1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Agrawal, R.K.
Linde, J.
Segupta, J.
Nierhaus, K.H.
Frank, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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
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
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
N
N
159
S
C
N
160
N
C
N
161
N
O
N
162
S
C
N
163
N
C
N
164
N
C
N
165
N
C
N
166
N
O
N
167
N
H
N
168
N
H
N
169
N
H
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
N
N
181
S
C
N
182
N
C
N
183
N
O
N
184
N
C
N
185
N
C
N
186
N
C
N
187
N
C
N
188
N
O
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
H
N
199
N
H
N
200
N
H
N
201
N
H
N
202
N
N
N
203
S
C
N
204
N
C
N
205
N
O
N
206
N
C
N
207
N
C
N
208
N
C
N
209
N
C
N
210
N
N
N
211
N
O
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
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
N
N
228
S
C
N
229
N
C
N
230
N
O
N
231
N
C
N
232
N
C
N
233
N
S
N
234
N
C
N
235
N
O
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
N
N
248
S
C
N
249
N
C
N
250
N
O
N
251
N
C
Y
252
N
C
Y
253
N
C
Y
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
N
258
N
O
N
259
N
H
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
H
N
269
N
H
N
270
N
N
N
271
S
C
N
272
N
C
N
273
N
O
N
274
N
C
N
275
N
C
N
276
N
C
N
277
N
O
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
N
N
288
S
C
N
289
N
C
N
290
N
O
N
291
N
C
N
292
N
O
N
293
N
O
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
N
N
302
S
C
N
303
N
C
N
304
N
O
N
305
R
C
N
306
N
O
N
307
N
C
N
308
N
O
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
N
N
319
S
C
N
320
N
C
N
321
N
O
N
322
N
C
Y
323
N
C
Y
324
N
C
Y
325
N
C
Y
326
N
N
Y
327
N
C
Y
328
N
C
Y
329
N
C
Y
330
N
C
Y
331
N
C
N
332
N
O
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
H
N
342
N
H
N
343
N
H
N
344
N
H
N
345
N
N
N
346
S
C
N
347
N
C
N
348
N
O
N
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
Y
353
N
C
Y
354
N
C
Y
355
N
C
N
356
N
O
N
357
N
O
N
358
N
H
N
359
N
H
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
N
N
370
S
C
N
371
N
C
N
372
N
O
N
373
N
C
N
374
N
C
N
375
N
C
N
376
N
O
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
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
doub
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
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
doub
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
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
doub
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
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
doub
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
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
Y
246
N
doub
Y
247
N
sing
Y
248
N
sing
N
249
N
sing
Y
250
N
doub
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
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
doub
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
doub
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
doub
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
doub
N
311
N
sing
N
312
N
sing
N
313
N
sing
N
314
N
sing
Y
315
N
doub
Y
316
N
sing
Y
317
N
sing
N
318
N
sing
Y
319
N
doub
Y
320
N
sing
Y
321
N
sing
N
322
N
sing
Y
323
N
sing
Y
324
N
doub
N
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
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
sing
N
338
N
doub
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
Y
343
N
doub
Y
344
N
sing
Y
345
N
sing
N
346
N
sing
Y
347
N
doub
N
348
N
sing
Y
349
N
doub
N
350
N
sing
Y
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
sing
N
355
N
sing
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
doub
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
N
372
N
sing
N
373
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
311
777
787
10.1006/jmbi.2001.4907
11518530
Localization of L11 protein on the ribosome and elucidation of its involvement in EF-G-dependent translocation.
2001
US
Cell(Cambridge,Mass.)
CELLB5
0998
0092-8674
97
491
502
10.1016/S0092-8674(00)80759-X
A Detailed View of a Ribosomal Active Site: The Structure of the L11-RNA Complex
1999
UK
Embo J.
EMJODG
0897
0261-4189
13
3661
3668
The Crystal Structure of Elongation Factor G Complexed with GDP, at 2.7A Resolution.
1994
UK
Embo J.
EMJODG
0897
0261-4189
13
3669
3677
Three-dimensional structure of the ribosomal translocase: Elongation factor G from Thermus thermophilus
1994
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
303
593
603
10.1006/jmbi.2000.4168
Structure of a Mutant EF-G Reveals Domain III and Possibly the Fusidic Acid Binding Site
2000
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
6
643
647
10.1038/10695
EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome
1999
10.2210/pdb1jqm/pdb
pdb_00001jqm
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
REFINEMENT PROTOCOL--MANUAL DETAILS--This structure was generated by fitting
the X-ray crystal structure of L11 and EF-G into the 70S E. coli EF-G (GDP
form) bound ribosome electron microscopy map. L11 (linker region between N and
C terminal) and EF-G positions of domains G and V were modeled to accommodate
the conformational changes. Conformational changes occur in protein L11 and
EF-G in two steps due to the binding of EF-G to the 70S ribosome, and
subsequent GTP hydrolysis. These changed conformations were modeled based on
the fitting of the crystal coordinates to the low resolution ribosome map
(factor-bound) and energy minimizing the fitted structures.
OTHER
REAL
VISUAL AGREEMENT
1JQM
36113
18
FSC 0.5 CUT-OFF
POINT
7.6
e. coli 70S ribosome bound with EF-G, GDP and fusidic acid
0
RIBOSOME
PARTICLE
1
1
SINGLE PARTICLE
10
GENERIC FILM
OTHER
FLOOD BEAM
FEI/PHILIPS EM420
BRIGHT FIELD
52000
GATAN LIQUID NITROGEN
1
36113
1JQM
C1
NO
NO
NO
YES
L11 from E. coli 70S ribosome modeled by crystal structure of L11 from Thermatogoma maritima
14865.637
50S Ribosomal protein L11
1
nat
polymer
EF-G from E. coli 70S ribosome modeled by crystal structure of EF-G from Thermus thermophilus
76963.078
Elongation Factor G
1
nat
polymer
EF-G; translation elongation factor EF-G
no
no
AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK
AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV
AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK
AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV
A
polypeptide(L)
no
no
MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRIN
IIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGAR
PVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDNAREYHEKLVEVAADFDENIMLKYLEGEEPTEE
ELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADP
YVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVILE
SIEVPEPVIDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDRLKREFKVDANVGKPQ
VAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSGFEFVNAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPV
VDIKVTLYDGSYHEVDSSEMAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNA
QVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIKGQ
MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRIN
IIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGAR
PVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDNAREYHEKLVEVAADFDENIMLKYLEGEEPTEE
ELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADP
YVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVILE
SIEVPEPVIDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDRLKREFKVDANVGKPQ
VAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSGFEFVNAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPV
VDIKVTLYDGSYHEVDSSEMAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNA
QVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIKGQ
B
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Escherichia
sample
562
Escherichia coli
Escherichia
sample
562
Escherichia coli
chem_comp_atom
chem_comp_bond
database_2
em_image_scans
struct_ref_seq_dif
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
1
0
2001-09-07
1
1
2008-04-27
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
CA ATOMS ONLY
CA ATOMS ONLY
Fitting Of Components With Known Structure Into An 11.5 A Cryo-Em
Map Of The E. Coli 70S Ribosome
RCSB
Y
RCSB
2001-08-07
REL
This structure was generated by fitting the X-ray crystal structure of
L11 and EF-G into the 70S E. coli EF-G (GDP form) bound ribosome
map. L11 (linker region between N and C terminal) and EF-G positions
of domains G' and V were modeled to accommodate the conformational
changes.
Conformational changes occur in protein L11 and EF-G in two stpes due
to the binding of EF-G to the 70S ribosome, and subsequent GTP
hydrolysis. These changed conformations were modeled based on the
fitting of the crystal coordinates to the low resolution ribosome map
(factor-bound) and energy minimizing the fitted structures.
Molecular Modeling based on crystal structures
Numerical Algorithms Group, Inc.
data analysis
IRIS Explorer
3.5
Jones, Zou, Cowan, Kjeldgaard
data analysis
O
5.10
Frank
processing
SPIDER
4.48
Biosym/MSI Inc.
data analysis
Insight II
1998
n
1
-5
A
n
2
-4
A
n
3
-3
A
n
4
-2
A
n
5
-1
A
n
6
0
A
GLN
1
n
7
GLN
1
A
ILE
2
n
8
ILE
2
A
LYS
3
n
9
LYS
3
A
LEU
4
n
10
LEU
4
A
GLN
5
n
11
GLN
5
A
LEU
6
n
12
LEU
6
A
PRO
7
n
13
PRO
7
A
ALA
8
n
14
ALA
8
A
GLY
9
n
15
GLY
9
A
LYS
10
n
16
LYS
10
A
ALA
11
n
17
ALA
11
A
THR
12
n
18
THR
12
A
PRO
13
n
19
PRO
13
A
ALA
14
n
20
ALA
14
A
PRO
15
n
21
PRO
15
A
PRO
16
n
22
PRO
16
A
VAL
17
n
23
VAL
17
A
GLY
18
n
24
GLY
18
A
PRO
19
n
25
PRO
19
A
ALA
20
n
26
ALA
20
A
LEU
21
n
27
LEU
21
A
GLY
22
n
28
GLY
22
A
GLN
23
n
29
GLN
23
A
HIS
24
n
30
HIS
24
A
GLY
25
n
31
GLY
25
A
VAL
26
n
32
VAL
26
A
ASN
27
n
33
ASN
27
A
ILE
28
n
34
ILE
28
A
MET
29
n
35
MET
29
A
GLU
30
n
36
GLU
30
A
PHE
31
n
37
PHE
31
A
CYS
32
n
38
CYS
32
A
LYS
33
n
39
LYS
33
A
ARG
34
n
40
ARG
34
A
PHE
35
n
41
PHE
35
A
ASN
36
n
42
ASN
36
A
ALA
37
n
43
ALA
37
A
GLU
38
n
44
GLU
38
A
THR
39
n
45
THR
39
A
ALA
40
n
46
ALA
40
A
ASP
41
n
47
ASP
41
A
LYS
42
n
48
LYS
42
A
ALA
43
n
49
ALA
43
A
GLY
44
n
50
GLY
44
A
MET
45
n
51
MET
45
A
ILE
46
n
52
ILE
46
A
LEU
47
n
53
LEU
47
A
PRO
48
n
54
PRO
48
A
VAL
49
n
55
VAL
49
A
VAL
50
n
56
VAL
50
A
ILE
51
n
57
ILE
51
A
THR
52
n
58
THR
52
A
VAL
53
n
59
VAL
53
A
TYR
54
n
60
TYR
54
A
GLU
55
n
61
GLU
55
A
ASP
56
n
62
ASP
56
A
LYS
57
n
63
LYS
57
A
SER
58
n
64
SER
58
A
PHE
59
n
65
PHE
59
A
THR
60
n
66
THR
60
A
PHE
61
n
67
PHE
61
A
ILE
62
n
68
ILE
62
A
ILE
63
n
69
ILE
63
A
LYS
64
n
70
LYS
64
A
THR
65
n
71
THR
65
A
PRO
66
n
72
PRO
66
A
PRO
67
n
73
PRO
67
A
ALA
68
n
74
ALA
68
A
SER
69
n
75
SER
69
A
PHE
70
n
76
PHE
70
A
LEU
71
n
77
LEU
71
A
LEU
72
n
78
LEU
72
A
LYS
73
n
79
LYS
73
A
LYS
74
n
80
LYS
74
A
ALA
75
n
81
ALA
75
A
ALA
76
n
82
ALA
76
A
GLY
77
n
83
GLY
77
A
ILE
78
n
84
ILE
78
A
GLU
79
n
85
GLU
79
A
LYS
80
n
86
LYS
80
A
GLY
81
n
87
GLY
81
A
SER
82
n
88
SER
82
A
SER
83
n
89
SER
83
A
GLU
84
n
90
GLU
84
A
PRO
85
n
91
PRO
85
A
LYS
86
n
92
LYS
86
A
ARG
87
n
93
ARG
87
A
LYS
88
n
94
LYS
88
A
ILE
89
n
95
ILE
89
A
VAL
90
n
96
VAL
90
A
GLY
91
n
97
GLY
91
A
LYS
92
n
98
LYS
92
A
VAL
93
n
99
VAL
93
A
THR
94
n
100
THR
94
A
ARG
95
n
101
ARG
95
A
LYS
96
n
102
LYS
96
A
GLN
97
n
103
GLN
97
A
ILE
98
n
104
ILE
98
A
GLU
99
n
105
GLU
99
A
GLU
100
n
106
GLU
100
A
ILE
101
n
107
ILE
101
A
ALA
102
n
108
ALA
102
A
LYS
103
n
109
LYS
103
A
THR
104
n
110
THR
104
A
LYS
105
n
111
LYS
105
A
MET
106
n
112
MET
106
A
PRO
107
n
113
PRO
107
A
ASP
108
n
114
ASP
108
A
LEU
109
n
115
LEU
109
A
ASN
110
n
116
ASN
110
A
ALA
111
n
117
ALA
111
A
ASN
112
n
118
ASN
112
A
SER
113
n
119
SER
113
A
LEU
114
n
120
LEU
114
A
GLU
115
n
121
GLU
115
A
ALA
116
n
122
ALA
116
A
ALA
117
n
123
ALA
117
A
MET
118
n
124
MET
118
A
LYS
119
n
125
LYS
119
A
ILE
120
n
126
ILE
120
A
ILE
121
n
127
ILE
121
A
GLU
122
n
128
GLU
122
A
GLY
123
n
129
GLY
123
A
THR
124
n
130
THR
124
A
ALA
125
n
131
ALA
125
A
LYS
126
n
132
LYS
126
A
SER
127
n
133
SER
127
A
MET
128
n
134
MET
128
A
GLY
129
n
135
GLY
129
A
ILE
130
n
136
ILE
130
A
GLU
131
n
137
GLU
131
A
VAL
132
n
138
VAL
132
A
VAL
133
n
139
VAL
133
A
MET
1
n
1
MET
1
B
ALA
2
n
2
ALA
2
B
VAL
3
n
3
VAL
3
B
LYS
4
n
4
LYS
4
B
VAL
5
n
5
VAL
5
B
GLU
6
n
6
GLU
6
B
TYR
7
n
7
TYR
7
B
ASP
8
n
8
ASP
8
B
LEU
9
n
9
LEU
9
B
LYS
10
n
10
LYS
10
B
ARG
11
n
11
ARG
11
B
LEU
12
n
12
LEU
12
B
ARG
13
n
13
ARG
13
B
ASN
14
n
14
ASN
14
B
ILE
15
n
15
ILE
15
B
GLY
16
n
16
GLY
16
B
ILE
17
n
17
ILE
17
B
ALA
18
n
18
ALA
18
B
ALA
19
n
19
ALA
19
B
HIS
20
n
20
HIS
20
B
ILE
21
n
21
ILE
21
B
ASP
22
n
22
ASP
22
B
ALA
23
n
23
ALA
23
B
GLY
24
n
24
GLY
24
B
LYS
25
n
25
LYS
25
B
THR
26
n
26
THR
26
B
THR
27
n
27
THR
27
B
THR
28
n
28
THR
28
B
THR
29
n
29
THR
29
B
GLU
30
n
30
GLU
30
B
ARG
31
n
31
ARG
31
B
ILE
32
n
32
ILE
32
B
LEU
33
n
33
LEU
33
B
TYR
34
n
34
TYR
34
B
TYR
35
n
35
TYR
35
B
THR
36
n
36
THR
36
B
GLY
37
n
37
GLY
37
B
ARG
38
n
38
ARG
38
B
ILE
39
n
39
ILE
39
B
HIS
40
n
40
HIS
40
B
LYS
41
n
41
LYS
41
B
ILE
42
n
42
ILE
42
B
GLY
43
n
43
GLY
43
B
GLU
44
n
44
GLU
44
B
VAL
45
n
45
VAL
45
B
HIS
46
n
46
HIS
46
B
GLU
47
n
47
GLU
47
B
GLY
48
n
48
GLY
48
B
ALA
49
n
49
ALA
49
B
ALA
50
n
50
ALA
50
B
THR
51
n
51
THR
51
B
MET
52
n
52
MET
52
B
ASP
53
n
53
ASP
53
B
PHE
54
n
54
PHE
54
B
MET
55
n
55
MET
55
B
GLU
56
n
56
GLU
56
B
GLN
57
n
57
GLN
57
B
GLU
58
n
58
GLU
58
B
ARG
59
n
59
ARG
59
B
GLU
60
n
60
GLU
60
B
ARG
61
n
61
ARG
61
B
GLY
62
n
62
GLY
62
B
ILE
63
n
63
ILE
63
B
THR
64
n
64
THR
64
B
ILE
65
n
65
ILE
65
B
THR
66
n
66
THR
66
B
ALA
67
n
67
ALA
67
B
ALA
68
n
68
ALA
68
B
VAL
69
n
69
VAL
69
B
THR
70
n
70
THR
70
B
THR
71
n
71
THR
71
B
CYS
72
n
72
CYS
72
B
PHE
73
n
73
PHE
73
B
TRP
74
n
74
TRP
74
B
LYS
75
n
75
LYS
75
B
ASP
76
n
76
ASP
76
B
HIS
77
n
77
HIS
77
B
ARG
78
n
78
ARG
78
B
ILE
79
n
79
ILE
79
B
ASN
80
n
80
ASN
80
B
ILE
81
n
81
ILE
81
B
ILE
82
n
82
ILE
82
B
ASP
83
n
83
ASP
83
B
THR
84
n
84
THR
84
B
PRO
85
n
85
PRO
85
B
GLY
86
n
86
GLY
86
B
HIS
87
n
87
HIS
87
B
VAL
88
n
88
VAL
88
B
ASP
89
n
89
ASP
89
B
PHE
90
n
90
PHE
90
B
THR
91
n
91
THR
91
B
ILE
92
n
92
ILE
92
B
GLU
93
n
93
GLU
93
B
VAL
94
n
94
VAL
94
B
GLU
95
n
95
GLU
95
B
ARG
96
n
96
ARG
96
B
SER
97
n
97
SER
97
B
MET
98
n
98
MET
98
B
ARG
99
n
99
ARG
99
B
VAL
100
n
100
VAL
100
B
LEU
101
n
101
LEU
101
B
ASP
102
n
102
ASP
102
B
GLY
103
n
103
GLY
103
B
ALA
104
n
104
ALA
104
B
ILE
105
n
105
ILE
105
B
VAL
106
n
106
VAL
106
B
VAL
107
n
107
VAL
107
B
PHE
108
n
108
PHE
108
B
ASP
109
n
109
ASP
109
B
SER
110
n
110
SER
110
B
SER
111
n
111
SER
111
B
GLN
112
n
112
GLN
112
B
GLY
113
n
113
GLY
113
B
VAL
114
n
114
VAL
114
B
GLU
115
n
115
GLU
115
B
PRO
116
n
116
PRO
116
B
GLN
117
n
117
GLN
117
B
SER
118
n
118
SER
118
B
GLU
119
n
119
GLU
119
B
THR
120
n
120
THR
120
B
VAL
121
n
121
VAL
121
B
TRP
122
n
122
TRP
122
B
ARG
123
n
123
ARG
123
B
GLN
124
n
124
GLN
124
B
ALA
125
n
125
ALA
125
B
GLU
126
n
126
GLU
126
B
LYS
127
n
127
LYS
127
B
TYR
128
n
128
TYR
128
B
LYS
129
n
129
LYS
129
B
VAL
130
n
130
VAL
130
B
PRO
131
n
131
PRO
131
B
ARG
132
n
132
ARG
132
B
ILE
133
n
133
ILE
133
B
ALA
134
n
134
ALA
134
B
PHE
135
n
135
PHE
135
B
ALA
136
n
136
ALA
136
B
ASN
137
n
137
ASN
137
B
LYS
138
n
138
LYS
138
B
MET
139
n
139
MET
139
B
ASP
140
n
140
ASP
140
B
LYS
141
n
141
LYS
141
B
THR
142
n
142
THR
142
B
GLY
143
n
143
GLY
143
B
ALA
144
n
144
ALA
144
B
ASP
145
n
145
ASP
145
B
LEU
146
n
146
LEU
146
B
TRP
147
n
147
TRP
147
B
LEU
148
n
148
LEU
148
B
VAL
149
n
149
VAL
149
B
ILE
150
n
150
ILE
150
B
ARG
151
n
151
ARG
151
B
THR
152
n
152
THR
152
B
MET
153
n
153
MET
153
B
GLN
154
n
154
GLN
154
B
GLU
155
n
155
GLU
155
B
ARG
156
n
156
ARG
156
B
LEU
157
n
157
LEU
157
B
GLY
158
n
158
GLY
158
B
ALA
159
n
159
ALA
159
B
ARG
160
n
160
ARG
160
B
PRO
161
n
161
PRO
161
B
VAL
162
n
162
VAL
162
B
VAL
163
n
163
VAL
163
B
MET
164
n
164
MET
164
B
GLN
165
n
165
GLN
165
B
LEU
166
n
166
LEU
166
B
PRO
167
n
167
PRO
167
B
ILE
168
n
168
ILE
168
B
GLY
169
n
169
GLY
169
B
ARG
170
n
170
ARG
170
B
GLU
171
n
171
GLU
171
B
ASP
172
n
172
ASP
172
B
THR
173
n
173
THR
173
B
PHE
174
n
174
PHE
174
B
SER
175
n
175
SER
175
B
GLY
176
n
176
GLY
176
B
ILE
177
n
177
ILE
177
B
ILE
178
n
178
ILE
178
B
ASP
179
n
179
ASP
179
B
VAL
180
n
180
VAL
180
B
LEU
181
n
181
LEU
181
B
ARG
182
n
182
ARG
182
B
MET
183
n
183
MET
183
B
LYS
184
n
184
LYS
184
B
ALA
185
n
185
ALA
185
B
TYR
186
n
186
TYR
186
B
THR
187
n
187
THR
187
B
TYR
188
n
188
TYR
188
B
GLY
189
n
189
GLY
189
B
ASN
190
n
190
ASN
190
B
ASP
191
n
191
ASP
191
B
LEU
192
n
192
LEU
192
B
GLY
193
n
193
GLY
193
B
THR
194
n
194
THR
194
B
ASP
195
n
195
ASP
195
B
ILE
196
n
196
ILE
196
B
ARG
197
n
197
ARG
197
B
GLU
198
n
198
GLU
198
B
ILE
199
n
199
ILE
199
B
PRO
200
n
200
PRO
200
B
ILE
201
n
201
ILE
201
B
PRO
202
n
202
PRO
202
B
GLU
203
n
203
GLU
203
B
GLU
204
n
204
GLU
204
B
TYR
205
n
205
TYR
205
B
LEU
206
n
206
LEU
206
B
ASP
207
n
207
ASP
207
B
ASN
208
n
208
ASN
208
B
ALA
209
n
209
ALA
209
B
ARG
210
n
210
ARG
210
B
GLU
211
n
211
GLU
211
B
TYR
212
n
212
TYR
212
B
HIS
213
n
213
HIS
213
B
GLU
214
n
214
GLU
214
B
LYS
215
n
215
LYS
215
B
LEU
216
n
216
LEU
216
B
VAL
217
n
217
VAL
217
B
GLU
218
n
218
GLU
218
B
VAL
219
n
219
VAL
219
B
ALA
220
n
220
ALA
220
B
ALA
221
n
221
ALA
221
B
ASP
222
n
222
ASP
222
B
PHE
223
n
223
PHE
223
B
ASP
224
n
224
ASP
224
B
GLU
225
n
225
GLU
225
B
ASN
226
n
226
ASN
226
B
ILE
227
n
227
ILE
227
B
MET
228
n
228
MET
228
B
LEU
229
n
229
LEU
229
B
LYS
230
n
230
LYS
230
B
TYR
231
n
231
TYR
231
B
LEU
232
n
232
LEU
232
B
GLU
233
n
233
GLU
233
B
GLY
234
n
234
GLY
234
B
GLU
235
n
235
GLU
235
B
GLU
236
n
236
GLU
236
B
PRO
237
n
237
PRO
237
B
THR
238
n
238
THR
238
B
GLU
239
n
239
GLU
239
B
GLU
240
n
240
GLU
240
B
GLU
241
n
241
GLU
241
B
LEU
242
n
242
LEU
242
B
VAL
243
n
243
VAL
243
B
ALA
244
n
244
ALA
244
B
ALA
245
n
245
ALA
245
B
ILE
246
n
246
ILE
246
B
ARG
247
n
247
ARG
247
B
LYS
248
n
248
LYS
248
B
GLY
249
n
249
GLY
249
B
THR
250
n
250
THR
250
B
ILE
251
n
251
ILE
251
B
ASP
252
n
252
ASP
252
B
LEU
253
n
253
LEU
253
B
LYS
254
n
254
LYS
254
B
ILE
255
n
255
ILE
255
B
THR
256
n
256
THR
256
B
PRO
257
n
257
PRO
257
B
VAL
258
n
258
VAL
258
B
PHE
259
n
259
PHE
259
B
LEU
260
n
260
LEU
260
B
GLY
261
n
261
GLY
261
B
SER
262
n
262
SER
262
B
ALA
263
n
263
ALA
263
B
LEU
264
n
264
LEU
264
B
LYS
265
n
265
LYS
265
B
ASN
266
n
266
ASN
266
B
LYS
267
n
267
LYS
267
B
GLY
268
n
268
GLY
268
B
VAL
269
n
269
VAL
269
B
GLN
270
n
270
GLN
270
B
LEU
271
n
271
LEU
271
B
LEU
272
n
272
LEU
272
B
LEU
273
n
273
LEU
273
B
ASP
274
n
274
ASP
274
B
ALA
275
n
275
ALA
275
B
VAL
276
n
276
VAL
276
B
VAL
277
n
277
VAL
277
B
ASP
278
n
278
ASP
278
B
TYR
279
n
279
TYR
279
B
LEU
280
n
280
LEU
280
B
PRO
281
n
281
PRO
281
B
SER
282
n
282
SER
282
B
PRO
283
n
283
PRO
283
B
LEU
284
n
284
LEU
284
B
ASP
285
n
285
ASP
285
B
ILE
286
n
286
ILE
286
B
PRO
287
n
287
PRO
287
B
PRO
288
n
288
PRO
288
B
ILE
289
n
289
ILE
289
B
LYS
290
n
290
LYS
290
B
GLY
291
n
291
GLY
291
B
THR
292
n
292
THR
292
B
THR
293
n
293
THR
293
B
PRO
294
n
294
PRO
294
B
GLU
295
n
295
GLU
295
B
GLY
296
n
296
GLY
296
B
GLU
297
n
297
GLU
297
B
VAL
298
n
298
VAL
298
B
VAL
299
n
299
VAL
299
B
GLU
300
n
300
GLU
300
B
ILE
301
n
301
ILE
301
B
HIS
302
n
302
HIS
302
B
PRO
303
n
303
PRO
303
B
ASP
304
n
304
ASP
304
B
PRO
305
n
305
PRO
305
B
ASN
306
n
306
ASN
306
B
GLY
307
n
307
GLY
307
B
PRO
308
n
308
PRO
308
B
LEU
309
n
309
LEU
309
B
ALA
310
n
310
ALA
310
B
ALA
311
n
311
ALA
311
B
LEU
312
n
312
LEU
312
B
ALA
313
n
313
ALA
313
B
PHE
314
n
314
PHE
314
B
LYS
315
n
315
LYS
315
B
ILE
316
n
316
ILE
316
B
MET
317
n
317
MET
317
B
ALA
318
n
318
ALA
318
B
ASP
319
n
319
ASP
319
B
PRO
320
n
320
PRO
320
B
TYR
321
n
321
TYR
321
B
VAL
322
n
322
VAL
322
B
GLY
323
n
323
GLY
323
B
ARG
324
n
324
ARG
324
B
LEU
325
n
325
LEU
325
B
THR
326
n
326
THR
326
B
PHE
327
n
327
PHE
327
B
ILE
328
n
328
ILE
328
B
ARG
329
n
329
ARG
329
B
VAL
330
n
330
VAL
330
B
TYR
331
n
331
TYR
331
B
SER
332
n
332
SER
332
B
GLY
333
n
333
GLY
333
B
THR
334
n
334
THR
334
B
LEU
335
n
335
LEU
335
B
THR
336
n
336
THR
336
B
SER
337
n
337
SER
337
B
GLY
338
n
338
GLY
338
B
SER
339
n
339
SER
339
B
TYR
340
n
340
TYR
340
B
VAL
341
n
341
VAL
341
B
TYR
342
n
342
TYR
342
B
ASN
343
n
343
ASN
343
B
THR
344
n
344
THR
344
B
THR
345
n
345
THR
345
B
LYS
346
n
346
LYS
346
B
GLY
347
n
347
GLY
347
B
ARG
348
n
348
ARG
348
B
LYS
349
n
349
LYS
349
B
GLU
350
n
350
GLU
350
B
ARG
351
n
351
ARG
351
B
VAL
352
n
352
VAL
352
B
ALA
353
n
353
ALA
353
B
ARG
354
n
354
ARG
354
B
LEU
355
n
355
LEU
355
B
LEU
356
n
356
LEU
356
B
ARG
357
n
357
ARG
357
B
MET
358
n
358
MET
358
B
HIS
359
n
359
HIS
359
B
ALA
360
n
360
ALA
360
B
ASN
361
n
361
ASN
361
B
HIS
362
n
362
HIS
362
B
ARG
363
n
363
ARG
363
B
GLU
364
n
364
GLU
364
B
GLU
365
n
365
GLU
365
B
VAL
366
n
366
VAL
366
B
GLU
367
n
367
GLU
367
B
GLU
368
n
368
GLU
368
B
LEU
369
n
369
LEU
369
B
LYS
370
n
370
LYS
370
B
ALA
371
n
371
ALA
371
B
GLY
372
n
372
GLY
372
B
ASP
373
n
373
ASP
373
B
LEU
374
n
374
LEU
374
B
GLY
375
n
375
GLY
375
B
ALA
376
n
376
ALA
376
B
VAL
377
n
377
VAL
377
B
VAL
378
n
378
VAL
378
B
GLY
379
n
379
GLY
379
B
LEU
380
n
380
LEU
380
B
LYS
381
n
381
LYS
381
B
GLU
382
n
382
GLU
382
B
THR
383
n
383
THR
383
B
ILE
384
n
384
ILE
384
B
THR
385
n
385
THR
385
B
GLY
386
n
386
GLY
386
B
ASP
387
n
387
ASP
387
B
THR
388
n
388
THR
388
B
LEU
389
n
389
LEU
389
B
VAL
390
n
390
VAL
390
B
GLY
391
n
391
GLY
391
B
GLU
392
n
392
GLU
392
B
ASP
393
n
393
ASP
393
B
ALA
394
n
394
ALA
394
B
PRO
395
n
395
PRO
395
B
ARG
396
n
396
ARG
396
B
VAL
397
n
397
VAL
397
B
ILE
398
n
398
ILE
398
B
LEU
399
n
399
LEU
399
B
GLU
400
n
400
GLU
400
B
SER
401
n
401
SER
401
B
ILE
402
n
402
ILE
402
B
GLU
403
n
403
GLU
403
B
VAL
404
n
404
VAL
404
B
PRO
405
n
405
PRO
405
B
GLU
406
n
406
GLU
406
B
PRO
407
n
407
PRO
407
B
VAL
408
n
408
VAL
408
B
ILE
409
n
409
ILE
409
B
ASP
410
n
410
ASP
410
B
VAL
411
n
411
VAL
411
B
ALA
412
n
412
ALA
412
B
ILE
413
n
413
ILE
413
B
GLU
414
n
414
GLU
414
B
PRO
415
n
415
PRO
415
B
LYS
416
n
416
LYS
416
B
THR
417
n
417
THR
417
B
LYS
418
n
418
LYS
418
B
ALA
419
n
419
ALA
419
B
ASP
420
n
420
ASP
420
B
GLN
421
n
421
GLN
421
B
GLU
422
n
422
GLU
422
B
LYS
423
n
423
LYS
423
B
LEU
424
n
424
LEU
424
B
SER
425
n
425
SER
425
B
GLN
426
n
426
GLN
426
B
ALA
427
n
427
ALA
427
B
LEU
428
n
428
LEU
428
B
ALA
429
n
429
ALA
429
B
ARG
430
n
430
ARG
430
B
LEU
431
n
431
LEU
431
B
ALA
432
n
432
ALA
432
B
GLU
433
n
433
GLU
433
B
GLU
434
n
434
GLU
434
B
ASP
435
n
435
ASP
435
B
PRO
436
n
436
PRO
436
B
THR
437
n
437
THR
437
B
PHE
438
n
438
PHE
438
B
ARG
439
n
439
ARG
439
B
VAL
440
n
440
VAL
440
B
SER
441
n
441
SER
441
B
THR
442
n
442
THR
442
B
HIS
443
n
443
HIS
443
B
PRO
444
n
444
PRO
444
B
GLU
445
n
445
GLU
445
B
THR
446
n
446
THR
446
B
GLY
447
n
447
GLY
447
B
GLN
448
n
448
GLN
448
B
THR
449
n
449
THR
449
B
ILE
450
n
450
ILE
450
B
ILE
451
n
451
ILE
451
B
SER
452
n
452
SER
452
B
GLY
453
n
453
GLY
453
B
MET
454
n
454
MET
454
B
GLY
455
n
455
GLY
455
B
GLU
456
n
456
GLU
456
B
LEU
457
n
457
LEU
457
B
HIS
458
n
458
HIS
458
B
LEU
459
n
459
LEU
459
B
GLU
460
n
460
GLU
460
B
ILE
461
n
461
ILE
461
B
ILE
462
n
462
ILE
462
B
VAL
463
n
463
VAL
463
B
ASP
464
n
464
ASP
464
B
ARG
465
n
465
ARG
465
B
LEU
466
n
466
LEU
466
B
LYS
467
n
467
LYS
467
B
ARG
468
n
468
ARG
468
B
GLU
469
n
469
GLU
469
B
PHE
470
n
470
PHE
470
B
LYS
471
n
471
LYS
471
B
VAL
472
n
472
VAL
472
B
ASP
473
n
473
ASP
473
B
ALA
474
n
474
ALA
474
B
ASN
475
n
475
ASN
475
B
VAL
476
n
476
VAL
476
B
GLY
477
n
477
GLY
477
B
LYS
478
n
478
LYS
478
B
PRO
479
n
479
PRO
479
B
GLN
480
n
480
GLN
480
B
VAL
481
n
481
VAL
481
B
ALA
482
n
482
ALA
482
B
TYR
483
n
483
TYR
483
B
ARG
484
n
484
ARG
484
B
GLU
485
n
485
GLU
485
B
THR
486
n
486
THR
486
B
ILE
487
n
487
ILE
487
B
THR
488
n
488
THR
488
B
LYS
489
n
489
LYS
489
B
PRO
490
n
490
PRO
490
B
VAL
491
n
491
VAL
491
B
ASP
492
n
492
ASP
492
B
VAL
493
n
493
VAL
493
B
GLU
494
n
494
GLU
494
B
GLY
495
n
495
GLY
495
B
LYS
496
n
496
LYS
496
B
PHE
497
n
497
PHE
497
B
ILE
498
n
498
ILE
498
B
ARG
499
n
499
ARG
499
B
GLN
500
n
500
GLN
500
B
THR
501
n
501
THR
501
B
GLY
502
n
502
GLY
502
B
GLY
503
n
503
GLY
503
B
ARG
504
n
504
ARG
504
B
GLY
505
n
505
GLY
505
B
GLN
506
n
506
GLN
506
B
TYR
507
n
507
TYR
507
B
GLY
508
n
508
GLY
508
B
HIS
509
n
509
HIS
509
B
VAL
510
n
510
VAL
510
B
LYS
511
n
511
LYS
511
B
ILE
512
n
512
ILE
512
B
LYS
513
n
513
LYS
513
B
VAL
514
n
514
VAL
514
B
GLU
515
n
515
GLU
515
B
PRO
516
n
516
PRO
516
B
LEU
517
n
517
LEU
517
B
PRO
518
n
518
PRO
518
B
ARG
519
n
519
ARG
519
B
GLY
520
n
520
GLY
520
B
SER
521
n
521
SER
521
B
GLY
522
n
522
GLY
522
B
PHE
523
n
523
PHE
523
B
GLU
524
n
524
GLU
524
B
PHE
525
n
525
PHE
525
B
VAL
526
n
526
VAL
526
B
ASN
527
n
527
ASN
527
B
ALA
528
n
528
ALA
528
B
ILE
529
n
529
ILE
529
B
VAL
530
n
530
VAL
530
B
GLY
531
n
531
GLY
531
B
GLY
532
n
532
GLY
532
B
VAL
533
n
533
VAL
533
B
ILE
534
n
534
ILE
534
B
PRO
535
n
535
PRO
535
B
LYS
536
n
536
LYS
536
B
GLU
537
n
537
GLU
537
B
TYR
538
n
538
TYR
538
B
ILE
539
n
539
ILE
539
B
PRO
540
n
540
PRO
540
B
ALA
541
n
541
ALA
541
B
VAL
542
n
542
VAL
542
B
GLN
543
n
543
GLN
543
B
LYS
544
n
544
LYS
544
B
GLY
545
n
545
GLY
545
B
ILE
546
n
546
ILE
546
B
GLU
547
n
547
GLU
547
B
GLU
548
n
548
GLU
548
B
ALA
549
n
549
ALA
549
B
MET
550
n
550
MET
550
B
GLN
551
n
551
GLN
551
B
SER
552
n
552
SER
552
B
GLY
553
n
553
GLY
553
B
PRO
554
n
554
PRO
554
B
LEU
555
n
555
LEU
555
B
ILE
556
n
556
ILE
556
B
GLY
557
n
557
GLY
557
B
PHE
558
n
558
PHE
558
B
PRO
559
n
559
PRO
559
B
VAL
560
n
560
VAL
560
B
VAL
561
n
561
VAL
561
B
ASP
562
n
562
ASP
562
B
ILE
563
n
563
ILE
563
B
LYS
564
n
564
LYS
564
B
VAL
565
n
565
VAL
565
B
THR
566
n
566
THR
566
B
LEU
567
n
567
LEU
567
B
TYR
568
n
568
TYR
568
B
ASP
569
n
569
ASP
569
B
GLY
570
n
570
GLY
570
B
SER
571
n
571
SER
571
B
TYR
572
n
572
TYR
572
B
HIS
573
n
573
HIS
573
B
GLU
574
n
574
GLU
574
B
VAL
575
n
575
VAL
575
B
ASP
576
n
576
ASP
576
B
SER
577
n
577
SER
577
B
SER
578
n
578
SER
578
B
GLU
579
n
579
GLU
579
B
MET
580
n
580
MET
580
B
ALA
581
n
581
ALA
581
B
PHE
582
n
582
PHE
582
B
LYS
583
n
583
LYS
583
B
ILE
584
n
584
ILE
584
B
ALA
585
n
585
ALA
585
B
GLY
586
n
586
GLY
586
B
SER
587
n
587
SER
587
B
MET
588
n
588
MET
588
B
ALA
589
n
589
ALA
589
B
ILE
590
n
590
ILE
590
B
LYS
591
n
591
LYS
591
B
GLU
592
n
592
GLU
592
B
ALA
593
n
593
ALA
593
B
VAL
594
n
594
VAL
594
B
GLN
595
n
595
GLN
595
B
LYS
596
n
596
LYS
596
B
GLY
597
n
597
GLY
597
B
ASP
598
n
598
ASP
598
B
PRO
599
n
599
PRO
599
B
VAL
600
n
600
VAL
600
B
ILE
601
n
601
ILE
601
B
LEU
602
n
602
LEU
602
B
GLU
603
n
603
GLU
603
B
PRO
604
n
604
PRO
604
B
ILE
605
n
605
ILE
605
B
MET
606
n
606
MET
606
B
ARG
607
n
607
ARG
607
B
VAL
608
n
608
VAL
608
B
GLU
609
n
609
GLU
609
B
VAL
610
n
610
VAL
610
B
THR
611
n
611
THR
611
B
THR
612
n
612
THR
612
B
PRO
613
n
613
PRO
613
B
GLU
614
n
614
GLU
614
B
GLU
615
n
615
GLU
615
B
TYR
616
n
616
TYR
616
B
MET
617
n
617
MET
617
B
GLY
618
n
618
GLY
618
B
ASP
619
n
619
ASP
619
B
VAL
620
n
620
VAL
620
B
ILE
621
n
621
ILE
621
B
GLY
622
n
622
GLY
622
B
ASP
623
n
623
ASP
623
B
LEU
624
n
624
LEU
624
B
ASN
625
n
625
ASN
625
B
ALA
626
n
626
ALA
626
B
ARG
627
n
627
ARG
627
B
ARG
628
n
628
ARG
628
B
GLY
629
n
629
GLY
629
B
GLN
630
n
630
GLN
630
B
ILE
631
n
631
ILE
631
B
LEU
632
n
632
LEU
632
B
GLY
633
n
633
GLY
633
B
MET
634
n
634
MET
634
B
GLU
635
n
635
GLU
635
B
PRO
636
n
636
PRO
636
B
ARG
637
n
637
ARG
637
B
GLY
638
n
638
GLY
638
B
ASN
639
n
639
ASN
639
B
ALA
640
n
640
ALA
640
B
GLN
641
n
641
GLN
641
B
VAL
642
n
642
VAL
642
B
ILE
643
n
643
ILE
643
B
ARG
644
n
644
ARG
644
B
ALA
645
n
645
ALA
645
B
PHE
646
n
646
PHE
646
B
VAL
647
n
647
VAL
647
B
PRO
648
n
648
PRO
648
B
LEU
649
n
649
LEU
649
B
ALA
650
n
650
ALA
650
B
GLU
651
n
651
GLU
651
B
MET
652
n
652
MET
652
B
PHE
653
n
653
PHE
653
B
GLY
654
n
654
GLY
654
B
TYR
655
n
655
TYR
655
B
ALA
656
n
656
ALA
656
B
THR
657
n
657
THR
657
B
ASP
658
n
658
ASP
658
B
LEU
659
n
659
LEU
659
B
ARG
660
n
660
ARG
660
B
SER
661
n
661
SER
661
B
LYS
662
n
662
LYS
662
B
THR
663
n
663
THR
663
B
GLN
664
n
664
GLN
664
B
GLY
665
n
665
GLY
665
B
ARG
666
n
666
ARG
666
B
GLY
667
n
667
GLY
667
B
SER
668
n
668
SER
668
B
PHE
669
n
669
PHE
669
B
VAL
670
n
670
VAL
670
B
MET
671
n
671
MET
671
B
PHE
672
n
672
PHE
672
B
PHE
673
n
673
PHE
673
B
ASP
674
n
674
ASP
674
B
HIS
675
n
675
HIS
675
B
TYR
676
n
676
TYR
676
B
GLN
677
n
677
GLN
677
B
GLU
678
n
678
GLU
678
B
VAL
679
n
679
VAL
679
B
PRO
680
n
680
PRO
680
B
LYS
681
n
681
LYS
681
B
GLN
682
n
682
GLN
682
B
VAL
683
n
683
VAL
683
B
GLN
684
n
684
GLN
684
B
GLU
685
n
685
GLU
685
B
LYS
686
n
686
LYS
686
B
LEU
687
n
687
LEU
687
B
ILE
688
n
688
ILE
688
B
LYS
689
n
689
LYS
689
B
GLY
690
n
690
GLY
690
B
GLN
691
n
691
GLN
691
B
author_defined_assembly
2
dimeric
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
ALA
-5
A
ALA
1
1
Y
1
A
LYS
-4
A
LYS
2
1
Y
1
A
LYS
-3
A
LYS
3
1
Y
1
A
VAL
-2
A
VAL
4
1
Y
1
A
ALA
-1
A
ALA
5
1
Y
1
A
ALA
0
A
ALA
6
1
Y
0
824
0
0
824
This structure was generated by fitting the X-ray crystal structure of L11 and EF-G into the 70S E. coli EF-G- (GDP form) bound ribosome map. L11 (linker region between N and C terminal) and EF-G positions of domains G' and V were modeled to accommodate the conformational changes. The structure is modeled as a C-alpha trace. Conformational changes occur in protein L11 and EF-G in two stpes due to the binding of EF-G to the 70S ribosome, and subsequent GTP hydrolysis. These changed conformations were modeled based on the fitting of the crystal coordinates to the low resolution ribosome map (factor-bound) and energy minimizing the fitted structures.
Fitting of L11 protein and elongation factor G (EF-G) in the cryo-em map of e. coli 70S ribosome bound with EF-G, GDP and fusidic acid
1
N
N
2
N
N
RIBOSOME
L11, EF-G, cryo-EM, 70s E.coli ribosome, GDP state, RIBOSOME
RL11_THEMA
UNP
1
1
P29395
AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK
AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV
EFG_THETH
UNP
2
1
P13551
MAVKVEYDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRIN
IIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWLVIRTMQERLGAR
PVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVAADFDENIMLKYLEGEEPTEE
ELVAAIRKGTIDLKITPVFLGSALKNKGVQLLLDAVVDYLPSPLDIPPIKGTTPEGEVVEIHPDPNGPLAALAFKIMADP
YVGRLTFIRVYSGTLTSGSYVYNTTKGRKERVARLLRMHANHREEVEELKAGDLGAVVGLKETITGDTLVGEDAPRVILE
SIEVPEPVIDVAIEPKTKADQEKLSQALARLAEEDPTFRVSTHPETGQTIISGMGELHLEIIVDRLKREFKVDANVGKPQ
VAYRETITKPVDVEGKFIRQTGGRGQYGHVKIKVEPLPRGSGFEFVNAIVGGVIPKEYIPAVQKGIEEAMQSGPLIGFPV
VDIKVTLYDGSYHEVDSSEMAFKIAGSMAIKEAVQKGDPVILEPIMRVEVTTPEEYMGDVIGDLNARRGQILGMEPRGNA
QVIRAFVPLAEMFGYATDLRSKTQGRGSFVMFFDHYQEVPKQVQEKLIKGQ
1
139
1JQM
-5
133
P29395
A
1
1
139
1
691
1JQM
1
691
P13551
B
2
1
691
2
GLN
conflict
ASN
208
1JQM
B
P13551
UNP
208
208