File: LX0.cif

package info (click to toggle)
refmac-dictionary 5.41-3
  • links: PTS, VCS
  • area: main
  • in suites: forky, sid, trixie
  • size: 217,852 kB
file content (439 lines) | stat: -rw-r--r-- 20,103 bytes parent folder | download | duplicates (3)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
global_
_lib_name         ?
_lib_version      ?
_lib_update       ?
# ------------------------------------------------
#
# ---   LIST OF MONOMERS ---
#
data_comp_list
loop_
_chem_comp.id
_chem_comp.three_letter_code
_chem_comp.name
_chem_comp.group
_chem_comp.number_atoms_all
_chem_comp.number_atoms_nh
_chem_comp.desc_level
LX0      LX0 '4-(4-amino-6-{[(1R)-1-naphthalen-2-y' non-polymer        55  32 .
# ------------------------------------------------------
# ------------------------------------------------------
#
# --- DESCRIPTION OF MONOMERS ---
#
data_comp_LX0
#
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.type_energy
_chem_comp_atom.partial_charge
_chem_comp_atom.x
_chem_comp_atom.y
_chem_comp_atom.z
 LX0           O2     O    OC       -0.500      0.000    0.000    0.000
 LX0           C1     C    C         0.000     -0.968   -0.775    0.163
 LX0           O3     O    OC       -0.500     -0.784   -2.012    0.183
 LX0           C4     C    CH1       0.000     -2.358   -0.217    0.337
 LX0           H4     H    H         0.000     -2.891   -0.794    1.105
 LX0           N5     N    NH2       0.000     -2.272    1.190    0.753
 LX0           HN5A   H    H         0.000     -2.630    1.923    0.153
 LX0           HN5    H    H         0.000     -1.854    1.435    1.643
 LX0           C6     C    CH2       0.000     -3.115   -0.312   -0.989
 LX0           H6     H    H         0.000     -3.100   -1.344   -1.344
 LX0           H6A    H    H         0.000     -2.635    0.333   -1.729
 LX0           C7     C    CR6       0.000     -4.541    0.131   -0.786
 LX0           C8     C    CR16      0.000     -5.508   -0.796   -0.440
 LX0           H8     H    H         0.000     -5.239   -1.838   -0.320
 LX0           C9     C    CR16      0.000     -6.814   -0.395   -0.247
 LX0           H9     H    H         0.000     -7.569   -1.120    0.033
 LX0           C10    C    CR6       0.000     -7.161    0.945   -0.413
 LX0           C11    C    CR16      0.000     -6.184    1.873   -0.768
 LX0           H11    H    H         0.000     -6.448    2.915   -0.899
 LX0           C12    C    CR16      0.000     -4.879    1.462   -0.953
 LX0           H12    H    H         0.000     -4.119    2.183   -1.230
 LX0           C13    C    CR6       0.000     -8.564    1.380   -0.213
 LX0           N14    N    NRD6      0.000     -8.891    2.660   -0.367
 LX0           C15    C    CR6       0.000    -10.151    3.050   -0.193
 LX0           N19    N    NH2       0.000    -10.491    4.377   -0.358
 LX0           HN1A   H    H         0.000     -9.787    5.061   -0.616
 LX0           HN19   H    H         0.000    -11.449    4.683   -0.223
 LX0           N16    N    NRD6      0.000    -11.080    2.162    0.145
 LX0           C17    C    CR6       0.000    -10.752    0.885    0.305
 LX0           N18    N    NRD6      0.000     -9.495    0.493    0.126
 LX0           N20    N    NH1       0.000    -11.718   -0.037    0.657
 LX0           HN20   H    H         0.000    -11.469   -1.008    0.777
 LX0           C21    C    CH1       0.000    -13.104    0.394    0.855
 LX0           H21    H    H         0.000    -13.341    1.199    0.146
 LX0           C22    C    CH3       0.000    -13.280    0.906    2.286
 LX0           H22B   H    H         0.000    -12.628    1.725    2.452
 LX0           H22A   H    H         0.000    -14.282    1.219    2.430
 LX0           H22    H    H         0.000    -13.051    0.130    2.971
 LX0           C23    C    CR6       0.000    -14.030   -0.771    0.620
 LX0           C24    C    CR16      0.000    -15.204   -0.572   -0.041
 LX0           H24    H    H         0.000    -15.470    0.417   -0.393
 LX0           C25    C    CR66      0.000    -16.068   -1.657   -0.266
 LX0           C26    C    CR66      0.000    -15.707   -2.943    0.210
 LX0           C27    C    CR16      0.000    -14.491   -3.108    0.894
 LX0           H27    H    H         0.000    -14.202   -4.084    1.264
 LX0           C28    C    CR16      0.000    -13.677   -2.034    1.089
 LX0           H28    H    H         0.000    -12.741   -2.164    1.617
 LX0           C29    C    CR16      0.000    -17.284   -1.492   -0.950
 LX0           H29    H    H         0.000    -17.572   -0.516   -1.320
 LX0           C30    C    CR16      0.000    -18.098   -2.566   -1.144
 LX0           H30    H    H         0.000    -19.035   -2.436   -1.671
 LX0           C31    C    CR16      0.000    -17.745   -3.830   -0.675
 LX0           H31    H    H         0.000    -18.411   -4.666   -0.842
 LX0           C32    C    CR16      0.000    -16.575   -4.027   -0.009
 LX0           H32    H    H         0.000    -16.312   -5.015    0.349
loop_
_chem_comp_tree.comp_id
_chem_comp_tree.atom_id
_chem_comp_tree.atom_back
_chem_comp_tree.atom_forward
_chem_comp_tree.connect_type
 LX0      O2     n/a    C1     START
 LX0      C1     O2     C4     .
 LX0      O3     C1     .      .
 LX0      C4     C1     C6     .
 LX0      H4     C4     .      .
 LX0      N5     C4     HN5    .
 LX0      HN5A   N5     .      .
 LX0      HN5    N5     .      .
 LX0      C6     C4     C7     .
 LX0      H6     C6     .      .
 LX0      H6A    C6     .      .
 LX0      C7     C6     C8     .
 LX0      C8     C7     C9     .
 LX0      H8     C8     .      .
 LX0      C9     C8     C10    .
 LX0      H9     C9     .      .
 LX0      C10    C9     C13    .
 LX0      C11    C10    C12    .
 LX0      H11    C11    .      .
 LX0      C12    C11    H12    .
 LX0      H12    C12    .      .
 LX0      C13    C10    N14    .
 LX0      N14    C13    C15    .
 LX0      C15    N14    N16    .
 LX0      N19    C15    HN19   .
 LX0      HN1A   N19    .      .
 LX0      HN19   N19    .      .
 LX0      N16    C15    C17    .
 LX0      C17    N16    N20    .
 LX0      N18    C17    .      .
 LX0      N20    C17    C21    .
 LX0      HN20   N20    .      .
 LX0      C21    N20    C23    .
 LX0      H21    C21    .      .
 LX0      C22    C21    H22    .
 LX0      H22B   C22    .      .
 LX0      H22A   C22    .      .
 LX0      H22    C22    .      .
 LX0      C23    C21    C24    .
 LX0      C24    C23    C25    .
 LX0      H24    C24    .      .
 LX0      C25    C24    C29    .
 LX0      C26    C25    C27    .
 LX0      C27    C26    C28    .
 LX0      H27    C27    .      .
 LX0      C28    C27    H28    .
 LX0      H28    C28    .      .
 LX0      C29    C25    C30    .
 LX0      H29    C29    .      .
 LX0      C30    C29    C31    .
 LX0      H30    C30    .      .
 LX0      C31    C30    C32    .
 LX0      H31    C31    .      .
 LX0      C32    C31    H32    .
 LX0      H32    C32    .      END
 LX0      C7     C12    .    ADD
 LX0      C13    N18    .    ADD
 LX0      C23    C28    .    ADD
 LX0      C26    C32    .    ADD
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.type
_chem_comp_bond.value_dist
_chem_comp_bond.value_dist_esd
 LX0      O3     C1        deloc       1.250    0.020
 LX0      C1     O2        deloc       1.250    0.020
 LX0      C4     C1        single      1.500    0.020
 LX0      C6     C4        single      1.524    0.020
 LX0      N5     C4        single      1.450    0.020
 LX0      H4     C4        single      1.099    0.020
 LX0      HN5    N5        single      1.010    0.020
 LX0      HN5A   N5        single      1.010    0.020
 LX0      C7     C6        single      1.511    0.020
 LX0      H6     C6        single      1.092    0.020
 LX0      H6A    C6        single      1.092    0.020
 LX0      C8     C7        double      1.390    0.020
 LX0      C7     C12       single      1.390    0.020
 LX0      C12    C11       double      1.390    0.020
 LX0      H12    C12       single      1.083    0.020
 LX0      C11    C10       single      1.390    0.020
 LX0      H11    C11       single      1.083    0.020
 LX0      C10    C9        double      1.390    0.020
 LX0      C13    C10       single      1.487    0.020
 LX0      C9     C8        single      1.390    0.020
 LX0      H9     C9        single      1.083    0.020
 LX0      H8     C8        single      1.083    0.020
 LX0      N14    C13       double      1.350    0.020
 LX0      C13    N18       single      1.350    0.020
 LX0      N18    C17       double      1.350    0.020
 LX0      C17    N16       single      1.350    0.020
 LX0      N20    C17       single      1.350    0.020
 LX0      N16    C15       double      1.350    0.020
 LX0      N19    C15       single      1.355    0.020
 LX0      C15    N14       single      1.350    0.020
 LX0      HN19   N19       single      1.010    0.020
 LX0      HN1A   N19       single      1.010    0.020
 LX0      C21    N20       single      1.450    0.020
 LX0      HN20   N20       single      1.010    0.020
 LX0      C23    C21       single      1.480    0.020
 LX0      C22    C21       single      1.524    0.020
 LX0      H21    C21       single      1.099    0.020
 LX0      H22    C22       single      1.059    0.020
 LX0      H22A   C22       single      1.059    0.020
 LX0      H22B   C22       single      1.059    0.020
 LX0      C23    C28       double      1.390    0.020
 LX0      C24    C23       single      1.390    0.020
 LX0      C28    C27       single      1.390    0.020
 LX0      H28    C28       single      1.083    0.020
 LX0      C27    C26       double      1.390    0.020
 LX0      H27    C27       single      1.083    0.020
 LX0      C26    C32       single      1.390    0.020
 LX0      C26    C25       single      1.490    0.020
 LX0      C32    C31       double      1.390    0.020
 LX0      H32    C32       single      1.083    0.020
 LX0      C31    C30       single      1.390    0.020
 LX0      H31    C31       single      1.083    0.020
 LX0      C30    C29       double      1.390    0.020
 LX0      H30    C30       single      1.083    0.020
 LX0      C29    C25       single      1.390    0.020
 LX0      H29    C29       single      1.083    0.020
 LX0      C25    C24       double      1.390    0.020
 LX0      H24    C24       single      1.083    0.020
loop_
_chem_comp_angle.comp_id
_chem_comp_angle.atom_id_1
_chem_comp_angle.atom_id_2
_chem_comp_angle.atom_id_3
_chem_comp_angle.value_angle
_chem_comp_angle.value_angle_esd
 LX0      O2     C1     O3      123.000    3.000
 LX0      O2     C1     C4      118.500    3.000
 LX0      O3     C1     C4      118.500    3.000
 LX0      C1     C4     H4      108.810    3.000
 LX0      C1     C4     N5      109.470    3.000
 LX0      C1     C4     C6      109.470    3.000
 LX0      H4     C4     N5      109.470    3.000
 LX0      H4     C4     C6      108.340    3.000
 LX0      N5     C4     C6      109.470    3.000
 LX0      C4     N5     HN5A    120.000    3.000
 LX0      C4     N5     HN5     120.000    3.000
 LX0      HN5A   N5     HN5     120.000    3.000
 LX0      C4     C6     H6      109.470    3.000
 LX0      C4     C6     H6A     109.470    3.000
 LX0      C4     C6     C7      109.470    3.000
 LX0      H6     C6     H6A     107.900    3.000
 LX0      H6     C6     C7      109.470    3.000
 LX0      H6A    C6     C7      109.470    3.000
 LX0      C6     C7     C8      120.000    3.000
 LX0      C6     C7     C12     120.000    3.000
 LX0      C8     C7     C12     120.000    3.000
 LX0      C7     C8     H8      120.000    3.000
 LX0      C7     C8     C9      120.000    3.000
 LX0      H8     C8     C9      120.000    3.000
 LX0      C8     C9     H9      120.000    3.000
 LX0      C8     C9     C10     120.000    3.000
 LX0      H9     C9     C10     120.000    3.000
 LX0      C9     C10    C11     120.000    3.000
 LX0      C9     C10    C13     120.000    3.000
 LX0      C11    C10    C13     120.000    3.000
 LX0      C10    C11    H11     120.000    3.000
 LX0      C10    C11    C12     120.000    3.000
 LX0      H11    C11    C12     120.000    3.000
 LX0      C11    C12    H12     120.000    3.000
 LX0      C11    C12    C7      120.000    3.000
 LX0      H12    C12    C7      120.000    3.000
 LX0      C10    C13    N14     120.000    3.000
 LX0      C10    C13    N18     120.000    3.000
 LX0      N14    C13    N18     120.000    3.000
 LX0      C13    N14    C15     120.000    3.000
 LX0      N14    C15    N19     120.000    3.000
 LX0      N14    C15    N16     120.000    3.000
 LX0      N19    C15    N16     120.000    3.000
 LX0      C15    N19    HN1A    120.000    3.000
 LX0      C15    N19    HN19    120.000    3.000
 LX0      HN1A   N19    HN19    120.000    3.000
 LX0      C15    N16    C17     120.000    3.000
 LX0      N16    C17    N18     120.000    3.000
 LX0      N16    C17    N20     120.000    3.000
 LX0      N18    C17    N20     120.000    3.000
 LX0      C17    N18    C13     120.000    3.000
 LX0      C17    N20    HN20    120.000    3.000
 LX0      C17    N20    C21     120.000    3.000
 LX0      HN20   N20    C21     118.500    3.000
 LX0      N20    C21    H21     108.550    3.000
 LX0      N20    C21    C22     110.000    3.000
 LX0      N20    C21    C23     109.470    3.000
 LX0      H21    C21    C22     108.340    3.000
 LX0      H21    C21    C23     109.470    3.000
 LX0      C22    C21    C23     109.470    3.000
 LX0      C21    C22    H22B    109.470    3.000
 LX0      C21    C22    H22A    109.470    3.000
 LX0      C21    C22    H22     109.470    3.000
 LX0      H22B   C22    H22A    109.470    3.000
 LX0      H22B   C22    H22     109.470    3.000
 LX0      H22A   C22    H22     109.470    3.000
 LX0      C21    C23    C24     120.000    3.000
 LX0      C21    C23    C28     120.000    3.000
 LX0      C24    C23    C28     120.000    3.000
 LX0      C23    C24    H24     120.000    3.000
 LX0      C23    C24    C25     120.000    3.000
 LX0      H24    C24    C25     120.000    3.000
 LX0      C24    C25    C26     120.000    3.000
 LX0      C24    C25    C29     120.000    3.000
 LX0      C26    C25    C29     120.000    3.000
 LX0      C25    C26    C27     120.000    3.000
 LX0      C25    C26    C32     120.000    3.000
 LX0      C27    C26    C32     120.000    3.000
 LX0      C26    C27    H27     120.000    3.000
 LX0      C26    C27    C28     120.000    3.000
 LX0      H27    C27    C28     120.000    3.000
 LX0      C27    C28    H28     120.000    3.000
 LX0      C27    C28    C23     120.000    3.000
 LX0      H28    C28    C23     120.000    3.000
 LX0      C25    C29    H29     120.000    3.000
 LX0      C25    C29    C30     120.000    3.000
 LX0      H29    C29    C30     120.000    3.000
 LX0      C29    C30    H30     120.000    3.000
 LX0      C29    C30    C31     120.000    3.000
 LX0      H30    C30    C31     120.000    3.000
 LX0      C30    C31    H31     120.000    3.000
 LX0      C30    C31    C32     120.000    3.000
 LX0      H31    C31    C32     120.000    3.000
 LX0      C31    C32    H32     120.000    3.000
 LX0      C31    C32    C26     120.000    3.000
 LX0      H32    C32    C26     120.000    3.000
loop_
_chem_comp_tor.comp_id
_chem_comp_tor.id
_chem_comp_tor.atom_id_1
_chem_comp_tor.atom_id_2
_chem_comp_tor.atom_id_3
_chem_comp_tor.atom_id_4
_chem_comp_tor.value_angle
_chem_comp_tor.value_angle_esd
_chem_comp_tor.period
 LX0      var_1    O2     C1     C4     C6       100.004   20.000   3
 LX0      var_2    C1     C4     N5     HN5      -63.965   20.000   1
 LX0      var_3    C1     C4     C6     C7       174.955   20.000   3
 LX0      var_4    C4     C6     C7     C8       -90.302   20.000   2
 LX0      CONST_1  C6     C7     C12    C11      180.000    0.000   0
 LX0      CONST_2  C6     C7     C8     C9       180.000    0.000   0
 LX0      CONST_3  C7     C8     C9     C10        0.000    0.000   0
 LX0      CONST_4  C8     C9     C10    C13      180.000    0.000   0
 LX0      CONST_5  C9     C10    C11    C12        0.000    0.000   0
 LX0      CONST_6  C10    C11    C12    C7         0.000    0.000   0
 LX0      CONST_7  C9     C10    C13    N14      180.000    0.000   0
 LX0      CONST_8  C10    C13    N18    C17      180.000    0.000   0
 LX0      CONST_9  C10    C13    N14    C15      180.000    0.000   0
 LX0      CONST_10 C13    N14    C15    N16        0.000    0.000   0
 LX0      CONST_11 N14    C15    N19    HN19    -179.756    0.000   0
 LX0      CONST_12 N14    C15    N16    C17        0.000    0.000   0
 LX0      CONST_13 C15    N16    C17    N20      180.000    0.000   0
 LX0      CONST_14 N16    C17    N18    C13        0.000    0.000   0
 LX0      var_5    N16    C17    N20    C21       -0.084   20.000   1
 LX0      var_6    C17    N20    C21    C23      154.995   20.000   3
 LX0      var_7    N20    C21    C22    H22      -60.056   20.000   3
 LX0      var_8    N20    C21    C23    C24     -139.998   20.000   1
 LX0      CONST_15 C21    C23    C28    C27      180.000    0.000   0
 LX0      CONST_16 C21    C23    C24    C25      180.000    0.000   0
 LX0      CONST_17 C23    C24    C25    C29      180.000    0.000   0
 LX0      CONST_18 C24    C25    C26    C27        0.000    0.000   0
 LX0      CONST_19 C25    C26    C32    C31        0.000    0.000   0
 LX0      CONST_20 C25    C26    C27    C28        0.000    0.000   0
 LX0      CONST_21 C26    C27    C28    C23        0.000    0.000   0
 LX0      CONST_22 C24    C25    C29    C30      180.000    0.000   0
 LX0      CONST_23 C25    C29    C30    C31        0.000    0.000   0
 LX0      CONST_24 C29    C30    C31    C32        0.000    0.000   0
 LX0      CONST_25 C30    C31    C32    C26        0.000    0.000   0
loop_
_chem_comp_chir.comp_id
_chem_comp_chir.id
_chem_comp_chir.atom_id_centre
_chem_comp_chir.atom_id_1
_chem_comp_chir.atom_id_2
_chem_comp_chir.atom_id_3
_chem_comp_chir.volume_sign
 LX0      chir_01  C4     C1     N5     C6        negativ
 LX0      chir_02  C21    N20    C22    C23       positiv
loop_
_chem_comp_plane_atom.comp_id
_chem_comp_plane_atom.plane_id
_chem_comp_plane_atom.atom_id
_chem_comp_plane_atom.dist_esd
 LX0      plan-1    C1        0.020
 LX0      plan-1    O3        0.020
 LX0      plan-1    O2        0.020
 LX0      plan-1    C4        0.020
 LX0      plan-2    N5        0.020
 LX0      plan-2    C4        0.020
 LX0      plan-2    HN5       0.020
 LX0      plan-2    HN5A      0.020
 LX0      plan-3    C7        0.020
 LX0      plan-3    C6        0.020
 LX0      plan-3    C12       0.020
 LX0      plan-3    C8        0.020
 LX0      plan-3    C11       0.020
 LX0      plan-3    C10       0.020
 LX0      plan-3    C9        0.020
 LX0      plan-3    H12       0.020
 LX0      plan-3    H11       0.020
 LX0      plan-3    C13       0.020
 LX0      plan-3    H9        0.020
 LX0      plan-3    H8        0.020
 LX0      plan-4    C13       0.020
 LX0      plan-4    C10       0.020
 LX0      plan-4    N18       0.020
 LX0      plan-4    N14       0.020
 LX0      plan-4    C17       0.020
 LX0      plan-4    N16       0.020
 LX0      plan-4    C15       0.020
 LX0      plan-4    N20       0.020
 LX0      plan-4    N19       0.020
 LX0      plan-4    HN20      0.020
 LX0      plan-4    HN1A      0.020
 LX0      plan-4    HN19      0.020
 LX0      plan-5    N19       0.020
 LX0      plan-5    C15       0.020
 LX0      plan-5    HN19      0.020
 LX0      plan-5    HN1A      0.020
 LX0      plan-6    N20       0.020
 LX0      plan-6    C17       0.020
 LX0      plan-6    C21       0.020
 LX0      plan-6    HN20      0.020
 LX0      plan-7    C23       0.020
 LX0      plan-7    C21       0.020
 LX0      plan-7    C28       0.020
 LX0      plan-7    C24       0.020
 LX0      plan-7    C27       0.020
 LX0      plan-7    H28       0.020
 LX0      plan-7    C26       0.020
 LX0      plan-7    H27       0.020
 LX0      plan-7    C32       0.020
 LX0      plan-7    C25       0.020
 LX0      plan-7    C31       0.020
 LX0      plan-7    C30       0.020
 LX0      plan-7    C29       0.020
 LX0      plan-7    H32       0.020
 LX0      plan-7    H31       0.020
 LX0      plan-7    H30       0.020
 LX0      plan-7    H29       0.020
 LX0      plan-7    H24       0.020
# ------------------------------------------------------