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- PDB-3e1o: Crystal structure of E. coli Bacterioferritin (BFR) with two ZN(I... -

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Basic information

Entry
Database: PDB / ID: 3e1o
TitleCrystal structure of E. coli Bacterioferritin (BFR) with two ZN(II) ION sites at the Ferroxidase centre (ZN-BFR).
ComponentsBACTERIOFERRITIN
KeywordsMETAL BINDING PROTEIN / BACTERIOFERRITIN. RHOMBIC DODECAHEDRAL SUPERSTRUCTURE. / HEME / IRON / IRON STORAGE / METAL-BINDING
Function / homology
Function and homology information


ferroxidase / intracellular sequestering of iron ion / ferroxidase activity / ferric iron binding / iron ion transport / oxidoreductase activity / iron ion binding / heme binding / protein homodimerization activity / membrane ...ferroxidase / intracellular sequestering of iron ion / ferroxidase activity / ferric iron binding / iron ion transport / oxidoreductase activity / iron ion binding / heme binding / protein homodimerization activity / membrane / identical protein binding / cytosol
Similarity search - Function
Bacterioferritin signature. / Bacterioferritin / Ferritin, core subunit, four-helix bundle / Ferritin / Ferritin-like diiron domain / Ferritin-like diiron domain profile. / Ferritin/DPS protein domain / Ferritin-like domain / Ferritin-like / Ferritin-like superfamily ...Bacterioferritin signature. / Bacterioferritin / Ferritin, core subunit, four-helix bundle / Ferritin / Ferritin-like diiron domain / Ferritin-like diiron domain profile. / Ferritin/DPS protein domain / Ferritin-like domain / Ferritin-like / Ferritin-like superfamily / Up-down Bundle / Mainly Alpha
Similarity search - Domain/homology
PROTOPORPHYRIN IX CONTAINING FE / Bacterioferritin
Similarity search - Component
Biological speciesESCHERICHIA COLI (E. coli)
MethodX-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.95 Å
AuthorsCrow, A. / Lawson, T. / Lewin, A. / Moore, G.R. / Le Brun, N.
CitationJournal: J.Am.Chem.Soc. / Year: 2009
Title: Structural basis for iron mineralization by bacterioferritin
Authors: Crow, A. / Lawson, T.L. / Lewin, A. / Moore, G.R. / Le Brun, N.E.
History
DepositionAug 4, 2008Deposition site: RCSB / Processing site: RCSB
Revision 1.0May 5, 2009Provider: repository / Type: Initial release
Revision 1.1Jul 13, 2011Group: Version format compliance
Revision 1.2Aug 30, 2023Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Refinement description
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_initial_refinement_model / pdbx_struct_conn_angle / struct_conn / struct_ncs_dom_lim / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_struct_conn_angle.ptnr1_auth_asym_id / _pdbx_struct_conn_angle.ptnr1_auth_comp_id / _pdbx_struct_conn_angle.ptnr1_auth_seq_id / _pdbx_struct_conn_angle.ptnr1_label_asym_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.ptnr2_auth_asym_id / _pdbx_struct_conn_angle.ptnr2_auth_comp_id / _pdbx_struct_conn_angle.ptnr2_auth_seq_id / _pdbx_struct_conn_angle.ptnr2_label_asym_id / _pdbx_struct_conn_angle.ptnr2_label_atom_id / _pdbx_struct_conn_angle.ptnr2_label_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_asym_id / _pdbx_struct_conn_angle.ptnr3_auth_comp_id / _pdbx_struct_conn_angle.ptnr3_auth_seq_id / _pdbx_struct_conn_angle.ptnr3_label_asym_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_asym_id / _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_asym_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_ncs_dom_lim.beg_auth_comp_id / _struct_ncs_dom_lim.beg_label_asym_id / _struct_ncs_dom_lim.end_auth_comp_id / _struct_ncs_dom_lim.end_label_asym_id / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id
Remark 650HELIX DETERMINATION METHOD: AUTHOR

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: BACTERIOFERRITIN
B: BACTERIOFERRITIN
C: BACTERIOFERRITIN
D: BACTERIOFERRITIN
E: BACTERIOFERRITIN
F: BACTERIOFERRITIN
G: BACTERIOFERRITIN
H: BACTERIOFERRITIN
I: BACTERIOFERRITIN
J: BACTERIOFERRITIN
K: BACTERIOFERRITIN
L: BACTERIOFERRITIN
hetero molecules


Theoretical massNumber of molelcules
Total (without water)229,02258
Polymers222,21612
Non-polymers6,80646
Water3,855214
1
A: BACTERIOFERRITIN
B: BACTERIOFERRITIN
C: BACTERIOFERRITIN
D: BACTERIOFERRITIN
E: BACTERIOFERRITIN
F: BACTERIOFERRITIN
G: BACTERIOFERRITIN
H: BACTERIOFERRITIN
I: BACTERIOFERRITIN
J: BACTERIOFERRITIN
K: BACTERIOFERRITIN
L: BACTERIOFERRITIN
hetero molecules

A: BACTERIOFERRITIN
B: BACTERIOFERRITIN
C: BACTERIOFERRITIN
D: BACTERIOFERRITIN
E: BACTERIOFERRITIN
F: BACTERIOFERRITIN
G: BACTERIOFERRITIN
H: BACTERIOFERRITIN
I: BACTERIOFERRITIN
J: BACTERIOFERRITIN
K: BACTERIOFERRITIN
L: BACTERIOFERRITIN
hetero molecules


Theoretical massNumber of molelcules
Total (without water)458,044116
Polymers444,43224
Non-polymers13,61192
Water43224
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
crystal symmetry operation7_555y,x,-z1
Buried area92570 Å2
ΔGint-999 kcal/mol
Surface area129670 Å2
MethodPISA
Unit cell
Length a, b, c (Å)207.867, 207.867, 142.432
Angle α, β, γ (deg.)90.00, 90.00, 90.00
Int Tables number94
Space group name H-MP42212
Noncrystallographic symmetry (NCS)NCS domain:
IDEns-IDDetails
11A
21B
31C
41D
51E
61F
71G
81H
91I
101J
111K
121L
131A
141B
151C
161D
171E
181F
191G
201H
211I
221J
231K
241L
251A
261B
271C
281D
291E
301F
311G
321H
331I
341J
351K
361L
371A
381B
391C
401D
411E
421F
431G
441H
451I
461J
471K
481L
12B
22A
32C
42D
52E
62F
72G
82H
92I
102J
112K
122L
132B
142A
152C
162D
172E
182F
192G
202H
212I
222J
232K
242L
252B
262A
272C
282D
292E
302F
312G
322H
332I
342J
352K
362L
372B
382A
392C
402D
412E
422F
432G
442H
452I
462J
472K
482L
13C
23A
33B
43D
53E
63F
73G
83H
93I
103J
113K
123L
133C
143A
153B
163D
173E
183F
193G
203H
213I
223J
233K
243L
253C
263A
273B
283D
293E
303F
313G
323H
333I
343J
353K
363L
373C
383A
393B
403D
413E
423F
433G
443H
453I
463J
473K
483L
14D
24A
34B
44C
54E
64F
74G
84H
94I
104J
114K
124L
134D
144A
154B
164C
174E
184F
194G
204H
214I
224J
234K
244L
254D
264A
274B
284C
294E
304F
314G
324H
334I
344J
354K
364L
374D
384A
394B
404C
414E
424F
434G
444H
454I
464J
474K
484L
15E
25A
35B
45C
55D
65F
75G
85H
95I
105J
115K
125L
135E
145A
155B
165C
175D
185F
195G
205H
215I
225J
235K
245L
255E
265A
275B
285C
295D
305F
315G
325H
335I
345J
355K
365L
375E
385A
395B
405C
415D
425F
435G
445H
455I
465J
475K
485L
16F
26A
36B
46C
56D
66E
76G
86H
96I
106J
116K
126L
136F
146A
156B
166C
176D
186E
196G
206H
216I
226J
236K
246L
256F
266A
276B
286C
296D
306E
316G
326H
336I
346J
356K
366L
376F
386A
396B
406C
416D
426E
436G
446H
456I
466J
476K
486L
17G
27A
37B
47C
57D
67E
77F
87H
97I
107J
117K
127L
137G
147A
157B
167C
177D
187E
197F
207H
217I
227J
237K
247L
257G
267A
277B
287C
297D
307E
317F
327H
337I
347J
357K
367L
377G
387A
397B
407C
417D
427E
437F
447H
457I
467J
477K
487L
18H
28A
38B
48C
58D
68E
78F
88G
98I
108J
118K
128L
138H
148A
158B
168C
178D
188E
198F
208G
218I
228J
238K
248L
258H
268A
278B
288C
298D
308E
318F
328G
338I
348J
358K
368L
378H
388A
398B
408C
418D
428E
438F
448G
458I
468J
478K
488L
19I
29A
39B
49C
59D
69E
79F
89G
99H
109J
119K
129L
139I
149A
159B
169C
179D
189E
199F
209G
219H
229J
239K
249L
259I
269A
279B
289C
299D
309E
319F
329G
339H
349J
359K
369L
379I
389A
399B
409C
419D
429E
439F
449G
459H
469J
479K
489L
110J
210A
310B
410C
510D
610E
710F
810G
910H
1010I
1110K
1210L
1310J
1410A
1510B
1610C
1710D
1810E
1910F
2010G
2110H
2210I
2310K
2410L
2510J
2610A
2710B
2810C
2910D
3010E
3110F
3210G
3310H
3410I
3510K
3610L
3710J
3810A
3910B
4010C
4110D
4210E
4310F
4410G
4510H
4610I
4710K
4810L
111K
211A
311B
411C
511D
611E
711F
811G
911H
1011I
1111J
1211L
1311K
1411A
1511B
1611C
1711D
1811E
1911F
2011G
2111H
2211I
2311J
2411L
2511K
2611A
2711B
2811C
2911D
3011E
3111F
3211G
3311H
3411I
3511J
3611L
3711K
3811A
3911B
4011C
4111D
4211E
4311F
4411G
4511H
4611I
4711J
4811L
112L
212A
312B
412C
512D
612E
712F
812G
912H
1012I
1112J
1212K
1312L
1412A
1512B
1612C
1712D
1812E
1912F
2012G
2112H
2212I
2312J
2412K
2512L
2612A
2712B
2812C
2912D
3012E
3112F
3212G
3312H
3412I
3512J
3612K
3712L
3812A
3912B
4012C
4112D
4212E
4312F
4412G
4512H
4612I
4712J
4812K
113B
213D
313F
413H
513J
613L
114D
214B
314F
414H
514J
614L
115F
215B
315D
415H
515J
615L
116H
216B
316D
416F
516J
616L
117J
217B
317D
417F
517H
617L
118L
218B
318D
418F
518H
618J

NCS domain segments:

Refine code: 1

Dom-IDComponent-IDEns-IDBeg auth comp-IDBeg label comp-IDEnd auth comp-IDEnd label comp-IDAuth asym-IDLabel asym-IDAuth seq-IDLabel seq-ID
111METMETARGARGAA1 - 1021 - 102
211METMETARGARGBB1 - 1021 - 102
311METMETARGARGCC1 - 1021 - 102
411METMETARGARGDD1 - 1021 - 102
511METMETARGARGEE1 - 1021 - 102
611METMETARGARGFF1 - 1021 - 102
711METMETARGARGGG1 - 1021 - 102
811METMETARGARGHH1 - 1021 - 102
911METMETARGARGII1 - 1021 - 102
1011METMETARGARGJJ1 - 1021 - 102
1111METMETARGARGKK1 - 1021 - 102
1211METMETARGARGLL1 - 1021 - 102
1321ALAALAGLUGLUAA104 - 156104 - 156
1421ALAALAGLUGLUBB104 - 156104 - 156
1521ALAALAGLUGLUCC104 - 156104 - 156
1621ALAALAGLUGLUDD104 - 156104 - 156
1721ALAALAGLUGLUEE104 - 156104 - 156
1821ALAALAGLUGLUFF104 - 156104 - 156
1921ALAALAGLUGLUGG104 - 156104 - 156
2021ALAALAGLUGLUHH104 - 156104 - 156
2121ALAALAGLUGLUII104 - 156104 - 156
2221ALAALAGLUGLUJJ104 - 156104 - 156
2321ALAALAGLUGLUKK104 - 156104 - 156
2421ALAALAGLUGLULL104 - 156104 - 156
2531SO4SO4SO4SO4AM250
2631SO4SO4SO4SO4BR250
2731SO4SO4SO4SO4CU250
2831SO4SO4SO4SO4DY250
2931SO4SO4SO4SO4ECA250
3031SO4SO4SO4SO4FGA250
3131SO4SO4SO4SO4GKA250
3231SO4SO4SO4SO4HOA250
3331SO4SO4SO4SO4ISA250
3431SO4SO4SO4SO4JWA250
3531SO4SO4SO4SO4KZA250
3631SO4SO4SO4SO4LDB250
3741ZNZNZNZNAN - O300 - 301
3841ZNZNZNZNBS - T300 - 301
3941ZNZNZNZNCV - W300 - 301
4041ZNZNZNZNDZ - AA300 - 301
4141ZNZNZNZNEDA - EA300 - 301
4241ZNZNZNZNFHA - IA300 - 301
4341ZNZNZNZNGLA - MA300 - 301
4441ZNZNZNZNHPA - QA300 - 301
4541ZNZNZNZNITA - UA300 - 301
4641ZNZNZNZNJXA - YA300 - 301
4741ZNZNZNZNKAB - BB300 - 301
4841ZNZNZNZNLEB - FB300 - 301
112METMETARGARGBB1 - 1021 - 102
212METMETARGARGAA1 - 1021 - 102
312METMETARGARGCC1 - 1021 - 102
412METMETARGARGDD1 - 1021 - 102
512METMETARGARGEE1 - 1021 - 102
612METMETARGARGFF1 - 1021 - 102
712METMETARGARGGG1 - 1021 - 102
812METMETARGARGHH1 - 1021 - 102
912METMETARGARGII1 - 1021 - 102
1012METMETARGARGJJ1 - 1021 - 102
1112METMETARGARGKK1 - 1021 - 102
1212METMETARGARGLL1 - 1021 - 102
1322ALAALAGLUGLUBB104 - 156104 - 156
1422ALAALAGLUGLUAA104 - 156104 - 156
1522ALAALAGLUGLUCC104 - 156104 - 156
1622ALAALAGLUGLUDD104 - 156104 - 156
1722ALAALAGLUGLUEE104 - 156104 - 156
1822ALAALAGLUGLUFF104 - 156104 - 156
1922ALAALAGLUGLUGG104 - 156104 - 156
2022ALAALAGLUGLUHH104 - 156104 - 156
2122ALAALAGLUGLUII104 - 156104 - 156
2222ALAALAGLUGLUJJ104 - 156104 - 156
2322ALAALAGLUGLUKK104 - 156104 - 156
2422ALAALAGLUGLULL104 - 156104 - 156
2532SO4SO4SO4SO4BR250
2632SO4SO4SO4SO4AM250
2732SO4SO4SO4SO4CU250
2832SO4SO4SO4SO4DY250
2932SO4SO4SO4SO4ECA250
3032SO4SO4SO4SO4FGA250
3132SO4SO4SO4SO4GKA250
3232SO4SO4SO4SO4HOA250
3332SO4SO4SO4SO4ISA250
3432SO4SO4SO4SO4JWA250
3532SO4SO4SO4SO4KZA250
3632SO4SO4SO4SO4LDB250
3742ZNZNZNZNBS - T300 - 301
3842ZNZNZNZNAN - O300 - 301
3942ZNZNZNZNCV - W300 - 301
4042ZNZNZNZNDZ - AA300 - 301
4142ZNZNZNZNEDA - EA300 - 301
4242ZNZNZNZNFHA - IA300 - 301
4342ZNZNZNZNGLA - MA300 - 301
4442ZNZNZNZNHPA - QA300 - 301
4542ZNZNZNZNITA - UA300 - 301
4642ZNZNZNZNJXA - YA300 - 301
4742ZNZNZNZNKAB - BB300 - 301
4842ZNZNZNZNLEB - FB300 - 301
113METMETARGARGCC1 - 1021 - 102
213METMETARGARGAA1 - 1021 - 102
313METMETARGARGBB1 - 1021 - 102
413METMETARGARGDD1 - 1021 - 102
513METMETARGARGEE1 - 1021 - 102
613METMETARGARGFF1 - 1021 - 102
713METMETARGARGGG1 - 1021 - 102
813METMETARGARGHH1 - 1021 - 102
913METMETARGARGII1 - 1021 - 102
1013METMETARGARGJJ1 - 1021 - 102
1113METMETARGARGKK1 - 1021 - 102
1213METMETARGARGLL1 - 1021 - 102
1323ALAALAGLUGLUCC104 - 156104 - 156
1423ALAALAGLUGLUAA104 - 156104 - 156
1523ALAALAGLUGLUBB104 - 156104 - 156
1623ALAALAGLUGLUDD104 - 156104 - 156
1723ALAALAGLUGLUEE104 - 156104 - 156
1823ALAALAGLUGLUFF104 - 156104 - 156
1923ALAALAGLUGLUGG104 - 156104 - 156
2023ALAALAGLUGLUHH104 - 156104 - 156
2123ALAALAGLUGLUII104 - 156104 - 156
2223ALAALAGLUGLUJJ104 - 156104 - 156
2323ALAALAGLUGLUKK104 - 156104 - 156
2423ALAALAGLUGLULL104 - 156104 - 156
2533SO4SO4SO4SO4CU250
2633SO4SO4SO4SO4AM250
2733SO4SO4SO4SO4BR250
2833SO4SO4SO4SO4DY250
2933SO4SO4SO4SO4ECA250
3033SO4SO4SO4SO4FGA250
3133SO4SO4SO4SO4GKA250
3233SO4SO4SO4SO4HOA250
3333SO4SO4SO4SO4ISA250
3433SO4SO4SO4SO4JWA250
3533SO4SO4SO4SO4KZA250
3633SO4SO4SO4SO4LDB250
3743ZNZNZNZNCV - W300 - 301
3843ZNZNZNZNAN - O300 - 301
3943ZNZNZNZNBS - T300 - 301
4043ZNZNZNZNDZ - AA300 - 301
4143ZNZNZNZNEDA - EA300 - 301
4243ZNZNZNZNFHA - IA300 - 301
4343ZNZNZNZNGLA - MA300 - 301
4443ZNZNZNZNHPA - QA300 - 301
4543ZNZNZNZNITA - UA300 - 301
4643ZNZNZNZNJXA - YA300 - 301
4743ZNZNZNZNKAB - BB300 - 301
4843ZNZNZNZNLEB - FB300 - 301
114METMETARGARGDD1 - 1021 - 102
214METMETARGARGAA1 - 1021 - 102
314METMETARGARGBB1 - 1021 - 102
414METMETARGARGCC1 - 1021 - 102
514METMETARGARGEE1 - 1021 - 102
614METMETARGARGFF1 - 1021 - 102
714METMETARGARGGG1 - 1021 - 102
814METMETARGARGHH1 - 1021 - 102
914METMETARGARGII1 - 1021 - 102
1014METMETARGARGJJ1 - 1021 - 102
1114METMETARGARGKK1 - 1021 - 102
1214METMETARGARGLL1 - 1021 - 102
1324ALAALAGLUGLUDD104 - 156104 - 156
1424ALAALAGLUGLUAA104 - 156104 - 156
1524ALAALAGLUGLUBB104 - 156104 - 156
1624ALAALAGLUGLUCC104 - 156104 - 156
1724ALAALAGLUGLUEE104 - 156104 - 156
1824ALAALAGLUGLUFF104 - 156104 - 156
1924ALAALAGLUGLUGG104 - 156104 - 156
2024ALAALAGLUGLUHH104 - 156104 - 156
2124ALAALAGLUGLUII104 - 156104 - 156
2224ALAALAGLUGLUJJ104 - 156104 - 156
2324ALAALAGLUGLUKK104 - 156104 - 156
2424ALAALAGLUGLULL104 - 156104 - 156
2534SO4SO4SO4SO4DY250
2634SO4SO4SO4SO4AM250
2734SO4SO4SO4SO4BR250
2834SO4SO4SO4SO4CU250
2934SO4SO4SO4SO4ECA250
3034SO4SO4SO4SO4FGA250
3134SO4SO4SO4SO4GKA250
3234SO4SO4SO4SO4HOA250
3334SO4SO4SO4SO4ISA250
3434SO4SO4SO4SO4JWA250
3534SO4SO4SO4SO4KZA250
3634SO4SO4SO4SO4LDB250
3744ZNZNZNZNDZ - AA300 - 301
3844ZNZNZNZNAN - O300 - 301
3944ZNZNZNZNBS - T300 - 301
4044ZNZNZNZNCV - W300 - 301
4144ZNZNZNZNEDA - EA300 - 301
4244ZNZNZNZNFHA - IA300 - 301
4344ZNZNZNZNGLA - MA300 - 301
4444ZNZNZNZNHPA - QA300 - 301
4544ZNZNZNZNITA - UA300 - 301
4644ZNZNZNZNJXA - YA300 - 301
4744ZNZNZNZNKAB - BB300 - 301
4844ZNZNZNZNLEB - FB300 - 301
115METMETARGARGEE1 - 1021 - 102
215METMETARGARGAA1 - 1021 - 102
315METMETARGARGBB1 - 1021 - 102
415METMETARGARGCC1 - 1021 - 102
515METMETARGARGDD1 - 1021 - 102
615METMETARGARGFF1 - 1021 - 102
715METMETARGARGGG1 - 1021 - 102
815METMETARGARGHH1 - 1021 - 102
915METMETARGARGII1 - 1021 - 102
1015METMETARGARGJJ1 - 1021 - 102
1115METMETARGARGKK1 - 1021 - 102
1215METMETARGARGLL1 - 1021 - 102
1325ALAALAGLUGLUEE104 - 156104 - 156
1425ALAALAGLUGLUAA104 - 156104 - 156
1525ALAALAGLUGLUBB104 - 156104 - 156
1625ALAALAGLUGLUCC104 - 156104 - 156
1725ALAALAGLUGLUDD104 - 156104 - 156
1825ALAALAGLUGLUFF104 - 156104 - 156
1925ALAALAGLUGLUGG104 - 156104 - 156
2025ALAALAGLUGLUHH104 - 156104 - 156
2125ALAALAGLUGLUII104 - 156104 - 156
2225ALAALAGLUGLUJJ104 - 156104 - 156
2325ALAALAGLUGLUKK104 - 156104 - 156
2425ALAALAGLUGLULL104 - 156104 - 156
2535SO4SO4SO4SO4ECA250
2635SO4SO4SO4SO4AM250
2735SO4SO4SO4SO4BR250
2835SO4SO4SO4SO4CU250
2935SO4SO4SO4SO4DY250
3035SO4SO4SO4SO4FGA250
3135SO4SO4SO4SO4GKA250
3235SO4SO4SO4SO4HOA250
3335SO4SO4SO4SO4ISA250
3435SO4SO4SO4SO4JWA250
3535SO4SO4SO4SO4KZA250
3635SO4SO4SO4SO4LDB250
3745ZNZNZNZNEDA - EA300 - 301
3845ZNZNZNZNAN - O300 - 301
3945ZNZNZNZNBS - T300 - 301
4045ZNZNZNZNCV - W300 - 301
4145ZNZNZNZNDZ - AA300 - 301
4245ZNZNZNZNFHA - IA300 - 301
4345ZNZNZNZNGLA - MA300 - 301
4445ZNZNZNZNHPA - QA300 - 301
4545ZNZNZNZNITA - UA300 - 301
4645ZNZNZNZNJXA - YA300 - 301
4745ZNZNZNZNKAB - BB300 - 301
4845ZNZNZNZNLEB - FB300 - 301
116METMETARGARGFF1 - 1021 - 102
216METMETARGARGAA1 - 1021 - 102
316METMETARGARGBB1 - 1021 - 102
416METMETARGARGCC1 - 1021 - 102
516METMETARGARGDD1 - 1021 - 102
616METMETARGARGEE1 - 1021 - 102
716METMETARGARGGG1 - 1021 - 102
816METMETARGARGHH1 - 1021 - 102
916METMETARGARGII1 - 1021 - 102
1016METMETARGARGJJ1 - 1021 - 102
1116METMETARGARGKK1 - 1021 - 102
1216METMETARGARGLL1 - 1021 - 102
1326ALAALAGLUGLUFF104 - 156104 - 156
1426ALAALAGLUGLUAA104 - 156104 - 156
1526ALAALAGLUGLUBB104 - 156104 - 156
1626ALAALAGLUGLUCC104 - 156104 - 156
1726ALAALAGLUGLUDD104 - 156104 - 156
1826ALAALAGLUGLUEE104 - 156104 - 156
1926ALAALAGLUGLUGG104 - 156104 - 156
2026ALAALAGLUGLUHH104 - 156104 - 156
2126ALAALAGLUGLUII104 - 156104 - 156
2226ALAALAGLUGLUJJ104 - 156104 - 156
2326ALAALAGLUGLUKK104 - 156104 - 156
2426ALAALAGLUGLULL104 - 156104 - 156
2536SO4SO4SO4SO4FGA250
2636SO4SO4SO4SO4AM250
2736SO4SO4SO4SO4BR250
2836SO4SO4SO4SO4CU250
2936SO4SO4SO4SO4DY250
3036SO4SO4SO4SO4ECA250
3136SO4SO4SO4SO4GKA250
3236SO4SO4SO4SO4HOA250
3336SO4SO4SO4SO4ISA250
3436SO4SO4SO4SO4JWA250
3536SO4SO4SO4SO4KZA250
3636SO4SO4SO4SO4LDB250
3746ZNZNZNZNFHA - IA300 - 301
3846ZNZNZNZNAN - O300 - 301
3946ZNZNZNZNBS - T300 - 301
4046ZNZNZNZNCV - W300 - 301
4146ZNZNZNZNDZ - AA300 - 301
4246ZNZNZNZNEDA - EA300 - 301
4346ZNZNZNZNGLA - MA300 - 301
4446ZNZNZNZNHPA - QA300 - 301
4546ZNZNZNZNITA - UA300 - 301
4646ZNZNZNZNJXA - YA300 - 301
4746ZNZNZNZNKAB - BB300 - 301
4846ZNZNZNZNLEB - FB300 - 301
117METMETARGARGGG1 - 1021 - 102
217METMETARGARGAA1 - 1021 - 102
317METMETARGARGBB1 - 1021 - 102
417METMETARGARGCC1 - 1021 - 102
517METMETARGARGDD1 - 1021 - 102
617METMETARGARGEE1 - 1021 - 102
717METMETARGARGFF1 - 1021 - 102
817METMETARGARGHH1 - 1021 - 102
917METMETARGARGII1 - 1021 - 102
1017METMETARGARGJJ1 - 1021 - 102
1117METMETARGARGKK1 - 1021 - 102
1217METMETARGARGLL1 - 1021 - 102
1327ALAALAGLUGLUGG104 - 156104 - 156
1427ALAALAGLUGLUAA104 - 156104 - 156
1527ALAALAGLUGLUBB104 - 156104 - 156
1627ALAALAGLUGLUCC104 - 156104 - 156
1727ALAALAGLUGLUDD104 - 156104 - 156
1827ALAALAGLUGLUEE104 - 156104 - 156
1927ALAALAGLUGLUFF104 - 156104 - 156
2027ALAALAGLUGLUHH104 - 156104 - 156
2127ALAALAGLUGLUII104 - 156104 - 156
2227ALAALAGLUGLUJJ104 - 156104 - 156
2327ALAALAGLUGLUKK104 - 156104 - 156
2427ALAALAGLUGLULL104 - 156104 - 156
2537SO4SO4SO4SO4GKA250
2637SO4SO4SO4SO4AM250
2737SO4SO4SO4SO4BR250
2837SO4SO4SO4SO4CU250
2937SO4SO4SO4SO4DY250
3037SO4SO4SO4SO4ECA250
3137SO4SO4SO4SO4FGA250
3237SO4SO4SO4SO4HOA250
3337SO4SO4SO4SO4ISA250
3437SO4SO4SO4SO4JWA250
3537SO4SO4SO4SO4KZA250
3637SO4SO4SO4SO4LDB250
3747ZNZNZNZNGLA - MA300 - 301
3847ZNZNZNZNAN - O300 - 301
3947ZNZNZNZNBS - T300 - 301
4047ZNZNZNZNCV - W300 - 301
4147ZNZNZNZNDZ - AA300 - 301
4247ZNZNZNZNEDA - EA300 - 301
4347ZNZNZNZNFHA - IA300 - 301
4447ZNZNZNZNHPA - QA300 - 301
4547ZNZNZNZNITA - UA300 - 301
4647ZNZNZNZNJXA - YA300 - 301
4747ZNZNZNZNKAB - BB300 - 301
4847ZNZNZNZNLEB - FB300 - 301
118METMETARGARGHH1 - 1021 - 102
218METMETARGARGAA1 - 1021 - 102
318METMETARGARGBB1 - 1021 - 102
418METMETARGARGCC1 - 1021 - 102
518METMETARGARGDD1 - 1021 - 102
618METMETARGARGEE1 - 1021 - 102
718METMETARGARGFF1 - 1021 - 102
818METMETARGARGGG1 - 1021 - 102
918METMETARGARGII1 - 1021 - 102
1018METMETARGARGJJ1 - 1021 - 102
1118METMETARGARGKK1 - 1021 - 102
1218METMETARGARGLL1 - 1021 - 102
1328ALAALAGLUGLUHH104 - 156104 - 156
1428ALAALAGLUGLUAA104 - 156104 - 156
1528ALAALAGLUGLUBB104 - 156104 - 156
1628ALAALAGLUGLUCC104 - 156104 - 156
1728ALAALAGLUGLUDD104 - 156104 - 156
1828ALAALAGLUGLUEE104 - 156104 - 156
1928ALAALAGLUGLUFF104 - 156104 - 156
2028ALAALAGLUGLUGG104 - 156104 - 156
2128ALAALAGLUGLUII104 - 156104 - 156
2228ALAALAGLUGLUJJ104 - 156104 - 156
2328ALAALAGLUGLUKK104 - 156104 - 156
2428ALAALAGLUGLULL104 - 156104 - 156
2538SO4SO4SO4SO4HOA250
2638SO4SO4SO4SO4AM250
2738SO4SO4SO4SO4BR250
2838SO4SO4SO4SO4CU250
2938SO4SO4SO4SO4DY250
3038SO4SO4SO4SO4ECA250
3138SO4SO4SO4SO4FGA250
3238SO4SO4SO4SO4GKA250
3338SO4SO4SO4SO4ISA250
3438SO4SO4SO4SO4JWA250
3538SO4SO4SO4SO4KZA250
3638SO4SO4SO4SO4LDB250
3748ZNZNZNZNHPA - QA300 - 301
3848ZNZNZNZNAN - O300 - 301
3948ZNZNZNZNBS - T300 - 301
4048ZNZNZNZNCV - W300 - 301
4148ZNZNZNZNDZ - AA300 - 301
4248ZNZNZNZNEDA - EA300 - 301
4348ZNZNZNZNFHA - IA300 - 301
4448ZNZNZNZNGLA - MA300 - 301
4548ZNZNZNZNITA - UA300 - 301
4648ZNZNZNZNJXA - YA300 - 301
4748ZNZNZNZNKAB - BB300 - 301
4848ZNZNZNZNLEB - FB300 - 301
119METMETARGARGII1 - 1021 - 102
219METMETARGARGAA1 - 1021 - 102
319METMETARGARGBB1 - 1021 - 102
419METMETARGARGCC1 - 1021 - 102
519METMETARGARGDD1 - 1021 - 102
619METMETARGARGEE1 - 1021 - 102
719METMETARGARGFF1 - 1021 - 102
819METMETARGARGGG1 - 1021 - 102
919METMETARGARGHH1 - 1021 - 102
1019METMETARGARGJJ1 - 1021 - 102
1119METMETARGARGKK1 - 1021 - 102
1219METMETARGARGLL1 - 1021 - 102
1329ALAALAGLUGLUII104 - 156104 - 156
1429ALAALAGLUGLUAA104 - 156104 - 156
1529ALAALAGLUGLUBB104 - 156104 - 156
1629ALAALAGLUGLUCC104 - 156104 - 156
1729ALAALAGLUGLUDD104 - 156104 - 156
1829ALAALAGLUGLUEE104 - 156104 - 156
1929ALAALAGLUGLUFF104 - 156104 - 156
2029ALAALAGLUGLUGG104 - 156104 - 156
2129ALAALAGLUGLUHH104 - 156104 - 156
2229ALAALAGLUGLUJJ104 - 156104 - 156
2329ALAALAGLUGLUKK104 - 156104 - 156
2429ALAALAGLUGLULL104 - 156104 - 156
2539SO4SO4SO4SO4ISA250
2639SO4SO4SO4SO4AM250
2739SO4SO4SO4SO4BR250
2839SO4SO4SO4SO4CU250
2939SO4SO4SO4SO4DY250
3039SO4SO4SO4SO4ECA250
3139SO4SO4SO4SO4FGA250
3239SO4SO4SO4SO4GKA250
3339SO4SO4SO4SO4HOA250
3439SO4SO4SO4SO4JWA250
3539SO4SO4SO4SO4KZA250
3639SO4SO4SO4SO4LDB250
3749ZNZNZNZNITA - UA300 - 301
3849ZNZNZNZNAN - O300 - 301
3949ZNZNZNZNBS - T300 - 301
4049ZNZNZNZNCV - W300 - 301
4149ZNZNZNZNDZ - AA300 - 301
4249ZNZNZNZNEDA - EA300 - 301
4349ZNZNZNZNFHA - IA300 - 301
4449ZNZNZNZNGLA - MA300 - 301
4549ZNZNZNZNHPA - QA300 - 301
4649ZNZNZNZNJXA - YA300 - 301
4749ZNZNZNZNKAB - BB300 - 301
4849ZNZNZNZNLEB - FB300 - 301
1110METMETARGARGJJ1 - 1021 - 102
2110METMETARGARGAA1 - 1021 - 102
3110METMETARGARGBB1 - 1021 - 102
4110METMETARGARGCC1 - 1021 - 102
5110METMETARGARGDD1 - 1021 - 102
6110METMETARGARGEE1 - 1021 - 102
7110METMETARGARGFF1 - 1021 - 102
8110METMETARGARGGG1 - 1021 - 102
9110METMETARGARGHH1 - 1021 - 102
10110METMETARGARGII1 - 1021 - 102
11110METMETARGARGKK1 - 1021 - 102
12110METMETARGARGLL1 - 1021 - 102
13210ALAALAGLUGLUJJ104 - 156104 - 156
14210ALAALAGLUGLUAA104 - 156104 - 156
15210ALAALAGLUGLUBB104 - 156104 - 156
16210ALAALAGLUGLUCC104 - 156104 - 156
17210ALAALAGLUGLUDD104 - 156104 - 156
18210ALAALAGLUGLUEE104 - 156104 - 156
19210ALAALAGLUGLUFF104 - 156104 - 156
20210ALAALAGLUGLUGG104 - 156104 - 156
21210ALAALAGLUGLUHH104 - 156104 - 156
22210ALAALAGLUGLUII104 - 156104 - 156
23210ALAALAGLUGLUKK104 - 156104 - 156
24210ALAALAGLUGLULL104 - 156104 - 156
25310SO4SO4SO4SO4JWA250
26310SO4SO4SO4SO4AM250
27310SO4SO4SO4SO4BR250
28310SO4SO4SO4SO4CU250
29310SO4SO4SO4SO4DY250
30310SO4SO4SO4SO4ECA250
31310SO4SO4SO4SO4FGA250
32310SO4SO4SO4SO4GKA250
33310SO4SO4SO4SO4HOA250
34310SO4SO4SO4SO4ISA250
35310SO4SO4SO4SO4KZA250
36310SO4SO4SO4SO4LDB250
37410ZNZNZNZNJXA - YA300 - 301
38410ZNZNZNZNAN - O300 - 301
39410ZNZNZNZNBS - T300 - 301
40410ZNZNZNZNCV - W300 - 301
41410ZNZNZNZNDZ - AA300 - 301
42410ZNZNZNZNEDA - EA300 - 301
43410ZNZNZNZNFHA - IA300 - 301
44410ZNZNZNZNGLA - MA300 - 301
45410ZNZNZNZNHPA - QA300 - 301
46410ZNZNZNZNITA - UA300 - 301
47410ZNZNZNZNKAB - BB300 - 301
48410ZNZNZNZNLEB - FB300 - 301
1111METMETARGARGKK1 - 1021 - 102
2111METMETARGARGAA1 - 1021 - 102
3111METMETARGARGBB1 - 1021 - 102
4111METMETARGARGCC1 - 1021 - 102
5111METMETARGARGDD1 - 1021 - 102
6111METMETARGARGEE1 - 1021 - 102
7111METMETARGARGFF1 - 1021 - 102
8111METMETARGARGGG1 - 1021 - 102
9111METMETARGARGHH1 - 1021 - 102
10111METMETARGARGII1 - 1021 - 102
11111METMETARGARGJJ1 - 1021 - 102
12111METMETARGARGLL1 - 1021 - 102
13211ALAALAGLUGLUKK104 - 156104 - 156
14211ALAALAGLUGLUAA104 - 156104 - 156
15211ALAALAGLUGLUBB104 - 156104 - 156
16211ALAALAGLUGLUCC104 - 156104 - 156
17211ALAALAGLUGLUDD104 - 156104 - 156
18211ALAALAGLUGLUEE104 - 156104 - 156
19211ALAALAGLUGLUFF104 - 156104 - 156
20211ALAALAGLUGLUGG104 - 156104 - 156
21211ALAALAGLUGLUHH104 - 156104 - 156
22211ALAALAGLUGLUII104 - 156104 - 156
23211ALAALAGLUGLUJJ104 - 156104 - 156
24211ALAALAGLUGLULL104 - 156104 - 156
25311SO4SO4SO4SO4KZA250
26311SO4SO4SO4SO4AM250
27311SO4SO4SO4SO4BR250
28311SO4SO4SO4SO4CU250
29311SO4SO4SO4SO4DY250
30311SO4SO4SO4SO4ECA250
31311SO4SO4SO4SO4FGA250
32311SO4SO4SO4SO4GKA250
33311SO4SO4SO4SO4HOA250
34311SO4SO4SO4SO4ISA250
35311SO4SO4SO4SO4JWA250
36311SO4SO4SO4SO4LDB250
37411ZNZNZNZNKAB - BB300 - 301
38411ZNZNZNZNAN - O300 - 301
39411ZNZNZNZNBS - T300 - 301
40411ZNZNZNZNCV - W300 - 301
41411ZNZNZNZNDZ - AA300 - 301
42411ZNZNZNZNEDA - EA300 - 301
43411ZNZNZNZNFHA - IA300 - 301
44411ZNZNZNZNGLA - MA300 - 301
45411ZNZNZNZNHPA - QA300 - 301
46411ZNZNZNZNITA - UA300 - 301
47411ZNZNZNZNJXA - YA300 - 301
48411ZNZNZNZNLEB - FB300 - 301
1112METMETARGARGLL1 - 1021 - 102
2112METMETARGARGAA1 - 1021 - 102
3112METMETARGARGBB1 - 1021 - 102
4112METMETARGARGCC1 - 1021 - 102
5112METMETARGARGDD1 - 1021 - 102
6112METMETARGARGEE1 - 1021 - 102
7112METMETARGARGFF1 - 1021 - 102
8112METMETARGARGGG1 - 1021 - 102
9112METMETARGARGHH1 - 1021 - 102
10112METMETARGARGII1 - 1021 - 102
11112METMETARGARGJJ1 - 1021 - 102
12112METMETARGARGKK1 - 1021 - 102
13212ALAALAGLUGLULL104 - 156104 - 156
14212ALAALAGLUGLUAA104 - 156104 - 156
15212ALAALAGLUGLUBB104 - 156104 - 156
16212ALAALAGLUGLUCC104 - 156104 - 156
17212ALAALAGLUGLUDD104 - 156104 - 156
18212ALAALAGLUGLUEE104 - 156104 - 156
19212ALAALAGLUGLUFF104 - 156104 - 156
20212ALAALAGLUGLUGG104 - 156104 - 156
21212ALAALAGLUGLUHH104 - 156104 - 156
22212ALAALAGLUGLUII104 - 156104 - 156
23212ALAALAGLUGLUJJ104 - 156104 - 156
24212ALAALAGLUGLUKK104 - 156104 - 156
25312SO4SO4SO4SO4LDB250
26312SO4SO4SO4SO4AM250
27312SO4SO4SO4SO4BR250
28312SO4SO4SO4SO4CU250
29312SO4SO4SO4SO4DY250
30312SO4SO4SO4SO4ECA250
31312SO4SO4SO4SO4FGA250
32312SO4SO4SO4SO4GKA250
33312SO4SO4SO4SO4HOA250
34312SO4SO4SO4SO4ISA250
35312SO4SO4SO4SO4JWA250
36312SO4SO4SO4SO4KZA250
37412ZNZNZNZNLEB - FB300 - 301
38412ZNZNZNZNAN - O300 - 301
39412ZNZNZNZNBS - T300 - 301
40412ZNZNZNZNCV - W300 - 301
41412ZNZNZNZNDZ - AA300 - 301
42412ZNZNZNZNEDA - EA300 - 301
43412ZNZNZNZNFHA - IA300 - 301
44412ZNZNZNZNGLA - MA300 - 301
45412ZNZNZNZNHPA - QA300 - 301
46412ZNZNZNZNITA - UA300 - 301
47412ZNZNZNZNJXA - YA300 - 301
48412ZNZNZNZNKAB - BB300 - 301
1113HEMHEMHEMHEMAQ200
2113HEMHEMHEMHEMDBA200
3113HEMHEMHEMHEMEFA200
4113HEMHEMHEMHEMHRA200
5113HEMHEMHEMHEMIVA200
6113HEMHEMHEMHEMKCB200
1114HEMHEMHEMHEMDBA200
2114HEMHEMHEMHEMAQ200
3114HEMHEMHEMHEMEFA200
4114HEMHEMHEMHEMHRA200
5114HEMHEMHEMHEMIVA200
6114HEMHEMHEMHEMKCB200
1115HEMHEMHEMHEMEFA200
2115HEMHEMHEMHEMAQ200
3115HEMHEMHEMHEMDBA200
4115HEMHEMHEMHEMHRA200
5115HEMHEMHEMHEMIVA200
6115HEMHEMHEMHEMKCB200
1116HEMHEMHEMHEMHRA200
2116HEMHEMHEMHEMAQ200
3116HEMHEMHEMHEMDBA200
4116HEMHEMHEMHEMEFA200
5116HEMHEMHEMHEMIVA200
6116HEMHEMHEMHEMKCB200
1117HEMHEMHEMHEMIVA200
2117HEMHEMHEMHEMAQ200
3117HEMHEMHEMHEMDBA200
4117HEMHEMHEMHEMEFA200
5117HEMHEMHEMHEMHRA200
6117HEMHEMHEMHEMKCB200
1118HEMHEMHEMHEMKCB200
2118HEMHEMHEMHEMAQ200
3118HEMHEMHEMHEMDBA200
4118HEMHEMHEMHEMEFA200
5118HEMHEMHEMHEMHRA200
6118HEMHEMHEMHEMIVA200

NCS ensembles :
ID
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18

-
Components

#1: Protein
BACTERIOFERRITIN / / BFR / CYTOCHROME B-1 / CYTOCHROME B-557


Mass: 18518.016 Da / Num. of mol.: 12
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) ESCHERICHIA COLI (E. coli) / Strain: K-12 / Gene: BFR / Plasmid: PALN1 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P0ABD3
#2: Chemical
ChemComp-SO4 / SULFATE ION / Sulfate


Mass: 96.063 Da / Num. of mol.: 16 / Source method: obtained synthetically / Formula: SO4
#3: Chemical...
ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 24 / Source method: obtained synthetically / Formula: Zn
#4: Chemical
ChemComp-HEM / PROTOPORPHYRIN IX CONTAINING FE / HEME / Heme B


Mass: 616.487 Da / Num. of mol.: 6 / Source method: obtained synthetically / Formula: C34H32FeN4O4
#5: Water ChemComp-HOH / water / Water


Mass: 18.015 Da / Num. of mol.: 214 / Source method: isolated from a natural source / Formula: H2O

-
Experimental details

-
Experiment

ExperimentMethod: X-RAY DIFFRACTION / Number of used crystals: 1

-
Sample preparation

CrystalDensity Matthews: 3.46 Å3/Da / Density % sol: 64.47 %
Crystal growTemperature: 298 K / Method: vapor diffusion, sitting drop / pH: 5
Details: APO-BFR CRYSTALIZED IN 1.8 M AMMONIUM SULFATE, 0.1 M TRI-SODIUM CITRATE PH 5.0. CRYSTAL WAS THEN SOAKED IN A CRYOPROTECTANT CONTAINING ZN2+ IONS AND BUFFERED WITH MOPS PH 7 INSTEAD OF ...Details: APO-BFR CRYSTALIZED IN 1.8 M AMMONIUM SULFATE, 0.1 M TRI-SODIUM CITRATE PH 5.0. CRYSTAL WAS THEN SOAKED IN A CRYOPROTECTANT CONTAINING ZN2+ IONS AND BUFFERED WITH MOPS PH 7 INSTEAD OF CITRATE. PLEASE SEE PAPER FO FULL DETAILS., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K, pH 5.00

-
Data collection

DiffractionMean temperature: 100 K
Diffraction sourceSource: SYNCHROTRON / Site: SRS / Beamline: PX10.1 / Wavelength: 1.2818
DetectorDetector: CCD / Date: Jan 1, 2006
RadiationProtocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray
Radiation wavelengthWavelength: 1.2818 Å / Relative weight: 1
ReflectionResolution: 2.95→45 Å / Num. obs: 58778 / % possible obs: 89.2 % / Observed criterion σ(I): 1 / Redundancy: 9.1 % / Rsym value: 0.081 / Net I/σ(I): 20.9
Reflection shellResolution: 2.95→3.11 Å / Redundancy: 6.5 % / Mean I/σ(I) obs: 7.9 / Rsym value: 0.168 / % possible all: 89.2

-
Processing

Software
NameVersionClassification
MOLREPphasing
REFMAC5.2.0019refinement
MOSFLMdata reduction
SCALAdata scaling
RefinementMethod to determine structure: MOLECULAR REPLACEMENT
Starting model: 2QP7

2qp7
PDB Unreleased entry


Resolution: 2.95→44.81 Å / Cor.coef. Fo:Fc: 0.949 / Cor.coef. Fo:Fc free: 0.937 / SU B: 13.18 / SU ML: 0.253 / Cross valid method: THROUGHOUT / ESU R Free: 0.423 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
RfactorNum. reflection% reflectionSelection details
Rfree0.252 2964 5 %COPIED AND EXTENDED FROM 2QP7.
Rwork0.229 ---
obs0.23 55780 89 %-
Solvent computationIon probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK
Displacement parametersBiso mean: 7.37 Å2
Baniso -1Baniso -2Baniso -3
1-0.37 Å20 Å20 Å2
2--0.37 Å20 Å2
3----0.73 Å2
Refinement stepCycle: LAST / Resolution: 2.95→44.81 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms15636 0 362 214 16212
Refine LS restraints
Refine-IDTypeDev idealDev ideal targetNumber
X-RAY DIFFRACTIONr_bond_refined_d0.0220.02216361
X-RAY DIFFRACTIONr_bond_other_d
X-RAY DIFFRACTIONr_angle_refined_deg1.9412.02221996
X-RAY DIFFRACTIONr_angle_other_deg
X-RAY DIFFRACTIONr_dihedral_angle_1_deg4.87951908
X-RAY DIFFRACTIONr_dihedral_angle_2_deg39.96124.933900
X-RAY DIFFRACTIONr_dihedral_angle_3_deg22.371153108
X-RAY DIFFRACTIONr_dihedral_angle_4_deg23.01415120
X-RAY DIFFRACTIONr_chiral_restr0.1620.22304
X-RAY DIFFRACTIONr_gen_planes_refined0.0060.0212348
X-RAY DIFFRACTIONr_gen_planes_other
X-RAY DIFFRACTIONr_nbd_refined0.240.28088
X-RAY DIFFRACTIONr_nbd_other
X-RAY DIFFRACTIONr_nbtor_refined0.3230.211093
X-RAY DIFFRACTIONr_nbtor_other
X-RAY DIFFRACTIONr_xyhbond_nbd_refined0.1570.2515
X-RAY DIFFRACTIONr_xyhbond_nbd_other
X-RAY DIFFRACTIONr_metal_ion_refined0.180.219
X-RAY DIFFRACTIONr_metal_ion_other
X-RAY DIFFRACTIONr_symmetry_vdw_refined0.2490.2136
X-RAY DIFFRACTIONr_symmetry_vdw_other
X-RAY DIFFRACTIONr_symmetry_hbond_refined0.2640.221
X-RAY DIFFRACTIONr_symmetry_hbond_other
X-RAY DIFFRACTIONr_symmetry_metal_ion_refined
X-RAY DIFFRACTIONr_symmetry_metal_ion_other
X-RAY DIFFRACTIONr_mcbond_it0.7041.59587
X-RAY DIFFRACTIONr_mcbond_other
X-RAY DIFFRACTIONr_mcangle_it1.181214964
X-RAY DIFFRACTIONr_scbond_it2.1337623
X-RAY DIFFRACTIONr_scangle_it3.4824.57008
X-RAY DIFFRACTIONr_rigid_bond_restr
X-RAY DIFFRACTIONr_sphericity_free
X-RAY DIFFRACTIONr_sphericity_bonded
Refine LS restraints NCS

Refine-ID: X-RAY DIFFRACTION

Ens-IDDom-IDAuth asym-IDNumberTypeRms dev position (Å)Weight position
11A1301tight positional0.010.05
12B1301tight positional0.010.05
13C1301tight positional0.010.05
14D1301tight positional0.010.05
15E1301tight positional0.010.05
16F1301tight positional0.010.05
17G1301tight positional0.010.05
18H1301tight positional0.010.05
19I1301tight positional0.010.05
110J1301tight positional0.010.05
111K1301tight positional0.010.05
112L1301tight positional0.010.05
21B1301tight positional0.010.05
22A1301tight positional0.010.05
23C1301tight positional0.010.05
24D1301tight positional0.010.05
25E1301tight positional0.010.05
26F1301tight positional0.010.05
27G1301tight positional0.010.05
28H1301tight positional0.010.05
29I1301tight positional0.010.05
210J1301tight positional0.010.05
211K1301tight positional0.010.05
212L1301tight positional0.010.05
31C1301tight positional0.010.05
32A1301tight positional0.010.05
33B1301tight positional0.010.05
34D1301tight positional0.010.05
35E1301tight positional0.010.05
36F1301tight positional0.010.05
37G1301tight positional0.010.05
38H1301tight positional0.010.05
39I1301tight positional0.010.05
310J1301tight positional0.010.05
311K1301tight positional0.010.05
312L1301tight positional0.010.05
41D1301tight positional0.010.05
42A1301tight positional0.010.05
43B1301tight positional0.010.05
44C1301tight positional0.010.05
45E1301tight positional0.010.05
46F1301tight positional0.010.05
47G1301tight positional0.010.05
48H1301tight positional0.010.05
49I1301tight positional0.010.05
410J1301tight positional0.010.05
411K1301tight positional0.010.05
412L1301tight positional0.010.05
51E1301tight positional0.010.05
52A1301tight positional0.010.05
53B1301tight positional0.010.05
54C1301tight positional0.010.05
55D1301tight positional0.010.05
56F1301tight positional0.010.05
57G1301tight positional0.010.05
58H1301tight positional0.010.05
59I1301tight positional0.010.05
510J1301tight positional0.010.05
511K1301tight positional0.010.05
512L1301tight positional0.010.05
61F1301tight positional0.010.05
62A1301tight positional0.010.05
63B1301tight positional0.010.05
64C1301tight positional0.010.05
65D1301tight positional0.010.05
66E1301tight positional0.010.05
67G1301tight positional0.010.05
68H1301tight positional0.010.05
69I1301tight positional0.010.05
610J1301tight positional0.010.05
611K1301tight positional0.010.05
612L1301tight positional0.010.05
71G1301tight positional0.010.05
72A1301tight positional0.010.05
73B1301tight positional0.010.05
74C1301tight positional0.010.05
75D1301tight positional0.010.05
76E1301tight positional0.010.05
77F1301tight positional0.010.05
78H1301tight positional0.010.05
79I1301tight positional0.010.05
710J1301tight positional0.010.05
711K1301tight positional0.010.05
712L1301tight positional0.010.05
81H1301tight positional0.010.05
82A1301tight positional0.010.05
83B1301tight positional0.010.05
84C1301tight positional0.010.05
85D1301tight positional0.010.05
86E1301tight positional0.010.05
87F1301tight positional0.010.05
88G1301tight positional0.010.05
89I1301tight positional0.010.05
810J1301tight positional0.010.05
811K1301tight positional0.010.05
812L1301tight positional0.010.05
91I1301tight positional0.010.05
92A1301tight positional0.010.05
93B1301tight positional0.010.05
94C1301tight positional0.010.05
95D1301tight positional0.010.05
96E1301tight positional0.010.05
97F1301tight positional0.010.05
98G1301tight positional0.010.05
99H1301tight positional0.010.05
910J1301tight positional0.010.05
911K1301tight positional0.010.05
912L1301tight positional0.010.05
101J1301tight positional0.010.05
102A1301tight positional0.010.05
103B1301tight positional0.010.05
104C1301tight positional0.010.05
105D1301tight positional0.010.05
106E1301tight positional0.010.05
107F1301tight positional0.010.05
108G1301tight positional0.010.05
109H1301tight positional0.010.05
1010I1301tight positional0.010.05
1011K1301tight positional0.010.05
1012L1301tight positional0.010.05
111K1301tight positional0.010.05
112A1301tight positional0.010.05
113B1301tight positional0.010.05
114C1301tight positional0.010.05
115D1301tight positional0.010.05
116E1301tight positional0.010.05
117F1301tight positional0.010.05
118G1301tight positional0.010.05
119H1301tight positional0.010.05
1110I1301tight positional0.010.05
1111J1301tight positional0.010.05
1112L1301tight positional0.010.05
121L1301tight positional0.010.05
122A1301tight positional0.010.05
123B1301tight positional0.010.05
124C1301tight positional0.010.05
125D1301tight positional0.010.05
126E1301tight positional0.010.05
127F1301tight positional0.010.05
128G1301tight positional0.010.05
129H1301tight positional0.010.05
1210I1301tight positional0.010.05
1211J1301tight positional0.010.05
1212K1301tight positional0.010.05
131B43tight positional00.05
132D43tight positional00.05
133F43tight positional00.05
134H43tight positional00.05
135J43tight positional00.05
136L43tight positional00.05
141D43tight positional00.05
142B43tight positional00.05
143F43tight positional00.05
144H43tight positional00.05
145J43tight positional00.05
146L43tight positional00.05
151F43tight positional00.05
152B43tight positional00.05
153D43tight positional00.05
154H43tight positional00.05
155J43tight positional00.05
156L43tight positional00.05
161H43tight positional00.05
162B43tight positional00.05
163D43tight positional00.05
164F43tight positional00.05
165J43tight positional00.05
166L43tight positional00.05
171J43tight positional00.05
172B43tight positional00.05
173D43tight positional00.05
174F43tight positional00.05
175H43tight positional00.05
176L43tight positional00.05
181L43tight positional00.05
182B43tight positional00.05
183D43tight positional00.05
184F43tight positional00.05
185H43tight positional00.05
186J43tight positional00.05
11A1301tight thermal0.020.5
12B1301tight thermal0.020.5
13C1301tight thermal0.020.5
14D1301tight thermal0.020.5
15E1301tight thermal0.020.5
16F1301tight thermal0.020.5
17G1301tight thermal0.020.5
18H1301tight thermal0.020.5
19I1301tight thermal0.020.5
110J1301tight thermal0.020.5
111K1301tight thermal0.020.5
112L1301tight thermal0.020.5
21B1301tight thermal0.020.5
22A1301tight thermal0.020.5
23C1301tight thermal0.020.5
24D1301tight thermal0.020.5
25E1301tight thermal0.020.5
26F1301tight thermal0.020.5
27G1301tight thermal0.020.5
28H1301tight thermal0.020.5
29I1301tight thermal0.020.5
210J1301tight thermal0.020.5
211K1301tight thermal0.020.5
212L1301tight thermal0.020.5
31C1301tight thermal0.020.5
32A1301tight thermal0.020.5
33B1301tight thermal0.020.5
34D1301tight thermal0.020.5
35E1301tight thermal0.020.5
36F1301tight thermal0.020.5
37G1301tight thermal0.020.5
38H1301tight thermal0.020.5
39I1301tight thermal0.020.5
310J1301tight thermal0.020.5
311K1301tight thermal0.020.5
312L1301tight thermal0.020.5
41D1301tight thermal0.020.5
42A1301tight thermal0.020.5
43B1301tight thermal0.020.5
44C1301tight thermal0.020.5
45E1301tight thermal0.020.5
46F1301tight thermal0.020.5
47G1301tight thermal0.020.5
48H1301tight thermal0.020.5
49I1301tight thermal0.020.5
410J1301tight thermal0.020.5
411K1301tight thermal0.020.5
412L1301tight thermal0.020.5
51E1301tight thermal0.020.5
52A1301tight thermal0.020.5
53B1301tight thermal0.020.5
54C1301tight thermal0.020.5
55D1301tight thermal0.020.5
56F1301tight thermal0.020.5
57G1301tight thermal0.020.5
58H1301tight thermal0.020.5
59I1301tight thermal0.020.5
510J1301tight thermal0.020.5
511K1301tight thermal0.020.5
512L1301tight thermal0.020.5
61F1301tight thermal0.020.5
62A1301tight thermal0.020.5
63B1301tight thermal0.020.5
64C1301tight thermal0.020.5
65D1301tight thermal0.020.5
66E1301tight thermal0.020.5
67G1301tight thermal0.020.5
68H1301tight thermal0.020.5
69I1301tight thermal0.020.5
610J1301tight thermal0.020.5
611K1301tight thermal0.020.5
612L1301tight thermal0.020.5
71G1301tight thermal0.020.5
72A1301tight thermal0.020.5
73B1301tight thermal0.020.5
74C1301tight thermal0.020.5
75D1301tight thermal0.020.5
76E1301tight thermal0.020.5
77F1301tight thermal0.020.5
78H1301tight thermal0.020.5
79I1301tight thermal0.020.5
710J1301tight thermal0.020.5
711K1301tight thermal0.020.5
712L1301tight thermal0.020.5
81H1301tight thermal0.020.5
82A1301tight thermal0.020.5
83B1301tight thermal0.020.5
84C1301tight thermal0.020.5
85D1301tight thermal0.020.5
86E1301tight thermal0.020.5
87F1301tight thermal0.020.5
88G1301tight thermal0.020.5
89I1301tight thermal0.020.5
810J1301tight thermal0.020.5
811K1301tight thermal0.020.5
812L1301tight thermal0.020.5
91I1301tight thermal0.020.5
92A1301tight thermal0.020.5
93B1301tight thermal0.020.5
94C1301tight thermal0.020.5
95D1301tight thermal0.020.5
96E1301tight thermal0.020.5
97F1301tight thermal0.020.5
98G1301tight thermal0.020.5
99H1301tight thermal0.020.5
910J1301tight thermal0.020.5
911K1301tight thermal0.020.5
912L1301tight thermal0.020.5
101J1301tight thermal0.020.5
102A1301tight thermal0.020.5
103B1301tight thermal0.020.5
104C1301tight thermal0.020.5
105D1301tight thermal0.020.5
106E1301tight thermal0.020.5
107F1301tight thermal0.020.5
108G1301tight thermal0.020.5
109H1301tight thermal0.020.5
1010I1301tight thermal0.020.5
1011K1301tight thermal0.020.5
1012L1301tight thermal0.020.5
111K1301tight thermal0.020.5
112A1301tight thermal0.020.5
113B1301tight thermal0.020.5
114C1301tight thermal0.020.5
115D1301tight thermal0.020.5
116E1301tight thermal0.020.5
117F1301tight thermal0.020.5
118G1301tight thermal0.020.5
119H1301tight thermal0.020.5
1110I1301tight thermal0.020.5
1111J1301tight thermal0.020.5
1112L1301tight thermal0.020.5
121L1301tight thermal0.020.5
122A1301tight thermal0.020.5
123B1301tight thermal0.020.5
124C1301tight thermal0.020.5
125D1301tight thermal0.020.5
126E1301tight thermal0.020.5
127F1301tight thermal0.020.5
128G1301tight thermal0.020.5
129H1301tight thermal0.020.5
1210I1301tight thermal0.020.5
1211J1301tight thermal0.020.5
1212K1301tight thermal0.020.5
131B43tight thermal00.5
132D43tight thermal00.5
133F43tight thermal00.5
134H43tight thermal00.5
135J43tight thermal00.5
136L43tight thermal00.5
141D43tight thermal00.5
142B43tight thermal00.5
143F43tight thermal00.5
144H43tight thermal00.5
145J43tight thermal00.5
146L43tight thermal00.5
151F43tight thermal00.5
152B43tight thermal00.5
153D43tight thermal00.5
154H43tight thermal00.5
155J43tight thermal00.5
156L43tight thermal00.5
161H43tight thermal00.5
162B43tight thermal00.5
163D43tight thermal00.5
164F43tight thermal00.5
165J43tight thermal00.5
166L43tight thermal00.5
171J43tight thermal00.5
172B43tight thermal00.5
173D43tight thermal00.5
174F43tight thermal00.5
175H43tight thermal00.5
176L43tight thermal00.5
181L43tight thermal00.5
182B43tight thermal00.5
183D43tight thermal00.5
184F43tight thermal00.5
185H43tight thermal00.5
186J43tight thermal00.5
LS refinement shellResolution: 2.95→3.03 Å / Total num. of bins used: 20
RfactorNum. reflection% reflection
Rfree0.363 109 -
Rwork0.321 2403 -
obs--52.33 %

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