0.007827
0.004519
-0.000000
0.000000
0.009037
-0.000000
0.000000
0.000000
0.017153
0.00000
0.00000
0.00000
Hao, B.
Isaza, C.
Arndt, J.
Soltis, M.
Chan, M.K.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
18
90.00
90.00
120.00
127.77
127.77
58.30
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
C N -1
26.017
CYANIDE ION
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
C34 H32 Fe N4 O4
616.487
PROTOPORPHYRIN IX CONTAINING FE
HEME
non-polymer
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
C
N
75
N
N
N
76
N
N
N
77
S
C
N
78
N
C
N
79
N
O
N
80
N
C
N
81
N
C
N
82
N
C
N
83
N
O
N
84
N
N
N
85
N
O
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
H
N
94
N
H
N
95
N
H
N
96
N
N
N
97
S
C
N
98
N
C
N
99
N
O
N
100
N
C
N
101
N
C
N
102
N
C
N
103
N
O
N
104
N
O
N
105
N
O
N
106
N
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
N
N
116
N
C
N
117
N
C
N
118
N
O
N
119
N
O
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
C
N
126
N
C
N
127
N
C
N
128
N
C
Y
129
N
C
Y
130
N
C
Y
131
N
C
Y
132
N
C
N
133
N
C
N
134
N
C
N
135
N
C
N
136
N
C
N
137
N
O
N
138
N
O
N
139
N
C
N
140
N
C
N
141
N
C
N
142
N
C
N
143
N
C
N
144
N
C
N
145
N
C
Y
146
N
C
Y
147
N
C
Y
148
N
C
Y
149
N
C
N
150
N
C
N
151
N
C
N
152
N
C
N
153
N
C
N
154
N
C
N
155
N
C
N
156
N
C
N
157
N
C
N
158
N
C
N
159
N
C
N
160
N
C
N
161
N
O
N
162
N
O
Y
163
N
N
N
164
N
N
Y
165
N
N
N
166
N
N
N
167
N
FE
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
H
N
198
N
H
N
199
N
H
N
200
N
N
N
201
S
C
N
202
N
C
N
203
N
O
N
204
N
C
Y
205
N
C
Y
206
N
N
Y
207
N
C
Y
208
N
C
Y
209
N
N
N
210
N
O
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
H
N
220
N
H
N
221
N
O
N
222
N
H
N
223
N
H
N
224
N
N
N
225
S
C
N
226
N
C
N
227
N
O
N
228
S
C
N
229
N
C
N
230
N
C
N
231
N
C
N
232
N
O
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
N
H
N
244
N
H
N
245
N
H
N
246
N
N
N
247
S
C
N
248
N
C
N
249
N
O
N
250
N
C
N
251
N
C
N
252
N
C
N
253
N
C
N
254
N
O
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
H
N
260
N
H
N
261
N
H
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
N
267
N
H
N
268
N
N
N
269
S
C
N
270
N
C
N
271
N
O
N
272
N
C
N
273
N
C
N
274
N
C
N
275
N
C
N
276
N
N
N
277
N
O
N
278
N
H
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
N
N
294
S
C
N
295
N
C
N
296
N
O
N
297
N
C
N
298
N
C
N
299
N
S
N
300
N
C
N
301
N
O
N
302
N
H
N
303
N
H
N
304
N
H
N
305
N
H
N
306
N
H
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
N
N
314
S
C
N
315
N
C
N
316
N
O
N
317
N
C
Y
318
N
C
Y
319
N
C
Y
320
N
C
Y
321
N
C
Y
322
N
C
Y
323
N
C
N
324
N
O
N
325
N
H
N
326
N
H
N
327
N
H
N
328
N
H
N
329
N
H
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
N
N
337
S
C
N
338
N
C
N
339
N
O
N
340
N
C
N
341
N
C
N
342
N
C
N
343
N
O
N
344
N
H
N
345
N
H
N
346
N
H
N
347
N
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
H
N
353
N
N
N
354
S
C
N
355
N
C
N
356
N
O
N
357
N
C
N
358
N
O
N
359
N
O
N
360
N
H
N
361
N
H
N
362
N
H
N
363
N
H
N
364
N
H
N
365
N
H
N
366
N
H
N
367
N
N
N
368
S
C
N
369
N
C
N
370
N
O
N
371
R
C
N
372
N
O
N
373
N
C
N
374
N
O
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
H
N
383
N
H
N
384
N
N
N
385
S
C
N
386
N
C
N
387
N
O
N
388
N
C
Y
389
N
C
Y
390
N
C
Y
391
N
C
Y
392
N
N
Y
393
N
C
Y
394
N
C
Y
395
N
C
Y
396
N
C
Y
397
N
C
N
398
N
O
N
399
N
H
N
400
N
H
N
401
N
H
N
402
N
H
N
403
N
H
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
N
N
412
S
C
N
413
N
C
N
414
N
O
N
415
N
C
Y
416
N
C
Y
417
N
C
Y
418
N
C
Y
419
N
C
Y
420
N
C
Y
421
N
C
N
422
N
O
N
423
N
O
N
424
N
H
N
425
N
H
N
426
N
H
N
427
N
H
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
N
N
436
S
C
N
437
N
C
N
438
N
O
N
439
N
C
N
440
N
C
N
441
N
C
N
442
N
O
N
443
N
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
H
N
448
N
H
N
449
N
H
N
450
N
H
N
451
N
H
N
452
N
H
N
453
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
trip
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
doub
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
doub
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
sing
N
95
N
sing
N
96
N
doub
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
sing
N
104
N
doub
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
doub
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
doub
N
119
N
sing
N
120
N
sing
N
121
N
doub
N
122
N
sing
N
123
N
sing
N
124
N
doub
N
125
N
sing
N
126
N
doub
N
127
N
sing
N
128
N
sing
Y
129
N
doub
Y
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
133
N
doub
N
134
N
sing
Y
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
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
doub
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
doub
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
Y
161
N
sing
Y
162
N
sing
Y
163
N
doub
N
164
N
sing
Y
165
N
sing
N
166
N
sing
Y
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
doub
N
177
N
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
doub
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
doub
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
Y
210
N
sing
Y
211
N
doub
Y
212
N
doub
N
213
N
sing
Y
214
N
sing
N
215
N
sing
Y
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
doub
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
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
doub
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
N
261
N
sing
N
262
N
sing
N
263
N
sing
N
264
N
sing
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
doub
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
sing
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
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
doub
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
sing
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
N
312
N
sing
N
313
N
doub
N
314
N
sing
N
315
N
sing
N
316
N
sing
N
317
N
sing
Y
318
N
doub
Y
319
N
sing
Y
320
N
sing
N
321
N
sing
Y
322
N
doub
N
323
N
sing
Y
324
N
doub
N
325
N
sing
Y
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
doub
N
337
N
sing
N
338
N
sing
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
sing
N
352
N
sing
N
353
N
doub
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
doub
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
sing
N
380
N
sing
N
381
N
sing
N
382
N
doub
N
383
N
sing
N
384
N
sing
N
385
N
sing
N
386
N
sing
Y
387
N
doub
Y
388
N
sing
Y
389
N
sing
N
390
N
sing
Y
391
N
doub
Y
392
N
sing
Y
393
N
sing
N
394
N
sing
Y
395
N
sing
Y
396
N
doub
N
397
N
sing
Y
398
N
doub
N
399
N
sing
Y
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
sing
N
409
N
sing
N
410
N
doub
N
411
N
sing
N
412
N
sing
N
413
N
sing
N
414
N
sing
Y
415
N
doub
Y
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
419
N
doub
N
420
N
sing
Y
421
N
doub
N
422
N
sing
Y
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
N
431
N
sing
N
432
N
sing
N
433
N
sing
N
434
N
doub
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
sing
N
445
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
41
12952
12958
10.1021/bi020144l
12390021
Structure-based mechanism of O2 sensing and ligand discrimination by
the FixL heme domain of Bradyrhizobium japonicum
2002
10.2210/pdb1lt0/pdb
pdb_00001lt0
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
mirrors
CCD
2000-05-28
ADSC QUANTUM 4
GRAPHITE
SINGLE WAVELENGTH
M
x-ray
1
1.0000
1.0
BL9-2
SSRL
1.0000
SYNCHROTRON
SSRL BEAMLINE BL9-2
14919.858
Sensor protein FixL
2.7.3.-
Heme domain (residues 141-270)
1
man
polymer
26.017
CYANIDE ION
1
syn
non-polymer
616.487
PROTOPORPHYRIN IX CONTAINING FE
1
syn
non-polymer
18.015
water
36
nat
water
no
no
MRETHLRSILHTIPDAMIVIDGHGIIQLFSTAAERLFGWSELEAIGQNVNILMPEPDRSRHDSYISRYRTTSDPHIIGIG
RIVTGKRRDGTTFPMHLSIGEMQSGGEPYFTGFVRDLTEHQQTQARLQELQ
MRETHLRSILHTIPDAMIVIDGHGIIQLFSTAAERLFGWSELEAIGQNVNILMPEPDRSRHDSYISRYRTTSDPHIIGIG
RIVTGKRRDGTTFPMHLSIGEMQSGGEPYFTGFVRDLTEHQQTQARLQELQ
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
Bradyrhizobium
Escherichia
sample
FixL
375
Bradyrhizobium japonicum
562
Escherichia coli
TG1
PLASMID
pBH32
1
3.07
59.91
VAPOR DIFFUSION, HANGING DROP
7.5
SODIUM CHLORIDE, MPD, HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
277
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2002-11-20
1
1
2008-04-28
1
2
2011-07-13
1
3
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
2003-01-21
SPRSDE
Oxygen-Binding Complex Of Fixl Heme Domain
Crystal Structure Of The Nitric Oxide Bound Fixl Heme Domain
Crystal Structure Of Imidazole-Bound Fixl Heme Domain
Crystal Structure Of The Ligand Free Bjfixl Heme Domain
Crystal structure of the CO-bound BjFixL heme domain
Crystal structure of the ferrous BjFixL heme domain
Crystal structure of the methylimidazole-bound BjFixL heme domain
RCSB
Y
RCSB
2002-05-20
REL
CYN
CYANIDE ION
HEM
PROTOPORPHYRIN IX CONTAINING FE
HOH
water
1DRM
PDB ENTRY 1DRM
PDB
experimental model
CN
500
2
CYN
CYN
500
A
HEM
719
3
HEM
HEM
719
A
TIP
1
4
HOH
HOH
1
A
TIP
2
4
HOH
HOH
2
A
TIP
4
4
HOH
HOH
4
A
TIP
5
4
HOH
HOH
5
A
TIP
6
4
HOH
HOH
6
A
TIP
7
4
HOH
HOH
7
A
TIP
9
4
HOH
HOH
9
A
TIP
11
4
HOH
HOH
11
A
TIP
13
4
HOH
HOH
13
A
TIP
14
4
HOH
HOH
14
A
TIP
16
4
HOH
HOH
16
A
TIP
17
4
HOH
HOH
17
A
TIP
18
4
HOH
HOH
18
A
TIP
20
4
HOH
HOH
20
A
TIP
21
4
HOH
HOH
21
A
TIP
22
4
HOH
HOH
22
A
TIP
23
4
HOH
HOH
23
A
TIP
24
4
HOH
HOH
24
A
TIP
25
4
HOH
HOH
25
A
TIP
26
4
HOH
HOH
26
A
TIP
34
4
HOH
HOH
34
A
TIP
36
4
HOH
HOH
36
A
TIP
38
4
HOH
HOH
38
A
TIP
40
4
HOH
HOH
40
A
TIP
41
4
HOH
HOH
41
A
TIP
49
4
HOH
HOH
49
A
TIP
50
4
HOH
HOH
50
A
TIP
52
4
HOH
HOH
52
A
TIP
55
4
HOH
HOH
55
A
TIP
56
4
HOH
HOH
56
A
TIP
57
4
HOH
HOH
57
A
TIP
58
4
HOH
HOH
58
A
TIP
60
4
HOH
HOH
60
A
TIP
64
4
HOH
HOH
64
A
TIP
65
4
HOH
HOH
65
A
TIP
66
4
HOH
HOH
66
A
n
1
140
A
n
2
141
A
n
3
142
A
n
4
143
A
n
5
144
A
n
6
145
A
n
7
146
A
n
8
147
A
n
9
148
A
n
10
149
A
n
11
150
A
n
12
151
A
n
13
152
A
PRO
153
n
14
PRO
153
A
ASP
154
n
15
ASP
154
A
ALA
155
n
16
ALA
155
A
MET
156
n
17
MET
156
A
ILE
157
n
18
ILE
157
A
VAL
158
n
19
VAL
158
A
ILE
159
n
20
ILE
159
A
ASP
160
n
21
ASP
160
A
GLY
161
n
22
GLY
161
A
HIS
162
n
23
HIS
162
A
GLY
163
n
24
GLY
163
A
ILE
164
n
25
ILE
164
A
ILE
165
n
26
ILE
165
A
GLN
166
n
27
GLN
166
A
LEU
167
n
28
LEU
167
A
PHE
168
n
29
PHE
168
A
SER
169
n
30
SER
169
A
THR
170
n
31
THR
170
A
ALA
171
n
32
ALA
171
A
ALA
172
n
33
ALA
172
A
GLU
173
n
34
GLU
173
A
ARG
174
n
35
ARG
174
A
LEU
175
n
36
LEU
175
A
PHE
176
n
37
PHE
176
A
GLY
177
n
38
GLY
177
A
TRP
178
n
39
TRP
178
A
SER
179
n
40
SER
179
A
GLU
180
n
41
GLU
180
A
LEU
181
n
42
LEU
181
A
GLU
182
n
43
GLU
182
A
ALA
183
n
44
ALA
183
A
ILE
184
n
45
ILE
184
A
GLY
185
n
46
GLY
185
A
GLN
186
n
47
GLN
186
A
ASN
187
n
48
ASN
187
A
VAL
188
n
49
VAL
188
A
ASN
189
n
50
ASN
189
A
ILE
190
n
51
ILE
190
A
LEU
191
n
52
LEU
191
A
MET
192
n
53
MET
192
A
PRO
193
n
54
PRO
193
A
GLU
194
n
55
GLU
194
A
PRO
195
n
56
PRO
195
A
ASP
196
n
57
ASP
196
A
ARG
197
n
58
ARG
197
A
SER
198
n
59
SER
198
A
ARG
199
n
60
ARG
199
A
HIS
200
n
61
HIS
200
A
ASP
201
n
62
ASP
201
A
SER
202
n
63
SER
202
A
TYR
203
n
64
TYR
203
A
ILE
204
n
65
ILE
204
A
SER
205
n
66
SER
205
A
ARG
206
n
67
ARG
206
A
TYR
207
n
68
TYR
207
A
ARG
208
n
69
ARG
208
A
THR
209
n
70
THR
209
A
THR
210
n
71
THR
210
A
SER
211
n
72
SER
211
A
ASP
212
n
73
ASP
212
A
PRO
213
n
74
PRO
213
A
HIS
214
n
75
HIS
214
A
ILE
215
n
76
ILE
215
A
ILE
216
n
77
ILE
216
A
GLY
217
n
78
GLY
217
A
ILE
218
n
79
ILE
218
A
GLY
219
n
80
GLY
219
A
ARG
220
n
81
ARG
220
A
ILE
221
n
82
ILE
221
A
VAL
222
n
83
VAL
222
A
THR
223
n
84
THR
223
A
GLY
224
n
85
GLY
224
A
LYS
225
n
86
LYS
225
A
ARG
226
n
87
ARG
226
A
ARG
227
n
88
ARG
227
A
ASP
228
n
89
ASP
228
A
GLY
229
n
90
GLY
229
A
THR
230
n
91
THR
230
A
THR
231
n
92
THR
231
A
PHE
232
n
93
PHE
232
A
PRO
233
n
94
PRO
233
A
MET
234
n
95
MET
234
A
HIS
235
n
96
HIS
235
A
LEU
236
n
97
LEU
236
A
SER
237
n
98
SER
237
A
ILE
238
n
99
ILE
238
A
GLY
239
n
100
GLY
239
A
GLU
240
n
101
GLU
240
A
MET
241
n
102
MET
241
A
GLN
242
n
103
GLN
242
A
SER
243
n
104
SER
243
A
GLY
244
n
105
GLY
244
A
GLY
245
n
106
GLY
245
A
GLU
246
n
107
GLU
246
A
PRO
247
n
108
PRO
247
A
TYR
248
n
109
TYR
248
A
PHE
249
n
110
PHE
249
A
THR
250
n
111
THR
250
A
GLY
251
n
112
GLY
251
A
PHE
252
n
113
PHE
252
A
VAL
253
n
114
VAL
253
A
ALA
254
n
115
ARG
254
A
ASP
255
n
116
ASP
255
A
LEU
256
n
117
LEU
256
A
THR
257
n
118
THR
257
A
GLU
258
n
119
GLU
258
A
HIS
259
n
120
HIS
259
A
GLN
260
n
121
GLN
260
A
GLN
261
n
122
GLN
261
A
THR
262
n
123
THR
262
A
GLN
263
n
124
GLN
263
A
ALA
264
n
125
ALA
264
A
ARG
265
n
126
ARG
265
A
LEU
266
n
127
LEU
266
A
GLN
267
n
128
GLN
267
A
GLU
268
n
129
GLU
268
A
LEU
269
n
130
LEU
269
A
n
131
270
A
author_defined_assembly
1
monomeric
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NA
HEM
1_555
90.1
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NB
HEM
1_555
92.6
A
HEM
719
C
NA
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NB
HEM
1_555
91.0
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NC
HEM
1_555
92.6
A
HEM
719
C
NA
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NC
HEM
1_555
177.3
A
HEM
719
C
NB
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
NC
HEM
1_555
88.9
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
ND
HEM
1_555
88.7
A
HEM
719
C
NA
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
ND
HEM
1_555
90.7
A
HEM
719
C
NB
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
ND
HEM
1_555
177.8
A
HEM
719
C
NC
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
HEM
719
C
ND
HEM
1_555
89.4
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
C
CYN
1_555
172.6
A
HEM
719
C
NA
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
C
CYN
1_555
82.9
A
HEM
719
C
NB
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
C
CYN
1_555
85.2
A
HEM
719
C
NC
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
C
CYN
1_555
94.4
A
HEM
719
C
ND
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
C
CYN
1_555
93.7
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
174.4
A
HEM
719
C
NA
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
84.4
A
HEM
719
C
NB
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
86.2
A
HEM
719
C
NC
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
92.9
A
HEM
719
C
ND
HEM
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
92.7
A
CYN
500
B
C
CYN
1_555
A
HEM
719
C
FE
HEM
1_555
A
CYN
500
B
N
CYN
1_555
1.8
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
O
GLN
166
A
O
GLN
27
A
N
VAL
158
A
N
VAL
19
A
N
ILE
159
A
N
ILE
20
A
O
PHE
249
A
O
PHE
110
A
O
ARG
254
A
O
ARG
115
A
N
HIS
235
A
N
HIS
96
A
O
LEU
236
A
O
LEU
97
A
N
ARG
220
A
N
ARG
81
1
A
CG
ARG
254
A
CG
ARG
115
1
Y
1
A
CD
ARG
254
A
CD
ARG
115
1
Y
1
A
NE
ARG
254
A
NE
ARG
115
1
Y
1
A
CZ
ARG
254
A
CZ
ARG
115
1
Y
1
A
NH1
ARG
254
A
NH1
ARG
115
1
Y
1
A
NH2
ARG
254
A
NH2
ARG
115
1
Y
1
A
MET
140
A
MET
1
1
Y
1
A
ARG
141
A
ARG
2
1
Y
1
A
GLU
142
A
GLU
3
1
Y
1
A
THR
143
A
THR
4
1
Y
1
A
HIS
144
A
HIS
5
1
Y
1
A
LEU
145
A
LEU
6
1
Y
1
A
ARG
146
A
ARG
7
1
Y
1
A
SER
147
A
SER
8
1
Y
1
A
ILE
148
A
ILE
9
1
Y
1
A
LEU
149
A
LEU
10
1
Y
1
A
HIS
150
A
HIS
11
1
Y
1
A
THR
151
A
THR
12
1
Y
1
A
ILE
152
A
ILE
13
1
Y
1
A
GLN
270
A
GLN
131
1
Y
1
A
ASP
154
-71.20
-153.21
18.8
0.268
0.226
2.40
20.0
591
7182
7032
96.9
RANDOM
1
Isotropic
THROUGHOUT
0
0
FOURIER SYNTHESIS
PDB ENTRY 1DRM
Engh & Huber
2.40
20.0
36
1002
45
0
921
1.73
0.016
0.329
0.225
2.51
66
879
100.0
2.7
20.0
1LT0
7182
7032
-3.0
0.032
0.032
1
24.3
3.3
96.9
0.221
2.40
2.48
7.0
900
0.221
100.0
data reduction
DENZO
data scaling
SCALEPACK
model building
X-PLOR
refinement
X-PLOR
3.851
phasing
X-PLOR
Crystal structure of the CN-bound BjFixL heme domain
1
N
N
2
N
N
3
N
N
4
N
N
A
SER
169
A
SER
30
HELX_P
A
GLY
177
A
GLY
38
1
1
9
A
SER
179
A
SER
40
HELX_P
A
ILE
184
A
ILE
45
1
2
6
A
ASN
187
A
ASN
48
HELX_P
A
MET
192
A
MET
53
5
3
6
A
PRO
195
A
PRO
56
HELX_P
A
SER
211
A
SER
72
1
4
17
A
LEU
256
A
LEU
117
HELX_P
A
LEU
269
A
LEU
130
1
5
14
metalc
2.099
A
HIS
200
A
NE2
HIS
61
1_555
A
HEM
719
C
FE
HEM
1_555
metalc
1.989
A
CYN
500
B
C
CYN
1_555
A
HEM
719
C
FE
HEM
1_555
metalc
3.032
A
CYN
500
B
N
CYN
1_555
A
HEM
719
C
FE
HEM
1_555
TRANSFERASE
PAS fold, TRANSFERASE
A
GLU
194
A
GLU
55
1
A
PRO
195
A
PRO
56
-0.73
FIXL_BRAJA
UNP
1
141
P23222
RETHLRSILHTIPDAMIVIDGHGIIQLFSTAAERLFGWSELEAIGQNVNILMPEPDRSRHDSYISRYRTTSDPHIIGIGR
IVTGKRRDGTTFPMHLSIGEMQSGGEPYFTGFVRDLTEHQQTQARLQELQ
141
270
1LT0
141
270
P23222
A
1
2
131
1
initiating methionine
MET
140
1LT0
A
P23222
UNP
1
5
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
ILE
165
A
ILE
26
A
PHE
168
A
PHE
29
A
ALA
155
A
ALA
16
A
ASP
160
A
ASP
21
A
GLU
246
A
GLU
107
A
ASP
255
A
ASP
116
A
THR
231
A
THR
92
A
SER
243
A
SER
104
A
ARG
220
A
ARG
81
A
LYS
225
A
LYS
86
BINDING SITE FOR RESIDUE CYN A 500
A
CYN
500
Software
5
BINDING SITE FOR RESIDUE HEM A 719
A
HEM
719
Software
21
A
ILE
215
A
ILE
76
5
1_555
A
ARG
220
A
ARG
81
5
1_555
A
LEU
236
A
LEU
97
5
1_555
A
ILE
238
A
ILE
99
5
1_555
A
HEM
719
C
HEM
5
1_555
A
HOH
36
D
HOH
21
1_555
A
ILE
157
A
ILE
18
21
1_555
A
ILE
159
A
ILE
20
21
1_555
A
LEU
191
A
LEU
52
21
1_555
A
MET
192
A
MET
53
21
1_555
A
ASP
196
A
ASP
57
21
1_555
A
HIS
200
A
HIS
61
21
1_555
A
TYR
203
A
TYR
64
21
1_555
A
ARG
206
A
ARG
67
21
1_555
A
PRO
213
A
PRO
74
21
1_555
A
HIS
214
A
HIS
75
21
1_555
A
ILE
215
A
ILE
76
21
1_555
A
ILE
216
A
ILE
77
21
1_555
A
ARG
220
A
ARG
81
21
1_555
A
THR
223
A
THR
84
21
1_555
A
MET
234
A
MET
95
21
1_555
A
LEU
236
A
LEU
97
21
1_555
A
ILE
238
A
ILE
99
21
1_555
A
PHE
249
A
PHE
110
21
1_555
A
GLY
251
A
GLY
112
21
1_555
A
CYN
500
B
CYN
21
1_555
155
H 3 2