1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Frank, J.
Li, W.
Agirrezabala, X.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
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 H14 N3 O8 P
323.197
y
CYTIDINE-5'-MONOPHOSPHATE
RNA linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA 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
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
O
N
2
N
P
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
C
N
7
R
C
N
8
N
O
N
9
S
C
N
10
N
O
N
11
R
C
N
12
N
O
N
13
R
C
Y
14
N
N
Y
15
N
C
Y
16
N
N
Y
17
N
C
Y
18
N
C
N
19
N
N
Y
20
N
N
Y
21
N
C
Y
22
N
N
Y
23
N
C
N
24
N
H
N
25
N
H
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
N
N
39
S
C
N
40
N
C
N
41
N
O
N
42
N
C
N
43
N
O
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
H
N
49
N
H
N
50
N
H
N
51
N
N
N
52
S
C
N
53
N
C
N
54
N
O
N
55
N
C
N
56
N
C
N
57
N
C
N
58
N
N
N
59
N
C
N
60
N
N
N
61
N
N
N
62
N
O
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
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
H
N
75
N
H
N
76
N
H
N
77
N
H
N
78
N
N
N
79
S
C
N
80
N
C
N
81
N
O
N
82
N
C
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
O
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
H
N
95
N
N
N
96
S
C
N
97
N
C
N
98
N
O
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
O
N
112
N
P
N
113
N
O
N
114
N
O
N
115
N
O
N
116
N
C
N
117
R
C
N
118
N
O
N
119
S
C
N
120
N
O
N
121
R
C
N
122
N
O
N
123
R
C
N
124
N
N
N
125
N
C
N
126
N
O
N
127
N
N
N
128
N
C
N
129
N
N
N
130
N
C
N
131
N
C
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
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
N
N
147
R
C
N
148
N
C
N
149
N
O
N
150
N
C
N
151
N
S
N
152
N
O
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
O
N
161
N
P
N
162
N
O
N
163
N
O
N
164
N
O
N
165
N
C
N
166
R
C
N
167
N
O
N
168
S
C
N
169
N
O
N
170
R
C
N
171
N
O
N
172
R
C
Y
173
N
N
Y
174
N
C
Y
175
N
N
Y
176
N
C
N
177
N
C
N
178
N
O
N
179
N
N
N
180
N
C
N
181
N
N
N
182
N
N
Y
183
N
C
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
H
N
198
N
N
N
199
S
C
N
200
N
C
N
201
N
O
N
202
N
C
N
203
N
C
N
204
N
C
N
205
N
O
N
206
N
N
N
207
N
O
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
N
N
219
S
C
N
220
N
C
N
221
N
O
N
222
N
C
N
223
N
C
N
224
N
C
N
225
N
O
N
226
N
O
N
227
N
O
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
H
N
237
N
N
N
238
N
C
N
239
N
C
N
240
N
O
N
241
N
O
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
N
N
248
S
C
N
249
N
C
N
250
N
O
N
251
N
C
Y
252
N
C
Y
253
N
N
Y
254
N
C
Y
255
N
C
Y
256
N
N
N
257
N
O
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
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
N
N
269
S
C
N
270
N
C
N
271
N
O
N
272
S
C
N
273
N
C
N
274
N
C
N
275
N
C
N
276
N
O
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
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
N
N
291
S
C
N
292
N
C
N
293
N
O
N
294
N
C
N
295
N
C
N
296
N
C
N
297
N
C
N
298
N
O
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
C
N
320
N
N
N
321
N
O
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
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
H
N
337
N
N
N
338
S
C
N
339
N
C
N
340
N
O
N
341
N
C
N
342
N
C
N
343
N
S
N
344
N
C
N
345
N
O
N
346
N
H
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
H
N
357
N
N
N
358
S
C
N
359
N
C
N
360
N
O
N
361
N
C
Y
362
N
C
Y
363
N
C
Y
364
N
C
Y
365
N
C
Y
366
N
C
Y
367
N
C
N
368
N
O
N
369
N
H
N
370
N
H
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
N
N
381
S
C
N
382
N
C
N
383
N
O
N
384
N
C
N
385
N
C
N
386
N
C
N
387
N
O
N
388
N
H
N
389
N
H
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
N
N
398
S
C
N
399
N
C
N
400
N
O
N
401
N
C
N
402
N
O
N
403
N
O
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
R
C
N
416
N
O
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
N
N
429
S
C
N
430
N
C
N
431
N
O
N
432
N
C
Y
433
N
C
Y
434
N
C
Y
435
N
C
Y
436
N
N
Y
437
N
C
Y
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
N
442
N
O
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
N
H
N
454
N
H
N
455
N
N
N
456
S
C
N
457
N
C
N
458
N
O
N
459
N
C
Y
460
N
C
Y
461
N
C
Y
462
N
C
Y
463
N
C
Y
464
N
C
Y
465
N
C
N
466
N
O
N
467
N
O
N
468
N
H
N
469
N
H
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
H
N
475
N
H
N
476
N
H
N
477
N
H
N
478
N
H
N
479
N
O
N
480
N
P
N
481
N
O
N
482
N
O
N
483
N
O
N
484
N
C
N
485
R
C
N
486
N
O
N
487
S
C
N
488
N
O
N
489
R
C
N
490
N
O
N
491
R
C
N
492
N
N
N
493
N
C
N
494
N
O
N
495
N
N
N
496
N
C
N
497
N
O
N
498
N
C
N
499
N
C
N
500
N
H
N
501
N
H
N
502
N
H
N
503
N
H
N
504
N
H
N
505
N
H
N
506
N
H
N
507
N
H
N
508
N
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
513
N
N
N
514
S
C
N
515
N
C
N
516
N
O
N
517
N
C
N
518
N
C
N
519
N
C
N
520
N
O
N
521
N
H
N
522
N
H
N
523
N
H
N
524
N
H
N
525
N
H
N
526
N
H
N
527
N
H
N
528
N
H
N
529
N
H
N
530
N
H
N
531
N
H
N
1
N
sing
N
2
N
sing
N
3
N
doub
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
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
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
Y
29
N
sing
Y
30
N
sing
Y
31
N
doub
N
32
N
sing
Y
33
N
doub
N
34
N
sing
N
35
N
sing
Y
36
N
sing
Y
37
N
doub
N
38
N
sing
Y
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
sing
N
46
N
doub
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
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
doub
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
doub
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
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
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
sing
N
98
N
sing
N
99
N
sing
N
100
N
doub
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
sing
N
111
N
doub
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
sing
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
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
doub
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
doub
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
doub
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
sing
N
181
N
sing
Y
182
N
sing
Y
183
N
sing
Y
184
N
doub
N
185
N
sing
Y
186
N
sing
N
187
N
sing
Y
188
N
doub
N
189
N
doub
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
doub
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
doub
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
doub
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
doub
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
doub
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
doub
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
doub
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
Y
255
N
sing
Y
256
N
doub
Y
257
N
doub
N
258
N
sing
Y
259
N
sing
N
260
N
sing
Y
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
doub
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
doub
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
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
doub
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
sing
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
doub
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
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
doub
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
Y
361
N
doub
Y
362
N
sing
Y
363
N
sing
N
364
N
sing
Y
365
N
doub
N
366
N
sing
Y
367
N
doub
N
368
N
sing
Y
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
sing
N
378
N
sing
N
379
N
doub
N
380
N
sing
N
381
N
sing
N
382
N
sing
N
383
N
sing
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
N
395
N
sing
N
396
N
doub
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
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
doub
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
doub
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
Y
430
N
doub
Y
431
N
sing
Y
432
N
sing
N
433
N
sing
Y
434
N
doub
Y
435
N
sing
Y
436
N
sing
N
437
N
sing
Y
438
N
sing
Y
439
N
doub
N
440
N
sing
Y
441
N
doub
N
442
N
sing
Y
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
doub
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
Y
458
N
doub
Y
459
N
sing
Y
460
N
sing
N
461
N
sing
Y
462
N
doub
N
463
N
sing
Y
464
N
doub
N
465
N
sing
Y
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
N
472
N
sing
N
473
N
doub
N
474
N
sing
N
475
N
sing
N
476
N
sing
N
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
N
486
N
sing
N
487
N
sing
N
488
N
sing
N
489
N
sing
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
N
497
N
doub
N
498
N
sing
N
499
N
sing
N
500
N
sing
N
501
N
doub
N
502
N
sing
N
503
N
doub
N
504
N
sing
N
505
N
sing
N
506
N
sing
N
507
N
sing
N
508
N
sing
N
509
N
sing
N
510
N
sing
N
511
N
sing
N
512
N
doub
N
513
N
sing
N
514
N
sing
N
515
N
sing
N
516
N
sing
N
517
N
sing
N
518
N
sing
N
519
N
sing
N
520
N
sing
N
521
N
sing
N
522
N
sing
N
523
N
sing
UK
Embo J.
EMJODG
0897
0261-4189
27
3322
3331
10.1038/emboj.2008.243
19020518
Recognition of aminoacyl-tRNA: a common molecular mechanism revealed by cryo-EM.
2008
10.2210/pdb3eq4/pdb
pdb_00003eq4
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
METHOD--See Method in the citation REFINEMENT PROTOCOL--auto
OTHER
REAL
cross-correlation coefficient
2AVY
1
2AVY
PDB
experimental model
2AW4
2
2AW4
PDB
experimental model
1QZA
3
1QZA
PDB
experimental model
1OB2
4
1OB2
PDB
experimental model
3EQ4
SINGLE PARTICLE
80000
12
POINT
Polymix buffer( 5 mM potassium phosphate (KH2PO4) pH 7.3, 5 mM NH4Cl, 95 mM KCl, 0.5 mM CaCl2, 8 mM putrescine, 1 mM spermidine, 1 mM DTE, 5 mM magnesium acetate)
7.3
A/T-tRNA(Leu), EF-Tu, L11, S12, fragments h44 and h18 from the 16S rRNA, fragments H43-H44, H69, and H95 from the 23S rRNA
ribosome in pre-accommodated state
0
RIBOSOME
PARTICLE
1
1
SINGLE PARTICLE
15
GENERIC CCD
300
2005-07-15
FIELD EMISSION GUN
FLOOD BEAM
FEI TECNAI F20
BRIGHT FIELD
4000
1000
50000
1
3EQ4
C1
MODEL FITTING
TNT
RSRef
RECONSTRUCTION
1
SPIDER
NO
NO
NO
YES
NITROGEN
3EQ4
FEI VITROBOT MARK I
43239.297
Elongation factor Tu
1
nat
polymer
13636.961
30S ribosomal protein S12
1
nat
polymer
14763.165
50S ribosomal protein L11
1
nat
polymer
27348.209
tRNA
1
nat
polymer
2871.766
Fragment h18 of the 16S rRNA
1
nat
polymer
3601.218
Fragment h44 of the 16S rRNA
1
nat
polymer
15504.268
Fragment H43-44 of the 23S rRNA
1
nat
polymer
9089.461
Fragment H95 of the 23S rRNA
1
nat
polymer
5427.285
Fragment H69 of the 23S rRNA
1
nat
polymer
EF-Tu, P-43
no
no
SKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVD
CPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQY
DFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGE
EVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHT
PFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLS
SKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVD
CPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQY
DFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGE
EVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHT
PFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLS
X
polypeptide(L)
no
no
ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVTSYIGGEGHNLQEHSVIL
IRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGVKRPKA
ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVTSYIGGEGHNLQEHSVIL
IRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGVKRPKA
L
polypeptide(L)
no
no
AKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLLK
KAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED
AKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLLK
KAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED
I
polypeptide(L)
no
no
CGGAUUUAGCUCAGUUGGGAGAGCGCCAGACUGAAGAUCUGGACCUGUGUUCGAUCCACAGAAUUCGCACCCUCCCGUAG
GGGUU
CGGAUUUAGCUCAGUUGGGAGAGCGCCAGACUGAAGAUCUGGACCUGUGUUCGAUCCACAGAAUUCGCACCCUCCCGUAG
GGGUU
Y
polyribonucleotide
no
no
CGCGGUAAU
CGCGGUAAU
A
polyribonucleotide
no
no
GGGCGAAGUCG
GGGCGAAGUCG
C
polyribonucleotide
no
no
AGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCU
AGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCU
B
polyribonucleotide
no
no
UGCUCCUAGUACGAGAGGACCGGAGUGG
UGCUCCUAGUACGAGAGGACCGGAGUGG
D
polyribonucleotide
no
no
GCCGUAACUAUAACGGU
GCCGUAACUAUAACGGU
E
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
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sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
sample
83333
Escherichia coli K12
em_image_scans
em_software
chem_comp_atom
chem_comp_bond
database_2
em_3d_fitting_list
pdbx_database_related
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Refinement description
Data collection
Data collection
Database references
Refinement description
1
0
2008-12-16
1
1
2011-07-13
1
2
2012-05-30
1
3
2018-07-18
1
4
2024-02-21
_em_software.image_processing_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_em_3d_fitting_list.accession_code
_em_3d_fitting_list.initial_refinement_model_id
_em_3d_fitting_list.source_name
_em_3d_fitting_list.type
_pdbx_database_related.content_type
CA ATOMS ONLY
CA ATOMS ONLY
CA ATOMS ONLY
P ATOMS ONLY
P ATOMS ONLY
P ATOMS ONLY
P ATOMS ONLY
P ATOMS ONLY
P ATOMS ONLY
coordinates for initial input model for RSRef
coordinates for initial input model for RSRef
coordinates for initial input model for RSRef
coordinates for initial input model for RSRef
Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by cryo-EM
Model of tRNA(Trp)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM
RCSB
Y
RCSB
2008-09-30
REL
2AVY
PDB
experimental model
2AW4
PDB
experimental model
1QZA
PDB
experimental model
1OB2
PDB
experimental model
ALA
1
n
1
SER
1
X
LYS
2
n
2
LYS
2
X
GLU
3
n
3
GLU
3
X
LYS
4
n
4
LYS
4
X
PHE
5
n
5
PHE
5
X
GLU
6
n
6
GLU
6
X
ARG
7
n
7
ARG
7
X
THR
8
n
8
THR
8
X
LYS
9
n
9
LYS
9
X
PRO
10
n
10
PRO
10
X
HIS
11
n
11
HIS
11
X
VAL
12
n
12
VAL
12
X
ASN
13
n
13
ASN
13
X
VAL
14
n
14
VAL
14
X
GLY
15
n
15
GLY
15
X
THR
16
n
16
THR
16
X
ILE
17
n
17
ILE
17
X
GLY
18
n
18
GLY
18
X
HIS
19
n
19
HIS
19
X
VAL
20
n
20
VAL
20
X
ASP
21
n
21
ASP
21
X
HIS
22
n
22
HIS
22
X
GLY
23
n
23
GLY
23
X
LYS
24
n
24
LYS
24
X
THR
25
n
25
THR
25
X
THR
26
n
26
THR
26
X
LEU
27
n
27
LEU
27
X
THR
28
n
28
THR
28
X
ALA
29
n
29
ALA
29
X
ALA
30
n
30
ALA
30
X
ILE
31
n
31
ILE
31
X
THR
32
n
32
THR
32
X
THR
33
n
33
THR
33
X
VAL
34
n
34
VAL
34
X
LEU
35
n
35
LEU
35
X
ALA
36
n
36
ALA
36
X
LYS
37
n
37
LYS
37
X
THR
38
n
38
THR
38
X
TYR
39
n
39
TYR
39
X
GLY
40
n
40
GLY
40
X
GLY
41
n
41
GLY
41
X
ALA
42
n
42
ALA
42
X
ALA
43
n
43
ALA
43
X
ARG
44
n
44
ARG
44
X
ALA
45
n
45
ALA
45
X
PHE
46
n
46
PHE
46
X
ASP
47
n
47
ASP
47
X
GLN
48
n
48
GLN
48
X
ILE
49
n
49
ILE
49
X
ASP
50
n
50
ASP
50
X
ASN
51
n
51
ASN
51
X
ALA
52
n
52
ALA
52
X
PRO
53
n
53
PRO
53
X
GLU
54
n
54
GLU
54
X
GLU
55
n
55
GLU
55
X
LYS
56
n
56
LYS
56
X
ALA
57
n
57
ALA
57
X
ARG
58
n
58
ARG
58
X
GLY
59
n
59
GLY
59
X
ILE
60
n
60
ILE
60
X
THR
61
n
61
THR
61
X
ILE
62
n
62
ILE
62
X
ASN
63
n
63
ASN
63
X
THR
64
n
64
THR
64
X
SER
65
n
65
SER
65
X
HIS
66
n
66
HIS
66
X
VAL
67
n
67
VAL
67
X
GLU
68
n
68
GLU
68
X
TYR
69
n
69
TYR
69
X
ASP
70
n
70
ASP
70
X
THR
71
n
71
THR
71
X
PRO
72
n
72
PRO
72
X
THR
73
n
73
THR
73
X
ARG
74
n
74
ARG
74
X
HIS
75
n
75
HIS
75
X
TYR
76
n
76
TYR
76
X
ALA
77
n
77
ALA
77
X
HIS
78
n
78
HIS
78
X
VAL
79
n
79
VAL
79
X
ASP
80
n
80
ASP
80
X
CYS
81
n
81
CYS
81
X
PRO
82
n
82
PRO
82
X
GLY
83
n
83
GLY
83
X
HIS
84
n
84
HIS
84
X
ALA
85
n
85
ALA
85
X
ASP
86
n
86
ASP
86
X
TYR
87
n
87
TYR
87
X
VAL
88
n
88
VAL
88
X
LYS
89
n
89
LYS
89
X
ASN
90
n
90
ASN
90
X
MET
91
n
91
MET
91
X
ILE
92
n
92
ILE
92
X
THR
93
n
93
THR
93
X
GLY
94
n
94
GLY
94
X
ALA
95
n
95
ALA
95
X
ALA
96
n
96
ALA
96
X
GLN
97
n
97
GLN
97
X
MET
98
n
98
MET
98
X
ASP
99
n
99
ASP
99
X
GLY
100
n
100
GLY
100
X
ALA
101
n
101
ALA
101
X
ILE
102
n
102
ILE
102
X
LEU
103
n
103
LEU
103
X
VAL
104
n
104
VAL
104
X
VAL
105
n
105
VAL
105
X
ALA
106
n
106
ALA
106
X
ALA
107
n
107
ALA
107
X
THR
108
n
108
THR
108
X
ASP
109
n
109
ASP
109
X
GLY
110
n
110
GLY
110
X
PRO
111
n
111
PRO
111
X
MET
112
n
112
MET
112
X
PRO
113
n
113
PRO
113
X
GLN
114
n
114
GLN
114
X
THR
115
n
115
THR
115
X
ARG
116
n
116
ARG
116
X
GLU
117
n
117
GLU
117
X
HIS
118
n
118
HIS
118
X
ILE
119
n
119
ILE
119
X
LEU
120
n
120
LEU
120
X
LEU
121
n
121
LEU
121
X
GLY
122
n
122
GLY
122
X
ARG
123
n
123
ARG
123
X
GLN
124
n
124
GLN
124
X
VAL
125
n
125
VAL
125
X
GLY
126
n
126
GLY
126
X
VAL
127
n
127
VAL
127
X
PRO
128
n
128
PRO
128
X
TYR
129
n
129
TYR
129
X
ILE
130
n
130
ILE
130
X
ILE
131
n
131
ILE
131
X
VAL
132
n
132
VAL
132
X
PHE
133
n
133
PHE
133
X
LEU
134
n
134
LEU
134
X
ASN
135
n
135
ASN
135
X
LYS
136
n
136
LYS
136
X
CYS
137
n
137
CYS
137
X
ASP
138
n
138
ASP
138
X
MET
139
n
139
MET
139
X
VAL
140
n
140
VAL
140
X
ASP
141
n
141
ASP
141
X
ASP
142
n
142
ASP
142
X
GLU
143
n
143
GLU
143
X
GLU
144
n
144
GLU
144
X
LEU
145
n
145
LEU
145
X
LEU
146
n
146
LEU
146
X
GLU
147
n
147
GLU
147
X
LEU
148
n
148
LEU
148
X
VAL
149
n
149
VAL
149
X
GLU
150
n
150
GLU
150
X
MET
151
n
151
MET
151
X
GLU
152
n
152
GLU
152
X
VAL
153
n
153
VAL
153
X
ARG
154
n
154
ARG
154
X
GLU
155
n
155
GLU
155
X
LEU
156
n
156
LEU
156
X
LEU
157
n
157
LEU
157
X
SER
158
n
158
SER
158
X
GLN
159
n
159
GLN
159
X
TYR
160
n
160
TYR
160
X
ASP
161
n
161
ASP
161
X
PHE
162
n
162
PHE
162
X
PRO
163
n
163
PRO
163
X
GLY
164
n
164
GLY
164
X
ASP
165
n
165
ASP
165
X
ASP
166
n
166
ASP
166
X
THR
167
n
167
THR
167
X
PRO
168
n
168
PRO
168
X
ILE
169
n
169
ILE
169
X
VAL
170
n
170
VAL
170
X
ARG
171
n
171
ARG
171
X
GLY
172
n
172
GLY
172
X
SER
173
n
173
SER
173
X
ALA
174
n
174
ALA
174
X
LEU
175
n
175
LEU
175
X
LYS
176
n
176
LYS
176
X
ALA
177
n
177
ALA
177
X
LEU
178
n
178
LEU
178
X
GLU
179
n
179
GLU
179
X
GLY
180
n
180
GLY
180
X
ASP
181
n
181
ASP
181
X
ALA
182
n
182
ALA
182
X
GLU
183
n
183
GLU
183
X
TRP
184
n
184
TRP
184
X
GLU
185
n
185
GLU
185
X
ALA
186
n
186
ALA
186
X
LYS
187
n
187
LYS
187
X
ILE
188
n
188
ILE
188
X
LEU
189
n
189
LEU
189
X
GLU
190
n
190
GLU
190
X
LEU
191
n
191
LEU
191
X
ALA
192
n
192
ALA
192
X
GLY
193
n
193
GLY
193
X
PHE
194
n
194
PHE
194
X
LEU
195
n
195
LEU
195
X
ASP
196
n
196
ASP
196
X
SER
197
n
197
SER
197
X
TYR
198
n
198
TYR
198
X
ILE
199
n
199
ILE
199
X
PRO
200
n
200
PRO
200
X
GLU
201
n
201
GLU
201
X
PRO
202
n
202
PRO
202
X
GLU
203
n
203
GLU
203
X
ARG
204
n
204
ARG
204
X
ALA
205
n
205
ALA
205
X
ILE
206
n
206
ILE
206
X
ASP
207
n
207
ASP
207
X
LYS
208
n
208
LYS
208
X
PRO
209
n
209
PRO
209
X
PHE
210
n
210
PHE
210
X
LEU
211
n
211
LEU
211
X
LEU
212
n
212
LEU
212
X
PRO
213
n
213
PRO
213
X
ILE
214
n
214
ILE
214
X
GLU
215
n
215
GLU
215
X
ASP
216
n
216
ASP
216
X
VAL
217
n
217
VAL
217
X
PHE
218
n
218
PHE
218
X
SER
219
n
219
SER
219
X
ILE
220
n
220
ILE
220
X
SER
221
n
221
SER
221
X
GLY
222
n
222
GLY
222
X
ARG
223
n
223
ARG
223
X
GLY
224
n
224
GLY
224
X
THR
225
n
225
THR
225
X
VAL
226
n
226
VAL
226
X
VAL
227
n
227
VAL
227
X
THR
228
n
228
THR
228
X
GLY
229
n
229
GLY
229
X
ARG
230
n
230
ARG
230
X
VAL
231
n
231
VAL
231
X
GLU
232
n
232
GLU
232
X
ARG
233
n
233
ARG
233
X
GLY
234
n
234
GLY
234
X
ILE
235
n
235
ILE
235
X
ILE
236
n
236
ILE
236
X
LYS
237
n
237
LYS
237
X
VAL
238
n
238
VAL
238
X
GLY
239
n
239
GLY
239
X
GLU
240
n
240
GLU
240
X
GLU
241
n
241
GLU
241
X
VAL
242
n
242
VAL
242
X
GLU
243
n
243
GLU
243
X
ILE
244
n
244
ILE
244
X
VAL
245
n
245
VAL
245
X
GLY
246
n
246
GLY
246
X
ILE
247
n
247
ILE
247
X
LYS
248
n
248
LYS
248
X
GLU
249
n
249
GLU
249
X
THR
250
n
250
THR
250
X
GLN
251
n
251
GLN
251
X
LYS
252
n
252
LYS
252
X
SER
253
n
253
SER
253
X
THR
254
n
254
THR
254
X
CYS
255
n
255
CYS
255
X
THR
256
n
256
THR
256
X
GLY
257
n
257
GLY
257
X
VAL
258
n
258
VAL
258
X
GLU
259
n
259
GLU
259
X
MET
260
n
260
MET
260
X
PHE
261
n
261
PHE
261
X
ARG
262
n
262
ARG
262
X
LYS
263
n
263
LYS
263
X
LEU
264
n
264
LEU
264
X
LEU
265
n
265
LEU
265
X
ASP
266
n
266
ASP
266
X
GLU
267
n
267
GLU
267
X
GLY
268
n
268
GLY
268
X
ARG
269
n
269
ARG
269
X
ALA
270
n
270
ALA
270
X
GLY
271
n
271
GLY
271
X
GLU
272
n
272
GLU
272
X
ASN
273
n
273
ASN
273
X
VAL
274
n
274
VAL
274
X
GLY
275
n
275
GLY
275
X
VAL
276
n
276
VAL
276
X
LEU
277
n
277
LEU
277
X
LEU
278
n
278
LEU
278
X
ARG
279
n
279
ARG
279
X
GLY
280
n
280
GLY
280
X
ILE
281
n
281
ILE
281
X
LYS
282
n
282
LYS
282
X
ARG
283
n
283
ARG
283
X
GLU
284
n
284
GLU
284
X
GLU
285
n
285
GLU
285
X
ILE
286
n
286
ILE
286
X
GLU
287
n
287
GLU
287
X
ARG
288
n
288
ARG
288
X
GLY
289
n
289
GLY
289
X
GLN
290
n
290
GLN
290
X
VAL
291
n
291
VAL
291
X
LEU
292
n
292
LEU
292
X
ALA
293
n
293
ALA
293
X
LYS
294
n
294
LYS
294
X
PRO
295
n
295
PRO
295
X
GLY
296
n
296
GLY
296
X
THR
297
n
297
THR
297
X
ILE
298
n
298
ILE
298
X
LYS
299
n
299
LYS
299
X
PRO
300
n
300
PRO
300
X
HIS
301
n
301
HIS
301
X
THR
302
n
302
THR
302
X
LYS
303
n
303
LYS
303
X
PHE
304
n
304
PHE
304
X
GLU
305
n
305
GLU
305
X
SER
306
n
306
SER
306
X
GLU
307
n
307
GLU
307
X
VAL
308
n
308
VAL
308
X
TYR
309
n
309
TYR
309
X
ILE
310
n
310
ILE
310
X
LEU
311
n
311
LEU
311
X
SER
312
n
312
SER
312
X
LYS
313
n
313
LYS
313
X
ASP
314
n
314
ASP
314
X
GLU
315
n
315
GLU
315
X
GLY
316
n
316
GLY
316
X
GLY
317
n
317
GLY
317
X
ARG
318
n
318
ARG
318
X
HIS
319
n
319
HIS
319
X
THR
320
n
320
THR
320
X
PRO
321
n
321
PRO
321
X
PHE
322
n
322
PHE
322
X
PHE
323
n
323
PHE
323
X
LYS
324
n
324
LYS
324
X
GLY
325
n
325
GLY
325
X
TYR
326
n
326
TYR
326
X
ARG
327
n
327
ARG
327
X
PRO
328
n
328
PRO
328
X
GLN
329
n
329
GLN
329
X
PHE
330
n
330
PHE
330
X
TYR
331
n
331
TYR
331
X
PHE
332
n
332
PHE
332
X
ARG
333
n
333
ARG
333
X
THR
334
n
334
THR
334
X
THR
335
n
335
THR
335
X
ASP
336
n
336
ASP
336
X
VAL
337
n
337
VAL
337
X
THR
338
n
338
THR
338
X
GLY
339
n
339
GLY
339
X
THR
340
n
340
THR
340
X
ILE
341
n
341
ILE
341
X
GLU
342
n
342
GLU
342
X
LEU
343
n
343
LEU
343
X
PRO
344
n
344
PRO
344
X
GLU
345
n
345
GLU
345
X
GLY
346
n
346
GLY
346
X
VAL
347
n
347
VAL
347
X
GLU
348
n
348
GLU
348
X
MET
349
n
349
MET
349
X
VAL
350
n
350
VAL
350
X
MET
351
n
351
MET
351
X
PRO
352
n
352
PRO
352
X
GLY
353
n
353
GLY
353
X
ASP
354
n
354
ASP
354
X
ASN
355
n
355
ASN
355
X
ILE
356
n
356
ILE
356
X
LYS
357
n
357
LYS
357
X
MET
358
n
358
MET
358
X
VAL
359
n
359
VAL
359
X
VAL
360
n
360
VAL
360
X
THR
361
n
361
THR
361
X
LEU
362
n
362
LEU
362
X
ILE
363
n
363
ILE
363
X
HIS
364
n
364
HIS
364
X
PRO
365
n
365
PRO
365
X
ILE
366
n
366
ILE
366
X
ALA
367
n
367
ALA
367
X
MET
368
n
368
MET
368
X
ASP
369
n
369
ASP
369
X
ASP
370
n
370
ASP
370
X
GLY
371
n
371
GLY
371
X
LEU
372
n
372
LEU
372
X
ARG
373
n
373
ARG
373
X
PHE
374
n
374
PHE
374
X
ALA
375
n
375
ALA
375
X
ILE
376
n
376
ILE
376
X
ARG
377
n
377
ARG
377
X
GLU
378
n
378
GLU
378
X
GLY
379
n
379
GLY
379
X
GLY
380
n
380
GLY
380
X
ARG
381
n
381
ARG
381
X
THR
382
n
382
THR
382
X
VAL
383
n
383
VAL
383
X
GLY
384
n
384
GLY
384
X
ALA
385
n
385
ALA
385
X
GLY
386
n
386
GLY
386
X
VAL
387
n
387
VAL
387
X
VAL
388
n
388
VAL
388
X
ALA
389
n
389
ALA
389
X
LYS
390
n
390
LYS
390
X
VAL
391
n
391
VAL
391
X
LEU
392
n
392
LEU
392
X
SER
393
n
393
SER
393
X
ALA
1
n
1
ALA
1
L
THR
2
n
2
THR
2
L
VAL
3
n
3
VAL
3
L
ASN
4
n
4
ASN
4
L
GLN
5
n
5
GLN
5
L
LEU
6
n
6
LEU
6
L
VAL
7
n
7
VAL
7
L
ARG
8
n
8
ARG
8
L
LYS
9
n
9
LYS
9
L
PRO
10
n
10
PRO
10
L
ARG
11
n
11
ARG
11
L
ALA
12
n
12
ALA
12
L
ARG
13
n
13
ARG
13
L
LYS
14
n
14
LYS
14
L
VAL
15
n
15
VAL
15
L
ALA
16
n
16
ALA
16
L
LYS
17
n
17
LYS
17
L
SER
18
n
18
SER
18
L
ASN
19
n
19
ASN
19
L
VAL
20
n
20
VAL
20
L
PRO
21
n
21
PRO
21
L
ALA
22
n
22
ALA
22
L
LEU
23
n
23
LEU
23
L
GLU
24
n
24
GLU
24
L
ALA
25
n
25
ALA
25
L
CYS
26
n
26
CYS
26
L
PRO
27
n
27
PRO
27
L
GLN
28
n
28
GLN
28
L
LYS
29
n
29
LYS
29
L
ARG
30
n
30
ARG
30
L
GLY
31
n
31
GLY
31
L
VAL
32
n
32
VAL
32
L
CYS
33
n
33
CYS
33
L
THR
34
n
34
THR
34
L
ARG
35
n
35
ARG
35
L
VAL
36
n
36
VAL
36
L
TYR
37
n
37
TYR
37
L
THR
38
n
38
THR
38
L
THR
39
n
39
THR
39
L
THR
40
n
40
THR
40
L
PRO
41
n
41
PRO
41
L
LYS
42
n
42
LYS
42
L
LYS
43
n
43
LYS
43
L
PRO
44
n
44
PRO
44
L
ASN
45
n
45
ASN
45
L
SER
46
n
46
SER
46
L
ALA
47
n
47
ALA
47
L
LEU
48
n
48
LEU
48
L
ARG
49
n
49
ARG
49
L
LYS
50
n
50
LYS
50
L
VAL
51
n
51
VAL
51
L
CYS
52
n
52
CYS
52
L
ARG
53
n
53
ARG
53
L
VAL
54
n
54
VAL
54
L
ARG
55
n
55
ARG
55
L
LEU
56
n
56
LEU
56
L
THR
57
n
57
THR
57
L
ASN
58
n
58
ASN
58
L
GLY
59
n
59
GLY
59
L
PHE
60
n
60
PHE
60
L
GLU
61
n
61
GLU
61
L
VAL
62
n
62
VAL
62
L
THR
63
n
63
THR
63
L
SER
64
n
64
SER
64
L
TYR
65
n
65
TYR
65
L
ILE
66
n
66
ILE
66
L
GLY
67
n
67
GLY
67
L
GLY
68
n
68
GLY
68
L
GLU
69
n
69
GLU
69
L
GLY
70
n
70
GLY
70
L
HIS
71
n
71
HIS
71
L
ASN
72
n
72
ASN
72
L
LEU
73
n
73
LEU
73
L
GLN
74
n
74
GLN
74
L
GLU
75
n
75
GLU
75
L
HIS
76
n
76
HIS
76
L
SER
77
n
77
SER
77
L
VAL
78
n
78
VAL
78
L
ILE
79
n
79
ILE
79
L
LEU
80
n
80
LEU
80
L
ILE
81
n
81
ILE
81
L
ARG
82
n
82
ARG
82
L
GLY
83
n
83
GLY
83
L
GLY
84
n
84
GLY
84
L
ARG
85
n
85
ARG
85
L
VAL
86
n
86
VAL
86
L
LYS
87
n
87
LYS
87
L
ASP
88
n
88
ASP
88
L
LEU
89
n
89
LEU
89
L
PRO
90
n
90
PRO
90
L
GLY
91
n
91
GLY
91
L
VAL
92
n
92
VAL
92
L
ARG
93
n
93
ARG
93
L
TYR
94
n
94
TYR
94
L
HIS
95
n
95
HIS
95
L
THR
96
n
96
THR
96
L
VAL
97
n
97
VAL
97
L
ARG
98
n
98
ARG
98
L
GLY
99
n
99
GLY
99
L
ALA
100
n
100
ALA
100
L
LEU
101
n
101
LEU
101
L
ASP
102
n
102
ASP
102
L
CYS
103
n
103
CYS
103
L
SER
104
n
104
SER
104
L
GLY
105
n
105
GLY
105
L
VAL
106
n
106
VAL
106
L
LYS
107
n
107
LYS
107
L
ASP
108
n
108
ASP
108
L
ARG
109
n
109
ARG
109
L
LYS
110
n
110
LYS
110
L
GLN
111
n
111
GLN
111
L
ALA
112
n
112
ALA
112
L
ARG
113
n
113
ARG
113
L
SER
114
n
114
SER
114
L
LYS
115
n
115
LYS
115
L
TYR
116
n
116
TYR
116
L
GLY
117
n
117
GLY
117
L
VAL
118
n
118
VAL
118
L
LYS
119
n
119
LYS
119
L
ARG
120
n
120
ARG
120
L
PRO
121
n
121
PRO
121
L
LYS
122
n
122
LYS
122
L
ALA
123
n
123
ALA
123
L
ALA
1
n
1
ALA
1
I
LYS
2
n
2
LYS
2
I
LYS
3
n
3
LYS
3
I
VAL
4
n
4
VAL
4
I
GLN
5
n
5
GLN
5
I
ALA
6
n
6
ALA
6
I
TYR
7
n
7
TYR
7
I
VAL
8
n
8
VAL
8
I
LYS
9
n
9
LYS
9
I
LEU
10
n
10
LEU
10
I
GLN
11
n
11
GLN
11
I
VAL
12
n
12
VAL
12
I
ALA
13
n
13
ALA
13
I
ALA
14
n
14
ALA
14
I
GLY
15
n
15
GLY
15
I
MET
16
n
16
MET
16
I
ALA
17
n
17
ALA
17
I
ASN
18
n
18
ASN
18
I
PRO
19
n
19
PRO
19
I
SER
20
n
20
SER
20
I
PRO
21
n
21
PRO
21
I
PRO
22
n
22
PRO
22
I
VAL
23
n
23
VAL
23
I
GLY
24
n
24
GLY
24
I
PRO
25
n
25
PRO
25
I
ALA
26
n
26
ALA
26
I
LEU
27
n
27
LEU
27
I
GLY
28
n
28
GLY
28
I
GLN
29
n
29
GLN
29
I
GLN
30
n
30
GLN
30
I
GLY
31
n
31
GLY
31
I
VAL
32
n
32
VAL
32
I
ASN
33
n
33
ASN
33
I
ILE
34
n
34
ILE
34
I
MET
35
n
35
MET
35
I
GLU
36
n
36
GLU
36
I
PHE
37
n
37
PHE
37
I
CYS
38
n
38
CYS
38
I
LYS
39
n
39
LYS
39
I
ALA
40
n
40
ALA
40
I
PHE
41
n
41
PHE
41
I
ASN
42
n
42
ASN
42
I
ALA
43
n
43
ALA
43
I
LYS
44
n
44
LYS
44
I
THR
45
n
45
THR
45
I
ASP
46
n
46
ASP
46
I
SER
47
n
47
SER
47
I
ILE
48
n
48
ILE
48
I
GLU
49
n
49
GLU
49
I
LYS
50
n
50
LYS
50
I
GLY
51
n
51
GLY
51
I
LEU
52
n
52
LEU
52
I
PRO
53
n
53
PRO
53
I
ILE
54
n
54
ILE
54
I
PRO
55
n
55
PRO
55
I
VAL
56
n
56
VAL
56
I
VAL
57
n
57
VAL
57
I
ILE
58
n
58
ILE
58
I
THR
59
n
59
THR
59
I
VAL
60
n
60
VAL
60
I
TYR
61
n
61
TYR
61
I
ALA
62
n
62
ALA
62
I
ASP
63
n
63
ASP
63
I
ARG
64
n
64
ARG
64
I
SER
65
n
65
SER
65
I
PHE
66
n
66
PHE
66
I
THR
67
n
67
THR
67
I
PHE
68
n
68
PHE
68
I
VAL
69
n
69
VAL
69
I
THR
70
n
70
THR
70
I
LYS
71
n
71
LYS
71
I
THR
72
n
72
THR
72
I
PRO
73
n
73
PRO
73
I
PRO
74
n
74
PRO
74
I
ALA
75
n
75
ALA
75
I
ALA
76
n
76
ALA
76
I
VAL
77
n
77
VAL
77
I
LEU
78
n
78
LEU
78
I
LEU
79
n
79
LEU
79
I
LYS
80
n
80
LYS
80
I
LYS
81
n
81
LYS
81
I
ALA
82
n
82
ALA
82
I
ALA
83
n
83
ALA
83
I
GLY
84
n
84
GLY
84
I
ILE
85
n
85
ILE
85
I
LYS
86
n
86
LYS
86
I
SER
87
n
87
SER
87
I
GLY
88
n
88
GLY
88
I
SER
89
n
89
SER
89
I
GLY
90
n
90
GLY
90
I
LYS
91
n
91
LYS
91
I
PRO
92
n
92
PRO
92
I
ASN
93
n
93
ASN
93
I
LYS
94
n
94
LYS
94
I
ASP
95
n
95
ASP
95
I
LYS
96
n
96
LYS
96
I
VAL
97
n
97
VAL
97
I
GLY
98
n
98
GLY
98
I
LYS
99
n
99
LYS
99
I
ILE
100
n
100
ILE
100
I
SER
101
n
101
SER
101
I
ARG
102
n
102
ARG
102
I
ALA
103
n
103
ALA
103
I
GLN
104
n
104
GLN
104
I
LEU
105
n
105
LEU
105
I
GLN
106
n
106
GLN
106
I
GLU
107
n
107
GLU
107
I
ILE
108
n
108
ILE
108
I
ALA
109
n
109
ALA
109
I
GLN
110
n
110
GLN
110
I
THR
111
n
111
THR
111
I
LYS
112
n
112
LYS
112
I
ALA
113
n
113
ALA
113
I
ALA
114
n
114
ALA
114
I
ASP
115
n
115
ASP
115
I
MET
116
n
116
MET
116
I
THR
117
n
117
THR
117
I
GLY
118
n
118
GLY
118
I
ALA
119
n
119
ALA
119
I
ASP
120
n
120
ASP
120
I
ILE
121
n
121
ILE
121
I
GLU
122
n
122
GLU
122
I
ALA
123
n
123
ALA
123
I
MET
124
n
124
MET
124
I
THR
125
n
125
THR
125
I
ARG
126
n
126
ARG
126
I
SER
127
n
127
SER
127
I
ILE
128
n
128
ILE
128
I
GLU
129
n
129
GLU
129
I
GLY
130
n
130
GLY
130
I
THR
131
n
131
THR
131
I
ALA
132
n
132
ALA
132
I
ARG
133
n
133
ARG
133
I
SER
134
n
134
SER
134
I
MET
135
n
135
MET
135
I
GLY
136
n
136
GLY
136
I
LEU
137
n
137
LEU
137
I
VAL
138
n
138
VAL
138
I
VAL
139
n
139
VAL
139
I
GLU
140
n
140
GLU
140
I
ASP
141
n
141
ASP
141
I
C
2
n
1
C
2
Y
G
3
n
2
G
3
Y
G
4
n
3
G
4
Y
A
5
n
4
A
5
Y
U
6
n
5
U
6
Y
U
7
n
6
U
7
Y
U
8
n
7
U
8
Y
A
9
n
8
A
9
Y
G
10
n
9
G
10
Y
C
11
n
10
C
11
Y
U
12
n
11
U
12
Y
C
13
n
12
C
13
Y
A
14
n
13
A
14
Y
G
15
n
14
G
15
Y
U
16
n
15
U
16
Y
U
17
n
16
U
17
Y
G
18
n
17
G
18
Y
G
19
n
18
G
19
Y
G
20
n
19
G
20
Y
A
21
n
20
A
21
Y
G
22
n
21
G
22
Y
A
23
n
22
A
23
Y
G
24
n
23
G
24
Y
C
25
n
24
C
25
Y
G
26
n
25
G
26
Y
C
27
n
26
C
27
Y
C
28
n
27
C
28
Y
A
29
n
28
A
29
Y
G
30
n
29
G
30
Y
A
31
n
30
A
31
Y
C
32
n
31
C
32
Y
U
33
n
32
U
33
Y
G
34
n
33
G
34
Y
A
35
n
34
A
35
Y
A
36
n
35
A
36
Y
G
37
n
36
G
37
Y
A
38
n
37
A
38
Y
U
39
n
38
U
39
Y
C
40
n
39
C
40
Y
U
41
n
40
U
41
Y
G
42
n
41
G
42
Y
G
43
n
42
G
43
Y
A
44
n
43
A
44
Y
C
48
n
44
C
48
Y
C
49
n
45
C
49
Y
U
50
n
46
U
50
Y
G
51
n
47
G
51
Y
U
52
n
48
U
52
Y
G
53
n
49
G
53
Y
U
54
n
50
U
54
Y
U
55
n
51
U
55
Y
C
56
n
52
C
56
Y
G
57
n
53
G
57
Y
A
58
n
54
A
58
Y
U
59
n
55
U
59
Y
C
60
n
56
C
60
Y
C
61
n
57
C
61
Y
A
62
n
58
A
62
Y
C
63
n
59
C
63
Y
A
64
n
60
A
64
Y
G
65
n
61
G
65
Y
A
66
n
62
A
66
Y
A
67
n
63
A
67
Y
U
68
n
64
U
68
Y
U
69
n
65
U
69
Y
C
70
n
66
C
70
Y
G
71
n
67
G
71
Y
C
72
n
68
C
72
Y
A
73
n
69
A
73
Y
C
74
n
70
C
74
Y
C
75
n
71
C
75
Y
C
76
n
72
C
76
Y
U
77
n
73
U
77
Y
C
78
n
74
C
78
Y
C
79
n
75
C
79
Y
C
80
n
76
C
80
Y
G
81
n
77
G
81
Y
U
82
n
78
U
82
Y
A
83
n
79
A
83
Y
G
84
n
80
G
84
Y
G
85
n
81
G
85
Y
G
86
n
82
G
86
Y
G
87
n
83
G
87
Y
U
88
n
84
U
88
Y
U
89
n
85
U
89
Y
C
526
n
1
C
526
A
G
527
n
2
G
527
A
C
528
n
3
C
528
A
G
529
n
4
G
529
A
G
530
n
5
G
530
A
U
531
n
6
U
531
A
A
532
n
7
A
532
A
A
533
n
8
A
533
A
U
534
n
9
U
534
A
G
1487
n
1
G
1487
C
G
1488
n
2
G
1488
C
G
1489
n
3
G
1489
C
C
1490
n
4
C
1490
C
G
1491
n
5
G
1491
C
A
1492
n
6
A
1492
C
A
1493
n
7
A
1493
C
G
1494
n
8
G
1494
C
U
1495
n
9
U
1495
C
C
1496
n
10
C
1496
C
G
1497
n
11
G
1497
C
A
1054
n
1
A
1054
B
G
1055
n
2
G
1055
B
G
1056
n
3
G
1056
B
A
1057
n
4
A
1057
B
U
1058
n
5
U
1058
B
G
1059
n
6
G
1059
B
U
1060
n
7
U
1060
B
U
1061
n
8
U
1061
B
G
1062
n
9
G
1062
B
G
1063
n
10
G
1063
B
C
1064
n
11
C
1064
B
U
1065
n
12
U
1065
B
U
1066
n
13
U
1066
B
A
1067
n
14
A
1067
B
G
1068
n
15
G
1068
B
A
1069
n
16
A
1069
B
A
1070
n
17
A
1070
B
G
1071
n
18
G
1071
B
C
1072
n
19
C
1072
B
A
1073
n
20
A
1073
B
G
1074
n
21
G
1074
B
C
1075
n
22
C
1075
B
C
1076
n
23
C
1076
B
A
1077
n
24
A
1077
B
U
1078
n
25
U
1078
B
C
1079
n
26
C
1079
B
A
1080
n
27
A
1080
B
U
1081
n
28
U
1081
B
U
1082
n
29
U
1082
B
U
1083
n
30
U
1083
B
A
1084
n
31
A
1084
B
A
1085
n
32
A
1085
B
A
1086
n
33
A
1086
B
G
1087
n
34
G
1087
B
A
1088
n
35
A
1088
B
A
1089
n
36
A
1089
B
A
1090
n
37
A
1090
B
G
1091
n
38
G
1091
B
C
1092
n
39
C
1092
B
G
1093
n
40
G
1093
B
U
1094
n
41
U
1094
B
A
1095
n
42
A
1095
B
A
1096
n
43
A
1096
B
U
1097
n
44
U
1097
B
A
1098
n
45
A
1098
B
G
1099
n
46
G
1099
B
C
1100
n
47
C
1100
B
U
1101
n
48
U
1101
B
U
2647
n
1
U
2647
D
G
2648
n
2
G
2648
D
C
2649
n
3
C
2649
D
U
2650
n
4
U
2650
D
C
2651
n
5
C
2651
D
C
2652
n
6
C
2652
D
U
2653
n
7
U
2653
D
A
2654
n
8
A
2654
D
G
2655
n
9
G
2655
D
U
2656
n
10
U
2656
D
A
2657
n
11
A
2657
D
C
2658
n
12
C
2658
D
G
2659
n
13
G
2659
D
A
2660
n
14
A
2660
D
G
2661
n
15
G
2661
D
A
2662
n
16
A
2662
D
G
2663
n
17
G
2663
D
G
2664
n
18
G
2664
D
A
2665
n
19
A
2665
D
C
2666
n
20
C
2666
D
C
2667
n
21
C
2667
D
G
2668
n
22
G
2668
D
G
2669
n
23
G
2669
D
A
2670
n
24
A
2670
D
G
2671
n
25
G
2671
D
U
2672
n
26
U
2672
D
G
2673
n
27
G
2673
D
G
2674
n
28
G
2674
D
G
1907
n
1
G
1907
E
C
1908
n
2
C
1908
E
C
1909
n
3
C
1909
E
G
1910
n
4
G
1910
E
U
1911
n
5
U
1911
E
A
1912
n
6
A
1912
E
A
913
n
7
A
913
E
C
1914
n
8
C
1914
E
U
1915
n
9
U
1915
E
A
1916
n
10
A
1916
E
U
1917
n
11
U
1917
E
A
1918
n
12
A
1918
E
A
1919
n
13
A
1919
E
C
1920
n
14
C
1920
E
G
1921
n
15
G
1921
E
G
1922
n
16
G
1922
E
U
1923
n
17
U
1923
E
author_defined_assembly
9
nonameric
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
Y
Y
P
P
G
C
10
79
1.57
0
855
0
198
657
Model of tRNA(Leu)-EF-Tu in the ribosomal pre-accommodated state revealed by cryo-EM
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
6
N
N
7
N
N
8
N
N
9
N
N
RIBOSOMAL PROTEIN/RNA
protein translation, ternary complex, A/T-tRNA, automated data collection, Antibiotic resistance, Elongation factor, GTP-binding, Membrane, Methylation, Nucleotide-binding, Phosphoprotein, Protein biosynthesis, Ribonucleoprotein, Ribosomal protein, RNA-binding, rRNA-binding, tRNA-binding, RIBOSOMAL PROTEIN-RNA COMPLEX
EFTU_ECOLI
UNP
1
2
P0A6N1
SKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVD
CPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQY
DFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISGRGTVVTGRVERGIIKVGE
EVEIVGIKETQKSTCTGVEMFRKLLDEGRAGENVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHT
PFFKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGLRFAIREGGRTVGAGVVAKVLS
RS12_ECOLI
UNP
2
2
P0A7S3
ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVTSYIGGEGHNLQEHSVIL
IRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGVKRPKA
RL11_ECOLI
UNP
3
2
P0A7J7
AKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLLK
KAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED
3EQ4
PDB
4
2
3EQ4
CGGAUUUAGCUCAGUUGGGAGAGCGCCAGACUGAAGAUCUGGACCUGUGUUCGAUCCACAGAAUUCGCACCCUCCCGUAG
GGGUU
3EQ4
PDB
5
526
3EQ4
CGCGGUAAU
3EQ4
PDB
6
1487
3EQ4
GGGCGAAGUCG
3EQ4
PDB
7
1054
3EQ4
AGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCU
3EQ4
PDB
8
2647
3EQ4
UGCUCCUAGUACGAGAGGACCGGAGUGG
3EQ4
PDB
9
1907
3EQ4
GCCGUAACUAUAACGGU
2
394
3EQ4
1
393
P0A6N1
X
1
1
393
2
124
3EQ4
1
123
P0A7S3
L
2
1
123
2
142
3EQ4
1
141
P0A7J7
I
3
1
141
2
89
3EQ4
2
89
3EQ4
Y
4
1
85
526
534
3EQ4
526
534
3EQ4
A
5
1
9
1487
1497
3EQ4
1487
1497
3EQ4
C
6
1
11
1054
1101
3EQ4
1054
1101
3EQ4
B
7
1
48
2647
2674
3EQ4
2647
2674
3EQ4
D
8
1
28
1907
1923
3EQ4
1907
1923
3EQ4
E
9
1
17
1
P 1