0.008383
0.004840
0.000000
0.000000
0.009680
0.000000
0.000000
0.000000
0.020077
0.00000
0.00000
0.00000
Stogios, P.J.
Quaile, A.T.
Skarina, T.
Nocek, B.
Di Leo, R.
Yim, V.
Savchenko, A.
Joachimiak, A.
Midwest Center for Structural Genomics (MCSG)
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
119.293
119.293
49.809
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
UK
Structure
STRUE6
2005
0969-2126
23
1459
1469
10.1016/j.str.2015.05.020
26146184
Molecular Characterization of LubX: Functional Divergence of the U-Box Fold by Legionella pneumophila.
2015
10.2210/pdb4wz3/pdb
pdb_00004wz3
100
1
CCD
2013-12-02
ADSC QUANTUM 315
SINGLE WAVELENGTH
M
x-ray
1
0.9789897
1.0
19-ID
APS
0.9789897
SYNCHROTRON
APS BEAMLINE 19-ID
16796.213
Ubiquitin-conjugating enzyme E2 D2
6.3.2.19
C85S
1
man
polymer
24818.092
E3 ubiquitin-protein ligase LubX
6.3.2.-
1
man
polymer
18.015
water
53
nat
water
Ubiquitin carrier protein D2,Ubiquitin-conjugating enzyme E2(17)KB 2,Ubiquitin-conjugating enzyme E2-17 kDa 2,Ubiquitin-protein ligase D2,p53-regulated ubiquitin-conjugating enzyme 1
Legionella U-box protein
no
no
GMALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNIN
SNGSISLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNRIAREWTQKYAM
GMALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNIN
SNGSISLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNRIAREWTQKYAM
A
polypeptide(L)
no
yes
(MSE)ATRNPFDIDHKSKYLREAALEANLSHPETTPT(MSE)LTCPIDSGFLKDPVITPEGFVYNKSSILKWLETKKEDP
QSRKPLTAKDLQPFPELLIIVNRFVETQTNYEKLKNRLVQNARVAARQKEYTEIPDIFLCPISKTLIKTPVITAQGKVYD
QEALSNFLIATGNKDETGKKLSIDDVVVFDELYQQIKVYNFYRKREVQKNQIQPSVSNGFGFF
MATRNPFDIDHKSKYLREAALEANLSHPETTPTMLTCPIDSGFLKDPVITPEGFVYNKSSILKWLETKKEDPQSRKPLTA
KDLQPFPELLIIVNRFVETQTNYEKLKNRLVQNARVAARQKEYTEIPDIFLCPISKTLIKTPVITAQGKVYDQEALSNFL
IATGNKDETGKKLSIDDVVVFDELYQQIKVYNFYRKREVQKNQIQPSVSNGFGFF
B
MCSG-APC108251
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Human
sample
1
148
UBE2D2, PUBC1, UBC4, UBC5B, UBCH4, UBCH5B
9606
Homo sapiens
469008
Escherichia coli
BL21(DE3)
plasmid
Biological sequence
p15TV-LIC
Paris
sample
1
215
lubX, lpp2887
297246
Legionella pneumophila
469008
Escherichia coli
BL21(DE3)
plasmid
Biological sequence
p15TV-LIC
2.46
49.97
VAPOR DIFFUSION, HANGING DROP
8.5
15 mg/ml of E2D2.(C85S)-Ub conjugate and an equimolar concentration of LubX (1-186), 0.2 M sodium tartrate, 0.1 M Tris-Cl (pH 8.5) and 25% PEG3350
298
Midwest Center for Structural Genomics
MCSG
PSI:Biology
pdbx_audit_support
pdbx_struct_oper_list
pdbx_audit_support
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
chem_comp_atom
chem_comp_bond
repository
Initial release
Derived calculations
Database references
Derived calculations
Author supporting evidence
Derived calculations
Author supporting evidence
Data collection
Database references
Refinement description
Data collection
1
0
2015-01-07
1
1
2015-02-04
1
2
2015-07-29
1
3
2015-08-19
1
4
2017-09-20
1
5
2019-12-04
1
6
2023-09-27
1
7
2023-11-15
_pdbx_audit_support.funding_organization
_pdbx_struct_oper_list.symmetry_operation
_pdbx_audit_support.funding_organization
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_chem_comp_atom.atom_id
_chem_comp_bond.atom_id_2
United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
GM094585
United States
Department of Energy (DOE, United States)
DE-AC02-06CH11357
U-box 1
U-box 2 (wild-type)
U-box 2, Ile175Met mutant
Y
RCSB
Y
RCSB
2014-11-18
REL
REL
HOH
water
4DDI
4DDI, LubX U-box 1 WT PDB code 4WZ0
PDB
experimental model
4WZ0
4DDI, LubX U-box 1 WT PDB code 4WZ0
PDB
experimental model
HOH
40
3
HOH
HOH
201
A
HOH
6
3
HOH
HOH
202
A
HOH
12
3
HOH
HOH
203
A
HOH
2
3
HOH
HOH
204
A
HOH
66
3
HOH
HOH
205
A
HOH
80
3
HOH
HOH
206
A
HOH
82
3
HOH
HOH
207
A
HOH
63
3
HOH
HOH
208
A
HOH
58
3
HOH
HOH
209
A
HOH
29
3
HOH
HOH
210
A
HOH
22
3
HOH
HOH
211
A
HOH
53
3
HOH
HOH
212
A
HOH
103
3
HOH
HOH
213
A
HOH
94
3
HOH
HOH
214
A
HOH
8
3
HOH
HOH
215
A
HOH
64
3
HOH
HOH
216
A
HOH
20
3
HOH
HOH
217
A
HOH
69
3
HOH
HOH
218
A
HOH
75
3
HOH
HOH
219
A
HOH
87
3
HOH
HOH
220
A
HOH
68
3
HOH
HOH
221
A
HOH
125
3
HOH
HOH
222
A
HOH
76
3
HOH
HOH
223
A
HOH
61
3
HOH
HOH
224
A
HOH
31
3
HOH
HOH
225
A
HOH
128
3
HOH
HOH
226
A
HOH
115
3
HOH
HOH
227
A
HOH
130
3
HOH
HOH
228
A
HOH
70
3
HOH
HOH
301
B
HOH
127
3
HOH
HOH
302
B
HOH
24
3
HOH
HOH
303
B
HOH
124
3
HOH
HOH
304
B
HOH
18
3
HOH
HOH
305
B
HOH
117
3
HOH
HOH
306
B
HOH
105
3
HOH
HOH
307
B
HOH
97
3
HOH
HOH
308
B
HOH
98
3
HOH
HOH
309
B
HOH
23
3
HOH
HOH
310
B
HOH
14
3
HOH
HOH
311
B
HOH
5
3
HOH
HOH
312
B
HOH
13
3
HOH
HOH
313
B
HOH
3
3
HOH
HOH
314
B
HOH
71
3
HOH
HOH
315
B
HOH
65
3
HOH
HOH
316
B
HOH
48
3
HOH
HOH
317
B
HOH
95
3
HOH
HOH
318
B
HOH
67
3
HOH
HOH
319
B
HOH
59
3
HOH
HOH
320
B
HOH
25
3
HOH
HOH
321
B
HOH
120
3
HOH
HOH
322
B
HOH
129
3
HOH
HOH
323
B
HOH
116
3
HOH
HOH
324
B
HOH
113
3
HOH
HOH
325
B
GLY
0
n
1
GLY
0
A
MET
1
n
2
MET
1
A
ALA
2
n
3
ALA
2
A
LEU
3
n
4
LEU
3
A
LYS
4
n
5
LYS
4
A
ARG
5
n
6
ARG
5
A
ILE
6
n
7
ILE
6
A
HIS
7
n
8
HIS
7
A
LYS
8
n
9
LYS
8
A
GLU
9
n
10
GLU
9
A
LEU
10
n
11
LEU
10
A
ASN
11
n
12
ASN
11
A
ASP
12
n
13
ASP
12
A
LEU
13
n
14
LEU
13
A
ALA
14
n
15
ALA
14
A
ARG
15
n
16
ARG
15
A
ASP
16
n
17
ASP
16
A
PRO
17
n
18
PRO
17
A
PRO
18
n
19
PRO
18
A
ALA
19
n
20
ALA
19
A
GLN
20
n
21
GLN
20
A
CYS
21
n
22
CYS
21
A
SER
22
n
23
SER
22
A
ALA
23
n
24
ALA
23
A
GLY
24
n
25
GLY
24
A
PRO
25
n
26
PRO
25
A
VAL
26
n
27
VAL
26
A
GLY
27
n
28
GLY
27
A
ASP
28
n
29
ASP
28
A
ASP
29
n
30
ASP
29
A
MET
30
n
31
MET
30
A
PHE
31
n
32
PHE
31
A
HIS
32
n
33
HIS
32
A
TRP
33
n
34
TRP
33
A
GLN
34
n
35
GLN
34
A
ALA
35
n
36
ALA
35
A
THR
36
n
37
THR
36
A
ILE
37
n
38
ILE
37
A
MET
38
n
39
MET
38
A
GLY
39
n
40
GLY
39
A
PRO
40
n
41
PRO
40
A
ASN
41
n
42
ASN
41
A
ASP
42
n
43
ASP
42
A
SER
43
n
44
SER
43
A
PRO
44
n
45
PRO
44
A
TYR
45
n
46
TYR
45
A
GLN
46
n
47
GLN
46
A
GLY
47
n
48
GLY
47
A
GLY
48
n
49
GLY
48
A
VAL
49
n
50
VAL
49
A
PHE
50
n
51
PHE
50
A
PHE
51
n
52
PHE
51
A
LEU
52
n
53
LEU
52
A
THR
53
n
54
THR
53
A
ILE
54
n
55
ILE
54
A
HIS
55
n
56
HIS
55
A
PHE
56
n
57
PHE
56
A
PRO
57
n
58
PRO
57
A
THR
58
n
59
THR
58
A
ASP
59
n
60
ASP
59
A
TYR
60
n
61
TYR
60
A
PRO
61
n
62
PRO
61
A
PHE
62
n
63
PHE
62
A
LYS
63
n
64
LYS
63
A
PRO
64
n
65
PRO
64
A
PRO
65
n
66
PRO
65
A
LYS
66
n
67
LYS
66
A
VAL
67
n
68
VAL
67
A
ALA
68
n
69
ALA
68
A
PHE
69
n
70
PHE
69
A
THR
70
n
71
THR
70
A
THR
71
n
72
THR
71
A
ARG
72
n
73
ARG
72
A
ILE
73
n
74
ILE
73
A
TYR
74
n
75
TYR
74
A
HIS
75
n
76
HIS
75
A
PRO
76
n
77
PRO
76
A
ASN
77
n
78
ASN
77
A
ILE
78
n
79
ILE
78
A
ASN
79
n
80
ASN
79
A
SER
80
n
81
SER
80
A
ASN
81
n
82
ASN
81
A
GLY
82
n
83
GLY
82
A
SER
83
n
84
SER
83
A
ILE
84
n
85
ILE
84
A
SER
85
n
86
SER
85
A
LEU
86
n
87
LEU
86
A
ASP
87
n
88
ASP
87
A
ILE
88
n
89
ILE
88
A
LEU
89
n
90
LEU
89
A
ARG
90
n
91
ARG
90
A
SER
91
n
92
SER
91
A
GLN
92
n
93
GLN
92
A
TRP
93
n
94
TRP
93
A
SER
94
n
95
SER
94
A
PRO
95
n
96
PRO
95
A
ALA
96
n
97
ALA
96
A
LEU
97
n
98
LEU
97
A
THR
98
n
99
THR
98
A
ILE
99
n
100
ILE
99
A
SER
100
n
101
SER
100
A
LYS
101
n
102
LYS
101
A
VAL
102
n
103
VAL
102
A
LEU
103
n
104
LEU
103
A
LEU
104
n
105
LEU
104
A
SER
105
n
106
SER
105
A
ILE
106
n
107
ILE
106
A
CYS
107
n
108
CYS
107
A
SER
108
n
109
SER
108
A
LEU
109
n
110
LEU
109
A
LEU
110
n
111
LEU
110
A
CYS
111
n
112
CYS
111
A
ASP
112
n
113
ASP
112
A
PRO
113
n
114
PRO
113
A
ASN
114
n
115
ASN
114
A
PRO
115
n
116
PRO
115
A
ASP
116
n
117
ASP
116
A
ASP
117
n
118
ASP
117
A
PRO
118
n
119
PRO
118
A
LEU
119
n
120
LEU
119
A
VAL
120
n
121
VAL
120
A
PRO
121
n
122
PRO
121
A
GLU
122
n
123
GLU
122
A
ILE
123
n
124
ILE
123
A
ALA
124
n
125
ALA
124
A
ARG
125
n
126
ARG
125
A
ILE
126
n
127
ILE
126
A
TYR
127
n
128
TYR
127
A
LYS
128
n
129
LYS
128
A
THR
129
n
130
THR
129
A
ASP
130
n
131
ASP
130
A
ARG
131
n
132
ARG
131
A
GLU
132
n
133
GLU
132
A
LYS
133
n
134
LYS
133
A
TYR
134
n
135
TYR
134
A
ASN
135
n
136
ASN
135
A
ARG
136
n
137
ARG
136
A
ILE
137
n
138
ILE
137
A
ALA
138
n
139
ALA
138
A
ARG
139
n
140
ARG
139
A
GLU
140
n
141
GLU
140
A
TRP
141
n
142
TRP
141
A
THR
142
n
143
THR
142
A
GLN
143
n
144
GLN
143
A
LYS
144
n
145
LYS
144
A
TYR
145
n
146
TYR
145
A
ALA
146
n
147
ALA
146
A
MET
147
n
148
MET
147
A
n
1
1
B
n
2
2
B
n
3
3
B
ARG
4
n
4
ARG
4
B
ASN
5
n
5
ASN
5
B
PRO
6
n
6
PRO
6
B
PHE
7
n
7
PHE
7
B
ASP
8
n
8
ASP
8
B
ILE
9
n
9
ILE
9
B
ASP
10
n
10
ASP
10
B
HIS
11
n
11
HIS
11
B
LYS
12
n
12
LYS
12
B
SER
13
n
13
SER
13
B
LYS
14
n
14
LYS
14
B
TYR
15
n
15
TYR
15
B
LEU
16
n
16
LEU
16
B
ARG
17
n
17
ARG
17
B
GLU
18
n
18
GLU
18
B
ALA
19
n
19
ALA
19
B
ALA
20
n
20
ALA
20
B
LEU
21
n
21
LEU
21
B
GLU
22
n
22
GLU
22
B
ALA
23
n
23
ALA
23
B
ASN
24
n
24
ASN
24
B
LEU
25
n
25
LEU
25
B
SER
26
n
26
SER
26
B
HIS
27
n
27
HIS
27
B
PRO
28
n
28
PRO
28
B
GLU
29
n
29
GLU
29
B
THR
30
n
30
THR
30
B
THR
31
n
31
THR
31
B
PRO
32
n
32
PRO
32
B
THR
33
n
33
THR
33
B
MSE
34
n
34
MSE
34
B
LEU
35
n
35
LEU
35
B
THR
36
n
36
THR
36
B
CYS
37
n
37
CYS
37
B
PRO
38
n
38
PRO
38
B
ILE
39
n
39
ILE
39
B
ASP
40
n
40
ASP
40
B
SER
41
n
41
SER
41
B
GLY
42
n
42
GLY
42
B
PHE
43
n
43
PHE
43
B
LEU
44
n
44
LEU
44
B
LYS
45
n
45
LYS
45
B
ASP
46
n
46
ASP
46
B
PRO
47
n
47
PRO
47
B
VAL
48
n
48
VAL
48
B
ILE
49
n
49
ILE
49
B
THR
50
n
50
THR
50
B
PRO
51
n
51
PRO
51
B
GLU
52
n
52
GLU
52
B
GLY
53
n
53
GLY
53
B
PHE
54
n
54
PHE
54
B
VAL
55
n
55
VAL
55
B
TYR
56
n
56
TYR
56
B
ASN
57
n
57
ASN
57
B
LYS
58
n
58
LYS
58
B
SER
59
n
59
SER
59
B
SER
60
n
60
SER
60
B
ILE
61
n
61
ILE
61
B
LEU
62
n
62
LEU
62
B
LYS
63
n
63
LYS
63
B
TRP
64
n
64
TRP
64
B
LEU
65
n
65
LEU
65
B
GLU
66
n
66
GLU
66
B
THR
67
n
67
THR
67
B
LYS
68
n
68
LYS
68
B
LYS
69
n
69
LYS
69
B
GLU
70
n
70
GLU
70
B
ASP
71
n
71
ASP
71
B
PRO
72
n
72
PRO
72
B
GLN
73
n
73
GLN
73
B
SER
74
n
74
SER
74
B
ARG
75
n
75
ARG
75
B
LYS
76
n
76
LYS
76
B
PRO
77
n
77
PRO
77
B
LEU
78
n
78
LEU
78
B
THR
79
n
79
THR
79
B
ALA
80
n
80
ALA
80
B
LYS
81
n
81
LYS
81
B
ASP
82
n
82
ASP
82
B
LEU
83
n
83
LEU
83
B
GLN
84
n
84
GLN
84
B
PRO
85
n
85
PRO
85
B
PHE
86
n
86
PHE
86
B
PRO
87
n
87
PRO
87
B
GLU
88
n
88
GLU
88
B
LEU
89
n
89
LEU
89
B
LEU
90
n
90
LEU
90
B
ILE
91
n
91
ILE
91
B
ILE
92
n
92
ILE
92
B
VAL
93
n
93
VAL
93
B
ASN
94
n
94
ASN
94
B
ARG
95
n
95
ARG
95
B
PHE
96
n
96
PHE
96
B
VAL
97
n
97
VAL
97
B
GLU
98
n
98
GLU
98
B
THR
99
n
99
THR
99
B
GLN
100
n
100
GLN
100
B
THR
101
n
101
THR
101
B
ASN
102
n
102
ASN
102
B
TYR
103
n
103
TYR
103
B
GLU
104
n
104
GLU
104
B
LYS
105
n
105
LYS
105
B
LEU
106
n
106
LEU
106
B
LYS
107
n
107
LYS
107
B
ASN
108
n
108
ASN
108
B
ARG
109
n
109
ARG
109
B
LEU
110
n
110
LEU
110
B
VAL
111
n
111
VAL
111
B
GLN
112
n
112
GLN
112
B
ASN
113
n
113
ASN
113
B
ALA
114
n
114
ALA
114
B
ARG
115
n
115
ARG
115
B
VAL
116
n
116
VAL
116
B
ALA
117
n
117
ALA
117
B
ALA
118
n
118
ALA
118
B
ARG
119
n
119
ARG
119
B
GLN
120
n
120
GLN
120
B
LYS
121
n
121
LYS
121
B
GLU
122
n
122
GLU
122
B
TYR
123
n
123
TYR
123
B
THR
124
n
124
THR
124
B
GLU
125
n
125
GLU
125
B
ILE
126
n
126
ILE
126
B
PRO
127
n
127
PRO
127
B
ASP
128
n
128
ASP
128
B
ILE
129
n
129
ILE
129
B
PHE
130
n
130
PHE
130
B
LEU
131
n
131
LEU
131
B
CYS
132
n
132
CYS
132
B
PRO
133
n
133
PRO
133
B
ILE
134
n
134
ILE
134
B
SER
135
n
135
SER
135
B
LYS
136
n
136
LYS
136
B
THR
137
n
137
THR
137
B
LEU
138
n
138
LEU
138
B
ILE
139
n
139
ILE
139
B
LYS
140
n
140
LYS
140
B
THR
141
n
141
THR
141
B
PRO
142
n
142
PRO
142
B
VAL
143
n
143
VAL
143
B
ILE
144
n
144
ILE
144
B
THR
145
n
145
THR
145
B
ALA
146
n
146
ALA
146
B
GLN
147
n
147
GLN
147
B
GLY
148
n
148
GLY
148
B
LYS
149
n
149
LYS
149
B
VAL
150
n
150
VAL
150
B
TYR
151
n
151
TYR
151
B
ASP
152
n
152
ASP
152
B
GLN
153
n
153
GLN
153
B
GLU
154
n
154
GLU
154
B
ALA
155
n
155
ALA
155
B
LEU
156
n
156
LEU
156
B
SER
157
n
157
SER
157
B
ASN
158
n
158
ASN
158
B
PHE
159
n
159
PHE
159
B
LEU
160
n
160
LEU
160
B
ILE
161
n
161
ILE
161
B
ALA
162
n
162
ALA
162
B
THR
163
n
163
THR
163
B
GLY
164
n
164
GLY
164
B
ASN
165
n
165
ASN
165
B
LYS
166
n
166
LYS
166
B
ASP
167
n
167
ASP
167
B
GLU
168
n
168
GLU
168
B
THR
169
n
169
THR
169
B
GLY
170
n
170
GLY
170
B
LYS
171
n
171
LYS
171
B
LYS
172
n
172
LYS
172
B
LEU
173
n
173
LEU
173
B
SER
174
n
174
SER
174
B
ILE
175
n
175
ILE
175
B
ASP
176
n
176
ASP
176
B
ASP
177
n
177
ASP
177
B
VAL
178
n
178
VAL
178
B
VAL
179
n
179
VAL
179
B
VAL
180
n
180
VAL
180
B
PHE
181
n
181
PHE
181
B
ASP
182
n
182
ASP
182
B
GLU
183
n
183
GLU
183
B
LEU
184
n
184
LEU
184
B
TYR
185
n
185
TYR
185
B
GLN
186
n
186
GLN
186
B
n
187
187
B
n
188
188
B
n
189
189
B
n
190
190
B
n
191
191
B
n
192
192
B
n
193
193
B
n
194
194
B
n
195
195
B
n
196
196
B
n
197
197
B
n
198
198
B
n
199
199
B
n
200
200
B
n
201
201
B
n
202
202
B
n
203
203
B
n
204
204
B
n
205
205
B
n
206
206
B
n
207
207
B
n
208
208
B
n
209
209
B
n
210
210
B
n
211
211
B
n
212
212
B
n
213
213
B
n
214
214
B
n
215
215
B
3.1130
1.6507
2.4143
3.2676
-0.4040
3.0972
0.2494
-1.0676
-0.3933
0.4166
-0.1271
-0.8479
-0.5462
-0.1519
-0.0797
0.3713
0.0216
0.0903
0.4776
0.1134
0.5333
refined
-36.0447
13.4072
10.1917
X-RAY DIFFRACTION
8.7445
6.0095
-5.4911
8.3195
-6.6932
8.2605
-0.1546
-1.3015
-0.7860
-0.4905
-0.2480
-1.2897
0.6995
1.4969
0.2197
0.2786
-0.0109
-0.1012
0.3968
0.0600
0.4997
refined
-42.6781
4.1993
11.3687
X-RAY DIFFRACTION
5.7845
2.5585
-0.8116
4.6928
-2.4642
2.1108
0.0647
-0.0643
0.0572
0.1190
-0.0305
0.0750
-0.2893
-0.3685
-0.0364
0.2162
0.0425
-0.0127
0.2492
-0.0286
0.1197
refined
-53.8599
9.5298
8.8761
X-RAY DIFFRACTION
6.4539
-3.2774
0.5669
7.7887
-1.5971
2.8351
-0.0514
-0.8599
-0.7663
0.7147
0.2822
1.1747
-0.4717
-0.3510
-0.1957
0.2474
-0.0330
0.0403
0.4609
0.0745
0.3259
refined
-68.5512
3.1306
15.2142
X-RAY DIFFRACTION
3.1044
0.8909
1.5405
3.1385
0.5635
4.3426
-0.1789
0.1493
0.3520
-0.3036
0.1131
0.1467
0.0174
-0.2409
0.0141
0.2390
-0.0391
0.0762
0.2234
0.1187
0.2851
refined
-37.1305
31.9078
5.1980
X-RAY DIFFRACTION
5.6280
-4.1611
6.6930
6.9491
-7.3053
9.2877
-0.0354
-0.1728
0.1510
-0.1741
-0.2681
-0.2508
0.1977
0.0273
0.2123
0.2446
0.0293
0.0914
0.2764
0.0446
0.2757
refined
-11.1653
16.0065
20.9715
X-RAY DIFFRACTION
7.6716
-4.1121
-1.1678
3.1542
0.9486
1.1748
0.0454
-0.7006
-0.3260
1.1661
0.2846
0.7242
-0.8705
-0.2821
-0.2099
0.7866
0.0500
0.3506
0.4795
0.0889
0.5992
refined
-19.9392
14.7119
33.3483
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
chain A and resi 0:18
X-RAY DIFFRACTION
2
chain A and resi 19:38
X-RAY DIFFRACTION
3
chain A and resi 39:116
X-RAY DIFFRACTION
4
chain A and resi 117:147
X-RAY DIFFRACTION
5
chain B and resi 4:94
X-RAY DIFFRACTION
6
chain B and resi 95:122
X-RAY DIFFRACTION
7
chain B and resi 123:186
author_defined_assembly
2
dimeric
B
MSE
34
modified residue
B
MSE
34
MET
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
SER
22
A
N
SER
23
A
O
THR
36
A
O
THR
37
A
N
ILE
37
A
N
ILE
38
A
O
PHE
50
A
O
PHE
51
A
N
HIS
55
A
N
HIS
56
A
O
LYS
66
A
O
LYS
67
B
O
TYR
56
B
O
TYR
56
B
N
VAL
48
B
N
VAL
48
B
N
ILE
49
B
N
ILE
49
B
O
GLN
84
B
O
GLN
84
B
O
TYR
151
B
O
TYR
151
B
N
VAL
143
B
N
VAL
143
B
N
ILE
144
B
N
ILE
144
B
O
VAL
179
B
O
VAL
179
B
N
ASP
167
B
N
ASP
167
B
O
LYS
171
B
O
LYS
171
1
B
MSE
1
B
MSE
1
1
Y
1
B
ALA
2
B
ALA
2
1
Y
1
B
THR
3
B
THR
3
1
Y
1
B
GLN
187
B
GLN
187
1
Y
1
B
ILE
188
B
ILE
188
1
Y
1
B
LYS
189
B
LYS
189
1
Y
1
B
VAL
190
B
VAL
190
1
Y
1
B
TYR
191
B
TYR
191
1
Y
1
B
ASN
192
B
ASN
192
1
Y
1
B
PHE
193
B
PHE
193
1
Y
1
B
TYR
194
B
TYR
194
1
Y
1
B
ARG
195
B
ARG
195
1
Y
1
B
LYS
196
B
LYS
196
1
Y
1
B
ARG
197
B
ARG
197
1
Y
1
B
GLU
198
B
GLU
198
1
Y
1
B
VAL
199
B
VAL
199
1
Y
1
B
GLN
200
B
GLN
200
1
Y
1
B
LYS
201
B
LYS
201
1
Y
1
B
ASN
202
B
ASN
202
1
Y
1
B
GLN
203
B
GLN
203
1
Y
1
B
ILE
204
B
ILE
204
1
Y
1
B
GLN
205
B
GLN
205
1
Y
1
B
PRO
206
B
PRO
206
1
Y
1
B
SER
207
B
SER
207
1
Y
1
B
VAL
208
B
VAL
208
1
Y
1
B
SER
209
B
SER
209
1
Y
1
B
ASN
210
B
ASN
210
1
Y
1
B
GLY
211
B
GLY
211
1
Y
1
B
PHE
212
B
PHE
212
1
Y
1
B
GLY
213
B
GLY
213
1
Y
1
B
PHE
214
B
PHE
214
1
Y
1
B
PHE
215
B
PHE
215
1
Y
1
A
ASP
16
-117.47
73.78
1
A
GLN
20
-98.39
33.80
1
A
SER
22
-169.67
117.19
1
A
ALA
23
-121.15
-166.22
1
A
ASP
28
-43.70
108.45
1
A
ARG
90
-128.78
-117.68
1
A
ASP
130
-161.45
77.44
1
B
SER
41
66.15
-2.87
1
B
LYS
69
-98.19
48.74
0.2228
0.1668
0.1697
2.70
35.855
968
10884
5.12
86.68
0.29
Random selection
1
FREE R-VALUE
1.36
MOLECULAR REPLACEMENT
22.03
0.90
1.11
4DDI, LubX U-box 1 WT PDB code 4WZ0
ML
FLAT BULK SOLVENT MODEL
2.70
35.855
53
2706
0
0
2653
0.005
2746
0.903
3737
13.874
1055
0.044
417
0.007
484
0.3660
0.2443
2.8404
87
1563
53.00
0.2851
0.2306
3.0183
128
2170
74.00
0.2829
0.2112
3.2512
158
2699
91.00
0.2300
0.1831
3.5781
159
2912
98.00
0.1959
0.1467
4.0952
152
2895
98.00
0.1964
0.1283
5.1570
141
2890
97.00
0.1782
0.1569
35.8584
143
2805
95.00
2.70
40.00
4WZ3
11243
0.054
1
20.05
5.0
99.0
0.665
2.70
2.75
4.07
1
5.0
99.8
data reduction
HKL-3000
phasing
PHENIX
model building
PHENIX
model building
Coot
refinement
PHENIX
(phenix.refine: 1.9_1692)
data scaling
HKL-3000
Crystal structure of the complex between LubX/LegU2/Lpp2887 U-box 1 and Homo sapiens UBE2D2
1
N
N
2
N
N
3
N
N
3
N
N
A
MET
1
A
MET
2
HELX_P
A
LEU
13
A
LEU
14
1
AA1
13
A
LEU
86
A
LEU
87
HELX_P
A
ARG
90
A
ARG
91
5
AA2
5
A
THR
98
A
THR
99
HELX_P
A
ASP
112
A
ASP
113
1
AA3
15
A
VAL
120
A
VAL
121
HELX_P
A
ASP
130
A
ASP
131
1
AA4
11
A
ASP
130
A
ASP
131
HELX_P
A
ALA
146
A
ALA
147
1
AA5
17
B
ASP
10
B
ASP
10
HELX_P
B
SER
26
B
SER
26
1
AA6
17
B
PRO
32
B
PRO
32
HELX_P
B
THR
36
B
THR
36
5
AA7
5
B
LYS
58
B
LYS
58
HELX_P
B
GLU
66
B
GLU
66
1
AA8
9
B
THR
79
B
THR
79
HELX_P
B
LEU
83
B
LEU
83
5
AA9
5
B
LEU
89
B
LEU
89
HELX_P
B
ARG
119
B
ARG
119
1
AB1
31
B
PRO
127
B
PRO
127
HELX_P
B
LEU
131
B
LEU
131
5
AB2
5
B
GLN
153
B
GLN
153
HELX_P
B
THR
163
B
THR
163
1
AB3
11
B
ASP
182
B
ASP
182
HELX_P
B
TYR
185
B
TYR
185
5
AB4
4
covale
1.325
both
B
THR
33
B
C
THR
33
1_555
B
MSE
34
B
N
MSE
34
1_555
covale
1.331
both
B
MSE
34
B
C
MSE
34
1_555
B
LEU
35
B
N
LEU
35
1_555
LIGASE
alpha/beta protein, effector, activating enzyme, structural genomics, PSI-Biology, Midwest Center for Structural Genomics, MCSG, LIGASE
A
GLY
0
A
GLY
1
1
A
MET
1
A
MET
2
-2.15
A
ASP
28
A
ASP
29
1
A
ASP
29
A
ASP
30
21.02
A
TYR
60
A
TYR
61
1
A
PRO
61
A
PRO
62
4.08
B
GLU
168
B
GLU
168
1
B
THR
169
B
THR
169
13.49
UB2D2_HUMAN
UNP
1
1
P62837
MALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNINS
NGSICLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNRIAREWTQKYAM
LUBX_LEGPA
UNP
2
1
Q5X159
MATRNPFDIDHKSKYLREAALEANLSHPETTPTMLTCPIDSGFLKDPVITPEGFVYNKSSILKWLETKKEDPQSRKPLTA
KDLQPFPELLIIVNRFVETQTNYEKLKNRLVQNARVAARQKEYTEIPDIFLCPISKTLIKTPVITAQGKVYDQEALSNFL
IATGNKDETGKKLSIDDVVVFDELYQQIKVYNFYRKREVQKNQIQPSVSNGFGFF
1
147
4WZ3
1
147
P62837
A
1
2
148
1
215
4WZ3
1
215
Q5X159
B
2
1
215
1
expression tag
GLY
0
4WZ3
A
P62837
UNP
1
1
CYS
engineered mutation
SER
85
4WZ3
A
P62837
UNP
85
86
4
3
3
2
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
CYS
21
A
CYS
22
A
SER
22
A
SER
23
A
HIS
32
A
HIS
33
A
MET
38
A
MET
39
A
VAL
49
A
VAL
50
A
HIS
55
A
HIS
56
A
LYS
66
A
LYS
67
A
PHE
69
A
PHE
70
B
VAL
55
B
VAL
55
B
ASN
57
B
ASN
57
B
PRO
47
B
PRO
47
B
ILE
49
B
ILE
49
B
GLN
84
B
GLN
84
B
PRO
85
B
PRO
85
B
VAL
150
B
VAL
150
B
ASP
152
B
ASP
152
B
PRO
142
B
PRO
142
B
ILE
144
B
ILE
144
B
VAL
179
B
VAL
179
B
VAL
180
B
VAL
180
B
LYS
166
B
LYS
166
B
ASP
167
B
ASP
167
B
LYS
171
B
LYS
171
B
LYS
172
B
LYS
172
169
P 61