0.007609
0.004393
0.000000
0.000000
0.008786
0.000000
0.000000
0.000000
0.025121
0.00000
0.00000
0.00000
Yamini, S.
Kushwaha, G.S.
Bhushan, A.
Sinha, M.
Kaur, P.
Sharma, S.
Singh, T.P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
9
90.00
90.00
120.00
131.428
131.428
39.808
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
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
C6 H7 N5 O
165.153
2-amino-7-methyl-1,7-dihydro-6H-purin-6-one
non-polymer
C8 H15 N O6
221.208
2-acetamido-2-deoxy-beta-D-glucopyranose
N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE
D-saccharide, beta 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
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
N
84
N
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
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
N
N
114
N
C
N
115
N
C
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
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
Y
128
N
C
Y
129
N
N
Y
130
N
C
Y
131
N
C
Y
132
N
N
N
133
N
O
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
O
N
145
N
H
N
146
N
H
N
147
N
N
N
148
S
C
N
149
N
C
N
150
N
O
N
151
S
C
N
152
N
C
N
153
N
C
N
154
N
C
N
155
N
O
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
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
N
N
170
S
C
N
171
N
C
N
172
N
O
N
173
N
C
N
174
N
C
N
175
N
C
N
176
N
C
N
177
N
O
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
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
N
N
192
S
C
N
193
N
C
N
194
N
O
N
195
N
C
N
196
N
C
N
197
N
C
N
198
N
C
N
199
N
N
N
200
N
O
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
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
N
N
217
S
C
N
218
N
C
N
219
N
O
N
220
N
C
N
221
N
C
N
222
N
S
N
223
N
C
N
224
N
O
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
C
Y
237
N
N
Y
238
N
C
Y
239
N
N
Y
240
N
C
N
241
N
C
N
242
N
O
N
243
N
N
N
244
N
C
N
245
N
N
N
246
N
N
Y
247
N
C
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
R
C
N
256
R
C
N
257
R
C
N
258
S
C
N
259
R
C
N
260
N
C
N
261
N
C
N
262
N
C
N
263
N
N
N
264
N
O
N
265
N
O
N
266
N
O
N
267
N
O
N
268
N
O
N
269
N
O
N
270
N
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
N
N
286
S
C
N
287
N
C
N
288
N
O
N
289
N
C
Y
290
N
C
Y
291
N
C
Y
292
N
C
Y
293
N
C
Y
294
N
C
Y
295
N
C
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
H
N
305
N
H
N
306
N
H
N
307
N
H
N
308
N
N
N
309
S
C
N
310
N
C
N
311
N
O
N
312
N
C
N
313
N
C
N
314
N
C
N
315
N
O
N
316
N
H
N
317
N
H
N
318
N
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
H
N
323
N
H
N
324
N
H
N
325
N
N
N
326
S
C
N
327
N
C
N
328
N
O
N
329
N
C
N
330
N
O
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
N
N
340
S
C
N
341
N
C
N
342
N
O
N
343
R
C
N
344
N
O
N
345
N
C
N
346
N
O
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
N
N
357
S
C
N
358
N
C
N
359
N
O
N
360
N
C
Y
361
N
C
Y
362
N
C
Y
363
N
C
Y
364
N
N
Y
365
N
C
Y
366
N
C
Y
367
N
C
Y
368
N
C
Y
369
N
C
N
370
N
O
N
371
N
H
N
372
N
H
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
N
N
384
S
C
N
385
N
C
N
386
N
O
N
387
N
C
Y
388
N
C
Y
389
N
C
Y
390
N
C
Y
391
N
C
Y
392
N
C
Y
393
N
C
N
394
N
O
N
395
N
O
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
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
N
N
408
S
C
N
409
N
C
N
410
N
O
N
411
N
C
N
412
N
C
N
413
N
C
N
414
N
O
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
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
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
doub
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
doub
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
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
sing
N
122
N
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
doub
N
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
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
doub
N
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
sing
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
doub
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
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
doub
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
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
doub
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
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
Y
228
N
doub
Y
229
N
sing
Y
230
N
sing
N
231
N
sing
Y
232
N
sing
Y
233
N
doub
N
234
N
sing
N
235
N
sing
N
236
N
doub
N
237
N
sing
N
238
N
sing
N
239
N
doub
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
doub
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
doub
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
Y
285
N
doub
Y
286
N
sing
Y
287
N
sing
N
288
N
sing
Y
289
N
doub
N
290
N
sing
Y
291
N
doub
N
292
N
sing
Y
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
Y
359
N
sing
Y
360
N
sing
N
361
N
sing
Y
362
N
sing
Y
363
N
doub
N
364
N
sing
Y
365
N
doub
N
366
N
sing
Y
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
sing
N
377
N
doub
N
378
N
sing
N
379
N
sing
N
380
N
sing
N
381
N
sing
Y
382
N
doub
Y
383
N
sing
Y
384
N
sing
N
385
N
sing
Y
386
N
doub
N
387
N
sing
Y
388
N
doub
N
389
N
sing
Y
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
sing
N
401
N
doub
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
N
412
N
sing
US
Proteins
PSFGEY
0867
0887-3585
81
896
905
10.1002/prot.24248
23280611
First structural evidence of sequestration of mRNA cap structures by type 1 ribosome inactivating protein from Momordica balsamina.
2013
10.2210/pdb4i47/pdb
pdb_00004i47
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
77
1
MIRROR
IMAGE PLATE
2009-07-21
MAR scanner 345 mm plate
GRAPHITE
SINGLE WAVELENGTH
M
x-ray
1
1.0
ROTATING ANODE
RIGAKU RU300
27093.756
rRNA N-glycosidase
3.2.2.22
1
nat
polymer
424.401
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
1
man
branched
165.153
2-amino-7-methyl-1,7-dihydro-6H-purin-6-one
1
syn
non-polymer
18.015
water
111
nat
water
no
no
DVSFRLSGADPSSYGMFIKDLRNALPHTEKVYNIPLLLPSVSGAGRYLLMHLFNYDGNTITVAVDVTNVYIMGYLALTTS
YFFNEPAADLASQYVFRSARRKITLPYSGNYERLQIAAGKPREKIPIGLPALDTAISTLLHYDSTAAAGALLVLIQTTAE
AARFKYIEQQIQERAYRDEVPSSATISLENSWSGLSKQIQLAQGNNGVFRTPTVLVDSKGNRVQITNVTSNVVTSNIQLL
LNTKNI
DVSFRLSGADPSSYGMFIKDLRNALPHTEKVYNIPLLLPSVSGAGRYLLMHLFNYDGNTITVAVDVTNVYIMGYLALTTS
YFFNEPAADLASQYVFRSARRKITLPYSGNYERLQIAAGKPREKIPIGLPALDTAISTLLHYDSTAAAGALLVLIQTTAE
AARFKYIEQQIQERAYRDEVPSSATISLENSWSGLSKQIQLAQGNNGVFRTPTVLVDSKGNRVQITNVTSNVVTSNIQLL
LNTKNI
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Bitter gourd
sample
3672
Momordica balsamina
1
2.44
49.63
VAPOR DIFFUSION, HANGING DROP
7.0
PEG, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
atom_site
chem_comp
entity
pdbx_branch_scheme
pdbx_chem_comp_identifier
pdbx_entity_branch
pdbx_entity_branch_descriptor
pdbx_entity_branch_link
pdbx_entity_branch_list
pdbx_entity_nonpoly
pdbx_nonpoly_scheme
pdbx_struct_assembly_gen
pdbx_validate_close_contact
struct_asym
struct_conn
struct_site
struct_site_gen
chem_comp
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
repository
Initial release
Carbohydrate remediation
repository
Remediation
Database references
Advisory
Atomic model
Data collection
Derived calculations
Structure summary
Data collection
Database references
Refinement description
Structure summary
1
0
2012-12-12
1
1
2013-05-15
2
0
2020-07-29
2
1
2023-11-08
_atom_site.auth_asym_id
_atom_site.auth_seq_id
_atom_site.label_asym_id
_chem_comp.name
_chem_comp.type
_entity.formula_weight
_entity.pdbx_description
_entity.pdbx_number_of_molecules
_entity.type
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_validate_close_contact.auth_asym_id_1
_pdbx_validate_close_contact.auth_asym_id_2
_pdbx_validate_close_contact.auth_seq_id_1
_pdbx_validate_close_contact.auth_seq_id_2
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_role
_struct_conn.ptnr1_auth_asym_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.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
A
NAG
301
n
B
NAG
1
A
NAG
302
n
B
NAG
2
DGlcpNAcb
N-acetyl-b-D-glucopyranosamine
b-D-GlcpNAc
GlcNAc
RCSB
Y
PDBJ
2012-11-27
REL
REL
oligosaccharide
DGlcpNAcb1-4DGlcpNAcb1-
2
GMML
1.0
Glycam Condensed Sequence
WURCS=2.0/1,2,1/[a2122h-1b_1-5_2*NCC/3=O]/1-1/a4-b1
2
PDB2Glycan
1.1.0
WURCS
[]{[(4+1)][b-D-GlcpNAc]{[(4+1)][b-D-GlcpNAc]{}}}
2
PDB-CARE
LINUCS
C1
O4
NAG
NAG
2
1
2
O1
HO4
sing
n
n
MY6
2-amino-7-methyl-1,7-dihydro-6H-purin-6-one
HOH
water
3S9Q
PDB
experimental model
MY6
247
3
MY6
MY6
303
A
HOH
401
4
HOH
HOH
401
A
HOH
402
4
HOH
HOH
402
A
HOH
403
4
HOH
HOH
403
A
HOH
404
4
HOH
HOH
404
A
HOH
405
4
HOH
HOH
405
A
HOH
406
4
HOH
HOH
406
A
HOH
407
4
HOH
HOH
407
A
HOH
408
4
HOH
HOH
408
A
HOH
409
4
HOH
HOH
409
A
HOH
410
4
HOH
HOH
410
A
HOH
411
4
HOH
HOH
411
A
HOH
412
4
HOH
HOH
412
A
HOH
413
4
HOH
HOH
413
A
HOH
414
4
HOH
HOH
414
A
HOH
415
4
HOH
HOH
415
A
HOH
416
4
HOH
HOH
416
A
HOH
417
4
HOH
HOH
417
A
HOH
418
4
HOH
HOH
418
A
HOH
419
4
HOH
HOH
419
A
HOH
420
4
HOH
HOH
420
A
HOH
421
4
HOH
HOH
421
A
HOH
422
4
HOH
HOH
422
A
HOH
423
4
HOH
HOH
423
A
HOH
424
4
HOH
HOH
424
A
HOH
425
4
HOH
HOH
425
A
HOH
426
4
HOH
HOH
426
A
HOH
427
4
HOH
HOH
427
A
HOH
428
4
HOH
HOH
428
A
HOH
429
4
HOH
HOH
429
A
HOH
430
4
HOH
HOH
430
A
HOH
431
4
HOH
HOH
431
A
HOH
432
4
HOH
HOH
432
A
HOH
433
4
HOH
HOH
433
A
HOH
434
4
HOH
HOH
434
A
HOH
435
4
HOH
HOH
435
A
HOH
436
4
HOH
HOH
436
A
HOH
437
4
HOH
HOH
437
A
HOH
438
4
HOH
HOH
438
A
HOH
439
4
HOH
HOH
439
A
HOH
440
4
HOH
HOH
440
A
HOH
441
4
HOH
HOH
441
A
HOH
442
4
HOH
HOH
442
A
HOH
443
4
HOH
HOH
443
A
HOH
444
4
HOH
HOH
444
A
HOH
445
4
HOH
HOH
445
A
HOH
446
4
HOH
HOH
446
A
HOH
447
4
HOH
HOH
447
A
HOH
448
4
HOH
HOH
448
A
HOH
449
4
HOH
HOH
449
A
HOH
450
4
HOH
HOH
450
A
HOH
451
4
HOH
HOH
451
A
HOH
452
4
HOH
HOH
452
A
HOH
453
4
HOH
HOH
453
A
HOH
454
4
HOH
HOH
454
A
HOH
455
4
HOH
HOH
455
A
HOH
456
4
HOH
HOH
456
A
HOH
457
4
HOH
HOH
457
A
HOH
458
4
HOH
HOH
458
A
HOH
459
4
HOH
HOH
459
A
HOH
460
4
HOH
HOH
460
A
HOH
461
4
HOH
HOH
461
A
HOH
462
4
HOH
HOH
462
A
HOH
463
4
HOH
HOH
463
A
HOH
464
4
HOH
HOH
464
A
HOH
465
4
HOH
HOH
465
A
HOH
466
4
HOH
HOH
466
A
HOH
467
4
HOH
HOH
467
A
HOH
468
4
HOH
HOH
468
A
HOH
469
4
HOH
HOH
469
A
HOH
470
4
HOH
HOH
470
A
HOH
471
4
HOH
HOH
471
A
HOH
472
4
HOH
HOH
472
A
HOH
473
4
HOH
HOH
473
A
HOH
474
4
HOH
HOH
474
A
HOH
475
4
HOH
HOH
475
A
HOH
476
4
HOH
HOH
476
A
HOH
477
4
HOH
HOH
477
A
HOH
478
4
HOH
HOH
478
A
HOH
479
4
HOH
HOH
479
A
HOH
480
4
HOH
HOH
480
A
HOH
481
4
HOH
HOH
481
A
HOH
482
4
HOH
HOH
482
A
HOH
483
4
HOH
HOH
483
A
HOH
484
4
HOH
HOH
484
A
HOH
485
4
HOH
HOH
485
A
HOH
486
4
HOH
HOH
486
A
HOH
487
4
HOH
HOH
487
A
HOH
488
4
HOH
HOH
488
A
HOH
489
4
HOH
HOH
489
A
HOH
490
4
HOH
HOH
490
A
HOH
491
4
HOH
HOH
491
A
HOH
492
4
HOH
HOH
492
A
HOH
493
4
HOH
HOH
493
A
HOH
494
4
HOH
HOH
494
A
HOH
495
4
HOH
HOH
495
A
HOH
496
4
HOH
HOH
496
A
HOH
497
4
HOH
HOH
497
A
HOH
498
4
HOH
HOH
498
A
HOH
499
4
HOH
HOH
499
A
HOH
500
4
HOH
HOH
500
A
HOH
501
4
HOH
HOH
501
A
HOH
502
4
HOH
HOH
502
A
HOH
503
4
HOH
HOH
503
A
HOH
504
4
HOH
HOH
504
A
HOH
505
4
HOH
HOH
505
A
HOH
506
4
HOH
HOH
506
A
HOH
507
4
HOH
HOH
507
A
HOH
508
4
HOH
HOH
508
A
HOH
509
4
HOH
HOH
509
A
HOH
510
4
HOH
HOH
510
A
HOH
511
4
HOH
HOH
511
A
ASP
1
n
1
ASP
1
A
VAL
2
n
2
VAL
2
A
SER
3
n
3
SER
3
A
PHE
4
n
4
PHE
4
A
ARG
5
n
5
ARG
5
A
LEU
6
n
6
LEU
6
A
SER
7
n
7
SER
7
A
GLY
8
n
8
GLY
8
A
ALA
9
n
9
ALA
9
A
ASP
10
n
10
ASP
10
A
PRO
11
n
11
PRO
11
A
SER
12
n
12
SER
12
A
SER
13
n
13
SER
13
A
TYR
14
n
14
TYR
14
A
GLY
15
n
15
GLY
15
A
MET
16
n
16
MET
16
A
PHE
17
n
17
PHE
17
A
ILE
18
n
18
ILE
18
A
LYS
19
n
19
LYS
19
A
ASP
20
n
20
ASP
20
A
LEU
21
n
21
LEU
21
A
ARG
22
n
22
ARG
22
A
ASN
23
n
23
ASN
23
A
ALA
24
n
24
ALA
24
A
LEU
25
n
25
LEU
25
A
PRO
26
n
26
PRO
26
A
HIS
27
n
27
HIS
27
A
THR
28
n
28
THR
28
A
GLU
29
n
29
GLU
29
A
LYS
30
n
30
LYS
30
A
VAL
31
n
31
VAL
31
A
TYR
32
n
32
TYR
32
A
ASN
33
n
33
ASN
33
A
ILE
34
n
34
ILE
34
A
PRO
35
n
35
PRO
35
A
LEU
36
n
36
LEU
36
A
LEU
37
n
37
LEU
37
A
LEU
38
n
38
LEU
38
A
PRO
39
n
39
PRO
39
A
SER
40
n
40
SER
40
A
VAL
41
n
41
VAL
41
A
SER
42
n
42
SER
42
A
GLY
43
n
43
GLY
43
A
ALA
44
n
44
ALA
44
A
GLY
45
n
45
GLY
45
A
ARG
46
n
46
ARG
46
A
TYR
47
n
47
TYR
47
A
LEU
48
n
48
LEU
48
A
LEU
49
n
49
LEU
49
A
MET
50
n
50
MET
50
A
HIS
51
n
51
HIS
51
A
LEU
52
n
52
LEU
52
A
PHE
53
n
53
PHE
53
A
ASN
54
n
54
ASN
54
A
TYR
55
n
55
TYR
55
A
ASP
56
n
56
ASP
56
A
GLY
57
n
57
GLY
57
A
ASN
58
n
58
ASN
58
A
THR
59
n
59
THR
59
A
ILE
60
n
60
ILE
60
A
THR
61
n
61
THR
61
A
VAL
62
n
62
VAL
62
A
ALA
63
n
63
ALA
63
A
VAL
64
n
64
VAL
64
A
ASP
65
n
65
ASP
65
A
VAL
66
n
66
VAL
66
A
THR
67
n
67
THR
67
A
ASN
68
n
68
ASN
68
A
VAL
69
n
69
VAL
69
A
TYR
70
n
70
TYR
70
A
ILE
71
n
71
ILE
71
A
MET
72
n
72
MET
72
A
GLY
73
n
73
GLY
73
A
TYR
74
n
74
TYR
74
A
LEU
75
n
75
LEU
75
A
ALA
76
n
76
ALA
76
A
LEU
77
n
77
LEU
77
A
THR
78
n
78
THR
78
A
THR
79
n
79
THR
79
A
SER
80
n
80
SER
80
A
TYR
81
n
81
TYR
81
A
PHE
82
n
82
PHE
82
A
PHE
83
n
83
PHE
83
A
ASN
84
n
84
ASN
84
A
GLU
85
n
85
GLU
85
A
PRO
86
n
86
PRO
86
A
ALA
87
n
87
ALA
87
A
ALA
88
n
88
ALA
88
A
ASP
89
n
89
ASP
89
A
LEU
90
n
90
LEU
90
A
ALA
91
n
91
ALA
91
A
SER
92
n
92
SER
92
A
GLN
93
n
93
GLN
93
A
TYR
94
n
94
TYR
94
A
VAL
95
n
95
VAL
95
A
PHE
96
n
96
PHE
96
A
ARG
97
n
97
ARG
97
A
SER
98
n
98
SER
98
A
ALA
99
n
99
ALA
99
A
ARG
100
n
100
ARG
100
A
ARG
101
n
101
ARG
101
A
LYS
102
n
102
LYS
102
A
ILE
103
n
103
ILE
103
A
THR
104
n
104
THR
104
A
LEU
105
n
105
LEU
105
A
PRO
106
n
106
PRO
106
A
TYR
107
n
107
TYR
107
A
SER
108
n
108
SER
108
A
GLY
109
n
109
GLY
109
A
ASN
110
n
110
ASN
110
A
TYR
111
n
111
TYR
111
A
GLU
112
n
112
GLU
112
A
ARG
113
n
113
ARG
113
A
LEU
114
n
114
LEU
114
A
GLN
115
n
115
GLN
115
A
ILE
116
n
116
ILE
116
A
ALA
117
n
117
ALA
117
A
ALA
118
n
118
ALA
118
A
GLY
119
n
119
GLY
119
A
LYS
120
n
120
LYS
120
A
PRO
121
n
121
PRO
121
A
ARG
122
n
122
ARG
122
A
GLU
123
n
123
GLU
123
A
LYS
124
n
124
LYS
124
A
ILE
125
n
125
ILE
125
A
PRO
126
n
126
PRO
126
A
ILE
127
n
127
ILE
127
A
GLY
128
n
128
GLY
128
A
LEU
129
n
129
LEU
129
A
PRO
130
n
130
PRO
130
A
ALA
131
n
131
ALA
131
A
LEU
132
n
132
LEU
132
A
ASP
133
n
133
ASP
133
A
THR
134
n
134
THR
134
A
ALA
135
n
135
ALA
135
A
ILE
136
n
136
ILE
136
A
SER
137
n
137
SER
137
A
THR
138
n
138
THR
138
A
LEU
139
n
139
LEU
139
A
LEU
140
n
140
LEU
140
A
HIS
141
n
141
HIS
141
A
TYR
142
n
142
TYR
142
A
ASP
143
n
143
ASP
143
A
SER
144
n
144
SER
144
A
THR
145
n
145
THR
145
A
ALA
146
n
146
ALA
146
A
ALA
147
n
147
ALA
147
A
ALA
148
n
148
ALA
148
A
GLY
149
n
149
GLY
149
A
ALA
150
n
150
ALA
150
A
LEU
151
n
151
LEU
151
A
LEU
152
n
152
LEU
152
A
VAL
153
n
153
VAL
153
A
LEU
154
n
154
LEU
154
A
ILE
155
n
155
ILE
155
A
GLN
156
n
156
GLN
156
A
THR
157
n
157
THR
157
A
THR
158
n
158
THR
158
A
ALA
159
n
159
ALA
159
A
GLU
160
n
160
GLU
160
A
ALA
161
n
161
ALA
161
A
ALA
162
n
162
ALA
162
A
ARG
163
n
163
ARG
163
A
PHE
164
n
164
PHE
164
A
LYS
165
n
165
LYS
165
A
TYR
166
n
166
TYR
166
A
ILE
167
n
167
ILE
167
A
GLU
168
n
168
GLU
168
A
GLN
169
n
169
GLN
169
A
GLN
170
n
170
GLN
170
A
ILE
171
n
171
ILE
171
A
GLN
172
n
172
GLN
172
A
GLU
173
n
173
GLU
173
A
ARG
174
n
174
ARG
174
A
ALA
175
n
175
ALA
175
A
TYR
176
n
176
TYR
176
A
ARG
177
n
177
ARG
177
A
ASP
178
n
178
ASP
178
A
GLU
179
n
179
GLU
179
A
VAL
180
n
180
VAL
180
A
PRO
181
n
181
PRO
181
A
SER
182
n
182
SER
182
A
SER
183
n
183
SER
183
A
ALA
184
n
184
ALA
184
A
THR
185
n
185
THR
185
A
ILE
186
n
186
ILE
186
A
SER
187
n
187
SER
187
A
LEU
188
n
188
LEU
188
A
GLU
189
n
189
GLU
189
A
ASN
190
n
190
ASN
190
A
SER
191
n
191
SER
191
A
TRP
192
n
192
TRP
192
A
SER
193
n
193
SER
193
A
GLY
194
n
194
GLY
194
A
LEU
195
n
195
LEU
195
A
SER
196
n
196
SER
196
A
LYS
197
n
197
LYS
197
A
GLN
198
n
198
GLN
198
A
ILE
199
n
199
ILE
199
A
GLN
200
n
200
GLN
200
A
LEU
201
n
201
LEU
201
A
ALA
202
n
202
ALA
202
A
GLN
203
n
203
GLN
203
A
GLY
204
n
204
GLY
204
A
ASN
205
n
205
ASN
205
A
ASN
206
n
206
ASN
206
A
GLY
207
n
207
GLY
207
A
VAL
208
n
208
VAL
208
A
PHE
209
n
209
PHE
209
A
ARG
210
n
210
ARG
210
A
THR
211
n
211
THR
211
A
PRO
212
n
212
PRO
212
A
THR
213
n
213
THR
213
A
VAL
214
n
214
VAL
214
A
LEU
215
n
215
LEU
215
A
VAL
216
n
216
VAL
216
A
ASP
217
n
217
ASP
217
A
SER
218
n
218
SER
218
A
LYS
219
n
219
LYS
219
A
GLY
220
n
220
GLY
220
A
ASN
221
n
221
ASN
221
A
ARG
222
n
222
ARG
222
A
VAL
223
n
223
VAL
223
A
GLN
224
n
224
GLN
224
A
ILE
225
n
225
ILE
225
A
THR
226
n
226
THR
226
A
ASN
227
n
227
ASN
227
A
VAL
228
n
228
VAL
228
A
THR
229
n
229
THR
229
A
SER
230
n
230
SER
230
A
ASN
231
n
231
ASN
231
A
VAL
232
n
232
VAL
232
A
VAL
233
n
233
VAL
233
A
THR
234
n
234
THR
234
A
SER
235
n
235
SER
235
A
ASN
236
n
236
ASN
236
A
ILE
237
n
237
ILE
237
A
GLN
238
n
238
GLN
238
A
LEU
239
n
239
LEU
239
A
LEU
240
n
240
LEU
240
A
LEU
241
n
241
LEU
241
A
ASN
242
n
242
ASN
242
A
THR
243
n
243
THR
243
A
LYS
244
n
244
LYS
244
A
ASN
245
n
245
ASN
245
A
ILE
246
n
246
ILE
246
A
author_and_software_defined_assembly
PISA
1
monomeric
A
ASN
227
GLYCOSYLATION SITE
A
ASN
227
ASN
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
VAL
2
A
N
VAL
2
A
O
HIS
51
A
O
HIS
51
A
N
LEU
48
A
N
LEU
48
A
O
VAL
64
A
O
VAL
64
A
N
ALA
63
A
N
ALA
63
A
O
MET
72
A
O
MET
72
A
N
TYR
74
A
N
TYR
74
A
O
TYR
81
A
O
TYR
81
A
N
SER
80
A
N
SER
80
A
O
ILE
103
A
O
ILE
103
A
N
VAL
31
A
N
VAL
31
A
O
ILE
34
A
O
ILE
34
A
N
LEU
215
A
N
LEU
215
A
O
VAL
223
A
O
VAL
223
1
B
B
O4
O5
NAG
NAG
1
2
2.11
1
A
ASN
33
86.38
-0.51
1
A
ASN
68
-142.54
-19.63
1
A
LEU
77
56.54
-114.15
1
A
PRO
106
-72.27
22.76
1
A
ASP
143
179.26
96.76
1
A
THR
158
-126.35
-82.16
1
A
ASN
236
-90.31
-68.54
41.865
-2.51
-1.25
0.00
-2.51
0.00
3.76
0.961
0.937
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.19926
0.16546
0.170
0.16700
2.65
19.61
343
7364
7364
4.7
99.06
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.292
0.80
0.80
1.40
3S9Q
MAXIMUM LIKELIHOOD
MASK
2.65
19.61
111
2062
40
0
1911
0.009
1.556
1.993
36.309
16.583
19.480
0.106
0.022
0.301
0.277
2.719
23
497
20
98.67
0.535
2.65
19.76
4I47
7364
7364
0.0
0.0
0.10
1
9.3
99.3
0.586
2.65
2.74
2.0
1
98.9
phasing
AMoRE
refinement
REFMAC
5.5.0109
data reduction
AUTOMAR
data scaling
SCALEPACK
Crystal structure of the Ribosome inactivating protein complexed with methylated guanine
1
N
N
2
N
N
3
N
N
4
N
N
A
ASP
10
A
ASP
10
HELX_P
A
LEU
25
A
LEU
25
1
1
16
A
SER
42
A
SER
42
HELX_P
A
GLY
45
A
GLY
45
5
2
4
A
GLU
85
A
GLU
85
HELX_P
A
SER
92
A
SER
92
1
3
8
A
ASN
110
A
ASN
110
HELX_P
A
GLY
119
A
GLY
119
1
4
10
A
PRO
121
A
PRO
121
HELX_P
A
ILE
125
A
ILE
125
5
5
5
A
GLY
128
A
GLY
128
HELX_P
A
LEU
140
A
LEU
140
1
6
13
A
ASP
143
A
ASP
143
HELX_P
A
THR
158
A
THR
158
1
7
16
A
THR
158
A
THR
158
HELX_P
A
PHE
164
A
PHE
164
1
8
7
A
PHE
164
A
PHE
164
HELX_P
A
ARG
174
A
ARG
174
1
9
11
A
SER
182
A
SER
182
HELX_P
A
ALA
202
A
ALA
202
1
10
21
A
SER
230
A
SER
230
HELX_P
A
SER
235
A
SER
235
1
11
6
A
ASN
242
A
ASN
242
HELX_P
A
ILE
246
A
ILE
246
5
12
5
covale
1.455
one
N-Glycosylation
A
ASN
227
A
ND2
ASN
227
1_555
B
NAG
1
B
C1
NAG
1_555
covale
1.416
both
B
NAG
1
B
O4
NAG
1_555
B
NAG
2
B
C1
NAG
1_555
HYDROLASE
Ligand binding, Hydrolase, Ribosome inactivating protein, N7-methylated guanine
D9J2T9_MOMBA
UNP
1
1
D9J2T9
DVSFRLSGADPSSYGMFIKDLRNALPHTEKVYNIPLLLPSVSGAGRYLLMHLFNYDGNTITVAVDVTNVYIMGYLALTTS
YFFNEPAADLASQYVFRSARRKITLPYSGNYERLQIAAGKPREKIPIGLPALDTAISTLLHYDSTAAAGALLVLIQTTAE
AARFKYIEQQIQERAYRDEVPSSATISLENSWSGLSKQIQLAQGNNGVFRTPTVLVDSKGNRVQITNVTSNVVTSNIQLL
LNTKNI
1
246
4I47
1
246
D9J2T9
A
1
1
246
6
2
2
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
A
VAL
2
A
VAL
2
A
ARG
5
A
ARG
5
A
TYR
47
A
TYR
47
A
PHE
53
A
PHE
53
A
THR
59
A
THR
59
A
ASP
65
A
ASP
65
A
ILE
71
A
ILE
71
A
ALA
76
A
ALA
76
A
THR
79
A
THR
79
A
PHE
82
A
PHE
82
A
ARG
101
A
ARG
101
A
THR
104
A
THR
104
A
LYS
30
A
LYS
30
A
VAL
31
A
VAL
31
A
ILE
34
A
ILE
34
A
PRO
35
A
PRO
35
A
VAL
208
A
VAL
208
A
VAL
216
A
VAL
216
A
ARG
222
A
ARG
222
A
ASN
227
A
ASN
227
146
H 3