0.009714
0.005608
0.000000
0.000000
0.011216
0.000000
0.000000
0.000000
0.013777
0.00000
0.00000
0.00000
Phillips, J.D.
Whitby, F.G.
Kushner, J.P.
Hill, C.P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
102.947
102.947
72.585
C36 H44 N4 O8
660.757
COPROPORPHYRINOGEN I
non-polymer
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
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
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
O
N
2
N
C
N
3
N
O
N
4
N
C
N
5
N
C
Y
6
N
C
Y
7
N
C
N
8
N
C
Y
9
N
C
N
10
N
C
Y
11
N
N
Y
12
N
C
N
13
N
C
Y
14
N
C
Y
15
N
N
Y
16
N
C
N
17
N
C
N
18
N
C
N
19
N
C
N
20
N
O
N
21
N
O
Y
22
N
C
N
23
N
C
Y
24
N
C
N
25
N
C
Y
26
N
C
Y
27
N
N
Y
28
N
C
N
29
N
C
N
30
N
C
N
31
N
C
N
32
N
O
N
33
N
O
Y
34
N
C
N
35
N
C
Y
36
N
C
N
37
N
C
Y
38
N
C
Y
39
N
N
Y
40
N
C
Y
41
N
C
N
42
N
C
Y
43
N
C
N
44
N
C
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
O
N
49
N
H
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
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
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
H
N
79
N
H
N
80
N
H
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
H
N
89
N
H
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
N
N
94
S
C
N
95
N
C
N
96
N
O
N
97
N
C
N
98
N
O
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
N
N
107
S
C
N
108
N
C
N
109
N
O
N
110
N
C
N
111
N
C
N
112
N
C
N
113
N
N
N
114
N
C
N
115
N
N
N
116
N
N
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
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
N
N
134
S
C
N
135
N
C
N
136
N
O
N
137
N
C
N
138
N
C
N
139
N
O
N
140
N
N
N
141
N
O
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
N
N
151
S
C
N
152
N
C
N
153
N
O
N
154
N
C
N
155
N
C
N
156
N
O
N
157
N
O
N
158
N
O
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
N
N
167
R
C
N
168
N
C
N
169
N
O
N
170
N
C
N
171
N
S
N
172
N
O
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
O
N
188
N
N
N
189
N
O
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
N
N
201
S
C
N
202
N
C
N
203
N
O
N
204
N
C
N
205
N
C
N
206
N
C
N
207
N
O
N
208
N
O
N
209
N
O
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
H
N
219
N
N
N
220
N
C
N
221
N
C
N
222
N
O
N
223
N
O
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
N
N
230
S
C
N
231
N
C
N
232
N
O
N
233
N
C
Y
234
N
C
Y
235
N
N
Y
236
N
C
Y
237
N
C
Y
238
N
N
N
239
N
O
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
H
N
248
N
H
N
249
N
H
N
250
N
O
N
251
N
H
N
252
N
H
N
253
N
N
N
254
S
C
N
255
N
C
N
256
N
O
N
257
S
C
N
258
N
C
N
259
N
C
N
260
N
C
N
261
N
O
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
H
N
271
N
H
N
272
N
H
N
273
N
H
N
274
N
H
N
275
N
N
N
276
S
C
N
277
N
C
N
278
N
O
N
279
N
C
N
280
N
C
N
281
N
C
N
282
N
C
N
283
N
O
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
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
N
N
298
S
C
N
299
N
C
N
300
N
O
N
301
N
C
N
302
N
C
N
303
N
C
N
304
N
C
N
305
N
N
N
306
N
O
N
307
N
H
N
308
N
H
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
H
N
319
N
H
N
320
N
H
N
321
N
H
N
322
N
N
N
323
S
C
N
324
N
C
N
325
N
O
N
326
N
C
N
327
N
C
N
328
N
S
N
329
N
C
N
330
N
O
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
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
N
N
343
S
C
N
344
N
C
N
345
N
O
N
346
N
C
Y
347
N
C
Y
348
N
C
Y
349
N
C
Y
350
N
C
Y
351
N
C
Y
352
N
C
N
353
N
O
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
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
N
N
366
S
C
N
367
N
C
N
368
N
O
N
369
N
C
N
370
N
C
N
371
N
C
N
372
N
O
N
373
N
H
N
374
N
H
N
375
N
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
N
H
N
380
N
H
N
381
N
H
N
382
N
N
N
383
S
C
N
384
N
C
N
385
N
O
N
386
N
C
N
387
N
O
N
388
N
O
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
N
N
397
S
C
N
398
N
C
N
399
N
O
N
400
R
C
N
401
N
O
N
402
N
C
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
H
N
412
N
H
N
413
N
N
N
414
S
C
N
415
N
C
N
416
N
O
N
417
N
C
Y
418
N
C
Y
419
N
C
Y
420
N
C
Y
421
N
N
Y
422
N
C
Y
423
N
C
Y
424
N
C
Y
425
N
C
Y
426
N
C
N
427
N
O
N
428
N
H
N
429
N
H
N
430
N
H
N
431
N
H
N
432
N
H
N
433
N
H
N
434
N
H
N
435
N
H
N
436
N
H
N
437
N
H
N
438
N
H
N
439
N
H
N
440
N
N
N
441
S
C
N
442
N
C
N
443
N
O
N
444
N
C
Y
445
N
C
Y
446
N
C
Y
447
N
C
Y
448
N
C
Y
449
N
C
Y
450
N
C
N
451
N
O
N
452
N
O
N
453
N
H
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
H
N
463
N
H
N
464
N
N
N
465
S
C
N
466
N
C
N
467
N
O
N
468
N
C
N
469
N
C
N
470
N
C
N
471
N
O
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
H
N
480
N
H
N
481
N
H
N
482
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
Y
11
N
sing
Y
12
N
doub
N
13
N
sing
Y
14
N
doub
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
Y
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
Y
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
Y
29
N
sing
Y
30
N
doub
Y
31
N
sing
N
32
N
sing
N
33
N
sing
Y
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
doub
N
42
N
sing
N
43
N
sing
N
44
N
sing
Y
45
N
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
Y
53
N
sing
Y
54
N
doub
Y
55
N
sing
N
56
N
sing
N
57
N
sing
Y
58
N
sing
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
doub
N
67
N
sing
N
68
N
sing
Y
69
N
doub
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
sing
Y
77
N
sing
Y
78
N
doub
Y
79
N
sing
N
80
N
sing
Y
81
N
doub
N
82
N
sing
Y
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
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
doub
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
doub
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
doub
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
doub
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
doub
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
doub
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
doub
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
doub
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
doub
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
doub
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
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
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
doub
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
Y
236
N
sing
Y
237
N
doub
Y
238
N
doub
N
239
N
sing
Y
240
N
sing
N
241
N
sing
Y
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
doub
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
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
doub
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
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
doub
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
sing
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
N
319
N
sing
N
320
N
doub
N
321
N
sing
N
322
N
sing
N
323
N
sing
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
sing
N
329
N
sing
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
sing
N
335
N
sing
N
336
N
sing
N
337
N
sing
N
338
N
sing
N
339
N
doub
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
Y
344
N
doub
Y
345
N
sing
Y
346
N
sing
N
347
N
sing
Y
348
N
doub
N
349
N
sing
Y
350
N
doub
N
351
N
sing
Y
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
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
doub
N
393
N
sing
N
394
N
sing
N
395
N
sing
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
N
400
N
sing
N
401
N
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
doub
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
Y
413
N
doub
Y
414
N
sing
Y
415
N
sing
N
416
N
sing
Y
417
N
doub
Y
418
N
sing
Y
419
N
sing
N
420
N
sing
Y
421
N
sing
Y
422
N
doub
N
423
N
sing
Y
424
N
doub
N
425
N
sing
Y
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
sing
N
435
N
sing
N
436
N
doub
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
Y
441
N
doub
Y
442
N
sing
Y
443
N
sing
N
444
N
sing
Y
445
N
doub
N
446
N
sing
Y
447
N
doub
N
448
N
sing
Y
449
N
sing
N
450
N
sing
N
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
N
457
N
sing
N
458
N
sing
N
459
N
sing
N
460
N
doub
N
461
N
sing
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
N
466
N
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
N
470
N
sing
N
471
N
sing
UK
Embo J.
EMJODG
0897
0261-4189
22
6225
6233
10.1093/emboj/cdg606
14633982
Structural basis for tetrapyrrole coordination by uroporphyrinogen decarboxylase
2003
10.2210/pdb1r3s/pdb
pdb_00001r3s
100
1
IMAGE PLATE
2003-06-15
RIGAKU RAXIS IV
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RU200
40773.730
Uroporphyrinogen Decarboxylase
4.1.1.37
D86G
1
man
polymer
660.757
COPROPORPHYRINOGEN I
1
syn
non-polymer
18.015
water
384
nat
water
URO-D; UPD
E.C.4.1.1.37
no
no
MEANGLGPQGFPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTLQPLRRFPLDA
AIIFSGILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASELGYVFQAITLTRQRLAGRVPLIGFAGAPWT
LMTYMVEGGGSSTMAQAKRWLYQRPQASHQLLRILTDALVPYLVGQVVAGAQALQLFESHAGHLGPQLFNKFALPYIRDV
AKQVKARLREAGLAPVPMIIFAKDGHFALEELAQAGYEVVGLDWTVAPKKARECVGKTVTLQGNLDPCALYASEEEIGQL
VKQMLDDFGPHRYIANLGHGLYPDMDPEHVGAFVDAVHKHSRLLRQN
MEANGLGPQGFPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTLQPLRRFPLDA
AIIFSGILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASELGYVFQAITLTRQRLAGRVPLIGFAGAPWT
LMTYMVEGGGSSTMAQAKRWLYQRPQASHQLLRILTDALVPYLVGQVVAGAQALQLFESHAGHLGPQLFNKFALPYIRDV
AKQVKARLREAGLAPVPMIIFAKDGHFALEELAQAGYEVVGLDWTVAPKKARECVGKTVTLQGNLDPCALYASEEEIGQL
VKQMLDDFGPHRYIANLGHGLYPDMDPEHVGAFVDAVHKHSRLLRQN
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
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
Homo
Escherichia
sample
9606
Homo sapiens
562
Escherichia coli
plasmid
1
2.31
46.4
LIQUID DIFFUSION
6.5
PBG and PBG-D were added to the protein solution in an anaerobic
chamber. URO-D was active under these conditions, converting uro'gen-I
to cop'gen-I. 1.5 M citrate, pH 6.5, LIQUID DIFFUSION, temperature 294K
294
database_2
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Non-polymer description
Database references
Derived calculations
Data collection
Refinement description
1
0
2003-12-09
1
1
2008-04-29
1
2
2011-07-13
1
3
2014-03-12
1
4
2021-10-27
1
5
2023-08-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Uroporphyrinogen Decarboxylase apo-enzyme structure
RCSB
Y
RCSB
2003-10-03
REL
REL
1CP
COPROPORPHYRINOGEN I
HOH
water
1URO
PDB ENTRY 1URO
PDB
experimental model
1CP
901
2
1CP
1CP
901
A
HOH
1001
3
HOH
HOH
1001
A
HOH
1002
3
HOH
HOH
1002
A
HOH
1004
3
HOH
HOH
1004
A
HOH
1005
3
HOH
HOH
1005
A
HOH
1006
3
HOH
HOH
1006
A
HOH
1007
3
HOH
HOH
1007
A
HOH
1008
3
HOH
HOH
1008
A
HOH
1009
3
HOH
HOH
1009
A
HOH
1010
3
HOH
HOH
1010
A
HOH
1011
3
HOH
HOH
1011
A
HOH
1012
3
HOH
HOH
1012
A
HOH
1013
3
HOH
HOH
1013
A
HOH
1014
3
HOH
HOH
1014
A
HOH
1015
3
HOH
HOH
1015
A
HOH
1016
3
HOH
HOH
1016
A
HOH
1017
3
HOH
HOH
1017
A
HOH
1018
3
HOH
HOH
1018
A
HOH
1019
3
HOH
HOH
1019
A
HOH
1020
3
HOH
HOH
1020
A
HOH
1021
3
HOH
HOH
1021
A
HOH
1022
3
HOH
HOH
1022
A
HOH
1023
3
HOH
HOH
1023
A
HOH
1024
3
HOH
HOH
1024
A
HOH
1025
3
HOH
HOH
1025
A
HOH
1026
3
HOH
HOH
1026
A
HOH
1027
3
HOH
HOH
1027
A
HOH
1028
3
HOH
HOH
1028
A
HOH
1029
3
HOH
HOH
1029
A
HOH
1030
3
HOH
HOH
1030
A
HOH
1031
3
HOH
HOH
1031
A
HOH
1032
3
HOH
HOH
1032
A
HOH
1033
3
HOH
HOH
1033
A
HOH
1034
3
HOH
HOH
1034
A
HOH
1035
3
HOH
HOH
1035
A
HOH
1036
3
HOH
HOH
1036
A
HOH
1037
3
HOH
HOH
1037
A
HOH
1038
3
HOH
HOH
1038
A
HOH
1039
3
HOH
HOH
1039
A
HOH
1040
3
HOH
HOH
1040
A
HOH
1041
3
HOH
HOH
1041
A
HOH
1042
3
HOH
HOH
1042
A
HOH
1043
3
HOH
HOH
1043
A
HOH
1044
3
HOH
HOH
1044
A
HOH
1045
3
HOH
HOH
1045
A
HOH
1046
3
HOH
HOH
1046
A
HOH
1047
3
HOH
HOH
1047
A
HOH
1048
3
HOH
HOH
1048
A
HOH
1049
3
HOH
HOH
1049
A
HOH
1050
3
HOH
HOH
1050
A
HOH
1051
3
HOH
HOH
1051
A
HOH
1052
3
HOH
HOH
1052
A
HOH
1054
3
HOH
HOH
1054
A
HOH
1055
3
HOH
HOH
1055
A
HOH
1056
3
HOH
HOH
1056
A
HOH
1057
3
HOH
HOH
1057
A
HOH
1058
3
HOH
HOH
1058
A
HOH
1059
3
HOH
HOH
1059
A
HOH
1060
3
HOH
HOH
1060
A
HOH
1061
3
HOH
HOH
1061
A
HOH
1062
3
HOH
HOH
1062
A
HOH
1063
3
HOH
HOH
1063
A
HOH
1064
3
HOH
HOH
1064
A
HOH
1065
3
HOH
HOH
1065
A
HOH
1066
3
HOH
HOH
1066
A
HOH
1067
3
HOH
HOH
1067
A
HOH
1069
3
HOH
HOH
1069
A
HOH
1070
3
HOH
HOH
1070
A
HOH
1071
3
HOH
HOH
1071
A
HOH
1072
3
HOH
HOH
1072
A
HOH
1073
3
HOH
HOH
1073
A
HOH
1074
3
HOH
HOH
1074
A
HOH
1075
3
HOH
HOH
1075
A
HOH
1076
3
HOH
HOH
1076
A
HOH
1077
3
HOH
HOH
1077
A
HOH
1078
3
HOH
HOH
1078
A
HOH
1079
3
HOH
HOH
1079
A
HOH
1080
3
HOH
HOH
1080
A
HOH
1081
3
HOH
HOH
1081
A
HOH
1082
3
HOH
HOH
1082
A
HOH
1083
3
HOH
HOH
1083
A
HOH
1084
3
HOH
HOH
1084
A
HOH
1085
3
HOH
HOH
1085
A
HOH
1086
3
HOH
HOH
1086
A
HOH
1087
3
HOH
HOH
1087
A
HOH
1088
3
HOH
HOH
1088
A
HOH
1089
3
HOH
HOH
1089
A
HOH
1090
3
HOH
HOH
1090
A
HOH
1091
3
HOH
HOH
1091
A
HOH
1092
3
HOH
HOH
1092
A
HOH
1093
3
HOH
HOH
1093
A
HOH
1094
3
HOH
HOH
1094
A
HOH
1095
3
HOH
HOH
1095
A
HOH
1096
3
HOH
HOH
1096
A
HOH
1097
3
HOH
HOH
1097
A
HOH
1098
3
HOH
HOH
1098
A
HOH
1099
3
HOH
HOH
1099
A
HOH
1100
3
HOH
HOH
1100
A
HOH
1101
3
HOH
HOH
1101
A
HOH
1102
3
HOH
HOH
1102
A
HOH
1103
3
HOH
HOH
1103
A
HOH
1104
3
HOH
HOH
1104
A
HOH
1105
3
HOH
HOH
1105
A
HOH
1106
3
HOH
HOH
1106
A
HOH
1107
3
HOH
HOH
1107
A
HOH
1108
3
HOH
HOH
1108
A
HOH
1109
3
HOH
HOH
1109
A
HOH
1110
3
HOH
HOH
1110
A
HOH
1111
3
HOH
HOH
1111
A
HOH
1112
3
HOH
HOH
1112
A
HOH
1113
3
HOH
HOH
1113
A
HOH
1114
3
HOH
HOH
1114
A
HOH
1115
3
HOH
HOH
1115
A
HOH
1116
3
HOH
HOH
1116
A
HOH
1117
3
HOH
HOH
1117
A
HOH
1118
3
HOH
HOH
1118
A
HOH
1119
3
HOH
HOH
1119
A
HOH
1120
3
HOH
HOH
1120
A
HOH
1121
3
HOH
HOH
1121
A
HOH
1122
3
HOH
HOH
1122
A
HOH
1123
3
HOH
HOH
1123
A
HOH
1124
3
HOH
HOH
1124
A
HOH
1125
3
HOH
HOH
1125
A
HOH
1126
3
HOH
HOH
1126
A
HOH
1127
3
HOH
HOH
1127
A
HOH
1128
3
HOH
HOH
1128
A
HOH
1129
3
HOH
HOH
1129
A
HOH
1130
3
HOH
HOH
1130
A
HOH
1131
3
HOH
HOH
1131
A
HOH
1132
3
HOH
HOH
1132
A
HOH
1133
3
HOH
HOH
1133
A
HOH
1134
3
HOH
HOH
1134
A
HOH
1135
3
HOH
HOH
1135
A
HOH
1136
3
HOH
HOH
1136
A
HOH
1137
3
HOH
HOH
1137
A
HOH
1138
3
HOH
HOH
1138
A
HOH
1139
3
HOH
HOH
1139
A
HOH
1140
3
HOH
HOH
1140
A
HOH
1141
3
HOH
HOH
1141
A
HOH
1142
3
HOH
HOH
1142
A
HOH
1143
3
HOH
HOH
1143
A
HOH
1144
3
HOH
HOH
1144
A
HOH
1145
3
HOH
HOH
1145
A
HOH
1146
3
HOH
HOH
1146
A
HOH
1147
3
HOH
HOH
1147
A
HOH
1148
3
HOH
HOH
1148
A
HOH
1149
3
HOH
HOH
1149
A
HOH
1150
3
HOH
HOH
1150
A
HOH
1151
3
HOH
HOH
1151
A
HOH
1152
3
HOH
HOH
1152
A
HOH
1153
3
HOH
HOH
1153
A
HOH
1154
3
HOH
HOH
1154
A
HOH
1155
3
HOH
HOH
1155
A
HOH
1156
3
HOH
HOH
1156
A
HOH
1157
3
HOH
HOH
1157
A
HOH
1158
3
HOH
HOH
1158
A
HOH
1159
3
HOH
HOH
1159
A
HOH
1160
3
HOH
HOH
1160
A
HOH
1161
3
HOH
HOH
1161
A
HOH
1162
3
HOH
HOH
1162
A
HOH
1163
3
HOH
HOH
1163
A
HOH
1164
3
HOH
HOH
1164
A
HOH
1165
3
HOH
HOH
1165
A
HOH
1166
3
HOH
HOH
1166
A
HOH
1167
3
HOH
HOH
1167
A
HOH
1168
3
HOH
HOH
1168
A
HOH
1169
3
HOH
HOH
1169
A
HOH
1170
3
HOH
HOH
1170
A
HOH
1171
3
HOH
HOH
1171
A
HOH
1172
3
HOH
HOH
1172
A
HOH
1173
3
HOH
HOH
1173
A
HOH
1174
3
HOH
HOH
1174
A
HOH
1175
3
HOH
HOH
1175
A
HOH
1176
3
HOH
HOH
1176
A
HOH
1177
3
HOH
HOH
1177
A
HOH
1178
3
HOH
HOH
1178
A
HOH
1179
3
HOH
HOH
1179
A
HOH
1180
3
HOH
HOH
1180
A
HOH
1181
3
HOH
HOH
1181
A
HOH
1182
3
HOH
HOH
1182
A
HOH
1183
3
HOH
HOH
1183
A
HOH
1184
3
HOH
HOH
1184
A
HOH
1186
3
HOH
HOH
1186
A
HOH
1187
3
HOH
HOH
1187
A
HOH
1188
3
HOH
HOH
1188
A
HOH
1189
3
HOH
HOH
1189
A
HOH
1190
3
HOH
HOH
1190
A
HOH
1191
3
HOH
HOH
1191
A
HOH
1192
3
HOH
HOH
1192
A
HOH
1193
3
HOH
HOH
1193
A
HOH
1194
3
HOH
HOH
1194
A
HOH
1195
3
HOH
HOH
1195
A
HOH
1196
3
HOH
HOH
1196
A
HOH
1197
3
HOH
HOH
1197
A
HOH
1198
3
HOH
HOH
1198
A
HOH
1199
3
HOH
HOH
1199
A
HOH
1200
3
HOH
HOH
1200
A
HOH
1201
3
HOH
HOH
1201
A
HOH
1202
3
HOH
HOH
1202
A
HOH
1203
3
HOH
HOH
1203
A
HOH
1204
3
HOH
HOH
1204
A
HOH
1205
3
HOH
HOH
1205
A
HOH
1206
3
HOH
HOH
1206
A
HOH
1207
3
HOH
HOH
1207
A
HOH
1208
3
HOH
HOH
1208
A
HOH
1209
3
HOH
HOH
1209
A
HOH
1210
3
HOH
HOH
1210
A
HOH
1211
3
HOH
HOH
1211
A
HOH
1212
3
HOH
HOH
1212
A
HOH
1213
3
HOH
HOH
1213
A
HOH
1214
3
HOH
HOH
1214
A
HOH
1215
3
HOH
HOH
1215
A
HOH
1216
3
HOH
HOH
1216
A
HOH
1217
3
HOH
HOH
1217
A
HOH
1218
3
HOH
HOH
1218
A
HOH
1219
3
HOH
HOH
1219
A
HOH
1221
3
HOH
HOH
1221
A
HOH
1222
3
HOH
HOH
1222
A
HOH
1223
3
HOH
HOH
1223
A
HOH
1224
3
HOH
HOH
1224
A
HOH
1225
3
HOH
HOH
1225
A
HOH
1226
3
HOH
HOH
1226
A
HOH
1227
3
HOH
HOH
1227
A
HOH
1228
3
HOH
HOH
1228
A
HOH
1229
3
HOH
HOH
1229
A
HOH
1230
3
HOH
HOH
1230
A
HOH
1231
3
HOH
HOH
1231
A
HOH
1232
3
HOH
HOH
1232
A
HOH
1233
3
HOH
HOH
1233
A
HOH
1234
3
HOH
HOH
1234
A
HOH
1235
3
HOH
HOH
1235
A
HOH
1236
3
HOH
HOH
1236
A
HOH
1237
3
HOH
HOH
1237
A
HOH
1238
3
HOH
HOH
1238
A
HOH
1239
3
HOH
HOH
1239
A
HOH
1240
3
HOH
HOH
1240
A
HOH
1241
3
HOH
HOH
1241
A
HOH
1242
3
HOH
HOH
1242
A
HOH
1243
3
HOH
HOH
1243
A
HOH
1244
3
HOH
HOH
1244
A
HOH
1245
3
HOH
HOH
1245
A
HOH
1246
3
HOH
HOH
1246
A
HOH
1247
3
HOH
HOH
1247
A
HOH
1248
3
HOH
HOH
1248
A
HOH
1249
3
HOH
HOH
1249
A
HOH
1250
3
HOH
HOH
1250
A
HOH
1251
3
HOH
HOH
1251
A
HOH
1252
3
HOH
HOH
1252
A
HOH
1253
3
HOH
HOH
1253
A
HOH
1254
3
HOH
HOH
1254
A
HOH
1255
3
HOH
HOH
1255
A
HOH
1256
3
HOH
HOH
1256
A
HOH
1257
3
HOH
HOH
1257
A
HOH
1258
3
HOH
HOH
1258
A
HOH
1259
3
HOH
HOH
1259
A
HOH
1260
3
HOH
HOH
1260
A
HOH
1261
3
HOH
HOH
1261
A
HOH
1262
3
HOH
HOH
1262
A
HOH
1263
3
HOH
HOH
1263
A
HOH
1264
3
HOH
HOH
1264
A
HOH
1265
3
HOH
HOH
1265
A
HOH
1266
3
HOH
HOH
1266
A
HOH
1267
3
HOH
HOH
1267
A
HOH
1268
3
HOH
HOH
1268
A
HOH
1269
3
HOH
HOH
1269
A
HOH
1270
3
HOH
HOH
1270
A
HOH
1271
3
HOH
HOH
1271
A
HOH
1272
3
HOH
HOH
1272
A
HOH
1273
3
HOH
HOH
1273
A
HOH
1274
3
HOH
HOH
1274
A
HOH
1275
3
HOH
HOH
1275
A
HOH
1276
3
HOH
HOH
1276
A
HOH
1277
3
HOH
HOH
1277
A
HOH
1278
3
HOH
HOH
1278
A
HOH
1279
3
HOH
HOH
1279
A
HOH
1281
3
HOH
HOH
1281
A
HOH
1282
3
HOH
HOH
1282
A
HOH
1283
3
HOH
HOH
1283
A
HOH
1284
3
HOH
HOH
1284
A
HOH
1285
3
HOH
HOH
1285
A
HOH
1286
3
HOH
HOH
1286
A
HOH
1291
3
HOH
HOH
1291
A
HOH
1292
3
HOH
HOH
1292
A
HOH
1295
3
HOH
HOH
1295
A
HOH
1296
3
HOH
HOH
1296
A
HOH
1297
3
HOH
HOH
1297
A
HOH
1298
3
HOH
HOH
1298
A
HOH
1299
3
HOH
HOH
1299
A
HOH
1301
3
HOH
HOH
1301
A
HOH
1302
3
HOH
HOH
1302
A
HOH
1303
3
HOH
HOH
1303
A
HOH
1304
3
HOH
HOH
1304
A
HOH
1305
3
HOH
HOH
1305
A
HOH
1306
3
HOH
HOH
1306
A
HOH
1307
3
HOH
HOH
1307
A
HOH
1308
3
HOH
HOH
1308
A
HOH
1309
3
HOH
HOH
1309
A
HOH
1310
3
HOH
HOH
1310
A
HOH
1311
3
HOH
HOH
1311
A
HOH
1312
3
HOH
HOH
1312
A
HOH
1313
3
HOH
HOH
1313
A
HOH
1314
3
HOH
HOH
1314
A
HOH
1315
3
HOH
HOH
1315
A
HOH
1316
3
HOH
HOH
1316
A
HOH
1317
3
HOH
HOH
1317
A
HOH
1318
3
HOH
HOH
1318
A
HOH
1319
3
HOH
HOH
1319
A
HOH
1320
3
HOH
HOH
1320
A
HOH
1321
3
HOH
HOH
1321
A
HOH
1322
3
HOH
HOH
1322
A
HOH
1323
3
HOH
HOH
1323
A
HOH
1324
3
HOH
HOH
1324
A
HOH
1325
3
HOH
HOH
1325
A
HOH
1326
3
HOH
HOH
1326
A
HOH
1327
3
HOH
HOH
1327
A
HOH
1328
3
HOH
HOH
1328
A
HOH
1329
3
HOH
HOH
1329
A
HOH
1330
3
HOH
HOH
1330
A
HOH
1331
3
HOH
HOH
1331
A
HOH
1332
3
HOH
HOH
1332
A
HOH
1333
3
HOH
HOH
1333
A
HOH
1334
3
HOH
HOH
1334
A
HOH
1335
3
HOH
HOH
1335
A
HOH
1336
3
HOH
HOH
1336
A
HOH
1339
3
HOH
HOH
1339
A
HOH
1340
3
HOH
HOH
1340
A
HOH
1341
3
HOH
HOH
1341
A
HOH
1342
3
HOH
HOH
1342
A
HOH
1343
3
HOH
HOH
1343
A
HOH
1344
3
HOH
HOH
1344
A
HOH
1345
3
HOH
HOH
1345
A
HOH
1346
3
HOH
HOH
1346
A
HOH
1347
3
HOH
HOH
1347
A
HOH
1348
3
HOH
HOH
1348
A
HOH
1349
3
HOH
HOH
1349
A
HOH
1350
3
HOH
HOH
1350
A
HOH
1351
3
HOH
HOH
1351
A
HOH
1352
3
HOH
HOH
1352
A
HOH
1353
3
HOH
HOH
1353
A
HOH
1354
3
HOH
HOH
1354
A
HOH
1355
3
HOH
HOH
1355
A
HOH
1356
3
HOH
HOH
1356
A
HOH
1357
3
HOH
HOH
1357
A
HOH
1359
3
HOH
HOH
1359
A
HOH
1360
3
HOH
HOH
1360
A
HOH
1361
3
HOH
HOH
1361
A
HOH
1362
3
HOH
HOH
1362
A
HOH
1363
3
HOH
HOH
1363
A
HOH
1364
3
HOH
HOH
1364
A
HOH
1365
3
HOH
HOH
1365
A
HOH
1366
3
HOH
HOH
1366
A
HOH
1368
3
HOH
HOH
1368
A
HOH
1369
3
HOH
HOH
1369
A
HOH
1370
3
HOH
HOH
1370
A
HOH
1371
3
HOH
HOH
1371
A
HOH
1372
3
HOH
HOH
1372
A
HOH
1373
3
HOH
HOH
1373
A
HOH
1374
3
HOH
HOH
1374
A
HOH
1375
3
HOH
HOH
1375
A
HOH
1376
3
HOH
HOH
1376
A
HOH
1377
3
HOH
HOH
1377
A
HOH
1378
3
HOH
HOH
1378
A
HOH
1379
3
HOH
HOH
1379
A
HOH
1380
3
HOH
HOH
1380
A
HOH
1381
3
HOH
HOH
1381
A
HOH
1382
3
HOH
HOH
1382
A
HOH
1383
3
HOH
HOH
1383
A
HOH
1384
3
HOH
HOH
1384
A
HOH
1385
3
HOH
HOH
1385
A
HOH
1386
3
HOH
HOH
1386
A
HOH
1387
3
HOH
HOH
1387
A
HOH
1388
3
HOH
HOH
1388
A
HOH
1389
3
HOH
HOH
1389
A
HOH
1390
3
HOH
HOH
1390
A
HOH
1391
3
HOH
HOH
1391
A
HOH
1392
3
HOH
HOH
1392
A
HOH
1393
3
HOH
HOH
1393
A
HOH
1394
3
HOH
HOH
1394
A
HOH
1395
3
HOH
HOH
1395
A
HOH
4001
3
HOH
HOH
4001
A
HOH
4002
3
HOH
HOH
4002
A
HOH
4003
3
HOH
HOH
4003
A
HOH
4004
3
HOH
HOH
4004
A
HOH
4005
3
HOH
HOH
4005
A
HOH
4006
3
HOH
HOH
4006
A
n
1
1
A
n
2
2
A
n
3
3
A
n
4
4
A
n
5
5
A
n
6
6
A
n
7
7
A
n
8
8
A
n
9
9
A
n
10
10
A
PHE
11
n
11
PHE
11
A
PRO
12
n
12
PRO
12
A
GLU
13
n
13
GLU
13
A
LEU
14
n
14
LEU
14
A
LYS
15
n
15
LYS
15
A
ASN
16
n
16
ASN
16
A
ASP
17
n
17
ASP
17
A
THR
18
n
18
THR
18
A
PHE
19
n
19
PHE
19
A
LEU
20
n
20
LEU
20
A
ARG
21
n
21
ARG
21
A
ALA
22
n
22
ALA
22
A
ALA
23
n
23
ALA
23
A
TRP
24
n
24
TRP
24
A
GLY
25
n
25
GLY
25
A
GLU
26
n
26
GLU
26
A
GLU
27
n
27
GLU
27
A
THR
28
n
28
THR
28
A
ASP
29
n
29
ASP
29
A
TYR
30
n
30
TYR
30
A
THR
31
n
31
THR
31
A
PRO
32
n
32
PRO
32
A
VAL
33
n
33
VAL
33
A
TRP
34
n
34
TRP
34
A
CYS
35
n
35
CYS
35
A
MET
36
n
36
MET
36
A
ARG
37
n
37
ARG
37
A
GLN
38
n
38
GLN
38
A
ALA
39
n
39
ALA
39
A
GLY
40
n
40
GLY
40
A
ARG
41
n
41
ARG
41
A
TYR
42
n
42
TYR
42
A
LEU
43
n
43
LEU
43
A
PRO
44
n
44
PRO
44
A
GLU
45
n
45
GLU
45
A
PHE
46
n
46
PHE
46
A
ARG
47
n
47
ARG
47
A
GLU
48
n
48
GLU
48
A
THR
49
n
49
THR
49
A
ARG
50
n
50
ARG
50
A
ALA
51
n
51
ALA
51
A
ALA
52
n
52
ALA
52
A
GLN
53
n
53
GLN
53
A
ASP
54
n
54
ASP
54
A
PHE
55
n
55
PHE
55
A
PHE
56
n
56
PHE
56
A
SER
57
n
57
SER
57
A
THR
58
n
58
THR
58
A
CYS
59
n
59
CYS
59
A
ARG
60
n
60
ARG
60
A
SER
61
n
61
SER
61
A
PRO
62
n
62
PRO
62
A
GLU
63
n
63
GLU
63
A
ALA
64
n
64
ALA
64
A
CYS
65
n
65
CYS
65
A
CYS
66
n
66
CYS
66
A
GLU
67
n
67
GLU
67
A
LEU
68
n
68
LEU
68
A
THR
69
n
69
THR
69
A
LEU
70
n
70
LEU
70
A
GLN
71
n
71
GLN
71
A
PRO
72
n
72
PRO
72
A
LEU
73
n
73
LEU
73
A
ARG
74
n
74
ARG
74
A
ARG
75
n
75
ARG
75
A
PHE
76
n
76
PHE
76
A
PRO
77
n
77
PRO
77
A
LEU
78
n
78
LEU
78
A
ASP
79
n
79
ASP
79
A
ALA
80
n
80
ALA
80
A
ALA
81
n
81
ALA
81
A
ILE
82
n
82
ILE
82
A
ILE
83
n
83
ILE
83
A
PHE
84
n
84
PHE
84
A
SER
85
n
85
SER
85
A
GLY
86
n
86
GLY
86
A
ILE
87
n
87
ILE
87
A
LEU
88
n
88
LEU
88
A
VAL
89
n
89
VAL
89
A
VAL
90
n
90
VAL
90
A
PRO
91
n
91
PRO
91
A
GLN
92
n
92
GLN
92
A
ALA
93
n
93
ALA
93
A
LEU
94
n
94
LEU
94
A
GLY
95
n
95
GLY
95
A
MET
96
n
96
MET
96
A
GLU
97
n
97
GLU
97
A
VAL
98
n
98
VAL
98
A
THR
99
n
99
THR
99
A
MET
100
n
100
MET
100
A
VAL
101
n
101
VAL
101
A
PRO
102
n
102
PRO
102
A
GLY
103
n
103
GLY
103
A
LYS
104
n
104
LYS
104
A
GLY
105
n
105
GLY
105
A
PRO
106
n
106
PRO
106
A
SER
107
n
107
SER
107
A
PHE
108
n
108
PHE
108
A
PRO
109
n
109
PRO
109
A
GLU
110
n
110
GLU
110
A
PRO
111
n
111
PRO
111
A
LEU
112
n
112
LEU
112
A
ARG
113
n
113
ARG
113
A
GLU
114
n
114
GLU
114
A
GLU
115
n
115
GLU
115
A
GLN
116
n
116
GLN
116
A
ASP
117
n
117
ASP
117
A
LEU
118
n
118
LEU
118
A
GLU
119
n
119
GLU
119
A
ARG
120
n
120
ARG
120
A
LEU
121
n
121
LEU
121
A
ARG
122
n
122
ARG
122
A
ASP
123
n
123
ASP
123
A
PRO
124
n
124
PRO
124
A
GLU
125
n
125
GLU
125
A
VAL
126
n
126
VAL
126
A
VAL
127
n
127
VAL
127
A
ALA
128
n
128
ALA
128
A
SER
129
n
129
SER
129
A
GLU
130
n
130
GLU
130
A
LEU
131
n
131
LEU
131
A
GLY
132
n
132
GLY
132
A
TYR
133
n
133
TYR
133
A
VAL
134
n
134
VAL
134
A
PHE
135
n
135
PHE
135
A
GLN
136
n
136
GLN
136
A
ALA
137
n
137
ALA
137
A
ILE
138
n
138
ILE
138
A
THR
139
n
139
THR
139
A
LEU
140
n
140
LEU
140
A
THR
141
n
141
THR
141
A
ARG
142
n
142
ARG
142
A
GLN
143
n
143
GLN
143
A
ARG
144
n
144
ARG
144
A
LEU
145
n
145
LEU
145
A
ALA
146
n
146
ALA
146
A
GLY
147
n
147
GLY
147
A
ARG
148
n
148
ARG
148
A
VAL
149
n
149
VAL
149
A
PRO
150
n
150
PRO
150
A
LEU
151
n
151
LEU
151
A
ILE
152
n
152
ILE
152
A
GLY
153
n
153
GLY
153
A
PHE
154
n
154
PHE
154
A
ALA
155
n
155
ALA
155
A
GLY
156
n
156
GLY
156
A
ALA
157
n
157
ALA
157
A
PRO
158
n
158
PRO
158
A
TRP
159
n
159
TRP
159
A
THR
160
n
160
THR
160
A
LEU
161
n
161
LEU
161
A
MET
162
n
162
MET
162
A
THR
163
n
163
THR
163
A
TYR
164
n
164
TYR
164
A
MET
165
n
165
MET
165
A
VAL
166
n
166
VAL
166
A
GLU
167
n
167
GLU
167
A
GLY
168
n
168
GLY
168
A
GLY
169
n
169
GLY
169
A
GLY
170
n
170
GLY
170
A
SER
171
n
171
SER
171
A
SER
172
n
172
SER
172
A
THR
173
n
173
THR
173
A
MET
174
n
174
MET
174
A
ALA
175
n
175
ALA
175
A
GLN
176
n
176
GLN
176
A
ALA
177
n
177
ALA
177
A
LYS
178
n
178
LYS
178
A
ARG
179
n
179
ARG
179
A
TRP
180
n
180
TRP
180
A
LEU
181
n
181
LEU
181
A
TYR
182
n
182
TYR
182
A
GLN
183
n
183
GLN
183
A
ARG
184
n
184
ARG
184
A
PRO
185
n
185
PRO
185
A
GLN
186
n
186
GLN
186
A
ALA
187
n
187
ALA
187
A
SER
188
n
188
SER
188
A
HIS
189
n
189
HIS
189
A
GLN
190
n
190
GLN
190
A
LEU
191
n
191
LEU
191
A
LEU
192
n
192
LEU
192
A
ARG
193
n
193
ARG
193
A
ILE
194
n
194
ILE
194
A
LEU
195
n
195
LEU
195
A
THR
196
n
196
THR
196
A
ASP
197
n
197
ASP
197
A
ALA
198
n
198
ALA
198
A
LEU
199
n
199
LEU
199
A
VAL
200
n
200
VAL
200
A
PRO
201
n
201
PRO
201
A
TYR
202
n
202
TYR
202
A
LEU
203
n
203
LEU
203
A
VAL
204
n
204
VAL
204
A
GLY
205
n
205
GLY
205
A
GLN
206
n
206
GLN
206
A
VAL
207
n
207
VAL
207
A
VAL
208
n
208
VAL
208
A
ALA
209
n
209
ALA
209
A
GLY
210
n
210
GLY
210
A
ALA
211
n
211
ALA
211
A
GLN
212
n
212
GLN
212
A
ALA
213
n
213
ALA
213
A
LEU
214
n
214
LEU
214
A
GLN
215
n
215
GLN
215
A
LEU
216
n
216
LEU
216
A
PHE
217
n
217
PHE
217
A
GLU
218
n
218
GLU
218
A
SER
219
n
219
SER
219
A
HIS
220
n
220
HIS
220
A
ALA
221
n
221
ALA
221
A
GLY
222
n
222
GLY
222
A
HIS
223
n
223
HIS
223
A
LEU
224
n
224
LEU
224
A
GLY
225
n
225
GLY
225
A
PRO
226
n
226
PRO
226
A
GLN
227
n
227
GLN
227
A
LEU
228
n
228
LEU
228
A
PHE
229
n
229
PHE
229
A
ASN
230
n
230
ASN
230
A
LYS
231
n
231
LYS
231
A
PHE
232
n
232
PHE
232
A
ALA
233
n
233
ALA
233
A
LEU
234
n
234
LEU
234
A
PRO
235
n
235
PRO
235
A
TYR
236
n
236
TYR
236
A
ILE
237
n
237
ILE
237
A
ARG
238
n
238
ARG
238
A
ASP
239
n
239
ASP
239
A
VAL
240
n
240
VAL
240
A
ALA
241
n
241
ALA
241
A
LYS
242
n
242
LYS
242
A
GLN
243
n
243
GLN
243
A
VAL
244
n
244
VAL
244
A
LYS
245
n
245
LYS
245
A
ALA
246
n
246
ALA
246
A
ARG
247
n
247
ARG
247
A
LEU
248
n
248
LEU
248
A
ARG
249
n
249
ARG
249
A
GLU
250
n
250
GLU
250
A
ALA
251
n
251
ALA
251
A
GLY
252
n
252
GLY
252
A
LEU
253
n
253
LEU
253
A
ALA
254
n
254
ALA
254
A
PRO
255
n
255
PRO
255
A
VAL
256
n
256
VAL
256
A
PRO
257
n
257
PRO
257
A
MET
258
n
258
MET
258
A
ILE
259
n
259
ILE
259
A
ILE
260
n
260
ILE
260
A
PHE
261
n
261
PHE
261
A
ALA
262
n
262
ALA
262
A
LYS
263
n
263
LYS
263
A
ASP
264
n
264
ASP
264
A
GLY
265
n
265
GLY
265
A
HIS
266
n
266
HIS
266
A
PHE
267
n
267
PHE
267
A
ALA
268
n
268
ALA
268
A
LEU
269
n
269
LEU
269
A
GLU
270
n
270
GLU
270
A
GLU
271
n
271
GLU
271
A
LEU
272
n
272
LEU
272
A
ALA
273
n
273
ALA
273
A
GLN
274
n
274
GLN
274
A
ALA
275
n
275
ALA
275
A
GLY
276
n
276
GLY
276
A
TYR
277
n
277
TYR
277
A
GLU
278
n
278
GLU
278
A
VAL
279
n
279
VAL
279
A
VAL
280
n
280
VAL
280
A
GLY
281
n
281
GLY
281
A
LEU
282
n
282
LEU
282
A
ASP
283
n
283
ASP
283
A
TRP
284
n
284
TRP
284
A
THR
285
n
285
THR
285
A
VAL
286
n
286
VAL
286
A
ALA
287
n
287
ALA
287
A
PRO
288
n
288
PRO
288
A
LYS
289
n
289
LYS
289
A
LYS
290
n
290
LYS
290
A
ALA
291
n
291
ALA
291
A
ARG
292
n
292
ARG
292
A
GLU
293
n
293
GLU
293
A
CYS
294
n
294
CYS
294
A
VAL
295
n
295
VAL
295
A
GLY
296
n
296
GLY
296
A
LYS
297
n
297
LYS
297
A
THR
298
n
298
THR
298
A
VAL
299
n
299
VAL
299
A
THR
300
n
300
THR
300
A
LEU
301
n
301
LEU
301
A
GLN
302
n
302
GLN
302
A
GLY
303
n
303
GLY
303
A
ASN
304
n
304
ASN
304
A
LEU
305
n
305
LEU
305
A
ASP
306
n
306
ASP
306
A
PRO
307
n
307
PRO
307
A
CYS
308
n
308
CYS
308
A
ALA
309
n
309
ALA
309
A
LEU
310
n
310
LEU
310
A
TYR
311
n
311
TYR
311
A
ALA
312
n
312
ALA
312
A
SER
313
n
313
SER
313
A
GLU
314
n
314
GLU
314
A
GLU
315
n
315
GLU
315
A
GLU
316
n
316
GLU
316
A
ILE
317
n
317
ILE
317
A
GLY
318
n
318
GLY
318
A
GLN
319
n
319
GLN
319
A
LEU
320
n
320
LEU
320
A
VAL
321
n
321
VAL
321
A
LYS
322
n
322
LYS
322
A
GLN
323
n
323
GLN
323
A
MET
324
n
324
MET
324
A
LEU
325
n
325
LEU
325
A
ASP
326
n
326
ASP
326
A
ASP
327
n
327
ASP
327
A
PHE
328
n
328
PHE
328
A
GLY
329
n
329
GLY
329
A
PRO
330
n
330
PRO
330
A
HIS
331
n
331
HIS
331
A
ARG
332
n
332
ARG
332
A
TYR
333
n
333
TYR
333
A
ILE
334
n
334
ILE
334
A
ALA
335
n
335
ALA
335
A
ASN
336
n
336
ASN
336
A
LEU
337
n
337
LEU
337
A
GLY
338
n
338
GLY
338
A
HIS
339
n
339
HIS
339
A
GLY
340
n
340
GLY
340
A
LEU
341
n
341
LEU
341
A
TYR
342
n
342
TYR
342
A
PRO
343
n
343
PRO
343
A
ASP
344
n
344
ASP
344
A
MET
345
n
345
MET
345
A
ASP
346
n
346
ASP
346
A
PRO
347
n
347
PRO
347
A
GLU
348
n
348
GLU
348
A
HIS
349
n
349
HIS
349
A
VAL
350
n
350
VAL
350
A
GLY
351
n
351
GLY
351
A
ALA
352
n
352
ALA
352
A
PHE
353
n
353
PHE
353
A
VAL
354
n
354
VAL
354
A
ASP
355
n
355
ASP
355
A
ALA
356
n
356
ALA
356
A
VAL
357
n
357
VAL
357
A
HIS
358
n
358
HIS
358
A
LYS
359
n
359
LYS
359
A
HIS
360
n
360
HIS
360
A
SER
361
n
361
SER
361
A
ARG
362
n
362
ARG
362
A
LEU
363
n
363
LEU
363
A
LEU
364
n
364
LEU
364
A
ARG
365
n
365
ARG
365
A
GLN
366
n
366
GLN
366
A
n
367
367
A
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
-0.5000000000
-0.8660254038
0.0000000000
0.8660254038
-0.5000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
2_665
-y+1,x-y+1,z+1/3
crystal symmetry operation
51.4735000000
89.1547172434
24.1950000000
A
N
ALA
81
A
N
ALA
81
A
O
ILE
152
A
O
ILE
152
A
N
GLY
153
A
N
GLY
153
A
O
ALA
213
A
O
ALA
213
A
N
LEU
216
A
N
LEU
216
A
O
ILE
259
A
O
ILE
259
A
N
ILE
260
A
N
ILE
260
A
O
GLY
281
A
O
GLY
281
A
N
VAL
280
A
N
VAL
280
A
O
THR
300
A
O
THR
300
A
N
LEU
301
A
N
LEU
301
A
O
ILE
334
A
O
ILE
334
A
N
THR
99
A
N
THR
99
A
O
SER
107
A
O
SER
107
1
A
CA
LEU
73
A
A
CA
LEU
73
0
Y
1
A
MET
1
A
MET
1
1
Y
1
A
GLU
2
A
GLU
2
1
Y
1
A
ALA
3
A
ALA
3
1
Y
1
A
ASN
4
A
ASN
4
1
Y
1
A
GLY
5
A
GLY
5
1
Y
1
A
LEU
6
A
LEU
6
1
Y
1
A
GLY
7
A
GLY
7
1
Y
1
A
PRO
8
A
PRO
8
1
Y
1
A
GLN
9
A
GLN
9
1
Y
1
A
GLY
10
A
GLY
10
1
Y
1
A
ASN
367
A
ASN
367
1
Y
1
A
A
O
O
HOH
HOH
1334
1335
1.87
1
A
A
N
O
PHE
HOH
11
1283
1.93
1
A
A
O
O
HOH
HOH
1203
1254
2.04
1
A
A
OE2
O
GLU
HOH
278
1307
2.05
1
A
A
O
O
HOH
HOH
1188
1308
2.08
1
A
A
O
O
HOH
HOH
1254
1308
2.15
1
A
A
OE1
O
GLU
HOH
271
1344
2.17
B
1
A
ALA
254
-10.75
1
15.10
2.00
110.40
125.50
A
A
A
N
CA
CB
LEU
LEU
LEU
73
73
73
A
A
A
N
1
5.61
0.90
118.30
123.91
A
A
A
CB
CG
OD2
ASP
ASP
ASP
79
79
79
N
1
5.45
0.90
118.30
123.75
A
A
A
CB
CG
OD1
ASP
ASP
ASP
123
123
123
N
1
A
A
CA
C
LEU
LEU
73
73
0.329
0.026
1.525
1.854
A
A
N
1
A
A
CD2
CD2
HIS
HIS
266
266
2.02
1_555
5_676
1
A
A
O
O
HOH
HOH
1339
1340
2.08
1_555
5_676
1
A
SER
85
-165.28
-162.65
1
A
PRO
102
-37.01
97.48
1
A
ASN
304
-145.11
31.18
1
A
HIS
339
-170.69
-177.32
23.050
-1.53
-0.76
0.00
-1.53
0.00
2.29
0.971
0.963
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.19
0.16255
0.16321
0.16321
1.65
87.71
1290
51831
50541
2.5
96.64
1.615
0.054
RANDOM
1
THROUGHOUT
0.0
FOURIER SYNTHESIS
0.083
0.083
0.80
0.80
1.40
PDB ENTRY 1URO
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
1.65
87.71
384
3226
48
0
2794
0.014
0.021
3142
0.002
0.020
2869
1.845
1.972
4299
0.891
3.000
6656
5.584
5.000
395
0.094
0.200
446
0.009
0.020
3630
0.010
0.020
676
0.228
0.200
809
0.244
0.200
3591
0.084
0.200
1825
0.210
0.200
283
0.396
0.200
23
0.357
0.200
64
0.181
0.200
36
0.944
1.500
1904
1.734
2.000
3084
2.602
3.000
1238
4.311
4.500
1215
0.312
0.318
1.739
170
5992
10
1.65
87.71
1R3S
51831
51831
0.0
0.0
0.072
0.072
1
10
5
97
0.236
1.65
1.71
1.8
0.236
1
5
80
data reduction
DENZO
data scaling
SCALEPACK
refinement
REFMAC
Uroporphyrinogen Decarboxylase single mutant D86G in complex with coproporphyrinogen-I
1
N
N
2
N
N
3
N
N
URO-D is a dimer in solution and in the crystal. The dimer is formed by the
2-fold crystallographic rotation.
A
ASP
17
A
ASP
17
HELX_P
A
GLY
25
A
GLY
25
1
1
9
A
LEU
43
A
LEU
43
HELX_P
A
ALA
52
A
ALA
52
1
2
10
A
ASP
54
A
ASP
54
HELX_P
A
ARG
60
A
ARG
60
1
3
7
A
SER
61
A
SER
61
HELX_P
A
PHE
76
A
PHE
76
1
4
16
A
LEU
88
A
LEU
88
HELX_P
A
LEU
94
A
LEU
94
1
5
7
A
GLU
114
A
GLU
114
HELX_P
A
LEU
121
A
LEU
121
5
6
8
A
ASP
123
A
ASP
123
HELX_P
A
GLU
125
A
GLU
125
5
7
3
A
VAL
126
A
VAL
126
HELX_P
A
LEU
131
A
LEU
131
1
8
6
A
LEU
131
A
LEU
131
HELX_P
A
ALA
146
A
ALA
146
1
9
16
A
ALA
157
A
ALA
157
HELX_P
A
GLY
168
A
GLY
168
1
10
12
A
MET
174
A
MET
174
HELX_P
A
ARG
184
A
ARG
184
1
11
11
A
ARG
184
A
ARG
184
HELX_P
A
ALA
209
A
ALA
209
1
12
26
A
HIS
220
A
HIS
220
HELX_P
A
LEU
224
A
LEU
224
5
13
5
A
GLY
225
A
GLY
225
HELX_P
A
ALA
233
A
ALA
233
1
14
9
A
ALA
233
A
ALA
233
HELX_P
A
ALA
251
A
ALA
251
1
15
19
A
GLY
265
A
GLY
265
HELX_P
A
PHE
267
A
PHE
267
5
16
3
A
ALA
268
A
ALA
268
HELX_P
A
ALA
273
A
ALA
273
1
17
6
A
ALA
287
A
ALA
287
HELX_P
A
GLY
296
A
GLY
296
1
18
10
A
ASP
306
A
ASP
306
HELX_P
A
ALA
312
A
ALA
312
5
19
7
A
SER
313
A
SER
313
HELX_P
A
GLY
329
A
GLY
329
1
20
17
A
ASP
346
A
ASP
346
HELX_P
A
GLN
366
A
GLN
366
1
21
21
LYASE
uroporphyrinogen decarboxylase coproporphyrinogen; X-ray crystallography, LYASE
A
GLY
303
A
GLY
303
1
A
ASN
304
A
ASN
304
-2.85
DCUP_HUMAN
UNP
1
1
P06132
MEANGLGPQGFPELKNDTFLRAAWGEETDYTPVWCMRQAGRYLPEFRETRAAQDFFSTCRSPEACCELTLQPLRRFPLDA
AIIFSDILVVPQALGMEVTMVPGKGPSFPEPLREEQDLERLRDPEVVASELGYVFQAITLTRQRLAGRVPLIGFAGAPWT
LMTYMVEGGGSSTMAQAKRWLYQRPQASHQLLRILTDALVPYLVGQVVAGAQALQLFESHAGHLGPQLFNKFALPYIRDV
AKQVKARLREAGLAPVPMIIFAKDGHFALEELAQAGYEVVGLDWTVAPKKARECVGKTVTLQGNLDPCALYASEEEIGQL
VKQMLDDFGPHRYIANLGHGLYPDMDPEHVGAFVDAVHKHSRLLRQN
1
367
1R3S
1
367
P06132
A
1
1
367
1
ASP
engineered mutation
GLY
86
1R3S
A
P06132
UNP
86
86
7
2
parallel
parallel
parallel
parallel
parallel
parallel
anti-parallel
A
ALA
81
A
ALA
81
A
ILE
82
A
ILE
82
A
LEU
151
A
LEU
151
A
GLY
156
A
GLY
156
A
ALA
213
A
ALA
213
A
GLU
218
A
GLU
218
A
MET
258
A
MET
258
A
ALA
262
A
ALA
262
A
VAL
279
A
VAL
279
A
GLY
281
A
GLY
281
A
THR
300
A
THR
300
A
LEU
305
A
LEU
305
A
TYR
333
A
TYR
333
A
LEU
337
A
LEU
337
A
THR
99
A
THR
99
A
VAL
101
A
VAL
101
A
GLY
105
A
GLY
105
A
SER
107
A
SER
107
BINDING SITE FOR RESIDUE 1CP A 901
A
1CP
901
Software
28
A
ARG
37
A
ARG
37
28
1_555
A
GLN
38
A
GLN
38
28
1_555
A
ALA
39
A
ALA
39
28
1_555
A
ARG
41
A
ARG
41
28
1_555
A
PHE
46
A
PHE
46
28
1_555
A
ARG
50
A
ARG
50
28
1_555
A
PHE
55
A
PHE
55
28
1_555
A
ILE
82
A
ILE
82
28
1_555
A
ILE
83
A
ILE
83
28
1_555
A
SER
85
A
SER
85
28
1_555
A
ILE
87
A
ILE
87
28
1_555
A
MET
100
A
MET
100
28
1_555
A
PHE
154
A
PHE
154
28
1_555
A
TYR
164
A
TYR
164
28
1_555
A
PHE
217
A
PHE
217
28
1_555
A
SER
219
A
SER
219
28
1_555
A
PHE
261
A
PHE
261
28
1_555
A
HIS
339
A
HIS
339
28
1_555
A
HOH
1191
C
HOH
28
1_555
A
HOH
1291
C
HOH
28
1_555
A
HOH
1333
C
HOH
28
1_555
A
HOH
1334
C
HOH
28
1_555
A
HOH
1362
C
HOH
28
1_555
A
HOH
1383
C
HOH
28
1_555
A
HOH
1384
C
HOH
28
1_555
A
HOH
1387
C
HOH
28
1_555
A
HOH
1388
C
HOH
28
1_555
A
HOH
1389
C
HOH
28
1_555
152
trigonal
P 31 2 1