0.014910
0.000000
0.000000
0.000000
0.013484
0.000000
0.000000
0.000000
0.011138
0.00000
0.00000
0.00000
Hadders, M.A.
Agromayor, M.
Caballe, A.
Obita, T.
Perisic, O.
Williams, R.L.
Martin-Serrano, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
16
90.00
90.00
90.00
67.070
74.160
89.785
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
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
C13 H28 O7
296.357
2,5,8,11,14,17-HEXAOXANONADECAN-19-OL
non-polymer
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
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
C
N
138
N
O
N
139
N
C
N
140
N
O
N
141
N
C
N
142
N
O
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
N
N
152
S
C
N
153
N
C
N
154
N
O
N
155
N
C
Y
156
N
C
Y
157
N
N
Y
158
N
C
Y
159
N
C
Y
160
N
N
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
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
O
N
173
N
H
N
174
N
H
N
175
N
N
N
176
S
C
N
177
N
C
N
178
N
O
N
179
S
C
N
180
N
C
N
181
N
C
N
182
N
C
N
183
N
O
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
N
N
198
S
C
N
199
N
C
N
200
N
O
N
201
N
C
N
202
N
C
N
203
N
C
N
204
N
C
N
205
N
O
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
N
N
220
S
C
N
221
N
C
N
222
N
O
N
223
N
C
N
224
N
C
N
225
N
C
N
226
N
C
N
227
N
N
N
228
N
O
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
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
N
N
245
S
C
N
246
N
C
N
247
N
O
N
248
N
C
N
249
N
C
N
250
N
S
N
251
N
C
N
252
N
O
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
C
N
265
N
O
N
266
N
C
N
267
N
C
N
268
N
O
N
269
N
C
N
270
N
C
N
271
N
O
N
272
N
C
N
273
N
C
N
274
N
O
N
275
N
C
N
276
N
C
N
277
N
O
N
278
N
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
C
N
283
N
O
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
H
N
295
N
H
N
296
N
H
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
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
N
N
313
S
C
N
314
N
C
N
315
N
O
N
316
N
C
N
317
N
C
N
318
N
C
N
319
N
O
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
N
N
330
S
C
N
331
N
C
N
332
N
O
N
333
N
C
N
334
N
O
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
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
R
C
N
348
N
O
N
349
N
C
N
350
N
O
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
H
N
359
N
H
N
360
N
N
N
361
S
C
N
362
N
C
N
363
N
O
N
364
N
C
Y
365
N
C
Y
366
N
C
Y
367
N
C
Y
368
N
C
Y
369
N
C
Y
370
N
C
N
371
N
O
N
372
N
O
N
373
N
H
N
374
N
H
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
N
N
385
S
C
N
386
N
C
N
387
N
O
N
388
N
C
N
389
N
C
N
390
N
C
N
391
N
O
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
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
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
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
Y
153
N
sing
Y
154
N
doub
Y
155
N
doub
N
156
N
sing
Y
157
N
sing
N
158
N
sing
Y
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
doub
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
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
doub
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
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
doub
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
sing
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
doub
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
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
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
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
sing
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
sing
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
doub
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
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
doub
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
sing
N
332
N
sing
N
333
N
doub
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
sing
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
doub
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
Y
354
N
doub
Y
355
N
sing
Y
356
N
sing
N
357
N
sing
Y
358
N
doub
N
359
N
sing
Y
360
N
doub
N
361
N
sing
Y
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
doub
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
sing
N
384
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
109
17424
10.1073/PNAS.1206839109
23045692
Escrt-III Binding Protein Mitd1 is Involved in Cytokinesis and Has an Unanticipated Pld Fold that Binds Membranes.
2012
10.2210/pdb4a5x/pdb
pdb_00004a5x
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2010-09-29
ADSC CCD
SINGLE WAVELENGTH
M
x-ray
1
0.97630
1.0
I03
Diamond
0.97630
SYNCHROTRON
DIAMOND BEAMLINE I03
10053.435
MIT DOMAIN-CONTAINING PROTEIN 1
MIT, RESIDUES 9-85
2
man
polymer
1901.157
CHARGED MULTIVESICULAR BODY PROTEIN 1A
RESIDUES 184-196
2
man
polymer
92.094
GLYCEROL
2
syn
non-polymer
296.357
2,5,8,11,14,17-HEXAOXANONADECAN-19-OL
1
syn
non-polymer
18.015
water
75
nat
water
MITD1
CHROMATIN-MODIFYING PROTEIN 1A, CHMP1A, VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 46-1, VPS46-1, HVPS46-1
no
no
MAHHHHHHMDPQSTAAATVLKRAVELDSESRYPQALVCYQEGIDLLLQVLKGTKDNTKRCNLREKISKYMDRAENIKKYL
DQEKED
MAHHHHHHMDPQSTAAATVLKRAVELDSESRYPQALVCYQEGIDLLLQVLKGTKDNTKRCNLREKISKYMDRAENIKKYL
DQEKED
A,B
polypeptide(L)
no
no
SHMEDQLSRRLAALRN
SHMEDQLSRRLAALRN
C,D
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
HUMAN
sample
9606
HOMO SAPIENS
511693
ESCHERICHIA COLI
BL21
C41
POPTH
PLASMID
HUMAN
sample
9606
HOMO SAPIENS
511693
ESCHERICHIA COLI
BL21
C41
POPTH
PLASMID
1
2
38
NONE
29% PEG2000MME, 160 MM KSCN
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
struct_site
repository
Initial release
Database references
Structure summary
Data collection
Database references
Derived calculations
Other
Refinement description
1
0
2012-11-14
1
1
2013-11-13
1
2
2023-12-20
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
PDBE
Y
PDBE
2011-10-28
REL
REL
GOL
GLYCEROL
P15
2,5,8,11,14,17-HEXAOXANONADECAN-19-OL
HOH
water
1WFD
PDB ENTRY 1WFD
PDB
experimental model
GOL
1083
3
GOL
GOL
1083
A
P15
1082
4
P15
P15
1082
B
GOL
1197
3
GOL
GOL
1197
C
HOH
2001
5
HOH
HOH
2001
A
HOH
2002
5
HOH
HOH
2002
A
HOH
2003
5
HOH
HOH
2003
A
HOH
2004
5
HOH
HOH
2004
A
HOH
2005
5
HOH
HOH
2005
A
HOH
2006
5
HOH
HOH
2006
A
HOH
2007
5
HOH
HOH
2007
A
HOH
2008
5
HOH
HOH
2008
A
HOH
2009
5
HOH
HOH
2009
A
HOH
2010
5
HOH
HOH
2010
A
HOH
2011
5
HOH
HOH
2011
A
HOH
2012
5
HOH
HOH
2012
A
HOH
2013
5
HOH
HOH
2013
A
HOH
2014
5
HOH
HOH
2014
A
HOH
2015
5
HOH
HOH
2015
A
HOH
2016
5
HOH
HOH
2016
A
HOH
2017
5
HOH
HOH
2017
A
HOH
2018
5
HOH
HOH
2018
A
HOH
2019
5
HOH
HOH
2019
A
HOH
2020
5
HOH
HOH
2020
A
HOH
2021
5
HOH
HOH
2021
A
HOH
2022
5
HOH
HOH
2022
A
HOH
2023
5
HOH
HOH
2023
A
HOH
2001
5
HOH
HOH
2001
B
HOH
2002
5
HOH
HOH
2002
B
HOH
2003
5
HOH
HOH
2003
B
HOH
2004
5
HOH
HOH
2004
B
HOH
2005
5
HOH
HOH
2005
B
HOH
2006
5
HOH
HOH
2006
B
HOH
2007
5
HOH
HOH
2007
B
HOH
2008
5
HOH
HOH
2008
B
HOH
2009
5
HOH
HOH
2009
B
HOH
2010
5
HOH
HOH
2010
B
HOH
2011
5
HOH
HOH
2011
B
HOH
2012
5
HOH
HOH
2012
B
HOH
2013
5
HOH
HOH
2013
B
HOH
2014
5
HOH
HOH
2014
B
HOH
2015
5
HOH
HOH
2015
B
HOH
2016
5
HOH
HOH
2016
B
HOH
2017
5
HOH
HOH
2017
B
HOH
2018
5
HOH
HOH
2018
B
HOH
2019
5
HOH
HOH
2019
B
HOH
2020
5
HOH
HOH
2020
B
HOH
2021
5
HOH
HOH
2021
B
HOH
2022
5
HOH
HOH
2022
B
HOH
2023
5
HOH
HOH
2023
B
HOH
2024
5
HOH
HOH
2024
B
HOH
2025
5
HOH
HOH
2025
B
HOH
2026
5
HOH
HOH
2026
B
HOH
2027
5
HOH
HOH
2027
B
HOH
2028
5
HOH
HOH
2028
B
HOH
2029
5
HOH
HOH
2029
B
HOH
2030
5
HOH
HOH
2030
B
HOH
2031
5
HOH
HOH
2031
B
HOH
2032
5
HOH
HOH
2032
B
HOH
2033
5
HOH
HOH
2033
B
HOH
2034
5
HOH
HOH
2034
B
HOH
2035
5
HOH
HOH
2035
B
HOH
2036
5
HOH
HOH
2036
B
HOH
2037
5
HOH
HOH
2037
B
HOH
2038
5
HOH
HOH
2038
B
HOH
2039
5
HOH
HOH
2039
B
HOH
2040
5
HOH
HOH
2040
B
HOH
2041
5
HOH
HOH
2041
B
HOH
2042
5
HOH
HOH
2042
B
HOH
2043
5
HOH
HOH
2043
B
HOH
2001
5
HOH
HOH
2001
C
HOH
2002
5
HOH
HOH
2002
C
HOH
2003
5
HOH
HOH
2003
C
HOH
2004
5
HOH
HOH
2004
C
HOH
2001
5
HOH
HOH
2001
D
HOH
2002
5
HOH
HOH
2002
D
HOH
2003
5
HOH
HOH
2003
D
HOH
2004
5
HOH
HOH
2004
D
HOH
2005
5
HOH
HOH
2005
D
n
1
0
A
n
2
1
A
n
3
2
A
n
4
3
A
n
5
4
A
n
6
5
A
n
7
6
A
n
8
7
A
n
9
8
A
n
10
9
A
PRO
10
n
11
PRO
10
A
GLN
11
n
12
GLN
11
A
SER
12
n
13
SER
12
A
THR
13
n
14
THR
13
A
ALA
14
n
15
ALA
14
A
ALA
15
n
16
ALA
15
A
ALA
16
n
17
ALA
16
A
THR
17
n
18
THR
17
A
VAL
18
n
19
VAL
18
A
LEU
19
n
20
LEU
19
A
LYS
20
n
21
LYS
20
A
ARG
21
n
22
ARG
21
A
ALA
22
n
23
ALA
22
A
VAL
23
n
24
VAL
23
A
GLU
24
n
25
GLU
24
A
LEU
25
n
26
LEU
25
A
ASP
26
n
27
ASP
26
A
SER
27
n
28
SER
27
A
GLU
28
n
29
GLU
28
A
SER
29
n
30
SER
29
A
ARG
30
n
31
ARG
30
A
TYR
31
n
32
TYR
31
A
PRO
32
n
33
PRO
32
A
GLN
33
n
34
GLN
33
A
ALA
34
n
35
ALA
34
A
LEU
35
n
36
LEU
35
A
VAL
36
n
37
VAL
36
A
CYS
37
n
38
CYS
37
A
TYR
38
n
39
TYR
38
A
GLN
39
n
40
GLN
39
A
GLU
40
n
41
GLU
40
A
GLY
41
n
42
GLY
41
A
ILE
42
n
43
ILE
42
A
ASP
43
n
44
ASP
43
A
LEU
44
n
45
LEU
44
A
LEU
45
n
46
LEU
45
A
LEU
46
n
47
LEU
46
A
GLN
47
n
48
GLN
47
A
VAL
48
n
49
VAL
48
A
LEU
49
n
50
LEU
49
A
LYS
50
n
51
LYS
50
A
GLY
51
n
52
GLY
51
A
THR
52
n
53
THR
52
A
LYS
53
n
54
LYS
53
A
ASP
54
n
55
ASP
54
A
ASN
55
n
56
ASN
55
A
THR
56
n
57
THR
56
A
LYS
57
n
58
LYS
57
A
ARG
58
n
59
ARG
58
A
CYS
59
n
60
CYS
59
A
ASN
60
n
61
ASN
60
A
LEU
61
n
62
LEU
61
A
ARG
62
n
63
ARG
62
A
GLU
63
n
64
GLU
63
A
LYS
64
n
65
LYS
64
A
ILE
65
n
66
ILE
65
A
SER
66
n
67
SER
66
A
LYS
67
n
68
LYS
67
A
TYR
68
n
69
TYR
68
A
MET
69
n
70
MET
69
A
ASP
70
n
71
ASP
70
A
ARG
71
n
72
ARG
71
A
ALA
72
n
73
ALA
72
A
GLU
73
n
74
GLU
73
A
ASN
74
n
75
ASN
74
A
ILE
75
n
76
ILE
75
A
LYS
76
n
77
LYS
76
A
LYS
77
n
78
LYS
77
A
TYR
78
n
79
TYR
78
A
LEU
79
n
80
LEU
79
A
ASP
80
n
81
ASP
80
A
GLN
81
n
82
GLN
81
A
GLU
82
n
83
GLU
82
A
n
84
83
A
n
85
84
A
n
86
85
A
n
1
0
B
n
2
1
B
n
3
2
B
n
4
3
B
n
5
4
B
n
6
5
B
n
7
6
B
n
8
7
B
n
9
8
B
ASP
9
n
10
ASP
9
B
PRO
10
n
11
PRO
10
B
GLN
11
n
12
GLN
11
B
SER
12
n
13
SER
12
B
THR
13
n
14
THR
13
B
ALA
14
n
15
ALA
14
B
ALA
15
n
16
ALA
15
B
ALA
16
n
17
ALA
16
B
THR
17
n
18
THR
17
B
VAL
18
n
19
VAL
18
B
LEU
19
n
20
LEU
19
B
LYS
20
n
21
LYS
20
B
ARG
21
n
22
ARG
21
B
ALA
22
n
23
ALA
22
B
VAL
23
n
24
VAL
23
B
GLU
24
n
25
GLU
24
B
LEU
25
n
26
LEU
25
B
ASP
26
n
27
ASP
26
B
SER
27
n
28
SER
27
B
GLU
28
n
29
GLU
28
B
SER
29
n
30
SER
29
B
ARG
30
n
31
ARG
30
B
TYR
31
n
32
TYR
31
B
PRO
32
n
33
PRO
32
B
GLN
33
n
34
GLN
33
B
ALA
34
n
35
ALA
34
B
LEU
35
n
36
LEU
35
B
VAL
36
n
37
VAL
36
B
CYS
37
n
38
CYS
37
B
TYR
38
n
39
TYR
38
B
GLN
39
n
40
GLN
39
B
GLU
40
n
41
GLU
40
B
GLY
41
n
42
GLY
41
B
ILE
42
n
43
ILE
42
B
ASP
43
n
44
ASP
43
B
LEU
44
n
45
LEU
44
B
LEU
45
n
46
LEU
45
B
LEU
46
n
47
LEU
46
B
GLN
47
n
48
GLN
47
B
VAL
48
n
49
VAL
48
B
LEU
49
n
50
LEU
49
B
LYS
50
n
51
LYS
50
B
GLY
51
n
52
GLY
51
B
THR
52
n
53
THR
52
B
LYS
53
n
54
LYS
53
B
ASP
54
n
55
ASP
54
B
ASN
55
n
56
ASN
55
B
THR
56
n
57
THR
56
B
LYS
57
n
58
LYS
57
B
ARG
58
n
59
ARG
58
B
CYS
59
n
60
CYS
59
B
ASN
60
n
61
ASN
60
B
LEU
61
n
62
LEU
61
B
ARG
62
n
63
ARG
62
B
GLU
63
n
64
GLU
63
B
LYS
64
n
65
LYS
64
B
ILE
65
n
66
ILE
65
B
SER
66
n
67
SER
66
B
LYS
67
n
68
LYS
67
B
TYR
68
n
69
TYR
68
B
MET
69
n
70
MET
69
B
ASP
70
n
71
ASP
70
B
ARG
71
n
72
ARG
71
B
ALA
72
n
73
ALA
72
B
GLU
73
n
74
GLU
73
B
ASN
74
n
75
ASN
74
B
ILE
75
n
76
ILE
75
B
LYS
76
n
77
LYS
76
B
LYS
77
n
78
LYS
77
B
TYR
78
n
79
TYR
78
B
LEU
79
n
80
LEU
79
B
ASP
80
n
81
ASP
80
B
GLN
81
n
82
GLN
81
B
n
83
82
B
n
84
83
B
n
85
84
B
n
86
85
B
n
1
181
C
n
2
182
C
MET
183
n
3
MET
183
C
GLU
184
n
4
GLU
184
C
ASP
185
n
5
ASP
185
C
GLN
186
n
6
GLN
186
C
LEU
187
n
7
LEU
187
C
SER
188
n
8
SER
188
C
ARG
189
n
9
ARG
189
C
ARG
190
n
10
ARG
190
C
LEU
191
n
11
LEU
191
C
ALA
192
n
12
ALA
192
C
ALA
193
n
13
ALA
193
C
LEU
194
n
14
LEU
194
C
ARG
195
n
15
ARG
195
C
ASN
196
n
16
ASN
196
C
SER
181
n
1
SER
181
D
HIS
182
n
2
HIS
182
D
MET
183
n
3
MET
183
D
GLU
184
n
4
GLU
184
D
ASP
185
n
5
ASP
185
D
GLN
186
n
6
GLN
186
D
LEU
187
n
7
LEU
187
D
SER
188
n
8
SER
188
D
ARG
189
n
9
ARG
189
D
ARG
190
n
10
ARG
190
D
LEU
191
n
11
LEU
191
D
ALA
192
n
12
ALA
192
D
ALA
193
n
13
ALA
193
D
LEU
194
n
14
LEU
194
D
ARG
195
n
15
ARG
195
D
ASN
196
n
16
ASN
196
D
6.7086
-2.0756
-0.4155
8.0756
1.3533
2.0063
0.0725
0.5653
0.5749
-0.5271
0.0421
-0.4898
-0.1413
0.1602
-0.1146
-0.0265
0.0379
0.0129
-0.0349
0.0875
-0.0609
refined
-6.4509
29.1113
5.0379
X-RAY DIFFRACTION
3.7311
-0.5849
1.0158
4.6734
-0.8948
1.7043
-0.1577
-0.0256
0.6291
0.3408
0.1240
-0.2355
-0.1819
-0.2040
0.0337
-0.0690
0.0782
-0.0591
-0.0596
0.0126
0.0232
refined
-10.9337
36.9272
13.8162
X-RAY DIFFRACTION
1.9463
1.2130
2.2849
8.3632
-0.7007
3.7569
-0.0141
-0.1069
0.2567
-0.3595
0.1429
0.7155
0.1130
-0.7862
-0.1288
-0.1378
0.0356
-0.0591
0.0325
0.0247
-0.0116
refined
-21.3753
27.9361
6.9366
X-RAY DIFFRACTION
4.4750
-0.4203
-2.6149
4.5503
-1.0673
5.5594
0.0641
-0.0839
0.4315
-0.0604
0.0209
-0.1321
-0.2155
0.0646
-0.0849
-0.0954
0.0223
-0.0213
-0.1187
-0.0218
-0.1214
refined
-1.5444
23.5899
17.1845
X-RAY DIFFRACTION
5.6643
0.3172
-2.0479
2.0145
-0.3623
2.5334
-0.0224
-0.0015
0.1100
-0.1980
-0.0723
-0.2297
0.1033
0.1947
0.0947
-0.0005
0.0368
0.0224
-0.0160
0.0182
-0.0556
refined
5.2275
17.8533
11.4759
X-RAY DIFFRACTION
2.2888
0.9339
-0.0719
8.2547
-2.2592
5.1206
-0.1070
0.0572
-0.9802
-0.3822
-0.0232
0.3511
0.3773
-0.2086
0.1302
0.0708
-0.0386
0.0136
0.0142
-0.0564
0.1214
refined
-7.8397
6.2981
11.8957
X-RAY DIFFRACTION
0.0020
0.4963
2.0276
0.6942
0.4403
0.8400
-0.0326
-0.1030
0.2688
-0.0036
-0.1047
0.0240
-0.0037
-0.0535
0.1373
-0.0518
0.1920
0.0922
0.0563
-0.0433
0.0413
refined
-18.2605
39.8901
20.6593
X-RAY DIFFRACTION
6.1051
-0.8682
-0.1627
0.0020
3.4466
0.0000
-0.0196
-0.2582
-0.1368
0.6345
-0.0107
0.6651
-0.2236
-0.6681
0.0303
-0.0786
0.0973
0.0359
0.0190
0.0173
0.0155
refined
-19.3968
29.6056
18.2445
X-RAY DIFFRACTION
8.2302
-5.2019
0.4825
0.0000
2.1875
1.4996
-0.1008
0.2728
-0.1690
-0.0402
-0.0939
-0.4997
0.3096
0.3942
0.1947
0.0711
0.0587
0.1125
-0.0012
0.0333
0.0073
refined
11.1143
10.8463
5.3689
X-RAY DIFFRACTION
1.2370
1.7420
-1.0253
3.8540
5.3734
7.7414
-0.1616
0.6315
-0.3788
-0.6457
-0.1418
0.0705
0.2288
-0.2511
0.3034
-0.0126
0.0152
0.0043
-0.0254
-0.0602
-0.0703
refined
0.1585
12.0142
3.1974
X-RAY DIFFRACTION
X-RAY DIFFRACTION
1
CHAIN A AND RESSEQ 10:30
X-RAY DIFFRACTION
2
CHAIN A AND RESSEQ 31:65
X-RAY DIFFRACTION
3
CHAIN A AND RESSEQ 66:82
X-RAY DIFFRACTION
4
CHAIN B AND RESSEQ 9:29
X-RAY DIFFRACTION
5
CHAIN B AND RESSEQ 30:72
X-RAY DIFFRACTION
6
CHAIN B AND RESSEQ 73:81)
X-RAY DIFFRACTION
7
CHAIN C AND RESSEQ 183:187
X-RAY DIFFRACTION
8
CHAIN C AND RESSEQ 188:196
X-RAY DIFFRACTION
9
CHAIN D AND RESSEQ 181:187
X-RAY DIFFRACTION
10
CHAIN D AND RESSEQ 188:196
author_and_software_defined_assembly
PISA
2
dimeric
author_and_software_defined_assembly
PISA
2
dimeric
1750
-6.9
5580
1330
-3.3
5730
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
MET
0
A
MET
1
1
Y
1
A
ALA
1
A
ALA
2
1
Y
1
A
HIS
2
A
HIS
3
1
Y
1
A
HIS
3
A
HIS
4
1
Y
1
A
HIS
4
A
HIS
5
1
Y
1
A
HIS
5
A
HIS
6
1
Y
1
A
HIS
6
A
HIS
7
1
Y
1
A
HIS
7
A
HIS
8
1
Y
1
A
MET
8
A
MET
9
1
Y
1
A
ASP
9
A
ASP
10
1
Y
1
A
LYS
83
A
LYS
84
1
Y
1
A
GLU
84
A
GLU
85
1
Y
1
A
ASP
85
A
ASP
86
1
Y
1
B
MET
0
B
MET
1
1
Y
1
B
ALA
1
B
ALA
2
1
Y
1
B
HIS
2
B
HIS
3
1
Y
1
B
HIS
3
B
HIS
4
1
Y
1
B
HIS
4
B
HIS
5
1
Y
1
B
HIS
5
B
HIS
6
1
Y
1
B
HIS
6
B
HIS
7
1
Y
1
B
HIS
7
B
HIS
8
1
Y
1
B
MET
8
B
MET
9
1
Y
1
B
GLU
82
B
GLU
83
1
Y
1
B
LYS
83
B
LYS
84
1
Y
1
B
GLU
84
B
GLU
85
1
Y
1
B
ASP
85
B
ASP
86
1
Y
1
C
SER
181
C
SER
1
1
Y
1
C
HIS
182
C
HIS
2
1
Y
1
B
ARG
30
-102.13
72.45
38.60
4.6019
0.0000
0.0000
-6.0606
0.0000
1.4586
0.9364
0.9288
0.2265
0.2011
0.2024
1.91
18.34
875
17144
5.10
RANDOM
1
THROUGHOUT
0.0
MOLECULAR REPLACEMENT
PDB ENTRY 1WFD
0.274
1.91
18.34
75
1526
32
0
1419
0.008
1467
HARMONIC
2.00
0.90
1954
HARMONIC
2.00
567
SINUSOIDAL
2.00
48
HARMONIC
2.00
201
HARMONIC
5.00
1448
HARMONIC
20.00
2.16
16.29
188
SEMIHARMONIC
5.00
1729
SEMIHARMONIC
4.00
0.2480
0.2130
0.2149
2.03
133
2444
2577
9
5.16
31.13
1.91
30.00
4A5X
17144
2.0
0.06
1
22.50
7.3
97.6
0.62
1.91
2.02
3.20
1
7.3
94.6
refinement
BUSTER
2.8.0
data reduction
XDS
data scaling
SCALA
phasing
PHASER
Structures of MITD1
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
4
N
N
3
N
N
5
N
N
5
N
N
5
N
N
5
N
N
A
PRO
10
A
PRO
11
HELX_P
A
GLU
28
A
GLU
29
1
1
19
A
ARG
30
A
ARG
31
HELX_P
A
GLY
51
A
GLY
52
1
2
22
A
ASP
54
A
ASP
55
HELX_P
A
GLU
82
A
GLU
83
1
3
29
B
ASP
9
B
ASP
10
HELX_P
B
GLU
28
B
GLU
29
1
4
20
B
ARG
30
B
ARG
31
HELX_P
B
GLY
51
B
GLY
52
1
5
22
B
ASP
54
B
ASP
55
HELX_P
B
GLN
81
B
GLN
82
1
6
28
C
MET
183
C
MET
3
HELX_P
C
ASN
196
C
ASN
16
1
7
14
D
MET
183
D
MET
3
HELX_P
D
ASN
196
D
ASN
16
1
8
14
PROTEIN TRANSPORT
PROTEIN TRANSPORT, ESCRT, CYTOKINESIS, MIDBODY
given
0.025990
0.975080
0.220330
0.987540
-0.059260
0.145750
0.155180
0.213800
-0.964470
-32.42354
30.12221
17.40723
given
0.066550
0.951980
0.298850
0.981750
-0.115950
0.150740
0.178150
0.283370
-0.942320
-32.04975
31.69856
15.42861
MITD1_HUMAN
UNP
1
Q8WV92
CHM1A_HUMAN
UNP
2
Q9HD42
9
85
4A5X
9
85
Q8WV92
A
1
10
86
9
85
4A5X
9
85
Q8WV92
B
1
10
86
184
196
4A5X
184
196
Q9HD42
C
2
4
16
184
196
4A5X
184
196
Q9HD42
D
2
4
16
1
expression tag
MET
0
4A5X
A
Q8WV92
UNP
1
1
expression tag
ALA
1
4A5X
A
Q8WV92
UNP
2
1
expression tag
HIS
2
4A5X
A
Q8WV92
UNP
3
1
expression tag
HIS
3
4A5X
A
Q8WV92
UNP
4
1
expression tag
HIS
4
4A5X
A
Q8WV92
UNP
5
1
expression tag
HIS
5
4A5X
A
Q8WV92
UNP
6
1
expression tag
HIS
6
4A5X
A
Q8WV92
UNP
7
1
expression tag
HIS
7
4A5X
A
Q8WV92
UNP
8
1
expression tag
MET
8
4A5X
A
Q8WV92
UNP
9
2
expression tag
MET
0
4A5X
B
Q8WV92
UNP
1
2
expression tag
ALA
1
4A5X
B
Q8WV92
UNP
2
2
expression tag
HIS
2
4A5X
B
Q8WV92
UNP
3
2
expression tag
HIS
3
4A5X
B
Q8WV92
UNP
4
2
expression tag
HIS
4
4A5X
B
Q8WV92
UNP
5
2
expression tag
HIS
5
4A5X
B
Q8WV92
UNP
6
2
expression tag
HIS
6
4A5X
B
Q8WV92
UNP
7
2
expression tag
HIS
7
4A5X
B
Q8WV92
UNP
8
2
expression tag
MET
8
4A5X
B
Q8WV92
UNP
9
3
expression tag
SER
181
4A5X
C
Q9HD42
UNP
1
3
expression tag
HIS
182
4A5X
C
Q9HD42
UNP
2
3
expression tag
MET
183
4A5X
C
Q9HD42
UNP
3
4
expression tag
SER
181
4A5X
D
Q9HD42
UNP
1
4
expression tag
HIS
182
4A5X
D
Q9HD42
UNP
2
4
expression tag
MET
183
4A5X
D
Q9HD42
UNP
3
BINDING SITE FOR RESIDUE GOL A 1083
A
GOL
1083
Software
2
BINDING SITE FOR RESIDUE P15 B 1082
B
P15
1082
Software
10
BINDING SITE FOR RESIDUE GOL C 1197
C
GOL
1197
Software
6
A
LYS
67
A
LYS
68
2
1_555
A
TYR
68
A
TYR
69
2
1_555
B
ASP
26
B
ASP
27
10
1_555
B
SER
27
B
SER
28
10
1_555
B
TYR
31
B
TYR
32
10
1_555
B
TYR
38
B
TYR
39
10
3_555
B
LYS
67
B
LYS
68
10
3_555
B
ARG
71
B
ARG
72
10
3_555
B
ARG
71
B
ARG
72
10
1_555
B
ASN
74
B
ASN
75
10
1_555
B
TYR
78
B
TYR
79
10
1_555
B
HOH
2015
I
HOH
10
1_555
A
ARG
58
A
ARG
59
6
1_555
A
HOH
2016
H
HOH
6
1_555
B
TYR
78
B
TYR
79
6
7_455
C
MET
183
C
MET
3
6
1_555
C
GLU
184
C
GLU
4
6
1_555
C
ASP
185
C
ASP
5
6
1_555
20
C 2 2 21