0.032295
0.000000
0.000000
0.000000
0.019662
0.000000
0.000000
0.000000
0.013042
0.000000
0.000000
0.000000
Okamoto, Y.
Onoda, A.
Sugimoto, H.
Takano, Y.
Hirota, S.
Kurtz Jr., D.M.
Shiro, Y.
Hayashi, T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.000
0.0
90.000
0.0
90.000
0.0
30.965
0.001
50.859
0.001
76.677
0.002
80030
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
Fe2 O
127.689
MU-OXO-DIIRON
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
FE
N
75
N
FE
N
76
N
O
N
77
N
N
N
78
S
C
N
79
N
C
N
80
N
O
N
81
N
C
N
82
N
C
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
O
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
H
N
97
N
N
N
98
S
C
N
99
N
C
N
100
N
O
N
101
N
C
N
102
N
C
N
103
N
C
N
104
N
O
N
105
N
O
N
106
N
O
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
H
N
116
N
N
N
117
N
C
N
118
N
C
N
119
N
O
N
120
N
O
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
N
N
127
S
C
N
128
N
C
N
129
N
O
N
130
N
C
Y
131
N
C
Y
132
N
N
Y
133
N
C
Y
134
N
C
Y
135
N
N
N
136
N
O
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
O
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
S
C
N
155
N
C
N
156
N
C
N
157
N
C
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
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
N
N
173
S
C
N
174
N
C
N
175
N
O
N
176
N
C
N
177
N
C
N
178
N
C
N
179
N
C
N
180
N
O
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
N
N
195
S
C
N
196
N
C
N
197
N
O
N
198
N
C
N
199
N
C
N
200
N
C
N
201
N
C
N
202
N
N
N
203
N
O
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
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
S
C
N
221
N
C
N
222
N
O
N
223
N
C
N
224
N
C
N
225
N
S
N
226
N
C
N
227
N
O
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
H
N
238
N
H
N
239
N
N
N
240
S
C
N
241
N
C
N
242
N
O
N
243
N
C
Y
244
N
C
Y
245
N
C
Y
246
N
C
Y
247
N
C
Y
248
N
C
Y
249
N
C
N
250
N
O
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
H
N
260
N
H
N
261
N
H
N
262
N
N
N
263
S
C
N
264
N
C
N
265
N
O
N
266
N
C
N
267
N
C
N
268
N
C
N
269
N
O
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
N
N
280
S
C
N
281
N
C
N
282
N
O
N
283
N
C
N
284
N
O
N
285
N
O
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
R
C
N
298
N
O
N
299
N
C
N
300
N
O
N
301
N
H
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
N
N
311
S
C
N
312
N
C
N
313
N
O
N
314
N
C
Y
315
N
C
Y
316
N
C
Y
317
N
C
Y
318
N
N
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
H
N
337
N
N
N
338
S
C
N
339
N
C
N
340
N
O
N
341
N
C
Y
342
N
C
Y
343
N
C
Y
344
N
C
Y
345
N
C
Y
346
N
C
Y
347
N
C
N
348
N
O
N
349
N
O
N
350
N
H
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
H
N
359
N
H
N
360
N
H
N
361
N
N
N
362
S
C
N
363
N
C
N
364
N
O
N
365
N
C
N
366
N
C
N
367
N
C
N
368
N
O
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
H
N
376
N
H
N
377
N
H
N
378
N
H
N
379
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
sing
N
77
N
sing
N
78
N
doub
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
sing
N
86
N
doub
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
sing
N
97
N
doub
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
sing
N
105
N
doub
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
doub
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
Y
129
N
sing
Y
130
N
doub
Y
131
N
doub
N
132
N
sing
Y
133
N
sing
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
sing
N
146
N
sing
N
147
N
doub
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
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
doub
N
169
N
sing
N
170
N
sing
N
171
N
sing
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
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
doub
N
190
N
sing
N
191
N
sing
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
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
doub
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
Y
237
N
doub
Y
238
N
sing
Y
239
N
sing
N
240
N
sing
Y
241
N
doub
N
242
N
sing
Y
243
N
doub
N
244
N
sing
Y
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
doub
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
doub
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
sing
N
299
N
sing
N
300
N
sing
N
301
N
doub
N
302
N
sing
N
303
N
sing
N
304
N
sing
N
305
N
sing
Y
306
N
doub
Y
307
N
sing
Y
308
N
sing
N
309
N
sing
Y
310
N
doub
Y
311
N
sing
Y
312
N
sing
N
313
N
sing
Y
314
N
sing
Y
315
N
doub
N
316
N
sing
Y
317
N
doub
N
318
N
sing
Y
319
N
sing
N
320
N
sing
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
doub
N
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
Y
334
N
doub
Y
335
N
sing
Y
336
N
sing
N
337
N
sing
Y
338
N
doub
N
339
N
sing
Y
340
N
doub
N
341
N
sing
Y
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
US
Inorg.Chem.
INOCAJ
0009
0020-1669
52
13014
13020
10.1021/ic401632x
24187962
Crystal structure, exogenous ligand binding, and redox properties of an engineered diiron active site in a bacterial hemerythrin
2013
10.2210/pdb3waq/pdb
pdb_00003waq
100
1
mirrors
CCD
2012-10-08
RAYONIX MX225HE
1.00 degrees, 1.8 sec, detector distance 174.547 mm
\w scans
Si(111)
SINGLE WAVELENGTH
M
x-ray
1
1.00
1.0
0.061
80030
BL41XU
SPring-8
1.00
SYNCHROTRON
SPRING-8 BEAMLINE BL41XU
16174.239
Hemerythrin-like domain protein DcrH
I119E
1
man
polymer
127.689
MU-OXO-DIIRON
1
syn
non-polymer
18.015
water
57
nat
water
no
no
GDADVLVKWSEDLANLPSIDTQHKRLVDYINDLYRAARRRDMDKAREVFDALKNYAVEHFGYEERLFADYAYPEATRHKE
IHRRFVETVLKWEKQLAAGDPEVVMTTLRGLVDWLVNHEMKEDKKYEAYLRERGVS
GDADVLVKWSEDLANLPSIDTQHKRLVDYINDLYRAARRRDMDKAREVFDALKNYAVEHFGYEERLFADYAYPEATRHKE
IHRRFVETVLKWEKQLAAGDPEVVMTTLRGLVDWLVNHEMKEDKKYEAYLRERGVS
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
Hildenborough
sample
dcrH
882
Desulfovibrio vulgaris
562
Escherichia coli
BL21(DE3)
plasmid
pET-16b
1
1.87
34.10
SMALL TUBES
7.0
50mM MOPS, 50mg/mL protein, pH 7.0, SMALL TUBES, temperature 277K
277
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Data collection
Database references
Derived calculations
Refinement description
1
0
2014-03-19
1
1
2023-11-08
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_label_atom_id
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Wild type in met form
Wild type in semimet-R form
PDBJ
Y
PDBJ
2013-05-07
REL
REL
FEO
MU-OXO-DIIRON
HOH
water
3AGT
PDB
experimental model
FEO
201
2
FEO
FEO
201
A
HOH
301
3
HOH
HOH
301
A
HOH
302
3
HOH
HOH
302
A
HOH
303
3
HOH
HOH
303
A
HOH
304
3
HOH
HOH
304
A
HOH
305
3
HOH
HOH
305
A
HOH
306
3
HOH
HOH
306
A
HOH
307
3
HOH
HOH
307
A
HOH
308
3
HOH
HOH
308
A
HOH
309
3
HOH
HOH
309
A
HOH
310
3
HOH
HOH
310
A
HOH
311
3
HOH
HOH
311
A
HOH
312
3
HOH
HOH
312
A
HOH
313
3
HOH
HOH
313
A
HOH
314
3
HOH
HOH
314
A
HOH
315
3
HOH
HOH
315
A
HOH
316
3
HOH
HOH
316
A
HOH
317
3
HOH
HOH
317
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
320
3
HOH
HOH
320
A
HOH
321
3
HOH
HOH
321
A
HOH
322
3
HOH
HOH
322
A
HOH
323
3
HOH
HOH
323
A
HOH
324
3
HOH
HOH
324
A
HOH
325
3
HOH
HOH
325
A
HOH
326
3
HOH
HOH
326
A
HOH
327
3
HOH
HOH
327
A
HOH
328
3
HOH
HOH
328
A
HOH
329
3
HOH
HOH
329
A
HOH
330
3
HOH
HOH
330
A
HOH
331
3
HOH
HOH
331
A
HOH
332
3
HOH
HOH
332
A
HOH
333
3
HOH
HOH
333
A
HOH
334
3
HOH
HOH
334
A
HOH
335
3
HOH
HOH
335
A
HOH
336
3
HOH
HOH
336
A
HOH
337
3
HOH
HOH
337
A
HOH
338
3
HOH
HOH
338
A
HOH
339
3
HOH
HOH
339
A
HOH
340
3
HOH
HOH
340
A
HOH
341
3
HOH
HOH
341
A
HOH
342
3
HOH
HOH
342
A
HOH
343
3
HOH
HOH
343
A
HOH
344
3
HOH
HOH
344
A
HOH
345
3
HOH
HOH
345
A
HOH
346
3
HOH
HOH
346
A
HOH
347
3
HOH
HOH
347
A
HOH
348
3
HOH
HOH
348
A
HOH
349
3
HOH
HOH
349
A
HOH
350
3
HOH
HOH
350
A
HOH
351
3
HOH
HOH
351
A
HOH
352
3
HOH
HOH
352
A
HOH
353
3
HOH
HOH
353
A
HOH
354
3
HOH
HOH
354
A
HOH
355
3
HOH
HOH
355
A
HOH
356
3
HOH
HOH
356
A
HOH
357
3
HOH
HOH
357
A
n
1
1
A
n
2
2
A
ALA
3
n
3
ALA
3
A
ASP
4
n
4
ASP
4
A
VAL
5
n
5
VAL
5
A
LEU
6
n
6
LEU
6
A
VAL
7
n
7
VAL
7
A
LYS
8
n
8
LYS
8
A
TRP
9
n
9
TRP
9
A
SER
10
n
10
SER
10
A
GLU
11
n
11
GLU
11
A
ASP
12
n
12
ASP
12
A
LEU
13
n
13
LEU
13
A
ALA
14
n
14
ALA
14
A
ASN
15
n
15
ASN
15
A
LEU
16
n
16
LEU
16
A
PRO
17
n
17
PRO
17
A
SER
18
n
18
SER
18
A
ILE
19
n
19
ILE
19
A
ASP
20
n
20
ASP
20
A
THR
21
n
21
THR
21
A
GLN
22
n
22
GLN
22
A
HIS
23
n
23
HIS
23
A
LYS
24
n
24
LYS
24
A
ARG
25
n
25
ARG
25
A
LEU
26
n
26
LEU
26
A
VAL
27
n
27
VAL
27
A
ASP
28
n
28
ASP
28
A
TYR
29
n
29
TYR
29
A
ILE
30
n
30
ILE
30
A
ASN
31
n
31
ASN
31
A
ASP
32
n
32
ASP
32
A
LEU
33
n
33
LEU
33
A
TYR
34
n
34
TYR
34
A
ARG
35
n
35
ARG
35
A
ALA
36
n
36
ALA
36
A
ALA
37
n
37
ALA
37
A
ARG
38
n
38
ARG
38
A
ARG
39
n
39
ARG
39
A
ARG
40
n
40
ARG
40
A
ASP
41
n
41
ASP
41
A
MET
42
n
42
MET
42
A
ASP
43
n
43
ASP
43
A
LYS
44
n
44
LYS
44
A
ALA
45
n
45
ALA
45
A
ARG
46
n
46
ARG
46
A
GLU
47
n
47
GLU
47
A
VAL
48
n
48
VAL
48
A
PHE
49
n
49
PHE
49
A
ASP
50
n
50
ASP
50
A
ALA
51
n
51
ALA
51
A
LEU
52
n
52
LEU
52
A
LYS
53
n
53
LYS
53
A
ASN
54
n
54
ASN
54
A
TYR
55
n
55
TYR
55
A
ALA
56
n
56
ALA
56
A
VAL
57
n
57
VAL
57
A
GLU
58
n
58
GLU
58
A
HIS
59
n
59
HIS
59
A
PHE
60
n
60
PHE
60
A
GLY
61
n
61
GLY
61
A
TYR
62
n
62
TYR
62
A
GLU
63
n
63
GLU
63
A
GLU
64
n
64
GLU
64
A
ARG
65
n
65
ARG
65
A
LEU
66
n
66
LEU
66
A
PHE
67
n
67
PHE
67
A
ALA
68
n
68
ALA
68
A
ASP
69
n
69
ASP
69
A
TYR
70
n
70
TYR
70
A
ALA
71
n
71
ALA
71
A
TYR
72
n
72
TYR
72
A
PRO
73
n
73
PRO
73
A
GLU
74
n
74
GLU
74
A
ALA
75
n
75
ALA
75
A
THR
76
n
76
THR
76
A
ARG
77
n
77
ARG
77
A
HIS
78
n
78
HIS
78
A
LYS
79
n
79
LYS
79
A
GLU
80
n
80
GLU
80
A
ILE
81
n
81
ILE
81
A
HIS
82
n
82
HIS
82
A
ARG
83
n
83
ARG
83
A
ARG
84
n
84
ARG
84
A
PHE
85
n
85
PHE
85
A
VAL
86
n
86
VAL
86
A
GLU
87
n
87
GLU
87
A
THR
88
n
88
THR
88
A
VAL
89
n
89
VAL
89
A
LEU
90
n
90
LEU
90
A
LYS
91
n
91
LYS
91
A
TRP
92
n
92
TRP
92
A
GLU
93
n
93
GLU
93
A
LYS
94
n
94
LYS
94
A
GLN
95
n
95
GLN
95
A
LEU
96
n
96
LEU
96
A
ALA
97
n
97
ALA
97
A
ALA
98
n
98
ALA
98
A
GLY
99
n
99
GLY
99
A
ASP
100
n
100
ASP
100
A
PRO
101
n
101
PRO
101
A
GLU
102
n
102
GLU
102
A
VAL
103
n
103
VAL
103
A
VAL
104
n
104
VAL
104
A
MET
105
n
105
MET
105
A
THR
106
n
106
THR
106
A
THR
107
n
107
THR
107
A
LEU
108
n
108
LEU
108
A
ARG
109
n
109
ARG
109
A
GLY
110
n
110
GLY
110
A
LEU
111
n
111
LEU
111
A
VAL
112
n
112
VAL
112
A
ASP
113
n
113
ASP
113
A
TRP
114
n
114
TRP
114
A
LEU
115
n
115
LEU
115
A
VAL
116
n
116
VAL
116
A
ASN
117
n
117
ASN
117
A
HIS
118
n
118
HIS
118
A
GLU
119
n
119
GLU
119
A
MET
120
n
120
MET
120
A
LYS
121
n
121
LYS
121
A
GLU
122
n
122
GLU
122
A
ASP
123
n
123
ASP
123
A
LYS
124
n
124
LYS
124
A
LYS
125
n
125
LYS
125
A
TYR
126
n
126
TYR
126
A
GLU
127
n
127
GLU
127
A
ALA
128
n
128
ALA
128
A
TYR
129
n
129
TYR
129
A
LEU
130
n
130
LEU
130
A
ARG
131
n
131
ARG
131
A
GLU
132
n
132
GLU
132
A
ARG
133
n
133
ARG
133
A
GLY
134
n
134
GLY
134
A
VAL
135
n
135
VAL
135
A
SER
136
n
136
SER
136
A
0.9846
0.0021
0.0323
2.6646
-1.5080
3.1489
0.0451
-0.0959
-0.0496
0.2828
-0.1205
-0.2480
0.0147
0.1469
0.1130
0.1333
-0.0192
0.0031
0.1324
-0.0130
0.1552
refined
11.4328
5.9578
21.6186
X-RAY DIFFRACTION
2.6431
-0.2514
-0.3028
3.4183
-0.2858
2.3826
-0.0677
0.0366
0.1469
0.4806
0.1038
0.3561
-0.0173
-0.3185
-0.0445
0.1438
0.0166
0.0511
0.1029
0.0072
0.1792
refined
3.7165
11.8105
18.6489
X-RAY DIFFRACTION
A
4
A
70
X-RAY DIFFRACTION
1
chain 'A' and (resseq 4:70)
A
71
A
201
X-RAY DIFFRACTION
2
chain 'A' and (resseq 71:201)
author_and_software_defined_assembly
PISA
1
monomeric
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
A
FEO
201
B
O
FEO
1_555
176.7
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
A
HIS
59
A
NE2
HIS
59
1_555
82.7
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE2
FEO
1_555
A
HIS
59
A
NE2
HIS
59
1_555
95.7
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
63
A
OE2
GLU
63
1_555
91.3
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
63
A
OE2
GLU
63
1_555
91.3
A
HIS
59
A
NE2
HIS
59
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
63
A
OE2
GLU
63
1_555
83.4
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
119
A
OE1
GLU
119
1_555
75.5
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
119
A
OE1
GLU
119
1_555
102.0
A
HIS
59
A
NE2
HIS
59
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
119
A
OE1
GLU
119
1_555
99.1
A
GLU
63
A
OE2
GLU
63
1_555
A
FEO
201
B
FE2
FEO
1_555
A
GLU
119
A
OE1
GLU
119
1_555
166.1
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
A
ASP
123
A
OD2
ASP
123
1_555
80.6
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE2
FEO
1_555
A
ASP
123
A
OD2
ASP
123
1_555
101.5
A
HIS
59
A
NE2
HIS
59
1_555
A
FEO
201
B
FE2
FEO
1_555
A
ASP
123
A
OD2
ASP
123
1_555
160.0
A
GLU
63
A
OE2
GLU
63
1_555
A
FEO
201
B
FE2
FEO
1_555
A
ASP
123
A
OD2
ASP
123
1_555
86.2
A
GLU
119
A
OE1
GLU
119
1_555
A
FEO
201
B
FE2
FEO
1_555
A
ASP
123
A
OD2
ASP
123
1_555
87.1
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
A
FEO
201
B
O
FEO
1_555
88.6
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
78
A
NE2
HIS
78
1_555
87.1
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
78
A
NE2
HIS
78
1_555
175.6
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
82
A
NE2
HIS
82
1_555
89.1
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
82
A
NE2
HIS
82
1_555
92.9
A
HIS
78
A
NE2
HIS
78
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
82
A
NE2
HIS
82
1_555
86.0
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
118
A
NE2
HIS
118
1_555
175.6
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
118
A
NE2
HIS
118
1_555
94.8
A
HIS
78
A
NE2
HIS
78
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
118
A
NE2
HIS
118
1_555
89.4
A
HIS
82
A
NE2
HIS
82
1_555
A
FEO
201
B
FE1
FEO
1_555
A
HIS
118
A
NE2
HIS
118
1_555
87.9
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
A
ASP
123
A
OD1
ASP
123
1_555
91.5
A
FEO
201
B
O
FEO
1_555
A
FEO
201
B
FE1
FEO
1_555
A
ASP
123
A
OD1
ASP
123
1_555
100.7
A
HIS
78
A
NE2
HIS
78
1_555
A
FEO
201
B
FE1
FEO
1_555
A
ASP
123
A
OD1
ASP
123
1_555
80.5
A
HIS
82
A
NE2
HIS
82
1_555
A
FEO
201
B
FE1
FEO
1_555
A
ASP
123
A
OD1
ASP
123
1_555
166.5
A
HIS
118
A
NE2
HIS
118
1_555
A
FEO
201
B
FE1
FEO
1_555
A
ASP
123
A
OD1
ASP
123
1_555
90.7
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
1
A
GLY
1
A
GLY
1
1
Y
1
A
ASP
2
A
ASP
2
1
Y
1
A
ASN
15
-151.03
-150.77
1
A
ASP
41
-165.74
95.82
1
A
HIS
118
-99.80
-63.44
1
A
MET
120
-87.65
-74.86
86.550
27.7712
10.690
9.6156
0.0000
-0.0000
-0.1220
0.0000
-9.4936
SF FILE CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS
0.2610
0.2068
0.2095
1.80
19.7120
1066
21644
4.9300
99.2100
1.000
0.300
0.8027
0.2300
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
26.4300
0.9000
1.1100
3AGT
ML
FLAT BULK SOLVENT MODEL
47.6900
0.3590
1.80
19.7120
57
1189
3
0
1129
0.015
1190
1.322
1629
0.082
169
0.006
207
16.091
454
0.3144
0.2241
1.8773
131
2464
2595
8
96.0000
0.3235
0.2226
1.9762
122
2593
2715
8
99.0000
0.2708
0.2197
2.0999
141
2547
2688
8
100.0000
0.2424
0.1957
2.2618
118
2633
2751
8
100.0000
0.2758
0.1896
2.4891
163
2559
2722
8
100.0000
0.2595
0.2078
2.8483
145
2605
2750
8
100.0000
0.2323
0.2071
3.5850
126
2576
2702
8
100.0000
0.2581
0.2071
19.7127
120
2601
2721
8
99.0000
1.80
20.00
3WAQ
23644
0
-3
0.061
0.061
1
25.054
6.8
99.8
0.279
1.80
1.86
4.895
0.279
1
6.2
99.3
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
program
refinement
Paul D. Adams
PDAdams@lbl.gov
C++
http://www.phenix-online.org/
PHENIX
package
1.7.3_928
data extraction
PDB
deposit@deposit.rcsb.org
April 22, 2011
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.11
data collection
BSS
data reduction
HKL-2000
data scaling
HKL-2000
phasing
MOLREP
Hemerythrin-like domain of DcrH I119E mutant (met)
1
N
N
2
N
N
3
N
N
A
LEU
16
A
LEU
16
HELX_P
A
ARG
40
A
ARG
40
1
1
25
A
ASP
41
A
ASP
41
HELX_P
A
ALA
71
A
ALA
71
1
2
31
A
GLU
74
A
GLU
74
HELX_P
A
LEU
96
A
LEU
96
1
3
23
A
GLU
102
A
GLU
102
HELX_P
A
HIS
118
A
HIS
118
1
4
17
A
MET
120
A
MET
120
HELX_P
A
LYS
125
A
LYS
125
1
5
6
A
TYR
126
A
TYR
126
HELX_P
A
ARG
133
A
ARG
133
1
6
8
metalc
2.367
A
HIS
23
A
NE2
HIS
23
1_555
A
FEO
201
B
FE2
FEO
1_555
metalc
2.079
A
HIS
59
A
NE2
HIS
59
1_555
A
FEO
201
B
FE2
FEO
1_555
metalc
2.108
A
GLU
63
A
OE1
GLU
63
1_555
A
FEO
201
B
FE1
FEO
1_555
metalc
2.255
A
GLU
63
A
OE2
GLU
63
1_555
A
FEO
201
B
FE2
FEO
1_555
metalc
2.258
A
HIS
78
A
NE2
HIS
78
1_555
A
FEO
201
B
FE1
FEO
1_555
metalc
2.272
A
HIS
82
A
NE2
HIS
82
1_555
A
FEO
201
B
FE1
FEO
1_555
metalc
2.104
A
HIS
118
A
NE2
HIS
118
1_555
A
FEO
201
B
FE1
FEO
1_555
metalc
2.066
A
GLU
119
A
OE1
GLU
119
1_555
A
FEO
201
B
FE2
FEO
1_555
metalc
2.029
A
ASP
123
A
OD2
ASP
123
1_555
A
FEO
201
B
FE2
FEO
1_555
metalc
2.262
A
ASP
123
A
OD1
ASP
123
1_555
A
FEO
201
B
FE1
FEO
1_555
METAL BINDING PROTEIN
metal-binding, helix bundle, METAL BINDING PROTEIN, OXYGEN SENSOR
A
ARG
39
A
ARG
39
1
A
ARG
40
A
ARG
40
-9.75
A
ALA
97
A
ALA
97
1
A
ALA
98
A
ALA
98
-5.80
Q9REU3_DESVU
UNP
1
1
Q9REU3
GDADVLVKWSEDLANLPSIDTQHKRLVDYINDLYRAARRRDMDKAREVFDALKNYAVEHFGYEERLFADYAYPEATRHKE
IHRRFVETVLKWEKQLAAGDPEVVMTTLRGLVDWLVNHIMKEDKKYEAYLRERGVS
1
136
3WAQ
1
136
Q9REU3
A
1
1
136
1
ILE
engineered mutation
GLU
119
3WAQ
A
Q9REU3
UNP
119
119
BINDING SITE FOR RESIDUE FEO A 201
A
FEO
201
Software
9
A
HIS
23
A
HIS
23
9
1_555
A
HIS
59
A
HIS
59
9
1_555
A
PHE
60
A
PHE
60
9
1_555
A
GLU
63
A
GLU
63
9
1_555
A
HIS
78
A
HIS
78
9
1_555
A
HIS
82
A
HIS
82
9
1_555
A
HIS
118
A
HIS
118
9
1_555
A
GLU
119
A
GLU
119
9
1_555
A
ASP
123
A
ASP
123
9
1_555
19
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