0.010578
0.006107
0.000000
0.000000
0.012214
0.000000
0.000000
0.000000
0.006720
0.00000
0.00000
0.00000
Seiradake, E.
Mao, W.
Hernandez, V.
Baker, S.J.
Plattner, J.J.
Alley, M.R.K.
Cusack, S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
94.540
94.540
148.820
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 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 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
390
196
10.1016/J.JMB.2009.04.073
19426743
Crystal Structures of the Human and Fungal Cytosolic Leucyl-tRNA Synthetase Editing Domains: A Structural Basis for the Rational Design of Antifungal Benzoxaboroles.
2009
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
ADSC CCD
SINGLE WAVELENGTH
M
x-ray
1
0.9795
1.0
ID14-4
ESRF
0.9795
SYNCHROTRON
ESRF BEAMLINE ID14-4
28471.697
LEUCYL-TRNA SYNTHETASE, CYTOPLASMIC
6.1.1.4
EDITING OR CP1 DOMAIN, RESIDUES 260-509
2
man
polymer
LEUCINE--TRNA LIGASE, LEURS
no
yes
A(MSE)GPQEYTLLKLKVLEPYPSKLSGLKGKNIFLVAATLRPET(MSE)FGQTNCWVRPD(MSE)KYIGFETVNGDIFI
CTQKAARN(MSE)SYQGFTKDNGVVPVVKEL(MSE)GEEILGASLSAPLTSYKVIYVLP(MSE)LTIKEDKGTGVVTSVP
SDSPDDIAALRDLKKKQALRAKYGIRDD(MSE)VLPFEPVPVIEIPGFGNLSAVTICDELKIQSQNDREKLAEAKEKIYL
KGFYEGI(MSE)LVDGFKGQKVQDVKKTIQKK(MSE)IDAGDALIY(MSE)E
AMGPQEYTLLKLKVLEPYPSKLSGLKGKNIFLVAATLRPETMFGQTNCWVRPDMKYIGFETVNGDIFICTQKAARNMSYQ
GFTKDNGVVPVVKELMGEEILGASLSAPLTSYKVIYVLPMLTIKEDKGTGVVTSVPSDSPDDIAALRDLKKKQALRAKYG
IRDDMVLPFEPVPVIEIPGFGNLSAVTICDELKIQSQNDREKLAEAKEKIYLKGFYEGIMLVDGFKGQKVQDVKKTIQKK
MIDAGDALIYME
A,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
HUMAN
sample
9606
HOMO SAPIENS
469008
ESCHERICHIA COLI
BL21(DE3)
PPROEX HTB
1
3.45
63.2
NONE
0.2 M SODIUM CITRATE TRIBASIC DIHYDRATE PH 8.3, 20% W/V POLYETHYLENE GLYCOL 3350
repository
Initial release
Version format compliance
Version format compliance
1
0
2009-05-19
1
1
2011-05-08
1
2
2011-07-13
SHEET
THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN
ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW,
TWO SHEETS ARE DEFINED.
PDBE
Y
PDBE
2009-04-03
REL
SELENOMETHIONINE (MSE): PROTEIN WAS SELENOMETHIONINE
LABELLED
EXTRA ALA-MET AT N-TERMINUS FROM CLONING.
ALA
258
n
1
ALA
258
A
MSE
259
n
2
MSE
259
A
GLY
260
n
3
GLY
260
A
PRO
261
n
4
PRO
261
A
GLN
262
n
5
GLN
262
A
GLU
263
n
6
GLU
263
A
TYR
264
n
7
TYR
264
A
THR
265
n
8
THR
265
A
LEU
266
n
9
LEU
266
A
LEU
267
n
10
LEU
267
A
LYS
268
n
11
LYS
268
A
LEU
269
n
12
LEU
269
A
LYS
270
n
13
LYS
270
A
VAL
271
n
14
VAL
271
A
LEU
272
n
15
LEU
272
A
GLU
273
n
16
GLU
273
A
PRO
274
n
17
PRO
274
A
TYR
275
n
18
TYR
275
A
PRO
276
n
19
PRO
276
A
SER
277
n
20
SER
277
A
LYS
278
n
21
LYS
278
A
LEU
279
n
22
LEU
279
A
SER
280
n
23
SER
280
A
GLY
281
n
24
GLY
281
A
LEU
282
n
25
LEU
282
A
LYS
283
n
26
LYS
283
A
GLY
284
n
27
GLY
284
A
LYS
285
n
28
LYS
285
A
ASN
286
n
29
ASN
286
A
ILE
287
n
30
ILE
287
A
PHE
288
n
31
PHE
288
A
LEU
289
n
32
LEU
289
A
VAL
290
n
33
VAL
290
A
ALA
291
n
34
ALA
291
A
ALA
292
n
35
ALA
292
A
THR
293
n
36
THR
293
A
LEU
294
n
37
LEU
294
A
ARG
295
n
38
ARG
295
A
PRO
296
n
39
PRO
296
A
GLU
297
n
40
GLU
297
A
THR
298
n
41
THR
298
A
MSE
299
n
42
MSE
299
A
PHE
300
n
43
PHE
300
A
GLY
301
n
44
GLY
301
A
GLN
302
n
45
GLN
302
A
THR
303
n
46
THR
303
A
ASN
304
n
47
ASN
304
A
CYS
305
n
48
CYS
305
A
TRP
306
n
49
TRP
306
A
VAL
307
n
50
VAL
307
A
ARG
308
n
51
ARG
308
A
PRO
309
n
52
PRO
309
A
ASP
310
n
53
ASP
310
A
MSE
311
n
54
MSE
311
A
LYS
312
n
55
LYS
312
A
TYR
313
n
56
TYR
313
A
ILE
314
n
57
ILE
314
A
GLY
315
n
58
GLY
315
A
PHE
316
n
59
PHE
316
A
GLU
317
n
60
GLU
317
A
THR
318
n
61
THR
318
A
VAL
319
n
62
VAL
319
A
ASN
320
n
63
ASN
320
A
GLY
321
n
64
GLY
321
A
ASP
322
n
65
ASP
322
A
ILE
323
n
66
ILE
323
A
PHE
324
n
67
PHE
324
A
ILE
325
n
68
ILE
325
A
CYS
326
n
69
CYS
326
A
THR
327
n
70
THR
327
A
GLN
328
n
71
GLN
328
A
LYS
329
n
72
LYS
329
A
ALA
330
n
73
ALA
330
A
ALA
331
n
74
ALA
331
A
ARG
332
n
75
ARG
332
A
ASN
333
n
76
ASN
333
A
MSE
334
n
77
MSE
334
A
SER
335
n
78
SER
335
A
TYR
336
n
79
TYR
336
A
GLN
337
n
80
GLN
337
A
GLY
338
n
81
GLY
338
A
PHE
339
n
82
PHE
339
A
THR
340
n
83
THR
340
A
LYS
341
n
84
LYS
341
A
ASP
342
n
85
ASP
342
A
ASN
343
n
86
ASN
343
A
GLY
344
n
87
GLY
344
A
VAL
345
n
88
VAL
345
A
VAL
346
n
89
VAL
346
A
PRO
347
n
90
PRO
347
A
VAL
348
n
91
VAL
348
A
VAL
349
n
92
VAL
349
A
LYS
350
n
93
LYS
350
A
GLU
351
n
94
GLU
351
A
LEU
352
n
95
LEU
352
A
MSE
353
n
96
MSE
353
A
GLY
354
n
97
GLY
354
A
GLU
355
n
98
GLU
355
A
GLU
356
n
99
GLU
356
A
ILE
357
n
100
ILE
357
A
LEU
358
n
101
LEU
358
A
GLY
359
n
102
GLY
359
A
ALA
360
n
103
ALA
360
A
SER
361
n
104
SER
361
A
LEU
362
n
105
LEU
362
A
SER
363
n
106
SER
363
A
ALA
364
n
107
ALA
364
A
PRO
365
n
108
PRO
365
A
LEU
366
n
109
LEU
366
A
THR
367
n
110
THR
367
A
SER
368
n
111
SER
368
A
TYR
369
n
112
TYR
369
A
LYS
370
n
113
LYS
370
A
VAL
371
n
114
VAL
371
A
ILE
372
n
115
ILE
372
A
TYR
373
n
116
TYR
373
A
VAL
374
n
117
VAL
374
A
LEU
375
n
118
LEU
375
A
PRO
376
n
119
PRO
376
A
MSE
377
n
120
MSE
377
A
LEU
378
n
121
LEU
378
A
THR
379
n
122
THR
379
A
ILE
380
n
123
ILE
380
A
LYS
381
n
124
LYS
381
A
GLU
382
n
125
GLU
382
A
ASP
383
n
126
ASP
383
A
LYS
384
n
127
LYS
384
A
GLY
385
n
128
GLY
385
A
THR
386
n
129
THR
386
A
GLY
387
n
130
GLY
387
A
VAL
388
n
131
VAL
388
A
VAL
389
n
132
VAL
389
A
THR
390
n
133
THR
390
A
SER
391
n
134
SER
391
A
VAL
392
n
135
VAL
392
A
PRO
393
n
136
PRO
393
A
SER
394
n
137
SER
394
A
ASP
395
n
138
ASP
395
A
SER
396
n
139
SER
396
A
PRO
397
n
140
PRO
397
A
ASP
398
n
141
ASP
398
A
ASP
399
n
142
ASP
399
A
ILE
400
n
143
ILE
400
A
ALA
401
n
144
ALA
401
A
ALA
402
n
145
ALA
402
A
LEU
403
n
146
LEU
403
A
ARG
404
n
147
ARG
404
A
ASP
405
n
148
ASP
405
A
LEU
406
n
149
LEU
406
A
LYS
407
n
150
LYS
407
A
LYS
408
n
151
LYS
408
A
LYS
409
n
152
LYS
409
A
GLN
410
n
153
GLN
410
A
ALA
411
n
154
ALA
411
A
LEU
412
n
155
LEU
412
A
ARG
413
n
156
ARG
413
A
ALA
414
n
157
ALA
414
A
LYS
415
n
158
LYS
415
A
TYR
416
n
159
TYR
416
A
GLY
417
n
160
GLY
417
A
ILE
418
n
161
ILE
418
A
ARG
419
n
162
ARG
419
A
ASP
420
n
163
ASP
420
A
ASP
421
n
164
ASP
421
A
MSE
422
n
165
MSE
422
A
VAL
423
n
166
VAL
423
A
LEU
424
n
167
LEU
424
A
PRO
425
n
168
PRO
425
A
PHE
426
n
169
PHE
426
A
GLU
427
n
170
GLU
427
A
PRO
428
n
171
PRO
428
A
VAL
429
n
172
VAL
429
A
PRO
430
n
173
PRO
430
A
VAL
431
n
174
VAL
431
A
ILE
432
n
175
ILE
432
A
GLU
433
n
176
GLU
433
A
ILE
434
n
177
ILE
434
A
PRO
435
n
178
PRO
435
A
GLY
436
n
179
GLY
436
A
PHE
437
n
180
PHE
437
A
GLY
438
n
181
GLY
438
A
ASN
439
n
182
ASN
439
A
LEU
440
n
183
LEU
440
A
SER
441
n
184
SER
441
A
ALA
442
n
185
ALA
442
A
VAL
443
n
186
VAL
443
A
THR
444
n
187
THR
444
A
ILE
445
n
188
ILE
445
A
CYS
446
n
189
CYS
446
A
ASP
447
n
190
ASP
447
A
GLU
448
n
191
GLU
448
A
LEU
449
n
192
LEU
449
A
LYS
450
n
193
LYS
450
A
ILE
451
n
194
ILE
451
A
GLN
452
n
195
GLN
452
A
SER
453
n
196
SER
453
A
GLN
454
n
197
GLN
454
A
ASN
455
n
198
ASN
455
A
ASP
456
n
199
ASP
456
A
ARG
457
n
200
ARG
457
A
GLU
458
n
201
GLU
458
A
LYS
459
n
202
LYS
459
A
LEU
460
n
203
LEU
460
A
ALA
461
n
204
ALA
461
A
GLU
462
n
205
GLU
462
A
ALA
463
n
206
ALA
463
A
LYS
464
n
207
LYS
464
A
GLU
465
n
208
GLU
465
A
LYS
466
n
209
LYS
466
A
ILE
467
n
210
ILE
467
A
TYR
468
n
211
TYR
468
A
LEU
469
n
212
LEU
469
A
LYS
470
n
213
LYS
470
A
GLY
471
n
214
GLY
471
A
PHE
472
n
215
PHE
472
A
TYR
473
n
216
TYR
473
A
GLU
474
n
217
GLU
474
A
GLY
475
n
218
GLY
475
A
ILE
476
n
219
ILE
476
A
MSE
477
n
220
MSE
477
A
LEU
478
n
221
LEU
478
A
VAL
479
n
222
VAL
479
A
ASP
480
n
223
ASP
480
A
GLY
481
n
224
GLY
481
A
PHE
482
n
225
PHE
482
A
LYS
483
n
226
LYS
483
A
GLY
484
n
227
GLY
484
A
GLN
485
n
228
GLN
485
A
LYS
486
n
229
LYS
486
A
VAL
487
n
230
VAL
487
A
GLN
488
n
231
GLN
488
A
ASP
489
n
232
ASP
489
A
VAL
490
n
233
VAL
490
A
LYS
491
n
234
LYS
491
A
LYS
492
n
235
LYS
492
A
THR
493
n
236
THR
493
A
ILE
494
n
237
ILE
494
A
GLN
495
n
238
GLN
495
A
LYS
496
n
239
LYS
496
A
LYS
497
n
240
LYS
497
A
MSE
498
n
241
MSE
498
A
ILE
499
n
242
ILE
499
A
ASP
500
n
243
ASP
500
A
ALA
501
n
244
ALA
501
A
GLY
502
n
245
GLY
502
A
ASP
503
n
246
ASP
503
A
ALA
504
n
247
ALA
504
A
LEU
505
n
248
LEU
505
A
ILE
506
n
249
ILE
506
A
TYR
507
n
250
TYR
507
A
MSE
508
n
251
MSE
508
A
GLU
509
n
252
GLU
509
A
ALA
258
n
1
ALA
258
B
MSE
259
n
2
MSE
259
B
GLY
260
n
3
GLY
260
B
PRO
261
n
4
PRO
261
B
GLN
262
n
5
GLN
262
B
GLU
263
n
6
GLU
263
B
TYR
264
n
7
TYR
264
B
THR
265
n
8
THR
265
B
LEU
266
n
9
LEU
266
B
LEU
267
n
10
LEU
267
B
LYS
268
n
11
LYS
268
B
LEU
269
n
12
LEU
269
B
LYS
270
n
13
LYS
270
B
VAL
271
n
14
VAL
271
B
LEU
272
n
15
LEU
272
B
GLU
273
n
16
GLU
273
B
PRO
274
n
17
PRO
274
B
TYR
275
n
18
TYR
275
B
PRO
276
n
19
PRO
276
B
SER
277
n
20
SER
277
B
LYS
278
n
21
LYS
278
B
LEU
279
n
22
LEU
279
B
SER
280
n
23
SER
280
B
GLY
281
n
24
GLY
281
B
LEU
282
n
25
LEU
282
B
LYS
283
n
26
LYS
283
B
GLY
284
n
27
GLY
284
B
LYS
285
n
28
LYS
285
B
ASN
286
n
29
ASN
286
B
ILE
287
n
30
ILE
287
B
PHE
288
n
31
PHE
288
B
LEU
289
n
32
LEU
289
B
VAL
290
n
33
VAL
290
B
ALA
291
n
34
ALA
291
B
ALA
292
n
35
ALA
292
B
THR
293
n
36
THR
293
B
LEU
294
n
37
LEU
294
B
ARG
295
n
38
ARG
295
B
PRO
296
n
39
PRO
296
B
GLU
297
n
40
GLU
297
B
THR
298
n
41
THR
298
B
MSE
299
n
42
MSE
299
B
PHE
300
n
43
PHE
300
B
GLY
301
n
44
GLY
301
B
GLN
302
n
45
GLN
302
B
THR
303
n
46
THR
303
B
ASN
304
n
47
ASN
304
B
CYS
305
n
48
CYS
305
B
TRP
306
n
49
TRP
306
B
VAL
307
n
50
VAL
307
B
ARG
308
n
51
ARG
308
B
PRO
309
n
52
PRO
309
B
ASP
310
n
53
ASP
310
B
MSE
311
n
54
MSE
311
B
LYS
312
n
55
LYS
312
B
TYR
313
n
56
TYR
313
B
ILE
314
n
57
ILE
314
B
GLY
315
n
58
GLY
315
B
PHE
316
n
59
PHE
316
B
GLU
317
n
60
GLU
317
B
THR
318
n
61
THR
318
B
VAL
319
n
62
VAL
319
B
ASN
320
n
63
ASN
320
B
GLY
321
n
64
GLY
321
B
ASP
322
n
65
ASP
322
B
ILE
323
n
66
ILE
323
B
PHE
324
n
67
PHE
324
B
ILE
325
n
68
ILE
325
B
CYS
326
n
69
CYS
326
B
THR
327
n
70
THR
327
B
GLN
328
n
71
GLN
328
B
LYS
329
n
72
LYS
329
B
ALA
330
n
73
ALA
330
B
ALA
331
n
74
ALA
331
B
ARG
332
n
75
ARG
332
B
ASN
333
n
76
ASN
333
B
MSE
334
n
77
MSE
334
B
SER
335
n
78
SER
335
B
TYR
336
n
79
TYR
336
B
GLN
337
n
80
GLN
337
B
GLY
338
n
81
GLY
338
B
PHE
339
n
82
PHE
339
B
THR
340
n
83
THR
340
B
LYS
341
n
84
LYS
341
B
ASP
342
n
85
ASP
342
B
ASN
343
n
86
ASN
343
B
GLY
344
n
87
GLY
344
B
VAL
345
n
88
VAL
345
B
VAL
346
n
89
VAL
346
B
PRO
347
n
90
PRO
347
B
VAL
348
n
91
VAL
348
B
VAL
349
n
92
VAL
349
B
LYS
350
n
93
LYS
350
B
GLU
351
n
94
GLU
351
B
LEU
352
n
95
LEU
352
B
MSE
353
n
96
MSE
353
B
GLY
354
n
97
GLY
354
B
GLU
355
n
98
GLU
355
B
GLU
356
n
99
GLU
356
B
ILE
357
n
100
ILE
357
B
LEU
358
n
101
LEU
358
B
GLY
359
n
102
GLY
359
B
ALA
360
n
103
ALA
360
B
SER
361
n
104
SER
361
B
LEU
362
n
105
LEU
362
B
SER
363
n
106
SER
363
B
ALA
364
n
107
ALA
364
B
PRO
365
n
108
PRO
365
B
LEU
366
n
109
LEU
366
B
THR
367
n
110
THR
367
B
SER
368
n
111
SER
368
B
TYR
369
n
112
TYR
369
B
LYS
370
n
113
LYS
370
B
VAL
371
n
114
VAL
371
B
ILE
372
n
115
ILE
372
B
TYR
373
n
116
TYR
373
B
VAL
374
n
117
VAL
374
B
LEU
375
n
118
LEU
375
B
PRO
376
n
119
PRO
376
B
MSE
377
n
120
MSE
377
B
LEU
378
n
121
LEU
378
B
THR
379
n
122
THR
379
B
ILE
380
n
123
ILE
380
B
LYS
381
n
124
LYS
381
B
GLU
382
n
125
GLU
382
B
ASP
383
n
126
ASP
383
B
LYS
384
n
127
LYS
384
B
GLY
385
n
128
GLY
385
B
THR
386
n
129
THR
386
B
GLY
387
n
130
GLY
387
B
VAL
388
n
131
VAL
388
B
VAL
389
n
132
VAL
389
B
THR
390
n
133
THR
390
B
SER
391
n
134
SER
391
B
VAL
392
n
135
VAL
392
B
PRO
393
n
136
PRO
393
B
SER
394
n
137
SER
394
B
ASP
395
n
138
ASP
395
B
SER
396
n
139
SER
396
B
PRO
397
n
140
PRO
397
B
ASP
398
n
141
ASP
398
B
ASP
399
n
142
ASP
399
B
ILE
400
n
143
ILE
400
B
ALA
401
n
144
ALA
401
B
ALA
402
n
145
ALA
402
B
LEU
403
n
146
LEU
403
B
ARG
404
n
147
ARG
404
B
ASP
405
n
148
ASP
405
B
LEU
406
n
149
LEU
406
B
LYS
407
n
150
LYS
407
B
LYS
408
n
151
LYS
408
B
LYS
409
n
152
LYS
409
B
GLN
410
n
153
GLN
410
B
ALA
411
n
154
ALA
411
B
LEU
412
n
155
LEU
412
B
ARG
413
n
156
ARG
413
B
ALA
414
n
157
ALA
414
B
LYS
415
n
158
LYS
415
B
TYR
416
n
159
TYR
416
B
GLY
417
n
160
GLY
417
B
ILE
418
n
161
ILE
418
B
ARG
419
n
162
ARG
419
B
ASP
420
n
163
ASP
420
B
ASP
421
n
164
ASP
421
B
MSE
422
n
165
MSE
422
B
VAL
423
n
166
VAL
423
B
LEU
424
n
167
LEU
424
B
PRO
425
n
168
PRO
425
B
PHE
426
n
169
PHE
426
B
GLU
427
n
170
GLU
427
B
PRO
428
n
171
PRO
428
B
VAL
429
n
172
VAL
429
B
PRO
430
n
173
PRO
430
B
VAL
431
n
174
VAL
431
B
ILE
432
n
175
ILE
432
B
GLU
433
n
176
GLU
433
B
ILE
434
n
177
ILE
434
B
PRO
435
n
178
PRO
435
B
GLY
436
n
179
GLY
436
B
PHE
437
n
180
PHE
437
B
GLY
438
n
181
GLY
438
B
ASN
439
n
182
ASN
439
B
LEU
440
n
183
LEU
440
B
SER
441
n
184
SER
441
B
ALA
442
n
185
ALA
442
B
VAL
443
n
186
VAL
443
B
THR
444
n
187
THR
444
B
ILE
445
n
188
ILE
445
B
CYS
446
n
189
CYS
446
B
ASP
447
n
190
ASP
447
B
GLU
448
n
191
GLU
448
B
LEU
449
n
192
LEU
449
B
LYS
450
n
193
LYS
450
B
ILE
451
n
194
ILE
451
B
GLN
452
n
195
GLN
452
B
SER
453
n
196
SER
453
B
GLN
454
n
197
GLN
454
B
ASN
455
n
198
ASN
455
B
ASP
456
n
199
ASP
456
B
ARG
457
n
200
ARG
457
B
GLU
458
n
201
GLU
458
B
LYS
459
n
202
LYS
459
B
LEU
460
n
203
LEU
460
B
ALA
461
n
204
ALA
461
B
GLU
462
n
205
GLU
462
B
ALA
463
n
206
ALA
463
B
LYS
464
n
207
LYS
464
B
GLU
465
n
208
GLU
465
B
LYS
466
n
209
LYS
466
B
ILE
467
n
210
ILE
467
B
TYR
468
n
211
TYR
468
B
LEU
469
n
212
LEU
469
B
LYS
470
n
213
LYS
470
B
GLY
471
n
214
GLY
471
B
PHE
472
n
215
PHE
472
B
TYR
473
n
216
TYR
473
B
GLU
474
n
217
GLU
474
B
GLY
475
n
218
GLY
475
B
ILE
476
n
219
ILE
476
B
MSE
477
n
220
MSE
477
B
LEU
478
n
221
LEU
478
B
VAL
479
n
222
VAL
479
B
ASP
480
n
223
ASP
480
B
GLY
481
n
224
GLY
481
B
PHE
482
n
225
PHE
482
B
LYS
483
n
226
LYS
483
B
GLY
484
n
227
GLY
484
B
GLN
485
n
228
GLN
485
B
LYS
486
n
229
LYS
486
B
VAL
487
n
230
VAL
487
B
GLN
488
n
231
GLN
488
B
ASP
489
n
232
ASP
489
B
VAL
490
n
233
VAL
490
B
LYS
491
n
234
LYS
491
B
LYS
492
n
235
LYS
492
B
THR
493
n
236
THR
493
B
ILE
494
n
237
ILE
494
B
GLN
495
n
238
GLN
495
B
LYS
496
n
239
LYS
496
B
LYS
497
n
240
LYS
497
B
MSE
498
n
241
MSE
498
B
ILE
499
n
242
ILE
499
B
ASP
500
n
243
ASP
500
B
ALA
501
n
244
ALA
501
B
GLY
502
n
245
GLY
502
B
ASP
503
n
246
ASP
503
B
ALA
504
n
247
ALA
504
B
LEU
505
n
248
LEU
505
B
ILE
506
n
249
ILE
506
B
TYR
507
n
250
TYR
507
B
MSE
508
n
251
MSE
508
B
GLU
509
n
252
GLU
509
B
4.2893
2.3531
0.2890
1.6841
0.0995
1.6987
0.0355
-0.2551
0.1820
0.1789
-0.0285
0.0712
-0.1952
-0.1560
-0.0069
-0.2567
-0.0346
0.0132
-0.0849
-0.0633
-0.2320
refined
25.2490
-37.7950
-15.7780
X-RAY DIFFRACTION
3.9546
1.5832
-0.9927
1.7456
-0.1080
4.1614
-0.0754
0.5118
0.0413
-0.1161
0.0261
0.2995
0.2456
-1.0905
0.0493
-0.2598
-0.1087
0.0193
-0.0426
-0.0400
-0.1828
refined
27.4800
-37.8330
-48.7140
X-RAY DIFFRACTION
A
258
A
509
X-RAY DIFFRACTION
1
B
258
B
509
X-RAY DIFFRACTION
2
author_and_software_defined_assembly
PISA
2
dimeric
2700
-18.93
21880
A
MSE
259
SELENOMETHIONINE
A
MSE
2
MET
A
MSE
299
SELENOMETHIONINE
A
MSE
42
MET
A
MSE
311
SELENOMETHIONINE
A
MSE
54
MET
A
MSE
334
SELENOMETHIONINE
A
MSE
77
MET
A
MSE
353
SELENOMETHIONINE
A
MSE
96
MET
A
MSE
377
SELENOMETHIONINE
A
MSE
120
MET
A
MSE
422
SELENOMETHIONINE
A
MSE
165
MET
A
MSE
477
SELENOMETHIONINE
A
MSE
220
MET
A
MSE
498
SELENOMETHIONINE
A
MSE
241
MET
A
MSE
508
SELENOMETHIONINE
A
MSE
251
MET
B
MSE
259
SELENOMETHIONINE
B
MSE
2
MET
B
MSE
299
SELENOMETHIONINE
B
MSE
42
MET
B
MSE
311
SELENOMETHIONINE
B
MSE
54
MET
B
MSE
334
SELENOMETHIONINE
B
MSE
77
MET
B
MSE
353
SELENOMETHIONINE
B
MSE
96
MET
B
MSE
377
SELENOMETHIONINE
B
MSE
120
MET
B
MSE
422
SELENOMETHIONINE
B
MSE
165
MET
B
MSE
477
SELENOMETHIONINE
B
MSE
220
MET
B
MSE
498
SELENOMETHIONINE
B
MSE
241
MET
B
MSE
508
SELENOMETHIONINE
B
MSE
251
MET
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
VAL
349
A
N
VAL
92
A
O
GLY
315
A
O
GLY
58
A
N
PHE
316
A
N
PHE
59
A
O
PHE
324
A
O
PHE
67
A
N
ILE
325
A
N
ILE
68
A
O
PHE
288
A
O
PHE
31
A
N
THR
293
A
N
THR
36
A
O
THR
265
A
O
THR
8
A
N
LEU
266
A
N
LEU
9
A
O
LEU
505
A
O
LEU
248
A
N
VAL
349
A
N
VAL
92
A
O
GLY
315
A
O
GLY
58
A
N
PHE
316
A
N
PHE
59
A
O
PHE
324
A
O
PHE
67
A
N
ILE
325
A
N
ILE
68
A
O
PHE
288
A
O
PHE
31
A
N
THR
293
A
N
THR
36
A
O
THR
265
A
O
THR
8
A
N
LEU
272
A
N
LEU
15
A
O
SER
361
A
O
SER
104
A
N
LEU
362
A
N
LEU
105
A
O
ILE
372
A
O
ILE
115
A
N
LEU
375
A
N
LEU
118
A
O
CYS
305
A
O
CYS
48
A
N
TRP
306
A
N
TRP
49
A
O
VAL
389
A
O
VAL
132
B
N
VAL
349
B
N
VAL
92
B
O
GLY
315
B
O
GLY
58
B
N
PHE
316
B
N
PHE
59
B
O
PHE
324
B
O
PHE
67
B
N
ILE
325
B
N
ILE
68
B
O
PHE
288
B
O
PHE
31
B
N
THR
293
B
N
THR
36
B
O
THR
265
B
O
THR
8
B
N
LEU
266
B
N
LEU
9
B
O
LEU
505
B
O
LEU
248
B
N
VAL
349
B
N
VAL
92
B
O
GLY
315
B
O
GLY
58
B
N
PHE
316
B
N
PHE
59
B
O
PHE
324
B
O
PHE
67
B
N
ILE
325
B
N
ILE
68
B
O
PHE
288
B
O
PHE
31
B
N
THR
293
B
N
THR
36
B
O
THR
265
B
O
THR
8
B
N
LEU
272
B
N
LEU
15
B
O
SER
361
B
O
SER
104
B
N
LEU
362
B
N
LEU
105
B
O
ILE
372
B
O
ILE
115
B
N
LEU
375
B
N
LEU
118
B
O
CYS
305
B
O
CYS
48
B
N
TRP
306
B
N
TRP
49
B
O
VAL
389
B
O
VAL
132
1
A
MSE
259
65.10
-161.32
1
A
MSE
299
-69.61
2.40
1
A
ASN
304
-173.30
-164.17
1
A
CYS
326
-171.40
-172.89
1
A
LEU
366
69.23
-54.74
1
A
ASP
383
-69.01
-80.31
1
A
VAL
423
-130.99
-56.10
1
A
LYS
450
64.77
64.59
1
A
ASN
455
-86.85
31.92
1
A
ASP
456
-105.26
54.62
1
A
PHE
482
-167.39
69.76
1
B
MSE
259
67.27
-161.51
1
B
MSE
299
-68.85
1.37
1
B
ASN
304
-172.13
-165.17
1
B
CYS
326
-172.08
-174.25
1
B
LEU
366
68.24
-56.19
1
B
ASP
383
-69.67
-74.99
1
B
ALA
402
-61.69
-71.88
1
B
ASP
421
-17.22
-44.45
1
B
VAL
423
-142.26
-66.97
1
B
ASN
455
-87.68
30.27
1
B
ASP
456
-104.79
57.76
1
B
PHE
482
-165.17
71.07
0.920
0.894
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES RESIDUAL ONLY
0.240
0.202
0.204
3.25
29.24
612
11198
5.200
100.0
50.954
0.378
RANDOM
1
THROUGHOUT
SAD
0.471
0.80
0.80
1.40
NONE
MAXIMUM LIKELIHOOD
MASK
3.25
29.24
0
3922
0
0
3922
0.010
0.022
3990
0.001
0.020
2788
1.318
2.004
5380
0.852
3.000
6886
6.816
5.000
502
43.273
25.526
152
17.806
15.000
770
17.321
15.000
14
0.069
0.200
614
0.004
0.021
4318
0.001
0.020
710
0.336
1.500
2508
0.043
1.500
1018
0.650
2.000
4064
0.943
3.000
1482
1.571
4.500
1316
1
A
1
3019
X-RAY DIFFRACTION
tight positional
0.03
0.05
2
B
1
3019
X-RAY DIFFRACTION
tight positional
0.03
0.05
1
A
1
3019
X-RAY DIFFRACTION
tight thermal
0.88
5.00
2
B
1
3019
X-RAY DIFFRACTION
tight thermal
0.88
5.00
0.2500
0.3000
3.33
46
812
20
100.00
3.00
30.00
2WFD
15008
0.0
0.15
1
7.46
3.12
99.8
0.66
3.25
3.30
1.98
1
3.16
99.5
refinement
REFMAC
5.5.0070
data reduction
XDS
data scaling
XSCALE
phasing
SHELXD
SHARP
LEUCYL-TRNA SYNTHETASE, CYTOPLASMIC (E.C.6.1.1.4)
Structure of the human cytosolic leucyl-tRNA synthetase editing domain
1
N
N
1
N
N
A
PRO
276
A
PRO
19
HELX_P
A
LYS
283
A
LYS
26
5
1
8
A
ARG
295
A
ARG
38
HELX_P
A
MSE
299
A
MSE
42
5
2
5
A
THR
327
A
THR
70
HELX_P
A
MSE
334
A
MSE
77
1
3
8
A
SER
396
A
SER
139
HELX_P
A
LYS
409
A
LYS
152
1
4
14
A
GLN
410
A
GLN
153
HELX_P
A
LYS
415
A
LYS
158
1
5
6
A
LEU
440
A
LEU
183
HELX_P
A
LEU
449
A
LEU
192
1
6
10
A
ASP
456
A
ASP
199
HELX_P
A
GLY
475
A
GLY
218
1
7
20
A
LYS
486
A
LYS
229
HELX_P
A
MSE
498
A
MSE
241
1
8
13
B
PRO
276
B
PRO
19
HELX_P
B
LYS
283
B
LYS
26
5
9
8
B
ARG
295
B
ARG
38
HELX_P
B
MSE
299
B
MSE
42
5
10
5
B
THR
327
B
THR
70
HELX_P
B
MSE
334
B
MSE
77
1
11
8
B
SER
396
B
SER
139
HELX_P
B
LYS
409
B
LYS
152
1
12
14
B
LYS
409
B
LYS
152
HELX_P
B
ALA
414
B
ALA
157
1
13
6
B
LYS
415
B
LYS
158
HELX_P
B
GLY
417
B
GLY
160
5
14
3
B
LEU
440
B
LEU
183
HELX_P
B
LEU
449
B
LEU
192
1
15
10
B
ASP
456
B
ASP
199
HELX_P
B
GLY
475
B
GLY
218
1
16
20
B
LYS
486
B
LYS
229
HELX_P
B
MSE
498
B
MSE
241
1
17
13
covale
1.346
A
ALA
258
A
C
ALA
1
1_555
A
MSE
259
A
N
MSE
2
1_555
covale
1.332
A
MSE
259
A
C
MSE
2
1_555
A
GLY
260
A
N
GLY
3
1_555
covale
1.330
A
THR
298
A
C
THR
41
1_555
A
MSE
299
A
N
MSE
42
1_555
covale
1.332
A
MSE
299
A
C
MSE
42
1_555
A
PHE
300
A
N
PHE
43
1_555
covale
1.328
A
ASP
310
A
C
ASP
53
1_555
A
MSE
311
A
N
MSE
54
1_555
covale
1.332
A
MSE
311
A
C
MSE
54
1_555
A
LYS
312
A
N
LYS
55
1_555
covale
1.328
A
ASN
333
A
C
ASN
76
1_555
A
MSE
334
A
N
MSE
77
1_555
covale
1.330
A
MSE
334
A
C
MSE
77
1_555
A
SER
335
A
N
SER
78
1_555
covale
1.330
A
LEU
352
A
C
LEU
95
1_555
A
MSE
353
A
N
MSE
96
1_555
covale
1.324
A
MSE
353
A
C
MSE
96
1_555
A
GLY
354
A
N
GLY
97
1_555
covale
1.332
A
PRO
376
A
C
PRO
119
1_555
A
MSE
377
A
N
MSE
120
1_555
covale
1.324
A
MSE
377
A
C
MSE
120
1_555
A
LEU
378
A
N
LEU
121
1_555
covale
1.338
A
ASP
421
A
C
ASP
164
1_555
A
MSE
422
A
N
MSE
165
1_555
covale
1.334
A
MSE
422
A
C
MSE
165
1_555
A
VAL
423
A
N
VAL
166
1_555
covale
1.329
A
ILE
476
A
C
ILE
219
1_555
A
MSE
477
A
N
MSE
220
1_555
covale
1.333
A
MSE
477
A
C
MSE
220
1_555
A
LEU
478
A
N
LEU
221
1_555
covale
1.325
A
LYS
497
A
C
LYS
240
1_555
A
MSE
498
A
N
MSE
241
1_555
covale
1.328
A
MSE
498
A
C
MSE
241
1_555
A
ILE
499
A
N
ILE
242
1_555
covale
1.327
A
TYR
507
A
C
TYR
250
1_555
A
MSE
508
A
N
MSE
251
1_555
covale
1.331
A
MSE
508
A
C
MSE
251
1_555
A
GLU
509
A
N
GLU
252
1_555
covale
1.337
B
ALA
258
B
C
ALA
1
1_555
B
MSE
259
B
N
MSE
2
1_555
covale
1.325
B
MSE
259
B
C
MSE
2
1_555
B
GLY
260
B
N
GLY
3
1_555
covale
1.325
B
THR
298
B
C
THR
41
1_555
B
MSE
299
B
N
MSE
42
1_555
covale
1.326
B
MSE
299
B
C
MSE
42
1_555
B
PHE
300
B
N
PHE
43
1_555
covale
1.325
B
ASP
310
B
C
ASP
53
1_555
B
MSE
311
B
N
MSE
54
1_555
covale
1.331
B
MSE
311
B
C
MSE
54
1_555
B
LYS
312
B
N
LYS
55
1_555
covale
1.325
B
ASN
333
B
C
ASN
76
1_555
B
MSE
334
B
N
MSE
77
1_555
covale
1.331
B
MSE
334
B
C
MSE
77
1_555
B
SER
335
B
N
SER
78
1_555
covale
1.326
B
LEU
352
B
C
LEU
95
1_555
B
MSE
353
B
N
MSE
96
1_555
covale
1.322
B
MSE
353
B
C
MSE
96
1_555
B
GLY
354
B
N
GLY
97
1_555
covale
1.336
B
PRO
376
B
C
PRO
119
1_555
B
MSE
377
B
N
MSE
120
1_555
covale
1.327
B
MSE
377
B
C
MSE
120
1_555
B
LEU
378
B
N
LEU
121
1_555
covale
1.336
B
ASP
421
B
C
ASP
164
1_555
B
MSE
422
B
N
MSE
165
1_555
covale
1.333
B
MSE
422
B
C
MSE
165
1_555
B
VAL
423
B
N
VAL
166
1_555
covale
1.338
B
ILE
476
B
C
ILE
219
1_555
B
MSE
477
B
N
MSE
220
1_555
covale
1.330
B
MSE
477
B
C
MSE
220
1_555
B
LEU
478
B
N
LEU
221
1_555
covale
1.325
B
LYS
497
B
C
LYS
240
1_555
B
MSE
498
B
N
MSE
241
1_555
covale
1.327
B
MSE
498
B
C
MSE
241
1_555
B
ILE
499
B
N
ILE
242
1_555
covale
1.326
B
TYR
507
B
C
TYR
250
1_555
B
MSE
508
B
N
MSE
251
1_555
covale
1.333
B
MSE
508
B
C
MSE
251
1_555
B
GLU
509
B
N
GLU
252
1_555
LIGASE
AMINOACYL-TRNA SYNTHETASE, PHOSPHOPROTEIN, EDITING DOMAIN, NUCLEOTIDE-BINDING, HYDROLYSIS OF MIS-CHARGED TRNAS, PROTEIN BIOSYNTHESIS, LEUCYL-TRNA SYNTHETASE, HUMAN, LIGASE, CYTOPLASM, ATP-BINDING, POLYMORPHISM
A
GLY
260
A
GLY
3
1
A
PRO
261
A
PRO
4
12.92
A
GLU
273
A
GLU
16
1
A
PRO
274
A
PRO
17
10.38
B
GLY
260
B
GLY
3
1
B
PRO
261
B
PRO
4
11.69
B
GLU
273
B
GLU
16
1
B
PRO
274
B
PRO
17
10.82
A
B
A
258
A
401
1
B
258
B
401
1
A
425
A
509
1
B
425
B
509
1
2WFD
PDB
1
2WFD
SYLC_HUMAN
UNP
1
Q9P2J5
258
259
2WFD
258
259
2WFD
A
1
1
2
260
509
2WFD
260
509
Q9P2J5
A
2
3
252
258
259
2WFD
258
259
2WFD
B
1
1
2
260
509
2WFD
260
509
Q9P2J5
B
2
3
252
6
9
6
9
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
A
VAL
348
A
VAL
91
A
GLU
351
A
GLU
94
A
ILE
314
A
ILE
57
A
GLU
317
A
GLU
60
A
ILE
323
A
ILE
66
A
CYS
326
A
CYS
69
A
ILE
287
A
ILE
30
A
THR
293
A
THR
36
A
TYR
264
A
TYR
7
A
LEU
272
A
LEU
15
A
ALA
504
A
ALA
247
A
TYR
507
A
TYR
250
A
VAL
348
A
VAL
91
A
GLU
351
A
GLU
94
A
ILE
314
A
ILE
57
A
GLU
317
A
GLU
60
A
ILE
323
A
ILE
66
A
CYS
326
A
CYS
69
A
ILE
287
A
ILE
30
A
THR
293
A
THR
36
A
TYR
264
A
TYR
7
A
LEU
272
A
LEU
15
A
SER
361
A
SER
104
A
SER
363
A
SER
106
A
ILE
372
A
ILE
115
A
PRO
376
A
PRO
119
A
ASN
304
A
ASN
47
A
VAL
307
A
VAL
50
A
VAL
389
A
VAL
132
A
SER
391
A
SER
134
B
VAL
348
B
VAL
91
B
GLU
351
B
GLU
94
B
ILE
314
B
ILE
57
B
GLU
317
B
GLU
60
B
ILE
323
B
ILE
66
B
CYS
326
B
CYS
69
B
ILE
287
B
ILE
30
B
THR
293
B
THR
36
B
TYR
264
B
TYR
7
B
LEU
272
B
LEU
15
B
ALA
504
B
ALA
247
B
TYR
507
B
TYR
250
B
VAL
348
B
VAL
91
B
GLU
351
B
GLU
94
B
ILE
314
B
ILE
57
B
GLU
317
B
GLU
60
B
ILE
323
B
ILE
66
B
CYS
326
B
CYS
69
B
ILE
287
B
ILE
30
B
THR
293
B
THR
36
B
TYR
264
B
TYR
7
B
LEU
272
B
LEU
15
B
SER
361
B
SER
104
B
SER
363
B
SER
106
B
ILE
372
B
ILE
115
B
PRO
376
B
PRO
119
B
ASN
304
B
ASN
47
B
VAL
307
B
VAL
50
B
VAL
389
B
VAL
132
B
SER
391
B
SER
134
170
P 65