0.011428
0.000000
0.000000
0.000000
0.013175
0.000000
0.000000
0.000000
0.019960
0.00000
0.00000
0.00000
Helliwell, J.R.
Nieh, Y.P.
Raftery, J.
Cassetta, A.
Habash, J.
Carr, P.D.
Ursby, T.
Wulff, M.
Thompson, A.W.
Niemann, A.C.
Haedener, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
87.500
75.900
50.100
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
C20 H24 N2 O8
420.413
3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid
DIPYRROMETHANE COFACTOR
non-polymer
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
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
Y
88
N
C
Y
89
N
C
Y
90
N
C
Y
91
N
C
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
C
N
96
N
C
N
97
N
C
Y
98
N
N
N
99
N
O
N
100
N
O
N
101
N
O
N
102
N
O
Y
103
N
C
Y
104
N
C
Y
105
N
C
Y
106
N
C
N
107
N
C
N
108
N
C
N
109
N
C
N
110
N
C
N
111
N
C
N
112
N
C
Y
113
N
N
N
114
N
O
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
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
N
N
143
S
C
N
144
N
C
N
145
N
O
N
146
N
C
N
147
N
C
N
148
N
C
N
149
N
O
N
150
N
N
N
151
N
O
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
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
N
N
163
S
C
N
164
N
C
N
165
N
O
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
O
N
171
N
O
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
H
N
181
N
N
N
182
N
C
N
183
N
C
N
184
N
O
N
185
N
O
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
N
N
192
S
C
N
193
N
C
N
194
N
O
N
195
N
C
Y
196
N
C
Y
197
N
N
Y
198
N
C
Y
199
N
C
Y
200
N
N
N
201
N
O
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
O
N
213
N
H
N
214
N
H
N
215
N
N
N
216
S
C
N
217
N
C
N
218
N
O
N
219
S
C
N
220
N
C
N
221
N
C
N
222
N
C
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
H
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
N
N
238
S
C
N
239
N
C
N
240
N
O
N
241
N
C
N
242
N
C
N
243
N
C
N
244
N
C
N
245
N
O
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
N
N
260
S
C
N
261
N
C
N
262
N
O
N
263
N
C
N
264
N
C
N
265
N
C
N
266
N
C
N
267
N
N
N
268
N
O
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
H
N
276
N
H
N
277
N
H
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
N
N
285
S
C
N
286
N
C
N
287
N
O
N
288
N
C
N
289
N
C
N
290
N
S
N
291
N
C
N
292
N
O
N
293
N
H
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
H
N
302
N
H
N
303
N
H
N
304
N
N
N
305
S
C
N
306
N
C
N
307
N
O
N
308
N
C
Y
309
N
C
Y
310
N
C
Y
311
N
C
Y
312
N
C
Y
313
N
C
Y
314
N
C
N
315
N
O
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
H
N
323
N
H
N
324
N
H
N
325
N
H
N
326
N
H
N
327
N
N
N
328
S
C
N
329
N
C
N
330
N
O
N
331
N
C
N
332
N
C
N
333
N
C
N
334
N
O
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
N
N
345
S
C
N
346
N
C
N
347
N
O
N
348
N
C
N
349
N
O
N
350
N
O
N
351
N
H
N
352
N
H
N
353
N
H
N
354
N
H
N
355
N
H
N
356
N
H
N
357
N
H
N
358
N
N
N
359
S
C
N
360
N
C
N
361
N
O
N
362
R
C
N
363
N
O
N
364
N
C
N
365
N
O
N
366
N
H
N
367
N
H
N
368
N
H
N
369
N
H
N
370
N
H
N
371
N
H
N
372
N
H
N
373
N
H
N
374
N
H
N
375
N
N
N
376
S
C
N
377
N
C
N
378
N
O
N
379
N
C
Y
380
N
C
Y
381
N
C
Y
382
N
C
Y
383
N
N
Y
384
N
C
Y
385
N
C
Y
386
N
C
Y
387
N
C
Y
388
N
C
N
389
N
O
N
390
N
H
N
391
N
H
N
392
N
H
N
393
N
H
N
394
N
H
N
395
N
H
N
396
N
H
N
397
N
H
N
398
N
H
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
N
N
403
S
C
N
404
N
C
N
405
N
O
N
406
N
C
Y
407
N
C
Y
408
N
C
Y
409
N
C
Y
410
N
C
Y
411
N
C
Y
412
N
C
N
413
N
O
N
414
N
O
N
415
N
H
N
416
N
H
N
417
N
H
N
418
N
H
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
N
N
427
S
C
N
428
N
C
N
429
N
O
N
430
N
C
N
431
N
C
N
432
N
C
N
433
N
O
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
H
N
441
N
H
N
442
N
H
N
443
N
H
N
444
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
Y
83
N
doub
N
84
N
sing
Y
85
N
sing
Y
86
N
sing
N
87
N
sing
Y
88
N
doub
N
89
N
sing
Y
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
doub
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
N
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
sing
Y
102
N
sing
N
103
N
sing
Y
104
N
doub
N
105
N
sing
Y
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
doub
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
doub
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
doub
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
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
doub
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
doub
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
doub
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
Y
195
N
sing
Y
196
N
doub
Y
197
N
doub
N
198
N
sing
Y
199
N
sing
N
200
N
sing
Y
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
doub
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
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
doub
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
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
doub
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
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
doub
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
sing
N
297
N
sing
N
298
N
doub
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
Y
303
N
doub
Y
304
N
sing
Y
305
N
sing
N
306
N
sing
Y
307
N
doub
N
308
N
sing
Y
309
N
doub
N
310
N
sing
Y
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
sing
N
321
N
doub
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
doub
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
doub
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
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
doub
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
371
N
sing
Y
372
N
doub
Y
373
N
sing
Y
374
N
sing
N
375
N
sing
Y
376
N
doub
Y
377
N
sing
Y
378
N
sing
N
379
N
sing
Y
380
N
sing
Y
381
N
doub
N
382
N
sing
Y
383
N
doub
N
384
N
sing
Y
385
N
sing
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
N
390
N
sing
N
391
N
sing
N
392
N
sing
N
393
N
sing
N
394
N
sing
N
395
N
doub
N
396
N
sing
N
397
N
sing
N
398
N
sing
N
399
N
sing
Y
400
N
doub
Y
401
N
sing
Y
402
N
sing
N
403
N
sing
Y
404
N
doub
N
405
N
sing
Y
406
N
doub
N
407
N
sing
Y
408
N
sing
N
409
N
sing
N
410
N
sing
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
N
416
N
sing
N
417
N
sing
N
418
N
sing
N
419
N
doub
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
UK
Faraday Discuss.
FDCSB7
0564
1359-6640
122
131
10.1039/B201331B
12555854
Time-Resolved and Static-Ensemble Structural Chemistry of Hydroxymethylbilane Synthase
2003
UK
J.Chem.Soc.,Faraday Trans.
JCFTEV
1121
0956-5000
94
2615
10.1039/A802217H
Time-Resolved Structures of Hydroxymethylbilane Synthase (Lys59Gln Mutant) as It is Loaded with Substrate in the Crystal Determined by Laue Diffraction
1998
10.2210/pdb1gtk/pdb
pdb_00001gtk
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
1997-06-15
SINGLE WAVELENGTH
M
x-ray
1
0.8611
1.0
ID09
ESRF
0.8611
SYNCHROTRON
ESRF BEAMLINE ID09
CONTAINS A DIPYRROMETHANE COFACTOR LINKED TO CYSTEINE 242
33891.805
PORPHOBILINOGEN DEAMINASE
2.5.1.61
THREE DOMAINS
1
man
polymer
420.413
3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid
1
syn
non-polymer
18.015
water
320
nat
water
HYDROXYMETHYLBILANE SYNTHASE, PBG, HMBS, HYDROXYMETHYLBILANE SYNTHASE, PRE-UROPORPHYRINOGEN SYNTHASE
no
no
MLDNVLRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVGGKGLFVKELEVALLENRADIAVH
SMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLD
NGEYDAIILAVAGLKRLGLESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEG
GCQVPIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREILAEVYNGDAPA
MLDNVLRIATRQSPLALWQAHYVKDKLMASHPGLVVELVPMVTRGDVILDTPLAKVGGKGLFVKELEVALLENRADIAVH
SMKDVPVEFPQGLGLVTICEREDPRDAFVSNNYDSLDALPAGSIVGTSSLRRQCQLAERRPDLIIRSLRGNVGTRLSKLD
NGEYDAIILAVAGLKRLGLESRIRAALPPEISLPAVGQGAVGIECRLDDSRTRELLAALNHHETALRVTAERAMNTRLEG
GCQVPIGSYAELIDGEIWLRALVGAPDGSQIIRGERRGAPQDAEQMGISLAEELLNNGAREILAEVYNGDAPA
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
sample
562
ESCHERICHIA COLI
562
ESCHERICHIA COLI
1
2.45
50
THE STRUCTURE WAS ALREADY DETERMINED BUT REFINED HERE ONLY
VAPOR DIFFUSION, SITTING DROP
5.30
PROTEIN WAS CRYSTALLISED AT PH 5.3 IN SITTING DROPS OF 0.05 ML WITH 6-7 MG/ML OF PROTEIN, 0.3 MM EDTA, 15 MM DITHIOTHREITOL, 10%(W/V) PEG6000 AND 0.01% NAN3 IN 0.1 M SODIUM ACETATE.
exptl_crystal_grow
pdbx_database_proc
pdbx_database_status
pdbx_struct_special_symmetry
struct_conn
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
pdbx_initial_refinement_model
struct_site
repository
Initial release
Advisory
Version format compliance
Structure summary
Database references
Derived calculations
Non-polymer description
Other
Structure summary
Data collection
Derived calculations
Experimental preparation
Other
Data collection
Database references
Derived calculations
Other
Refinement description
1
0
2003-01-16
1
1
2011-07-13
1
2
2011-07-27
1
3
2013-09-25
1
4
2019-05-08
1
5
2023-12-13
_exptl_crystal_grow.method
_pdbx_database_status.recvd_author_approval
_struct_conn.pdbx_leaving_atom_flag
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
REDUCED FORM SELENOMETHIONINE-LABELLED HYDROXYMETHYLBILANE SYNTHASE DETERMINED BY MAD
REDUCED FORM HYDROXYMETHYLBILANE SYNTHASE (K59Q MUTANT) CRYSTAL STRUCTURE AFTER 2 HOURS IN A FLOW CELL DETERMINED BY TIME-RESOLVED LAUE DIFFRACTION
REDUCED FORM HYDROXYLMETHYLBILANE SYNTHASE CRYSTAL STRUCTURE
PDBE
Y
PDBE
2002-01-16
REL
REL
1
A
O
HOH
2004
6.40
1
A
O
HOH
2011
8.18
1
A
O
HOH
2026
5.89
1
A
O
HOH
2027
6.33
1
A
O
HOH
2033
6.22
1
A
O
HOH
2063
6.89
1
A
O
HOH
2081
6.21
1
A
O
HOH
2152
5.87
1
A
O
HOH
2166
6.12
DPM
3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid
HOH
water
2YPN
PDB ENTRY 2YPN
PDB
experimental model
DPM
315
2
DPM
DPM
315
A
HOH
2001
3
HOH
HOH
2001
A
HOH
2002
3
HOH
HOH
2002
A
HOH
2003
3
HOH
HOH
2003
A
HOH
2004
3
HOH
HOH
2004
A
HOH
2005
3
HOH
HOH
2005
A
HOH
2006
3
HOH
HOH
2006
A
HOH
2007
3
HOH
HOH
2007
A
HOH
2008
3
HOH
HOH
2008
A
HOH
2009
3
HOH
HOH
2009
A
HOH
2010
3
HOH
HOH
2010
A
HOH
2011
3
HOH
HOH
2011
A
HOH
2012
3
HOH
HOH
2012
A
HOH
2013
3
HOH
HOH
2013
A
HOH
2014
3
HOH
HOH
2014
A
HOH
2015
3
HOH
HOH
2015
A
HOH
2016
3
HOH
HOH
2016
A
HOH
2017
3
HOH
HOH
2017
A
HOH
2018
3
HOH
HOH
2018
A
HOH
2019
3
HOH
HOH
2019
A
HOH
2020
3
HOH
HOH
2020
A
HOH
2021
3
HOH
HOH
2021
A
HOH
2022
3
HOH
HOH
2022
A
HOH
2023
3
HOH
HOH
2023
A
HOH
2024
3
HOH
HOH
2024
A
HOH
2025
3
HOH
HOH
2025
A
HOH
2026
3
HOH
HOH
2026
A
HOH
2027
3
HOH
HOH
2027
A
HOH
2028
3
HOH
HOH
2028
A
HOH
2029
3
HOH
HOH
2029
A
HOH
2030
3
HOH
HOH
2030
A
HOH
2031
3
HOH
HOH
2031
A
HOH
2032
3
HOH
HOH
2032
A
HOH
2033
3
HOH
HOH
2033
A
HOH
2034
3
HOH
HOH
2034
A
HOH
2035
3
HOH
HOH
2035
A
HOH
2036
3
HOH
HOH
2036
A
HOH
2037
3
HOH
HOH
2037
A
HOH
2038
3
HOH
HOH
2038
A
HOH
2039
3
HOH
HOH
2039
A
HOH
2040
3
HOH
HOH
2040
A
HOH
2041
3
HOH
HOH
2041
A
HOH
2042
3
HOH
HOH
2042
A
HOH
2043
3
HOH
HOH
2043
A
HOH
2044
3
HOH
HOH
2044
A
HOH
2045
3
HOH
HOH
2045
A
HOH
2046
3
HOH
HOH
2046
A
HOH
2047
3
HOH
HOH
2047
A
HOH
2048
3
HOH
HOH
2048
A
HOH
2049
3
HOH
HOH
2049
A
HOH
2050
3
HOH
HOH
2050
A
HOH
2051
3
HOH
HOH
2051
A
HOH
2052
3
HOH
HOH
2052
A
HOH
2053
3
HOH
HOH
2053
A
HOH
2054
3
HOH
HOH
2054
A
HOH
2055
3
HOH
HOH
2055
A
HOH
2056
3
HOH
HOH
2056
A
HOH
2057
3
HOH
HOH
2057
A
HOH
2058
3
HOH
HOH
2058
A
HOH
2059
3
HOH
HOH
2059
A
HOH
2060
3
HOH
HOH
2060
A
HOH
2061
3
HOH
HOH
2061
A
HOH
2062
3
HOH
HOH
2062
A
HOH
2063
3
HOH
HOH
2063
A
HOH
2064
3
HOH
HOH
2064
A
HOH
2065
3
HOH
HOH
2065
A
HOH
2066
3
HOH
HOH
2066
A
HOH
2067
3
HOH
HOH
2067
A
HOH
2068
3
HOH
HOH
2068
A
HOH
2069
3
HOH
HOH
2069
A
HOH
2070
3
HOH
HOH
2070
A
HOH
2071
3
HOH
HOH
2071
A
HOH
2072
3
HOH
HOH
2072
A
HOH
2073
3
HOH
HOH
2073
A
HOH
2074
3
HOH
HOH
2074
A
HOH
2075
3
HOH
HOH
2075
A
HOH
2076
3
HOH
HOH
2076
A
HOH
2077
3
HOH
HOH
2077
A
HOH
2078
3
HOH
HOH
2078
A
HOH
2079
3
HOH
HOH
2079
A
HOH
2080
3
HOH
HOH
2080
A
HOH
2081
3
HOH
HOH
2081
A
HOH
2082
3
HOH
HOH
2082
A
HOH
2083
3
HOH
HOH
2083
A
HOH
2084
3
HOH
HOH
2084
A
HOH
2085
3
HOH
HOH
2085
A
HOH
2086
3
HOH
HOH
2086
A
HOH
2087
3
HOH
HOH
2087
A
HOH
2088
3
HOH
HOH
2088
A
HOH
2089
3
HOH
HOH
2089
A
HOH
2090
3
HOH
HOH
2090
A
HOH
2091
3
HOH
HOH
2091
A
HOH
2092
3
HOH
HOH
2092
A
HOH
2093
3
HOH
HOH
2093
A
HOH
2094
3
HOH
HOH
2094
A
HOH
2095
3
HOH
HOH
2095
A
HOH
2096
3
HOH
HOH
2096
A
HOH
2097
3
HOH
HOH
2097
A
HOH
2098
3
HOH
HOH
2098
A
HOH
2099
3
HOH
HOH
2099
A
HOH
2100
3
HOH
HOH
2100
A
HOH
2101
3
HOH
HOH
2101
A
HOH
2102
3
HOH
HOH
2102
A
HOH
2103
3
HOH
HOH
2103
A
HOH
2104
3
HOH
HOH
2104
A
HOH
2105
3
HOH
HOH
2105
A
HOH
2106
3
HOH
HOH
2106
A
HOH
2107
3
HOH
HOH
2107
A
HOH
2108
3
HOH
HOH
2108
A
HOH
2109
3
HOH
HOH
2109
A
HOH
2110
3
HOH
HOH
2110
A
HOH
2111
3
HOH
HOH
2111
A
HOH
2112
3
HOH
HOH
2112
A
HOH
2113
3
HOH
HOH
2113
A
HOH
2114
3
HOH
HOH
2114
A
HOH
2115
3
HOH
HOH
2115
A
HOH
2116
3
HOH
HOH
2116
A
HOH
2117
3
HOH
HOH
2117
A
HOH
2118
3
HOH
HOH
2118
A
HOH
2119
3
HOH
HOH
2119
A
HOH
2120
3
HOH
HOH
2120
A
HOH
2121
3
HOH
HOH
2121
A
HOH
2122
3
HOH
HOH
2122
A
HOH
2123
3
HOH
HOH
2123
A
HOH
2124
3
HOH
HOH
2124
A
HOH
2125
3
HOH
HOH
2125
A
HOH
2126
3
HOH
HOH
2126
A
HOH
2127
3
HOH
HOH
2127
A
HOH
2128
3
HOH
HOH
2128
A
HOH
2129
3
HOH
HOH
2129
A
HOH
2130
3
HOH
HOH
2130
A
HOH
2131
3
HOH
HOH
2131
A
HOH
2132
3
HOH
HOH
2132
A
HOH
2133
3
HOH
HOH
2133
A
HOH
2134
3
HOH
HOH
2134
A
HOH
2135
3
HOH
HOH
2135
A
HOH
2136
3
HOH
HOH
2136
A
HOH
2137
3
HOH
HOH
2137
A
HOH
2138
3
HOH
HOH
2138
A
HOH
2139
3
HOH
HOH
2139
A
HOH
2140
3
HOH
HOH
2140
A
HOH
2141
3
HOH
HOH
2141
A
HOH
2142
3
HOH
HOH
2142
A
HOH
2143
3
HOH
HOH
2143
A
HOH
2144
3
HOH
HOH
2144
A
HOH
2145
3
HOH
HOH
2145
A
HOH
2146
3
HOH
HOH
2146
A
HOH
2147
3
HOH
HOH
2147
A
HOH
2148
3
HOH
HOH
2148
A
HOH
2149
3
HOH
HOH
2149
A
HOH
2150
3
HOH
HOH
2150
A
HOH
2151
3
HOH
HOH
2151
A
HOH
2152
3
HOH
HOH
2152
A
HOH
2153
3
HOH
HOH
2153
A
HOH
2154
3
HOH
HOH
2154
A
HOH
2155
3
HOH
HOH
2155
A
HOH
2156
3
HOH
HOH
2156
A
HOH
2157
3
HOH
HOH
2157
A
HOH
2158
3
HOH
HOH
2158
A
HOH
2159
3
HOH
HOH
2159
A
HOH
2160
3
HOH
HOH
2160
A
HOH
2161
3
HOH
HOH
2161
A
HOH
2162
3
HOH
HOH
2162
A
HOH
2163
3
HOH
HOH
2163
A
HOH
2164
3
HOH
HOH
2164
A
HOH
2165
3
HOH
HOH
2165
A
HOH
2166
3
HOH
HOH
2166
A
HOH
2167
3
HOH
HOH
2167
A
HOH
2168
3
HOH
HOH
2168
A
HOH
2169
3
HOH
HOH
2169
A
HOH
2170
3
HOH
HOH
2170
A
HOH
2171
3
HOH
HOH
2171
A
HOH
2172
3
HOH
HOH
2172
A
HOH
2173
3
HOH
HOH
2173
A
HOH
2174
3
HOH
HOH
2174
A
HOH
2175
3
HOH
HOH
2175
A
HOH
2176
3
HOH
HOH
2176
A
HOH
2177
3
HOH
HOH
2177
A
HOH
2178
3
HOH
HOH
2178
A
HOH
2179
3
HOH
HOH
2179
A
HOH
2180
3
HOH
HOH
2180
A
HOH
2181
3
HOH
HOH
2181
A
HOH
2182
3
HOH
HOH
2182
A
HOH
2183
3
HOH
HOH
2183
A
HOH
2184
3
HOH
HOH
2184
A
HOH
2185
3
HOH
HOH
2185
A
HOH
2186
3
HOH
HOH
2186
A
HOH
2187
3
HOH
HOH
2187
A
HOH
2188
3
HOH
HOH
2188
A
HOH
2189
3
HOH
HOH
2189
A
HOH
2190
3
HOH
HOH
2190
A
HOH
2191
3
HOH
HOH
2191
A
HOH
2192
3
HOH
HOH
2192
A
HOH
2193
3
HOH
HOH
2193
A
HOH
2194
3
HOH
HOH
2194
A
HOH
2195
3
HOH
HOH
2195
A
HOH
2196
3
HOH
HOH
2196
A
HOH
2197
3
HOH
HOH
2197
A
HOH
2198
3
HOH
HOH
2198
A
HOH
2199
3
HOH
HOH
2199
A
HOH
2200
3
HOH
HOH
2200
A
HOH
2201
3
HOH
HOH
2201
A
HOH
2202
3
HOH
HOH
2202
A
HOH
2203
3
HOH
HOH
2203
A
HOH
2204
3
HOH
HOH
2204
A
HOH
2205
3
HOH
HOH
2205
A
HOH
2206
3
HOH
HOH
2206
A
HOH
2207
3
HOH
HOH
2207
A
HOH
2208
3
HOH
HOH
2208
A
HOH
2209
3
HOH
HOH
2209
A
HOH
2210
3
HOH
HOH
2210
A
HOH
2211
3
HOH
HOH
2211
A
HOH
2212
3
HOH
HOH
2212
A
HOH
2213
3
HOH
HOH
2213
A
HOH
2214
3
HOH
HOH
2214
A
HOH
2215
3
HOH
HOH
2215
A
HOH
2216
3
HOH
HOH
2216
A
HOH
2217
3
HOH
HOH
2217
A
HOH
2218
3
HOH
HOH
2218
A
HOH
2219
3
HOH
HOH
2219
A
HOH
2220
3
HOH
HOH
2220
A
HOH
2221
3
HOH
HOH
2221
A
HOH
2222
3
HOH
HOH
2222
A
HOH
2223
3
HOH
HOH
2223
A
HOH
2224
3
HOH
HOH
2224
A
HOH
2225
3
HOH
HOH
2225
A
HOH
2226
3
HOH
HOH
2226
A
HOH
2227
3
HOH
HOH
2227
A
HOH
2228
3
HOH
HOH
2228
A
HOH
2229
3
HOH
HOH
2229
A
HOH
2230
3
HOH
HOH
2230
A
HOH
2231
3
HOH
HOH
2231
A
HOH
2232
3
HOH
HOH
2232
A
HOH
2233
3
HOH
HOH
2233
A
HOH
2234
3
HOH
HOH
2234
A
HOH
2235
3
HOH
HOH
2235
A
HOH
2236
3
HOH
HOH
2236
A
HOH
2237
3
HOH
HOH
2237
A
HOH
2238
3
HOH
HOH
2238
A
HOH
2239
3
HOH
HOH
2239
A
HOH
2240
3
HOH
HOH
2240
A
HOH
2241
3
HOH
HOH
2241
A
HOH
2242
3
HOH
HOH
2242
A
HOH
2243
3
HOH
HOH
2243
A
HOH
2244
3
HOH
HOH
2244
A
HOH
2245
3
HOH
HOH
2245
A
HOH
2246
3
HOH
HOH
2246
A
HOH
2247
3
HOH
HOH
2247
A
HOH
2248
3
HOH
HOH
2248
A
HOH
2249
3
HOH
HOH
2249
A
HOH
2250
3
HOH
HOH
2250
A
HOH
2251
3
HOH
HOH
2251
A
HOH
2252
3
HOH
HOH
2252
A
HOH
2253
3
HOH
HOH
2253
A
HOH
2254
3
HOH
HOH
2254
A
HOH
2255
3
HOH
HOH
2255
A
HOH
2256
3
HOH
HOH
2256
A
HOH
2257
3
HOH
HOH
2257
A
HOH
2258
3
HOH
HOH
2258
A
HOH
2259
3
HOH
HOH
2259
A
HOH
2260
3
HOH
HOH
2260
A
HOH
2261
3
HOH
HOH
2261
A
HOH
2262
3
HOH
HOH
2262
A
HOH
2263
3
HOH
HOH
2263
A
HOH
2264
3
HOH
HOH
2264
A
HOH
2265
3
HOH
HOH
2265
A
HOH
2266
3
HOH
HOH
2266
A
HOH
2267
3
HOH
HOH
2267
A
HOH
2268
3
HOH
HOH
2268
A
HOH
2269
3
HOH
HOH
2269
A
HOH
2270
3
HOH
HOH
2270
A
HOH
2271
3
HOH
HOH
2271
A
HOH
2272
3
HOH
HOH
2272
A
HOH
2273
3
HOH
HOH
2273
A
HOH
2274
3
HOH
HOH
2274
A
HOH
2275
3
HOH
HOH
2275
A
HOH
2276
3
HOH
HOH
2276
A
HOH
2277
3
HOH
HOH
2277
A
HOH
2278
3
HOH
HOH
2278
A
HOH
2279
3
HOH
HOH
2279
A
HOH
2280
3
HOH
HOH
2280
A
HOH
2281
3
HOH
HOH
2281
A
HOH
2282
3
HOH
HOH
2282
A
HOH
2283
3
HOH
HOH
2283
A
HOH
2284
3
HOH
HOH
2284
A
HOH
2285
3
HOH
HOH
2285
A
HOH
2286
3
HOH
HOH
2286
A
HOH
2287
3
HOH
HOH
2287
A
HOH
2288
3
HOH
HOH
2288
A
HOH
2289
3
HOH
HOH
2289
A
HOH
2290
3
HOH
HOH
2290
A
HOH
2291
3
HOH
HOH
2291
A
HOH
2292
3
HOH
HOH
2292
A
HOH
2293
3
HOH
HOH
2293
A
HOH
2294
3
HOH
HOH
2294
A
HOH
2295
3
HOH
HOH
2295
A
HOH
2296
3
HOH
HOH
2296
A
HOH
2297
3
HOH
HOH
2297
A
HOH
2298
3
HOH
HOH
2298
A
HOH
2299
3
HOH
HOH
2299
A
HOH
2300
3
HOH
HOH
2300
A
HOH
2301
3
HOH
HOH
2301
A
HOH
2302
3
HOH
HOH
2302
A
HOH
2303
3
HOH
HOH
2303
A
HOH
2304
3
HOH
HOH
2304
A
HOH
2305
3
HOH
HOH
2305
A
HOH
2306
3
HOH
HOH
2306
A
HOH
2307
3
HOH
HOH
2307
A
HOH
2308
3
HOH
HOH
2308
A
HOH
2309
3
HOH
HOH
2309
A
HOH
2310
3
HOH
HOH
2310
A
HOH
2311
3
HOH
HOH
2311
A
HOH
2312
3
HOH
HOH
2312
A
HOH
2313
3
HOH
HOH
2313
A
HOH
2314
3
HOH
HOH
2314
A
HOH
2315
3
HOH
HOH
2315
A
HOH
2316
3
HOH
HOH
2316
A
HOH
2317
3
HOH
HOH
2317
A
HOH
2318
3
HOH
HOH
2318
A
HOH
2319
3
HOH
HOH
2319
A
HOH
2320
3
HOH
HOH
2320
A
n
1
1
A
n
2
2
A
ASP
3
n
3
ASP
3
A
ASN
4
n
4
ASN
4
A
VAL
5
n
5
VAL
5
A
LEU
6
n
6
LEU
6
A
ARG
7
n
7
ARG
7
A
ILE
8
n
8
ILE
8
A
ALA
9
n
9
ALA
9
A
THR
10
n
10
THR
10
A
ARG
11
n
11
ARG
11
A
GLN
12
n
12
GLN
12
A
SER
13
n
13
SER
13
A
PRO
14
n
14
PRO
14
A
LEU
15
n
15
LEU
15
A
ALA
16
n
16
ALA
16
A
LEU
17
n
17
LEU
17
A
TRP
18
n
18
TRP
18
A
GLN
19
n
19
GLN
19
A
ALA
20
n
20
ALA
20
A
HIS
21
n
21
HIS
21
A
TYR
22
n
22
TYR
22
A
VAL
23
n
23
VAL
23
A
LYS
24
n
24
LYS
24
A
ASP
25
n
25
ASP
25
A
LYS
26
n
26
LYS
26
A
LEU
27
n
27
LEU
27
A
MET
28
n
28
MET
28
A
ALA
29
n
29
ALA
29
A
SER
30
n
30
SER
30
A
HIS
31
n
31
HIS
31
A
PRO
32
n
32
PRO
32
A
GLY
33
n
33
GLY
33
A
LEU
34
n
34
LEU
34
A
VAL
35
n
35
VAL
35
A
VAL
36
n
36
VAL
36
A
GLU
37
n
37
GLU
37
A
LEU
38
n
38
LEU
38
A
VAL
39
n
39
VAL
39
A
PRO
40
n
40
PRO
40
A
MET
41
n
41
MET
41
A
VAL
42
n
42
VAL
42
A
n
43
43
A
n
44
44
A
n
45
45
A
n
46
46
A
n
47
47
A
n
48
48
A
n
49
49
A
n
50
50
A
n
51
51
A
n
52
52
A
n
53
53
A
n
54
54
A
n
55
55
A
n
56
56
A
n
57
57
A
n
58
58
A
n
59
59
A
GLY
60
n
60
GLY
60
A
LEU
61
n
61
LEU
61
A
PHE
62
n
62
PHE
62
A
VAL
63
n
63
VAL
63
A
LYS
64
n
64
LYS
64
A
GLU
65
n
65
GLU
65
A
LEU
66
n
66
LEU
66
A
GLU
67
n
67
GLU
67
A
VAL
68
n
68
VAL
68
A
ALA
69
n
69
ALA
69
A
LEU
70
n
70
LEU
70
A
LEU
71
n
71
LEU
71
A
GLU
72
n
72
GLU
72
A
ASN
73
n
73
ASN
73
A
ARG
74
n
74
ARG
74
A
ALA
75
n
75
ALA
75
A
ASP
76
n
76
ASP
76
A
ILE
77
n
77
ILE
77
A
ALA
78
n
78
ALA
78
A
VAL
79
n
79
VAL
79
A
HIS
80
n
80
HIS
80
A
SER
81
n
81
SER
81
A
MET
82
n
82
MET
82
A
LYS
83
n
83
LYS
83
A
ASP
84
n
84
ASP
84
A
VAL
85
n
85
VAL
85
A
PRO
86
n
86
PRO
86
A
VAL
87
n
87
VAL
87
A
GLU
88
n
88
GLU
88
A
PHE
89
n
89
PHE
89
A
PRO
90
n
90
PRO
90
A
GLN
91
n
91
GLN
91
A
GLY
92
n
92
GLY
92
A
LEU
93
n
93
LEU
93
A
GLY
94
n
94
GLY
94
A
LEU
95
n
95
LEU
95
A
VAL
96
n
96
VAL
96
A
THR
97
n
97
THR
97
A
ILE
98
n
98
ILE
98
A
CYS
99
n
99
CYS
99
A
GLU
100
n
100
GLU
100
A
ARG
101
n
101
ARG
101
A
GLU
102
n
102
GLU
102
A
ASP
103
n
103
ASP
103
A
PRO
104
n
104
PRO
104
A
ARG
105
n
105
ARG
105
A
ASP
106
n
106
ASP
106
A
ALA
107
n
107
ALA
107
A
PHE
108
n
108
PHE
108
A
VAL
109
n
109
VAL
109
A
SER
110
n
110
SER
110
A
ASN
111
n
111
ASN
111
A
ASN
112
n
112
ASN
112
A
TYR
113
n
113
TYR
113
A
ASP
114
n
114
ASP
114
A
SER
115
n
115
SER
115
A
LEU
116
n
116
LEU
116
A
ASP
117
n
117
ASP
117
A
ALA
118
n
118
ALA
118
A
LEU
119
n
119
LEU
119
A
PRO
120
n
120
PRO
120
A
ALA
121
n
121
ALA
121
A
GLY
122
n
122
GLY
122
A
SER
123
n
123
SER
123
A
ILE
124
n
124
ILE
124
A
VAL
125
n
125
VAL
125
A
GLY
126
n
126
GLY
126
A
THR
127
n
127
THR
127
A
SER
128
n
128
SER
128
A
SER
129
n
129
SER
129
A
LEU
130
n
130
LEU
130
A
ARG
131
n
131
ARG
131
A
ARG
132
n
132
ARG
132
A
GLN
133
n
133
GLN
133
A
CYS
134
n
134
CYS
134
A
GLN
135
n
135
GLN
135
A
LEU
136
n
136
LEU
136
A
ALA
137
n
137
ALA
137
A
GLU
138
n
138
GLU
138
A
ARG
139
n
139
ARG
139
A
ARG
140
n
140
ARG
140
A
PRO
141
n
141
PRO
141
A
ASP
142
n
142
ASP
142
A
LEU
143
n
143
LEU
143
A
ILE
144
n
144
ILE
144
A
ILE
145
n
145
ILE
145
A
ARG
146
n
146
ARG
146
A
SER
147
n
147
SER
147
A
LEU
148
n
148
LEU
148
A
ARG
149
n
149
ARG
149
A
GLY
150
n
150
GLY
150
A
ASN
151
n
151
ASN
151
A
VAL
152
n
152
VAL
152
A
GLY
153
n
153
GLY
153
A
THR
154
n
154
THR
154
A
ARG
155
n
155
ARG
155
A
LEU
156
n
156
LEU
156
A
SER
157
n
157
SER
157
A
LYS
158
n
158
LYS
158
A
LEU
159
n
159
LEU
159
A
ASP
160
n
160
ASP
160
A
ASN
161
n
161
ASN
161
A
GLY
162
n
162
GLY
162
A
GLU
163
n
163
GLU
163
A
TYR
164
n
164
TYR
164
A
ASP
165
n
165
ASP
165
A
ALA
166
n
166
ALA
166
A
ILE
167
n
167
ILE
167
A
ILE
168
n
168
ILE
168
A
LEU
169
n
169
LEU
169
A
ALA
170
n
170
ALA
170
A
VAL
171
n
171
VAL
171
A
ALA
172
n
172
ALA
172
A
GLY
173
n
173
GLY
173
A
LEU
174
n
174
LEU
174
A
LYS
175
n
175
LYS
175
A
ARG
176
n
176
ARG
176
A
LEU
177
n
177
LEU
177
A
GLY
178
n
178
GLY
178
A
LEU
179
n
179
LEU
179
A
GLU
180
n
180
GLU
180
A
SER
181
n
181
SER
181
A
ARG
182
n
182
ARG
182
A
ILE
183
n
183
ILE
183
A
ARG
184
n
184
ARG
184
A
ALA
185
n
185
ALA
185
A
ALA
186
n
186
ALA
186
A
LEU
187
n
187
LEU
187
A
PRO
188
n
188
PRO
188
A
PRO
189
n
189
PRO
189
A
GLU
190
n
190
GLU
190
A
ILE
191
n
191
ILE
191
A
SER
192
n
192
SER
192
A
LEU
193
n
193
LEU
193
A
PRO
194
n
194
PRO
194
A
ALA
195
n
195
ALA
195
A
VAL
196
n
196
VAL
196
A
GLY
197
n
197
GLY
197
A
GLN
198
n
198
GLN
198
A
GLY
199
n
199
GLY
199
A
ALA
200
n
200
ALA
200
A
VAL
201
n
201
VAL
201
A
GLY
202
n
202
GLY
202
A
ILE
203
n
203
ILE
203
A
GLU
204
n
204
GLU
204
A
CYS
205
n
205
CYS
205
A
ARG
206
n
206
ARG
206
A
LEU
207
n
207
LEU
207
A
ASP
208
n
208
ASP
208
A
ASP
209
n
209
ASP
209
A
SER
210
n
210
SER
210
A
ARG
211
n
211
ARG
211
A
THR
212
n
212
THR
212
A
ARG
213
n
213
ARG
213
A
GLU
214
n
214
GLU
214
A
LEU
215
n
215
LEU
215
A
LEU
216
n
216
LEU
216
A
ALA
217
n
217
ALA
217
A
ALA
218
n
218
ALA
218
A
LEU
219
n
219
LEU
219
A
ASN
220
n
220
ASN
220
A
HIS
221
n
221
HIS
221
A
HIS
222
n
222
HIS
222
A
GLU
223
n
223
GLU
223
A
THR
224
n
224
THR
224
A
ALA
225
n
225
ALA
225
A
LEU
226
n
226
LEU
226
A
ARG
227
n
227
ARG
227
A
VAL
228
n
228
VAL
228
A
THR
229
n
229
THR
229
A
ALA
230
n
230
ALA
230
A
GLU
231
n
231
GLU
231
A
ARG
232
n
232
ARG
232
A
ALA
233
n
233
ALA
233
A
MET
234
n
234
MET
234
A
ASN
235
n
235
ASN
235
A
THR
236
n
236
THR
236
A
ARG
237
n
237
ARG
237
A
LEU
238
n
238
LEU
238
A
GLU
239
n
239
GLU
239
A
GLY
240
n
240
GLY
240
A
GLY
241
n
241
GLY
241
A
CYS
242
n
242
CYS
242
A
GLN
243
n
243
GLN
243
A
VAL
244
n
244
VAL
244
A
PRO
245
n
245
PRO
245
A
ILE
246
n
246
ILE
246
A
GLY
247
n
247
GLY
247
A
SER
248
n
248
SER
248
A
TYR
249
n
249
TYR
249
A
ALA
250
n
250
ALA
250
A
GLU
251
n
251
GLU
251
A
LEU
252
n
252
LEU
252
A
ILE
253
n
253
ILE
253
A
ASP
254
n
254
ASP
254
A
GLY
255
n
255
GLY
255
A
GLU
256
n
256
GLU
256
A
ILE
257
n
257
ILE
257
A
TRP
258
n
258
TRP
258
A
LEU
259
n
259
LEU
259
A
ARG
260
n
260
ARG
260
A
ALA
261
n
261
ALA
261
A
LEU
262
n
262
LEU
262
A
VAL
263
n
263
VAL
263
A
GLY
264
n
264
GLY
264
A
ALA
265
n
265
ALA
265
A
PRO
266
n
266
PRO
266
A
ASP
267
n
267
ASP
267
A
GLY
268
n
268
GLY
268
A
SER
269
n
269
SER
269
A
GLN
270
n
270
GLN
270
A
ILE
271
n
271
ILE
271
A
ILE
272
n
272
ILE
272
A
ARG
273
n
273
ARG
273
A
GLY
274
n
274
GLY
274
A
GLU
275
n
275
GLU
275
A
ARG
276
n
276
ARG
276
A
ARG
277
n
277
ARG
277
A
GLY
278
n
278
GLY
278
A
ALA
279
n
279
ALA
279
A
PRO
280
n
280
PRO
280
A
GLN
281
n
281
GLN
281
A
ASP
282
n
282
ASP
282
A
ALA
283
n
283
ALA
283
A
GLU
284
n
284
GLU
284
A
GLN
285
n
285
GLN
285
A
MET
286
n
286
MET
286
A
GLY
287
n
287
GLY
287
A
ILE
288
n
288
ILE
288
A
SER
289
n
289
SER
289
A
LEU
290
n
290
LEU
290
A
ALA
291
n
291
ALA
291
A
GLU
292
n
292
GLU
292
A
GLU
293
n
293
GLU
293
A
LEU
294
n
294
LEU
294
A
LEU
295
n
295
LEU
295
A
ASN
296
n
296
ASN
296
A
ASN
297
n
297
ASN
297
A
GLY
298
n
298
GLY
298
A
ALA
299
n
299
ALA
299
A
ARG
300
n
300
ARG
300
A
GLU
301
n
301
GLU
301
A
ILE
302
n
302
ILE
302
A
LEU
303
n
303
LEU
303
A
ALA
304
n
304
ALA
304
A
GLU
305
n
305
GLU
305
A
VAL
306
n
306
VAL
306
A
TYR
307
n
307
TYR
307
A
ASN
308
n
308
ASN
308
A
GLY
309
n
309
GLY
309
A
ASP
310
n
310
ASP
310
A
ALA
311
n
311
ALA
311
A
PRO
312
n
312
PRO
312
A
ALA
313
n
313
ALA
313
A
0.1975
-0.0705
0.1190
0.8669
-0.2144
0.2831
0.0002
0.0056
0.0049
0.0502
0.0089
-0.0016
-0.0099
0.0120
-0.0090
0.0230
0.0057
0.0077
0.0244
-0.0093
0.0080
refined
17.4635
-1.0970
21.7791
X-RAY DIFFRACTION
A
3
A
313
X-RAY DIFFRACTION
1
author_and_software_defined_assembly
PISA
1
monomeric
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
GLU
37
A
N
GLU
37
A
O
LEU
6
A
O
LEU
6
A
N
ALA
9
A
N
ALA
9
A
O
ILE
77
A
O
ILE
77
A
N
HIS
80
A
N
HIS
80
A
O
GLY
202
A
O
GLY
202
A
N
CYS
205
A
N
CYS
205
A
O
GLY
94
A
O
GLY
94
A
N
ARG
146
A
N
ARG
146
A
O
VAL
125
A
O
VAL
125
A
N
GLY
126
A
N
GLY
126
A
O
ALA
166
A
O
ALA
166
A
N
LEU
169
A
N
LEU
169
A
O
ALA
107
A
O
ALA
107
A
N
PHE
108
A
N
PHE
108
A
O
ALA
185
A
O
ALA
185
A
N
ILE
253
A
N
ILE
253
A
O
GLU
256
A
O
GLU
256
A
N
VAL
263
A
N
VAL
263
A
O
ILE
272
A
O
ILE
272
1
A
HOH
2056
C
HOH
1
A
CG
LEU
61
A
CG
LEU
61
1
Y
1
A
CD1
LEU
61
A
CD1
LEU
61
1
Y
1
A
CD2
LEU
61
A
CD2
LEU
61
1
Y
1
A
CG
PHE
62
A
CG
PHE
62
1
Y
1
A
CD1
PHE
62
A
CD1
PHE
62
1
Y
1
A
CD2
PHE
62
A
CD2
PHE
62
1
Y
1
A
CE1
PHE
62
A
CE1
PHE
62
1
Y
1
A
CE2
PHE
62
A
CE2
PHE
62
1
Y
1
A
CZ
PHE
62
A
CZ
PHE
62
1
Y
1
A
MET
1
A
MET
1
1
Y
1
A
LEU
2
A
LEU
2
1
Y
1
A
THR
43
A
THR
43
1
Y
1
A
ARG
44
A
ARG
44
1
Y
1
A
GLY
45
A
GLY
45
1
Y
1
A
ASP
46
A
ASP
46
1
Y
1
A
VAL
47
A
VAL
47
1
Y
1
A
ILE
48
A
ILE
48
1
Y
1
A
LEU
49
A
LEU
49
1
Y
1
A
ASP
50
A
ASP
50
1
Y
1
A
THR
51
A
THR
51
1
Y
1
A
PRO
52
A
PRO
52
1
Y
1
A
LEU
53
A
LEU
53
1
Y
1
A
ALA
54
A
ALA
54
1
Y
1
A
LYS
55
A
LYS
55
1
Y
1
A
VAL
56
A
VAL
56
1
Y
1
A
GLY
57
A
GLY
57
1
Y
1
A
GLY
58
A
GLY
58
1
Y
1
A
LYS
59
A
LYS
59
1
Y
1
A
A
O
NH1
ASP
ARG
3
211
1.99
1
A
A
CD
O
ARG
ALA
227
250
2.01
1
5.91
0.90
118.30
124.21
A
A
A
CB
CG
OD2
ASP
ASP
ASP
25
25
25
N
1
3.70
0.50
120.30
124.00
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
74
74
74
N
1
-3.86
0.50
120.30
116.44
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
74
74
74
N
1
7.71
0.90
118.30
126.01
A
A
A
CB
CG
OD2
ASP
ASP
ASP
114
114
114
N
1
10.43
0.90
118.30
128.73
A
A
A
CB
CG
OD2
ASP
ASP
ASP
208
208
208
N
1
9.93
1.40
123.60
133.53
A
A
A
CD
NE
CZ
ARG
ARG
ARG
227
227
227
N
1
5.82
0.50
120.30
126.12
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
227
227
227
N
1
-6.12
0.50
120.30
114.18
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
227
227
227
N
1
A
A
SD
CE
MET
MET
82
82
-0.363
0.056
1.774
1.411
N
1
A
A
O
O
HOH
HOH
2139
2139
2.09
1_555
2_655
1
A
A
O
O
HOH
HOH
2004
2011
2.12
1_555
3_556
1
A
ASN
4
-39.75
6.81
1
A
MET
41
-165.29
-169.62
1
A
LEU
61
76.96
-94.10
1
A
THR
127
-175.57
141.48
1
A
ASN
308
56.20
90.05
0.961
0.937
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. THE ASYMMETRIC UNIT OF THIS STRUCTURE IS NOT COMPLETE.RESIDUES 1-2, 43-59 ARE MISSING IN THE ENTRY.
0.247
0.198
0.200
1.66
43.85
1709
32708
5.000
87.0
1.946
0.066
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.118
0.122
0.80
0.80
1.40
PDB ENTRY 2YPN
MAXIMUM LIKELIHOOD
MASK
1.66
43.85
320
2578
30
0
2228
0.021
0.021
2287
0.001
0.020
2164
2.004
1.995
3099
0.980
3.000
4999
0.117
0.200
355
0.009
0.020
2573
0.003
0.020
435
0.281
0.300
484
0.218
0.300
2062
0.173
0.500
202
0.141
0.500
2
0.304
0.300
11
0.292
0.300
24
0.262
0.500
19
1.174
1.500
1458
1.982
2.000
2329
3.140
3.000
829
4.704
4.500
770
0.2660
0.2300
1.70
67
1555
20
1.660
43.850
1GTK
34417
1
87.0
1.66
1.75
1
70.7
refinement
REFMAC
5.0
data reduction
DENZO
data scaling
SCALEPACK
phasing
O
Time-resolved and static-ensemble structural chemistry of hydroxymethylbilane synthase
1
N
N
2
N
N
3
N
N
A
SER
13
A
SER
13
HELX_P
A
HIS
31
A
HIS
31
1
1
19
A
PHE
62
A
PHE
62
HELX_P
A
GLU
72
A
GLU
72
1
2
11
A
LYS
83
A
LYS
83
HELX_P
A
VAL
85
A
VAL
85
5
3
3
A
SER
115
A
SER
115
HELX_P
A
LEU
119
A
LEU
119
5
4
5
A
SER
129
A
SER
129
HELX_P
A
ARG
140
A
ARG
140
1
5
12
A
ASN
151
A
ASN
151
HELX_P
A
ASN
161
A
ASN
161
1
6
11
A
VAL
171
A
VAL
171
HELX_P
A
LEU
177
A
LEU
177
1
7
7
A
LEU
179
A
LEU
179
HELX_P
A
ILE
183
A
ILE
183
5
8
5
A
ASP
209
A
ASP
209
HELX_P
A
ALA
217
A
ALA
217
1
9
9
A
ALA
218
A
ALA
218
HELX_P
A
ASN
220
A
ASN
220
5
10
3
A
HIS
221
A
HIS
221
HELX_P
A
GLU
239
A
GLU
239
1
11
19
A
ALA
279
A
ALA
279
HELX_P
A
GLN
281
A
GLN
281
5
12
3
A
ASP
282
A
ASP
282
HELX_P
A
ASN
297
A
ASN
297
1
13
16
A
GLY
298
A
GLY
298
HELX_P
A
GLU
305
A
GLU
305
1
14
8
covale
1.866
none
A
CYS
242
A
SG
CYS
242
1_555
A
DPM
315
B
CHA
DPM
1_555
TRANSFERASE
TRANSFERASE, BIOSYNTHESIS OF LINEAR TETRAPYRROLE, ALL ALPHA/BETA
HEM3_ECOLI
UNP
1
P06983
1
313
1GTK
1
313
P06983
A
1
1
313
5
5
3
parallel
parallel
anti-parallel
anti-parallel
parallel
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
VAL
35
A
VAL
35
A
PRO
40
A
PRO
40
A
VAL
5
A
VAL
5
A
THR
10
A
THR
10
A
ILE
77
A
ILE
77
A
SER
81
A
SER
81
A
VAL
201
A
VAL
201
A
ARG
206
A
ARG
206
A
LEU
93
A
LEU
93
A
ILE
98
A
ILE
98
A
ILE
144
A
ILE
144
A
ARG
146
A
ARG
146
A
ILE
124
A
ILE
124
A
GLY
126
A
GLY
126
A
ALA
166
A
ALA
166
A
ALA
170
A
ALA
170
A
ASP
106
A
ASP
106
A
VAL
109
A
VAL
109
A
ALA
185
A
ALA
185
A
ALA
186
A
ALA
186
A
ILE
246
A
ILE
246
A
ILE
253
A
ILE
253
A
GLU
256
A
GLU
256
A
GLY
264
A
GLY
264
A
ILE
271
A
ILE
271
A
GLY
278
A
GLY
278
BINDING SITE FOR RESIDUE DPM A 315
A
DPM
315
Software
21
A
LEU
15
A
LEU
15
21
1_555
A
SER
81
A
SER
81
21
1_555
A
LYS
83
A
LYS
83
21
1_555
A
ASP
84
A
ASP
84
21
1_555
A
THR
127
A
THR
127
21
1_555
A
SER
128
A
SER
128
21
1_555
A
SER
129
A
SER
129
21
1_555
A
ARG
131
A
ARG
131
21
1_555
A
ARG
132
A
ARG
132
21
1_555
A
LEU
148
A
LEU
148
21
1_555
A
ARG
155
A
ARG
155
21
1_555
A
LEU
169
A
LEU
169
21
1_555
A
ALA
170
A
ALA
170
21
1_555
A
GLN
198
A
GLN
198
21
1_555
A
GLY
199
A
GLY
199
21
1_555
A
CYS
242
A
CYS
242
21
1_555
A
HOH
2197
C
HOH
21
1_555
A
HOH
2317
C
HOH
21
1_555
A
HOH
2318
C
HOH
21
1_555
A
HOH
2319
C
HOH
21
1_555
A
HOH
2320
C
HOH
21
1_555
18
P 21 21 2