N
295
N
MN
N
296
N
N
N
297
S
C
N
298
N
C
N
299
N
O
N
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
Y
306
N
C
N
307
N
O
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
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
N
N
320
S
C
N
321
N
C
N
322
N
O
N
323
N
C
N
324
N
C
N
325
N
C
N
326
N
O
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
N
N
337
S
C
N
338
N
C
N
339
N
O
N
340
N
C
N
341
N
O
N
342
N
O
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
H
N
350
N
N
N
351
S
C
N
352
N
C
N
353
N
O
N
354
R
C
N
355
N
O
N
356
N
C
N
357
N
O
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
C
N
368
N
C
N
369
N
C
N
370
N
C
N
371
N
N
N
372
N
O
N
373
N
O
N
374
N
O
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
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
N
N
388
S
C
N
389
N
C
N
390
N
O
N
391
N
C
Y
392
N
C
Y
393
N
C
Y
394
N
C
Y
395
N
C
Y
396
N
C
Y
397
N
C
N
398
N
O
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
411
N
N
N
412
S
C
N
413
N
C
N
414
N
O
N
415
N
C
N
416
N
C
N
417
N
C
N
418
N
O
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
N
428
N
H
N
429
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
doub
Y
71
N
sing
Y
72
N
sing
Y
73
N
doub
N
74
N
sing
Y
75
N
sing
N
76
N
sing
Y
77
N
sing
N
78
N
sing
N
79
N
doub
Y
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
doub
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
doub
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
doub
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
doub
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
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
sing
N
180
N
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
Y
185
N
sing
Y
186
N
doub
Y
187
N
doub
N
188
N
sing
Y
189
N
sing
N
190
N
sing
Y
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
sing
N
201
N
sing
N
202
N
sing
N
203
N
doub
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
sing
N
244
N
sing
N
245
N
doub
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
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
doub
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
doub
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
Y
293
N
doub
Y
294
N
sing
Y
295
N
sing
N
296
N
sing
Y
297
N
doub
N
298
N
sing
Y
299
N
doub
N
300
N
sing
Y
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
doub
N
312
N
sing
N
313
N
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
doub
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
doub
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
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
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
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
N
376
N
doub
N
377
N
sing
N
378
N
sing
N
379
N
sing
N
380
N
sing
Y
381
N
doub
Y
382
N
sing
Y
383
N
sing
N
384
N
sing
Y
385
N
doub
N
386
N
sing
Y
387
N
doub
N
388
N
sing
Y
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
doub
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
sing
N
405
N
sing
N
406
N
sing
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
38
7179
7186
10.1093/nar/gkq584
20601405
Aromatic stacking between nucleobase and enzyme promotes phosphate ester hydrolysis in dUTPase
2010
10.2210/pdb3loj/pdb
pdb_00003loj
100
1
mirrors
CCD
2009-12-07
MARMOSAIC 325 mm CCD
Double crystal Si[111]
SINGLE WAVELENGTH
M
x-ray
1
0.9769
1.0
X12
EMBL/DESY, HAMBURG
0.9769
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE X12
17925.246
Deoxyuridine 5'-triphosphate nucleotidohydrolase
3.6.1.23
H145A
1
man
polymer
467.157
2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
1
syn
non-polymer
92.094
GLYCEROL
2
syn
non-polymer
122.143
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
1
syn
non-polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
54.938
MANGANESE (II) ION
1
syn
non-polymer
18.015
water
198
nat
water
dUTPase, dUTP pyrophosphatase
no
no
MGSSHHHHHHSSGLVPRGSHMSTTLAIVRLDPGLPLPSRAHDGDAGVDLYSAEDVELAPGRRALVRTGVAVAVPFGMVGL
VHPRSGLATRVGLSIVNSPGTIDAGYRGEIKVALINLDPAAPIVVHRGDRIAQLLVQRVELVELVEVSSFDEAGLASTSR
GDGGAGSSGGHASL
MGSSHHHHHHSSGLVPRGSHMSTTLAIVRLDPGLPLPSRAHDGDAGVDLYSAEDVELAPGRRALVRTGVAVAVPFGMVGL
VHPRSGLATRVGLSIVNSPGTIDAGYRGEIKVALINLDPAAPIVVHRGDRIAQLLVQRVELVELVEVSSFDEAGLASTSR
GDGGAGSSGGHASL
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
sample
dut, MT2771, MTCY05A6.18c, Rv2697c
1773
Mycobacterium tuberculosis
562
Escherichia coli
BL21 (DE3)
plasmid
pET
1
1.99
38.28
VAPOR DIFFUSION, HANGING DROP
7.5
Ammonium Sulphate, Tris-HCl, Glycerol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
pdbx_unobs_or_zero_occ_atoms
software
chem_comp_atom
chem_comp_bond
database_2
diffrn_source
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Database references
Advisory
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2010-08-11
1
1
2011-07-13
1
2
2014-02-12
1
3
2017-11-01
1
4
2023-11-01
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_diffrn_source.pdbx_synchrotron_site
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr2_label_alt_id
_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.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_symmetry
_struct_conn_type.id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
mutation at the same aminoacid position
RCSB
Y
PDBJ
2010-02-04
REL
REL
DUP
2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE
GOL
GLYCEROL
TRS
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
MG
MAGNESIUM ION
MN
MANGANESE (II) ION
HOH
water
2PY4
PDB ENTRY 2PY4
PDB
experimental model
DUP
201
2
DUP
DUP
201
A
GOL
202
3
GOL
GOL
202
A
GOL
203
3
GOL
GOL
203
A
TRS
204
4
TRS
TRS
204
A
MG
155
5
MG
MG
155
A
MN
156
6
MN
MN
156
A
HOH
157
7
HOH
HOH
157
A
HOH
158
7
HOH
HOH
158
A
HOH
159
7
HOH
HOH
159
A
HOH
160
7
HOH
HOH
160
A
HOH
161
7
HOH
HOH
161
A
HOH
162
7
HOH
HOH
162
A
HOH
163
7
HOH
HOH
163
A
HOH
164
7
HOH
HOH
164
A
HOH
165
7
HOH
HOH
165
A
HOH
166
7
HOH
HOH
166
A
HOH
167
7
HOH
HOH
167
A
HOH
168
7
HOH
HOH
168
A
HOH
169
7
HOH
HOH
169
A
HOH
170
7
HOH
HOH
170
A
HOH
171
7
HOH
HOH
171
A
HOH
172
7
HOH
HOH
172
A
HOH
173
7
HOH
HOH
173
A
HOH
174
7
HOH
HOH
174
A
HOH
175
7
HOH
HOH
175
A
HOH
176
7
HOH
HOH
176
A
HOH
177
7
HOH
HOH
177
A
HOH
178
7
HOH
HOH
178
A
HOH
179
7
HOH
HOH
179
A
HOH
180
7
HOH
HOH
180
A
HOH
181
7
HOH
HOH
181
A
HOH
182
7
HOH
HOH
182
A
HOH
183
7
HOH
HOH
183
A
HOH
184
7
HOH
HOH
184
A
HOH
185
7
HOH
HOH
185
A
HOH
186
7
HOH
HOH
186
A
HOH
187
7
HOH
HOH
187
A
HOH
188
7
HOH
HOH
188
A
HOH
189
7
HOH
HOH
189
A
HOH
190
7
HOH
HOH
190
A
HOH
191
7
HOH
HOH
191
A
HOH
192
7
HOH
HOH
192
A
HOH
194
7
HOH
HOH
194
A
HOH
195
7
HOH
HOH
195
A
HOH
196
7
HOH
HOH
196
A
HOH
197
7
HOH
HOH
197
A
HOH
198
7
HOH
HOH
198
A
HOH
199
7
HOH
HOH
199
A
HOH
200
7
HOH
HOH
200
A
HOH
205
7
HOH
HOH
205
A
HOH
206
7
HOH
HOH
206
A
HOH
207
7
HOH
HOH
207
A
HOH
208
7
HOH
HOH
208
A
HOH
209
7
HOH
HOH
209
A
HOH
210
7
HOH
HOH
210
A
HOH
211
7
HOH
HOH
211
A
HOH
212
7
HOH
HOH
212
A
HOH
213
7
HOH
HOH
213
A
HOH
214
7
HOH
HOH
214
A
HOH
215
7
HOH
HOH
215
A
HOH
216
7
HOH
HOH
216
A
HOH
217
7
HOH
HOH
217
A
HOH
218
7
HOH
HOH
218
A
HOH
219
7
HOH
HOH
219
A
HOH
220
7
HOH
HOH
220
A
HOH
221
7
HOH
HOH
221
A
HOH
222
7
HOH
HOH
222
A
HOH
223
7
HOH
HOH
223
A
HOH
224
7
HOH
HOH
224
A
HOH
225
7
HOH
HOH
225
A
HOH
226
7
HOH
HOH
226
A
HOH
227
7
HOH
HOH
227
A
HOH
228
7
HOH
HOH
228
A
HOH
229
7
HOH
HOH
229
A
HOH
230
7
HOH
HOH
230
A
HOH
231
7
HOH
HOH
231
A
HOH
232
7
HOH
HOH
232
A
HOH
233
7
HOH
HOH
233
A
HOH
234
7
HOH
HOH
234
A
HOH
235
7
HOH
HOH
235
A
HOH
236
7
HOH
HOH
236
A
HOH
237
7
HOH
HOH
237
A
HOH
238
7
HOH
HOH
238
A
HOH
239
7
HOH
HOH
239
A
HOH
240
7
HOH
HOH
240
A
HOH
241
7
HOH
HOH
241
A
HOH
242
7
HOH
HOH
242
A
HOH
243
7
HOH
HOH
243
A
HOH
244
7
HOH
HOH
244
A
HOH
245
7
HOH
HOH
245
A
HOH
246
7
HOH
HOH
246
A
HOH
247
7
HOH
HOH
247
A
HOH
248
7
HOH
HOH
248
A
HOH
250
7
HOH
HOH
250
A
HOH
251
7
HOH
HOH
251
A
HOH
252
7
HOH
HOH
252
A
HOH
253
7
HOH
HOH
253
A
HOH
254
7
HOH
HOH
254
A
HOH
255
7
HOH
HOH
255
A
HOH
256
7
HOH
HOH
256
A
HOH
257
7
HOH
HOH
257
A
HOH
258
7
HOH
HOH
258
A
HOH
259
7
HOH
HOH
259
A
HOH
260
7
HOH
HOH
260
A
HOH
261
7
HOH
HOH
261
A
HOH
262
7
HOH
HOH
262
A
HOH
263
7
HOH
HOH
263
A
HOH
264
7
HOH
HOH
264
A
HOH
265
7
HOH
HOH
265
A
HOH
266
7
HOH
HOH
266
A
HOH
267
7
HOH
HOH
267
A
HOH
268
7
HOH
HOH
268
A
HOH
269
7
HOH
HOH
269
A
HOH
270
7
HOH
HOH
270
A
HOH
271
7
HOH
HOH
271
A
HOH
272
7
HOH
HOH
272
A
HOH
273
7
HOH
HOH
273
A
HOH
274
7
HOH
HOH
274
A
HOH
275
7
HOH
HOH
275
A
HOH
276
7
HOH
HOH
276
A
HOH
277
7
HOH
HOH
277
A
HOH
278
7
HOH
HOH
278
A
HOH
279
7
HOH
HOH
279
A
HOH
280
7
HOH
HOH
280
A
HOH
281
7
HOH
HOH
281
A
HOH
282
7
HOH
HOH
282
A
HOH
283
7
HOH
HOH
283
A
HOH
284
7
HOH
HOH
284
A
HOH
285
7
HOH
HOH
285
A
HOH
286
7
HOH
HOH
286
A
HOH
287
7
HOH
HOH
287
A
HOH
288
7
HOH
HOH
288
A
HOH
289
7
HOH
HOH
289
A
HOH
290
7
HOH
HOH
290
A
HOH
291
7
HOH
HOH
291
A
HOH
292
7
HOH
HOH
292
A
HOH
293
7
HOH
HOH
293
A
HOH
294
7
HOH
HOH
294
A
HOH
295
7
HOH
HOH
295
A
HOH
296
7
HOH
HOH
296
A
HOH
297
7
HOH
HOH
297
A
HOH
298
7
HOH
HOH
298
A
HOH
299
7
HOH
HOH
299
A
HOH
300
7
HOH
HOH
300
A
HOH
301
7
HOH
HOH
301
A
HOH
302
7
HOH
HOH
302
A
HOH
303
7
HOH
HOH
303
A
HOH
304
7
HOH
HOH
304
A
HOH
305
7
HOH
HOH
305
A
HOH
306
7
HOH
HOH
306
A
HOH
307
7
HOH
HOH
307
A
HOH
308
7
HOH
HOH
308
A
HOH
309
7
HOH
HOH
309
A
HOH
311
7
HOH
HOH
311
A
HOH
312
7
HOH
HOH
312
A
HOH
313
7
HOH
HOH
313
A
HOH
314
7
HOH
HOH
314
A
HOH
315
7
HOH
HOH
315
A
HOH
316
7
HOH
HOH
316
A
HOH
317
7
HOH
HOH
317
A
HOH
318
7
HOH
HOH
318
A
HOH
319
7
HOH
HOH
319
A
HOH
320
7
HOH
HOH
320
A
HOH
321
7
HOH
HOH
321
A
HOH
322
7
HOH
HOH
322
A
HOH
323
7
HOH
HOH
323
A
HOH
324
7
HOH
HOH
324
A
HOH
325
7
HOH
HOH
325
A
HOH
326
7
HOH
HOH
326
A
HOH
327
7
HOH
HOH
327
A
HOH
328
7
HOH
HOH
328
A
HOH
329
7
HOH
HOH
329
A
HOH
330
7
HOH
HOH
330
A
HOH
331
7
HOH
HOH
331
A
HOH
332
7
HOH
HOH
332
A
HOH
333
7
HOH
HOH
333
A
HOH
334
7
HOH
HOH
334
A
HOH
335
7
HOH
HOH
335
A
HOH
336
7
HOH
HOH
336
A
HOH
337
7
HOH
HOH
337
A
HOH
338
7
HOH
HOH
338
A
HOH
339
7
HOH
HOH
339
A
HOH
340
7
HOH
HOH
340
A
HOH
341
7
HOH
HOH
341
A
HOH
342
7
HOH
HOH
342
A
HOH
343
7
HOH
HOH
343
A
HOH
344
7
HOH
HOH
344
A
HOH
345
7
HOH
HOH
345
A
HOH
346
7
HOH
HOH
346
A
HOH
347
7
HOH
HOH
347
A
HOH
348
7
HOH
HOH
348
A
HOH
349
7
HOH
HOH
349
A
HOH
350
7
HOH
HOH
350
A
HOH
352
7
HOH
HOH
352
A
HOH
353
7
HOH
HOH
353
A
HOH
354
7
HOH
HOH
354
A
HOH
355
7
HOH
HOH
355
A
HOH
356
7
HOH
HOH
356
A
HOH
357
7
HOH
HOH
357
A
HOH
358
7
HOH
HOH
358
A
HOH
359
7
HOH
HOH
359
A
HOH
360
7
HOH
HOH
360
A
HOH
361
7
HOH
HOH
361
A
HOH
362
7
HOH
HOH
362
A
n
1
-19
A
n
2
-18
A
n
3
-17
A
n
4
-16
A
n
5
-15
A
n
6
-14
A
n
7
-13
A
n
8
-12
A
n
9
-11
A
n
10
-10
A
n
11
-9
A
n
12
-8
A
GLY
-7
n
13
GLY
-7
A
LEU
-6
n
14
LEU
-6
A
VAL
-5
n
15
VAL
-5
A
PRO
-4
n
16
PRO
-4
A
n
17
-3
A
n
18
-2
A
SER
-1
n
19
SER
-1
A
HIS
0
n
20
HIS
0
A
MET
1
n
21
MET
1
A
SER
2
n
22
SER
2
A
THR
3
n
23
THR
3
A
THR
4
n
24
THR
4
A
LEU
5
n
25
LEU
5
A
ALA
6
n
26
ALA
6
A
ILE
7
n
27
ILE
7
A
VAL
8
n
28
VAL
8
A
ARG
9
n
29
ARG
9
A
LEU
10
n
30
LEU
10
A
ASP
11
n
31
ASP
11
A
PRO
12
n
32
PRO
12
A
GLY
13
n
33
GLY
13
A
LEU
14
n
34
LEU
14
A
PRO
15
n
35
PRO
15
A
LEU
16
n
36
LEU
16
A
PRO
17
n
37
PRO
17
A
SER
18
n
38
SER
18
A
ARG
19
n
39
ARG
19
A
ALA
20
n
40
ALA
20
A
HIS
21
n
41
HIS
21
A
ASP
22
n
42
ASP
22
A
GLY
23
n
43
GLY
23
A
ASP
24
n
44
ASP
24
A
ALA
25
n
45
ALA
25
A
GLY
26
n
46
GLY
26
A
VAL
27
n
47
VAL
27
A
ASP
28
n
48
ASP
28
A
LEU
29
n
49
LEU
29
A
TYR
30
n
50
TYR
30
A
SER
31
n
51
SER
31
A
ALA
32
n
52
ALA
32
A
GLU
33
n
53
GLU
33
A
ASP
34
n
54
ASP
34
A
VAL
35
n
55
VAL
35
A
GLU
36
n
56
GLU
36
A
LEU
37
n
57
LEU
37
A
ALA
38
n
58
ALA
38
A
PRO
39
n
59
PRO
39
A
GLY
40
n
60
GLY
40
A
ARG
41
n
61
ARG
41
A
ARG
42
n
62
ARG
42
A
ALA
43
n
63
ALA
43
A
LEU
44
n
64
LEU
44
A
VAL
45
n
65
VAL
45
A
ARG
46
n
66
ARG
46
A
THR
47
n
67
THR
47
A
GLY
48
n
68
GLY
48
A
VAL
49
n
69
VAL
49
A
ALA
50
n
70
ALA
50
A
VAL
51
n
71
VAL
51
A
ALA
52
n
72
ALA
52
A
VAL
53
n
73
VAL
53
A
PRO
54
n
74
PRO
54
A
PHE
55
n
75
PHE
55
A
GLY
56
n
76
GLY
56
A
MET
57
n
77
MET
57
A
VAL
58
n
78
VAL
58
A
GLY
59
n
79
GLY
59
A
LEU
60
n
80
LEU
60
A
VAL
61
n
81
VAL
61
A
HIS
62
n
82
HIS
62
A
PRO
63
n
83
PRO
63
A
ARG
64
n
84
ARG
64
A
SER
65
n
85
SER
65
A
GLY
66
n
86
GLY
66
A
LEU
67
n
87
LEU
67
A
ALA
68
n
88
ALA
68
A
THR
69
n
89
THR
69
A
ARG
70
n
90
ARG
70
A
VAL
71
n
91
VAL
71
A
GLY
72
n
92
GLY
72
A
LEU
73
n
93
LEU
73
A
SER
74
n
94
SER
74
A
ILE
75
n
95
ILE
75
A
VAL
76
n
96
VAL
76
A
ASN
77
n
97
ASN
77
A
SER
78
n
98
SER
78
A
PRO
79
n
99
PRO
79
A
GLY
80
n
100
GLY
80
A
THR
81
n
101
THR
81
A
ILE
82
n
102
ILE
82
A
ASP
83
n
103
ASP
83
A
ALA
84
n
104
ALA
84
A
GLY
85
n
105
GLY
85
A
TYR
86
n
106
TYR
86
A
ARG
87
n
107
ARG
87
A
GLY
88
n
108
GLY
88
A
GLU
89
n
109
GLU
89
A
ILE
90
n
110
ILE
90
A
LYS
91
n
111
LYS
91
A
VAL
92
n
112
VAL
92
A
ALA
93
n
113
ALA
93
A
LEU
94
n
114
LEU
94
A
ILE
95
n
115
ILE
95
A
ASN
96
n
116
ASN
96
A
LEU
97
n
117
LEU
97
A
ASP
98
n
118
ASP
98
A
PRO
99
n
119
PRO
99
A
ALA
100
n
120
ALA
100
A
ALA
101
n
121
ALA
101
A
PRO
102
n
122
PRO
102
A
ILE
103
n
123
ILE
103
A
VAL
104
n
124
VAL
104
A
VAL
105
n
125
VAL
105
A
HIS
106
n
126
HIS
106
A
ARG
107
n
127
ARG
107
A
GLY
108
n
128
GLY
108
A
ASP
109
n
129
ASP
109
A
ARG
110
n
130
ARG
110
A
ILE
111
n
131
ILE
111
A
ALA
112
n
132
ALA
112
A
GLN
113
n
133
GLN
113
A
LEU
114
n
134
LEU
114
A
LEU
115
n
135
LEU
115
A
VAL
116
n
136
VAL
116
A
GLN
117
n
137
GLN
117
A
ARG
118
n
138
ARG
118
A
VAL
119
n
139
VAL
119
A
GLU
120
n
140
GLU
120
A
LEU
121
n
141
LEU
121
A
VAL
122
n
142
VAL
122
A
GLU
123
n
143
GLU
123
A
LEU
124
n
144
LEU
124
A
VAL
125
n
145
VAL
125
A
GLU
126
n
146
GLU
126
A
VAL
127
n
147
VAL
127
A
SER
128
n
148
SER
128
A
SER
129
n
149
SER
129
A
PHE
130
n
150
PHE
130
A
ASP
131
n
151
ASP
131
A
GLU
132
n
152
GLU
132
A
ALA
133
n
153
ALA
133
A
GLY
134
n
154
GLY
134
A
LEU
135
n
155
LEU
135
A
ALA
136
n
156
ALA
136
A
SER
137
n
157
SER
137
A
THR
138
n
158
THR
138
A
SER
139
n
159
SER
139
A
ARG
140
n
160
ARG
140
A
GLY
141
n
161
GLY
141
A
ASP
142
n
162
ASP
142
A
GLY
143
n
163
GLY
143
A
GLY
144
n
164
GLY
144
A
ALA
145
n
165
ALA
145
A
GLY
146
n
166
GLY
146
A
SER
147
n
167
SER
147
A
SER
148
n
168
SER
148
A
GLY
149
n
169
GLY
149
A
GLY
150
n
170
GLY
150
A
HIS
151
n
171
HIS
151
A
ALA
152
n
172
ALA
152
A
SER
153
n
173
SER
153
A
LEU
154
n
174
LEU
154
A
0.128
0.177
2075
author_and_software_defined_assembly
PISA
3
trimeric
13680
-50
18310
A
DUP
201
B
O1A
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
DUP
201
B
O2G
DUP
1_555
96.9
A
DUP
201
B
O1A
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
DUP
201
B
O1B
DUP
1_555
85.2
A
DUP
201
B
O2G
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
DUP
201
B
O1B
DUP
1_555
84.9
A
DUP
201
B
O1A
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
212
H
O
HOH
1_555
91.3
A
DUP
201
B
O2G
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
212
H
O
HOH
1_555
98.2
A
DUP
201
B
O1B
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
212
H
O
HOH
1_555
175.6
A
DUP
201
B
O1A
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
239
H
O
HOH
1_555
91.5
A
DUP
201
B
O2G
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
239
H
O
HOH
1_555
170.6
A
DUP
201
B
O1B
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
239
H
O
HOH
1_555
91.5
A
HOH
212
H
O
HOH
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
239
H
O
HOH
1_555
85.9
A
DUP
201
B
O1A
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
174.3
A
DUP
201
B
O2G
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
86.5
A
DUP
201
B
O1B
DUP
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
90.5
A
HOH
212
H
O
HOH
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
92.8
A
HOH
239
H
O
HOH
1_555
A
MG
155
A
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
84.8
A
DUP
201
B
O2G
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
DUP
201
B
O1B
DUP
1_555
86.8
A
DUP
201
B
O2G
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
DUP
201
B
O1A
DUP
1_555
95.8
A
DUP
201
B
O1B
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
DUP
201
B
O1A
DUP
1_555
84.6
A
DUP
201
B
O2G
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
212
H
O
HOH
1_555
97.7
A
DUP
201
B
O1B
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
212
H
O
HOH
1_555
171.8
A
DUP
201
B
O1A
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
212
H
O
HOH
1_555
88.1
A
DUP
201
B
O2G
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
239
H
O
HOH
1_555
174.9
A
DUP
201
B
O1B
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
239
H
O
HOH
1_555
92.0
A
DUP
201
B
O1A
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
239
H
O
HOH
1_555
89.0
A
HOH
212
H
O
HOH
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
239
H
O
HOH
1_555
84.2
A
DUP
201
B
O2G
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
89.2
A
DUP
201
B
O1B
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
93.6
A
DUP
201
B
O1A
DUP
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
174.6
A
HOH
212
H
O
HOH
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
93.4
A
HOH
239
H
O
HOH
1_555
A
MN
156
B
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
85.9
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
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_565
-y,x-y+1,z
crystal symmetry operation
-27.2955000000
47.2771928180
0.0000000000
-0.5000000000
0.8660254038
0.0000000000
-0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
3_455
-x+y-1,-x,z
crystal symmetry operation
-54.5910000000
0.0000000000
0.0000000000
A
N
VAL
8
A
N
VAL
28
A
O
ALA
50
A
O
ALA
70
A
N
VAL
45
A
N
VAL
65
A
O
VAL
92
A
O
VAL
112
A
O
ILE
95
A
O
ILE
115
A
N
SER
74
A
N
SER
94
A
N
VAL
27
A
N
VAL
47
A
O
LEU
114
A
O
LEU
134
A
O
GLN
113
A
O
GLN
133
A
N
HIS
62
A
N
HIS
82
A
N
GLY
59
A
N
GLY
79
A
O
ILE
82
A
O
ILE
102
A
N
VAL
35
A
N
VAL
55
A
O
VAL
105
A
O
VAL
125
1
A
TRS
204
E
TRS
1
A
TRS
204
E
TRS
1
A
HOH
158
H
HOH
1
A
HOH
184
H
HOH
1
A
HOH
314
H
HOH
1
A
HOH
317
H
HOH
1
A
HOH
318
H
HOH
1
A
HOH
319
H
HOH
1
A
HOH
321
H
HOH
1
A
HOH
335
H
HOH
1
A
HOH
338
H
HOH
1
A
CG
MET
1
A
CG
MET
21
1
Y
1
A
SD
MET
1
A
SD
MET
21
1
Y
1
A
CE
MET
1
A
CE
MET
21
1
Y
1
A
CZ
ARG
46
A
CZ
ARG
66
1
Y
1
A
NH1
ARG
46
A
NH1
ARG
66
1
Y
1
A
NH2
ARG
46
A
NH2
ARG
66
1
Y
1
A
NH1
ARG
70
A
NH1
ARG
90
1
Y
1
A
NH2
ARG
70
A
NH2
ARG
90
1
Y
1
A
CZ
ARG
118
A
CZ
ARG
138
1
Y
1
A
NH1
ARG
118
A
NH1
ARG
138
1
Y
1
A
NH2
ARG
118
A
NH2
ARG
138
1
Y
1
A
OD1
ASP
131
A
OD1
ASP
151
1
Y
1
A
OD2
ASP
131
A
OD2
ASP
151
1
Y
1
A
CG
GLU
132
A
CG
GLU
152
1
Y
1
A
CD
GLU
132
A
CD
GLU
152
1
Y
1
A
OE1
GLU
132
A
OE1
GLU
152
1
Y
1
A
OE2
GLU
132
A
OE2
GLU
152
1
Y
1
A
MET
-19
A
MET
1
1
Y
1
A
GLY
-18
A
GLY
2
1
Y
1
A
SER
-17
A
SER
3
1
Y
1
A
SER
-16
A
SER
4
1
Y
1
A
HIS
-15
A
HIS
5
1
Y
1
A
HIS
-14
A
HIS
6
1
Y
1
A
HIS
-13
A
HIS
7
1
Y
1
A
HIS
-12
A
HIS
8
1
Y
1
A
HIS
-11
A
HIS
9
1
Y
1
A
HIS
-10
A
HIS
10
1
Y
1
A
SER
-9
A
SER
11
1
Y
1
A
SER
-8
A
SER
12
1
Y
1
A
ARG
-3
A
ARG
17
1
Y
1
A
GLY
-2
A
GLY
18
1
Y
1
12.33
1.40
123.60
135.93
A
A
A
CD
NE
CZ
ARG
ARG
ARG
41
41
41
N
1
3.52
0.50
120.30
123.82
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
41
41
41
N
1
-3.58
0.50
120.30
116.72
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
41
41
41
N
1
-3.77
0.50
120.30
116.53
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
42
42
42
N
1
3.69
0.50
120.30
123.99
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
87
87
87
N
1
3.24
0.50
120.30
123.54
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
107
107
107
N
1
-6.05
0.50
120.30
114.25
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
107
107
107
N
1
5.12
0.50
120.30
125.42
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
110
110
110
N
1
-4.55
0.50
120.30
115.75
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
110
110
110
N
1
12.10
1.90
110.20
122.30
A
A
A
CB
CA
C
LEU
LEU
LEU
121
121
121
N
1
A
A
C
O
PRO
PRO
-4
-4
0.337
0.020
1.228
1.565
N
86.79
20.766
6.23
0.1770
0.1276
1.25
30
2075
39229
39229
1.00
0.17
random
1
THROUGHOUT
0.00
MOLECULAR REPLACEMENT
PDB ENTRY 2PY4
Engh & Huber
1.25
30
198
1376
46
0
1132
0.114
0.016
0.035
0.075
0.067
0.425
0.047
19.026
1.25
30
3LOJ
39304
39304
0.0
-3.0
0.041
1
24.73
9.00
98.5
0.631
1.25
1.30
3.87
4297
1
8.674
97.2
data scaling
Wolfgang Kabsch
http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html
XSCALE
package
phasing
Alexei Vaguine
alexei@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/molrep.html
MOLREP
program
refinement
George M. Sheldrick
gsheldr@shelx.uni-ac.gwdg.de
Fortran_77
http://shelx.uni-ac.gwdg.de/SHELX/
SHELX
package
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.005
data collection
MAR345
CCD
data reduction
XDS
refinement
SHELXL-97
Structure of Mycobacterium tuberculosis dUTPase H145A mutant
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
5
N
N
6
N
N
7
N
N
A
ARG
64
A
ARG
84
HELX_P
A
GLY
72
A
GLY
92
1
1
9
covale
1.550
none
A
TRS
204
E
C
TRS
1_555
A
TRS
204
E
C1
TRS
2_565
metalc
2.063
A
A
MG
155
F
MG
MG
1_555
A
DUP
201
B
O1A
DUP
1_555
metalc
2.098
A
A
MG
155
F
MG
MG
1_555
A
DUP
201
B
O2G
DUP
1_555
metalc
2.119
A
A
MG
155
F
MG
MG
1_555
A
DUP
201
B
O1B
DUP
1_555
metalc
2.131
A
A
MG
155
F
MG
MG
1_555
A
HOH
212
H
O
HOH
1_555
metalc
2.129
A
A
MG
155
F
MG
MG
1_555
A
HOH
239
H
O
HOH
1_555
metalc
2.203
A
A
MG
155
F
MG
MG
1_555
A
HOH
245
H
O
HOH
1_555
metalc
2.065
B
A
MN
156
G
MN
MN
1_555
A
DUP
201
B
O2G
DUP
1_555
metalc
2.078
B
A
MN
156
G
MN
MN
1_555
A
DUP
201
B
O1B
DUP
1_555
metalc
2.131
B
A
MN
156
G
MN
MN
1_555
A
DUP
201
B
O1A
DUP
1_555
metalc
2.180
B
A
MN
156
G
MN
MN
1_555
A
HOH
212
H
O
HOH
1_555
metalc
2.152
B
A
MN
156
G
MN
MN
1_555
A
HOH
239
H
O
HOH
1_555
metalc
2.134
B
A
MN
156
G
MN
MN
1_555
A
HOH
245
H
O
HOH
1_555
HYDROLASE
hydrolase, jelly roll, domain swapping, Nucleotide metabolism, Magnesium, Metal-binding
A
SER
78
A
SER
98
1
A
PRO
79
A
PRO
99
-4.28
DUT_MYCTU
UNP
1
1
P0A552
MSTTLAIVRLDPGLPLPSRAHDGDAGVDLYSAEDVELAPGRRALVRTGVAVAVPFGMVGLVHPRSGLATRVGLSIVNSPG
TIDAGYRGEIKVALINLDPAAPIVVHRGDRIAQLLVQRVELVELVEVSSFDEAGLASTSRGDGGHGSSGGHASL
1
154
3LOJ
1
154
P0A552
A
1
21
174
1
expression tag
MET
-19
3LOJ
A
P0A552
UNP
1
1
expression tag
GLY
-18
3LOJ
A
P0A552
UNP
2
1
expression tag
SER
-17
3LOJ
A
P0A552
UNP
3
1
expression tag
SER
-16
3LOJ
A
P0A552
UNP
4
1
expression tag
HIS
-15
3LOJ
A
P0A552
UNP
5
1
expression tag
HIS
-14
3LOJ
A
P0A552
UNP
6
1
expression tag
HIS
-13
3LOJ
A
P0A552
UNP
7
1
expression tag
HIS
-12
3LOJ
A
P0A552
UNP
8
1
expression tag
HIS
-11
3LOJ
A
P0A552
UNP
9
1
expression tag
HIS
-10
3LOJ
A
P0A552
UNP
10
1
expression tag
SER
-9
3LOJ
A
P0A552
UNP
11
1
expression tag
SER
-8
3LOJ
A
P0A552
UNP
12
1
expression tag
GLY
-7
3LOJ
A
P0A552
UNP
13
1
expression tag
LEU
-6
3LOJ
A
P0A552
UNP
14
1
expression tag
VAL
-5
3LOJ
A
P0A552
UNP
15
1
expression tag
PRO
-4
3LOJ
A
P0A552
UNP
16
1
expression tag
ARG
-3
3LOJ
A
P0A552
UNP
17
1
expression tag
GLY
-2
3LOJ
A
P0A552
UNP
18
1
expression tag
SER
-1
3LOJ
A
P0A552
UNP
19
1
expression tag
HIS
0
3LOJ
A
P0A552
UNP
20
1
HIS
engineered mutation
ALA
145
3LOJ
A
P0A552
UNP
145
165
4
4
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ALA
6
A
ALA
26
A
ARG
9
A
ARG
29
A
ARG
42
A
ARG
62
A
ALA
52
A
ALA
72
A
GLU
89
A
GLU
109
A
ASN
96
A
ASN
116
A
LEU
73
A
LEU
93
A
ILE
75
A
ILE
95
A
VAL
27
A
VAL
47
A
TYR
30
A
TYR
50
A
ARG
110
A
ARG
130
A
ARG
118
A
ARG
138
A
MET
57
A
MET
77
A
HIS
62
A
HIS
82
A
GLY
80
A
GLY
100
A
ASP
83
A
ASP
103
A
VAL
35
A
VAL
55
A
LEU
37
A
LEU
57
A
ILE
103
A
ILE
123
A
VAL
105
A
VAL
125
BINDING SITE FOR RESIDUE DUP A 201
A
DUP
201
Software
28
BINDING SITE FOR RESIDUE GOL A 202
A
GOL
202
Software
4
BINDING SITE FOR RESIDUE GOL A 203
A
GOL
203
Software
5
BINDING SITE FOR RESIDUE TRS A 204
A
TRS
204
Software
7
BINDING SITE FOR RESIDUE MG A 155
A
MG
155
Software
4
BINDING SITE FOR RESIDUE MN A 156
A
MN
156
Software
4
A
ARG
64
A
ARG
84
28
3_455
A
SER
65
A
SER
85
28
3_455
A
GLY
66
A
GLY
86
28
3_455
A
ASN
77
A
ASN
97
28
1_555
A
GLY
80
A
GLY
100
28
1_555
A
THR
81
A
THR
101
28
1_555
A
ILE
82
A
ILE
102
28
1_555
A
ASP
83
A
ASP
103
28
1_555
A
TYR
86
A
TYR
106
28
1_555
A
GLU
89
A
GLU
109
28
1_555
A
ILE
90
A
ILE
110
28
1_555
A
LYS
91
A
LYS
111
28
1_555
A
GLN
113
A
GLN
133
28
3_455
A
ARG
140
A
ARG
160
28
2_565
A
GLY
144
A
GLY
164
28
2_565
A
ALA
145
A
ALA
165
28
2_565
A
GLY
146
A
GLY
166
28
2_565
A
SER
147
A
SER
167
28
2_565
A
SER
148
A
SER
168
28
2_565
A
MG
155
F
MG
28
1_555
A
MN
156
G
MN
28
1_555
A
HOH
207
H
HOH
28
1_555
A
HOH
212
H
HOH
28
1_555
A
HOH
220
H
HOH
28
1_555
A
HOH
227
H
HOH
28
1_555
A
HOH
238
H
HOH
28
3_455
A
HOH
239
H
HOH
28
1_555
A
HOH
245
H
HOH
28
1_555
A
SER
129
A
SER
149
4
1_555
A
PHE
130
A
PHE
150
4
1_555
A
ASP
131
A
ASP
151
4
1_555
A
HOH
290
H
HOH
4
3_455
A
TYR
30
A
TYR
50
5
1_555
A
ARG
110
A
ARG
130
5
1_555
A
HOH
183
H
HOH
5
1_555
A
HOH
232
H
HOH
5
3_565
A
HOH
288
H
HOH
5
1_555
A
SER
74
A
SER
94
7
2_565
A
SER
74
A
SER
94
7
1_555
A
ILE
75
A
ILE
95
7
2_565
A
VAL
76
A
VAL
96
7
2_565
A
HOH
215
H
HOH
7
2_565
A
HOH
215
H
HOH
7
3_455
A
HOH
215
H
HOH
7
1_555
A
DUP
201
B
DUP
4
1_555
A
HOH
212
H
HOH
4
1_555
A
HOH
239
H
HOH
4
1_555
A
HOH
245
H
HOH
4
1_555
A
DUP
201
B
DUP
4
1_555
A
HOH
212
H
HOH
4
1_555
A
HOH
239
H
HOH
4
1_555
A
HOH
245
H
HOH
4
1_555
173
P 63