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- PDB-4v5x: The cryo-EM structure of a 3D DNA-origami object -

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Basic information

Entry
Database: PDB / ID: 4v5x
TitleThe cryo-EM structure of a 3D DNA-origami object
Components
  • (STAPLE STRAND) x 161
  • SCAFFOLD STRAND,SCAFFOLD STRAND
KeywordsDNA / DNA-TEMPLATED DESIGN / SYNTHETIC BIOLOGY
Function / homologyDNA / DNA (> 10) / DNA (> 100) / DNA (> 1000)
Function and homology information
Biological speciesENTEROBACTERIA PHAGE M13 (virus)
SYNTHETIC CONSTRUCT (others)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 11.5 Å
AuthorsBai, X.C. / Martin, T.G. / Scheres, S.H.W. / Dietz, H.
CitationJournal: Proc Natl Acad Sci U S A / Year: 2012
Title: Cryo-EM structure of a 3D DNA-origami object.
Authors: Xiao-Chen Bai / Thomas G Martin / Sjors H W Scheres / Hendrik Dietz /
Abstract: A key goal for nanotechnology is to design synthetic objects that may ultimately achieve functionalities known today only from natural macromolecular complexes. Molecular self-assembly with DNA has ...A key goal for nanotechnology is to design synthetic objects that may ultimately achieve functionalities known today only from natural macromolecular complexes. Molecular self-assembly with DNA has shown potential for creating user-defined 3D scaffolds, but the level of attainable positional accuracy has been unclear. Here we report the cryo-EM structure and a full pseudoatomic model of a discrete DNA object that is almost twice the size of a prokaryotic ribosome. The structure provides a variety of stable, previously undescribed DNA topologies for future use in nanotechnology and experimental evidence that discrete 3D DNA scaffolds allow the positioning of user-defined structural motifs with an accuracy that is similar to that observed in natural macromolecules. Thereby, our results indicate an attractive route to fabricate nanoscale devices that achieve complex functionalities by DNA-templated design steered by structural feedback.
History
DepositionOct 9, 2012Deposition site: PDBE / Processing site: PDBE
Revision 1.0Jul 9, 2014Provider: repository / Type: Initial release
SupersessionDec 10, 2014ID: 2YMF, 2YMG, 2YMH, 2YMI, 2YMR
Revision 1.1Dec 10, 2014Group: Other
Revision 1.2Mar 25, 2015Group: Other
Revision 2.0Aug 2, 2017Group: Advisory / Atomic model ...Advisory / Atomic model / Data collection / Derived calculations
Category: atom_site / em_software ...atom_site / em_software / pdbx_validate_close_contact / struct_conn
Item: _atom_site.Cartn_x / _atom_site.Cartn_y ..._atom_site.Cartn_x / _atom_site.Cartn_y / _atom_site.Cartn_z / _em_software.image_processing_id / _em_software.name / _pdbx_validate_close_contact.auth_atom_id_2
Revision 3.0Jul 31, 2019Group: Advisory / Atomic model ...Advisory / Atomic model / Data collection / Database references / Derived calculations / Other / Polymer sequence / Source and taxonomy / Structure summary
Category: atom_site / database_PDB_caveat ...atom_site / database_PDB_caveat / entity / entity_poly / entity_poly_seq / entity_src_gen / ndb_struct_na_base_pair / ndb_struct_na_base_pair_step / pdbx_database_status / pdbx_entity_src_syn / pdbx_poly_seq_scheme / pdbx_struct_assembly_gen / pdbx_unobs_or_zero_occ_atoms / pdbx_unobs_or_zero_occ_residues / pdbx_validate_chiral / pdbx_validate_close_contact / pdbx_validate_planes / pdbx_validate_polymer_linkage / pdbx_validate_rmsd_angle / struct_asym / struct_conn / struct_ref / struct_ref_seq
Item: _atom_site.auth_asym_id / _atom_site.label_asym_id ..._atom_site.auth_asym_id / _atom_site.label_asym_id / _atom_site.label_entity_id / _atom_site.label_seq_id / _entity_poly_seq.entity_id / _entity_poly_seq.mon_id / _entity_poly_seq.num / _entity_src_gen.entity_id / _entity_src_gen.pdbx_beg_seq_num / _entity_src_gen.pdbx_description / _entity_src_gen.pdbx_end_seq_num / _entity_src_gen.pdbx_seq_type / _entity_src_gen.pdbx_src_id / _ndb_struct_na_base_pair.i_auth_asym_id / _ndb_struct_na_base_pair.i_label_asym_id / _ndb_struct_na_base_pair.i_label_seq_id / _ndb_struct_na_base_pair.j_label_asym_id / _ndb_struct_na_base_pair.j_label_seq_id / _ndb_struct_na_base_pair.pair_name / _ndb_struct_na_base_pair_step.i_auth_asym_id_1 / _ndb_struct_na_base_pair_step.i_auth_asym_id_2 / _ndb_struct_na_base_pair_step.i_label_asym_id_1 / _ndb_struct_na_base_pair_step.i_label_asym_id_2 / _ndb_struct_na_base_pair_step.i_label_seq_id_1 / _ndb_struct_na_base_pair_step.i_label_seq_id_2 / _ndb_struct_na_base_pair_step.j_label_asym_id_1 / _ndb_struct_na_base_pair_step.j_label_asym_id_2 / _ndb_struct_na_base_pair_step.j_label_seq_id_1 / _ndb_struct_na_base_pair_step.j_label_seq_id_2 / _ndb_struct_na_base_pair_step.step_name / _pdbx_database_status.process_site / _pdbx_entity_src_syn.entity_id / _pdbx_entity_src_syn.pdbx_beg_seq_num / _pdbx_entity_src_syn.pdbx_end_seq_num / _pdbx_poly_seq_scheme.asym_id / _pdbx_poly_seq_scheme.auth_mon_id / _pdbx_poly_seq_scheme.auth_seq_num / _pdbx_poly_seq_scheme.entity_id / _pdbx_poly_seq_scheme.mon_id / _pdbx_poly_seq_scheme.ndb_seq_num / _pdbx_poly_seq_scheme.pdb_mon_id / _pdbx_poly_seq_scheme.pdb_seq_num / _pdbx_poly_seq_scheme.pdb_strand_id / _pdbx_poly_seq_scheme.seq_id / _pdbx_struct_assembly_gen.asym_id_list / _pdbx_unobs_or_zero_occ_residues.auth_comp_id / _pdbx_unobs_or_zero_occ_residues.auth_seq_id / _pdbx_unobs_or_zero_occ_residues.label_asym_id / _pdbx_unobs_or_zero_occ_residues.label_comp_id / _pdbx_unobs_or_zero_occ_residues.label_seq_id / _pdbx_validate_chiral.auth_asym_id / _pdbx_validate_planes.auth_asym_id / _pdbx_validate_polymer_linkage.auth_asym_id_1 / _pdbx_validate_polymer_linkage.auth_asym_id_2 / _pdbx_validate_rmsd_angle.auth_asym_id_1 / _pdbx_validate_rmsd_angle.auth_asym_id_2 / _pdbx_validate_rmsd_angle.auth_asym_id_3 / _struct_conn.details / _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_ref.db_code / _struct_ref.db_name / _struct_ref.entity_id / _struct_ref.pdbx_align_begin / _struct_ref.pdbx_db_accession / _struct_ref_seq.db_align_beg / _struct_ref_seq.db_align_end / _struct_ref_seq.pdbx_auth_seq_align_beg / _struct_ref_seq.pdbx_auth_seq_align_end / _struct_ref_seq.pdbx_db_accession / _struct_ref_seq.pdbx_strand_id / _struct_ref_seq.seq_align_beg / _struct_ref_seq.seq_align_end
Revision 3.1Dec 11, 2019Group: Other / Category: atom_sites
Item: _atom_sites.fract_transf_matrix[1][1] / _atom_sites.fract_transf_matrix[2][2] / _atom_sites.fract_transf_matrix[3][3]

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Structure visualization

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Assembly

Deposited unit
AA: SCAFFOLD STRAND,SCAFFOLD STRAND
A0: STAPLE STRAND
A1: STAPLE STRAND
A2: STAPLE STRAND
A3: STAPLE STRAND
A4: STAPLE STRAND
A5: STAPLE STRAND
A6: STAPLE STRAND
A7: STAPLE STRAND
A8: STAPLE STRAND
AB: STAPLE STRAND
AC: STAPLE STRAND
AD: STAPLE STRAND
AE: STAPLE STRAND
AF: STAPLE STRAND
AG: STAPLE STRAND
AH: STAPLE STRAND
AI: STAPLE STRAND
AJ: STAPLE STRAND
AK: STAPLE STRAND
AL: STAPLE STRAND
AM: STAPLE STRAND
AN: STAPLE STRAND
AO: STAPLE STRAND
AP: STAPLE STRAND
AQ: STAPLE STRAND
AR: STAPLE STRAND
AS: STAPLE STRAND
AT: STAPLE STRAND
AU: STAPLE STRAND
AV: STAPLE STRAND
AW: STAPLE STRAND
AX: STAPLE STRAND
AY: STAPLE STRAND
AZ: STAPLE STRAND
Ab: STAPLE STRAND
Ac: STAPLE STRAND
Ad: STAPLE STRAND
Af: STAPLE STRAND
Ag: STAPLE STRAND
Ah: STAPLE STRAND
Ai: STAPLE STRAND
Aj: STAPLE STRAND
Ak: STAPLE STRAND
Al: STAPLE STRAND
Am: STAPLE STRAND
An: STAPLE STRAND
Ao: STAPLE STRAND
As: STAPLE STRAND
Au: STAPLE STRAND
Av: STAPLE STRAND
Aw: STAPLE STRAND
Ax: STAPLE STRAND
Ay: STAPLE STRAND
Az: STAPLE STRAND
B0: STAPLE STRAND
B1: STAPLE STRAND
B2: STAPLE STRAND
B3: STAPLE STRAND
B4: STAPLE STRAND
B5: STAPLE STRAND
B6: STAPLE STRAND
B7: STAPLE STRAND
B8: STAPLE STRAND
B9: STAPLE STRAND
BB: STAPLE STRAND
BC: STAPLE STRAND
BD: STAPLE STRAND
BE: STAPLE STRAND
BF: STAPLE STRAND
BG: STAPLE STRAND
BH: STAPLE STRAND
BI: STAPLE STRAND
BJ: STAPLE STRAND
BK: STAPLE STRAND
BL: STAPLE STRAND
BM: STAPLE STRAND
BN: STAPLE STRAND
BO: STAPLE STRAND
BP: STAPLE STRAND
BQ: STAPLE STRAND
BR: STAPLE STRAND
BS: STAPLE STRAND
BT: STAPLE STRAND
BU: STAPLE STRAND
BV: STAPLE STRAND
BW: STAPLE STRAND
BX: STAPLE STRAND
BY: STAPLE STRAND
BZ: STAPLE STRAND
Ba: STAPLE STRAND
Bb: STAPLE STRAND
Bc: STAPLE STRAND
Bd: STAPLE STRAND
Be: STAPLE STRAND
Bf: STAPLE STRAND
Bg: STAPLE STRAND
Bh: STAPLE STRAND
Bi: STAPLE STRAND
Bj: STAPLE STRAND
Bk: STAPLE STRAND
Bl: STAPLE STRAND
Bm: STAPLE STRAND
Bn: STAPLE STRAND
Bo: STAPLE STRAND
Bp: STAPLE STRAND
Bq: STAPLE STRAND
Br: STAPLE STRAND
Bs: STAPLE STRAND
C0: STAPLE STRAND
C1: STAPLE STRAND
C2: STAPLE STRAND
C3: STAPLE STRAND
C4: STAPLE STRAND
C5: STAPLE STRAND
C6: STAPLE STRAND
C7: STAPLE STRAND
C8: STAPLE STRAND
CB: STAPLE STRAND
CC: STAPLE STRAND
CD: STAPLE STRAND
CE: STAPLE STRAND
CF: STAPLE STRAND
CG: STAPLE STRAND
CH: STAPLE STRAND
CI: STAPLE STRAND
CJ: STAPLE STRAND
CK: STAPLE STRAND
CL: STAPLE STRAND
CM: STAPLE STRAND
CN: STAPLE STRAND
CO: STAPLE STRAND
CP: STAPLE STRAND
CQ: STAPLE STRAND
CR: STAPLE STRAND
CS: STAPLE STRAND
CT: STAPLE STRAND
CU: STAPLE STRAND
CV: STAPLE STRAND
CW: STAPLE STRAND
CX: STAPLE STRAND
CY: STAPLE STRAND
CZ: STAPLE STRAND
Cb: STAPLE STRAND
Cc: STAPLE STRAND
Cd: STAPLE STRAND
Ce: STAPLE STRAND
Cf: STAPLE STRAND
Cg: STAPLE STRAND
Ch: STAPLE STRAND
Ck: STAPLE STRAND
Cp: STAPLE STRAND
Cq: STAPLE STRAND
Cr: STAPLE STRAND
Cs: STAPLE STRAND
Ct: STAPLE STRAND
Cu: STAPLE STRAND
Cv: STAPLE STRAND
Cw: STAPLE STRAND
Cx: STAPLE STRAND
Cy: STAPLE STRAND
Cz: STAPLE STRAND


Theoretical massNumber of molelcules
Total (without water)4,692,024162
Polymers4,692,024162
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

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DNA chain , 162 types, 162 molecules AAA0A1A2A3A4A5A6A7A8ABACADAEAFAGAHAIAJAKALAMANAOAPAQARASATAU...

#1: DNA chain SCAFFOLD STRAND,SCAFFOLD STRAND


Mass: 2236529.500 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Details: ISOLATED M13 PHAGE GENOME (SINGLE-STRANDED),ISOLATED M13 PHAGE GENOME (SINGLE-STRANDED)
Source: (gene. exp.) ENTEROBACTERIA PHAGE M13 (virus)
Description: M13 SINGLE-STRANDED PHAGE GENOME WAS PRODUCED IN E.COLI CELLS
Production host: ESCHERICHIA COLI (E. coli)
#2: DNA chain STAPLE STRAND


Mass: 17040.047 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#3: DNA chain STAPLE STRAND


Mass: 13578.773 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#4: DNA chain STAPLE STRAND


Mass: 15511.108 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#5: DNA chain STAPLE STRAND


Mass: 12230.890 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#6: DNA chain STAPLE STRAND


Mass: 14807.590 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#7: DNA chain STAPLE STRAND


Mass: 14780.572 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#8: DNA chain STAPLE STRAND


Mass: 15464.999 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#9: DNA chain STAPLE STRAND


Mass: 14646.427 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#10: DNA chain STAPLE STRAND


Mass: 14915.617 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#11: DNA chain STAPLE STRAND


Mass: 12142.799 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#12: DNA chain STAPLE STRAND


Mass: 15050.683 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#13: DNA chain STAPLE STRAND


Mass: 15408.909 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#14: DNA chain STAPLE STRAND


Mass: 14141.102 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#15: DNA chain STAPLE STRAND


Mass: 14669.425 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#16: DNA chain STAPLE STRAND


Mass: 14206.161 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#17: DNA chain STAPLE STRAND


Mass: 14627.406 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#18: DNA chain STAPLE STRAND


Mass: 14811.582 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#19: DNA chain STAPLE STRAND


Mass: 16067.389 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#20: DNA chain STAPLE STRAND


Mass: 18479.871 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#21: DNA chain STAPLE STRAND


Mass: 14739.470 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#22: DNA chain STAPLE STRAND


Mass: 15255.813 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#23: DNA chain STAPLE STRAND


Mass: 14723.457 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#24: DNA chain STAPLE STRAND


Mass: 14647.427 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#25: DNA chain STAPLE STRAND


Mass: 12225.881 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#26: DNA chain STAPLE STRAND


Mass: 17719.348 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#27: DNA chain STAPLE STRAND


Mass: 19372.441 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#28: DNA chain STAPLE STRAND


Mass: 19698.684 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#29: DNA chain STAPLE STRAND


Mass: 14866.562 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#30: DNA chain STAPLE STRAND


Mass: 14811.582 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#31: DNA chain STAPLE STRAND


Mass: 16044.354 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#32: DNA chain STAPLE STRAND


Mass: 15186.788 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#33: DNA chain STAPLE STRAND


Mass: 14668.473 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#34: DNA chain STAPLE STRAND


Mass: 12847.249 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#35: DNA chain STAPLE STRAND


Mass: 16569.660 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#36: DNA chain STAPLE STRAND


Mass: 13844.921 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#37: DNA chain STAPLE STRAND


Mass: 21594.908 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#38: DNA chain STAPLE STRAND


Mass: 14677.449 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#39: DNA chain STAPLE STRAND


Mass: 14724.548 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#40: DNA chain STAPLE STRAND


Mass: 14873.547 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#41: DNA chain STAPLE STRAND


Mass: 13352.602 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#42: DNA chain STAPLE STRAND


Mass: 14051.038 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#43: DNA chain STAPLE STRAND


Mass: 19167.404 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#44: DNA chain STAPLE STRAND


Mass: 14427.287 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#45: DNA chain STAPLE STRAND


Mass: 14603.398 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#46: DNA chain STAPLE STRAND


Mass: 14738.465 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#47: DNA chain STAPLE STRAND


Mass: 14783.497 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#48: DNA chain STAPLE STRAND


Mass: 11088.116 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#49: DNA chain STAPLE STRAND


Mass: 14856.577 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#50: DNA chain STAPLE STRAND


Mass: 14668.435 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#51: DNA chain STAPLE STRAND


Mass: 14776.514 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#52: DNA chain STAPLE STRAND


Mass: 14700.488 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#53: DNA chain STAPLE STRAND


Mass: 16015.279 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#54: DNA chain STAPLE STRAND


Mass: 11672.545 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#55: DNA chain STAPLE STRAND


Mass: 15777.127 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#56: DNA chain STAPLE STRAND


Mass: 14858.482 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#57: DNA chain STAPLE STRAND


Mass: 18217.744 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#58: DNA chain STAPLE STRAND


Mass: 11130.170 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#59: DNA chain STAPLE STRAND


Mass: 14792.514 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#60: DNA chain STAPLE STRAND


Mass: 14648.434 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#61: DNA chain STAPLE STRAND


Mass: 12362.992 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#62: DNA chain STAPLE STRAND


Mass: 15522.011 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#63: DNA chain STAPLE STRAND


Mass: 13550.692 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#64: DNA chain STAPLE STRAND


Mass: 12030.770 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#65: DNA chain STAPLE STRAND


Mass: 16897.852 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#66: DNA chain STAPLE STRAND


Mass: 14819.556 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#67: DNA chain STAPLE STRAND


Mass: 13567.786 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#68: DNA chain STAPLE STRAND


Mass: 10961.058 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#69: DNA chain STAPLE STRAND


Mass: 20973.498 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#70: DNA chain STAPLE STRAND


Mass: 12298.959 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#71: DNA chain STAPLE STRAND


Mass: 15221.823 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#72: DNA chain STAPLE STRAND


Mass: 12828.285 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#73: DNA chain STAPLE STRAND


Mass: 12823.292 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#74: DNA chain STAPLE STRAND


Mass: 17870.438 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#75: DNA chain STAPLE STRAND


Mass: 13573.818 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#76: DNA chain STAPLE STRAND


Mass: 14710.436 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#77: DNA chain STAPLE STRAND


Mass: 16003.303 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#78: DNA chain STAPLE STRAND


Mass: 19274.367 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#79: DNA chain STAPLE STRAND


Mass: 14948.607 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#80: DNA chain STAPLE STRAND


Mass: 20124.887 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#81: DNA chain STAPLE STRAND


Mass: 14687.453 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#82: DNA chain STAPLE STRAND


Mass: 19689.631 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#83: DNA chain STAPLE STRAND


Mass: 14721.426 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#84: DNA chain STAPLE STRAND


Mass: 15960.209 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#85: DNA chain STAPLE STRAND


Mass: 16950.857 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#86: DNA chain STAPLE STRAND


Mass: 13490.700 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#87: DNA chain STAPLE STRAND


Mass: 16259.448 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#88: DNA chain STAPLE STRAND


Mass: 15029.691 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#89: DNA chain STAPLE STRAND


Mass: 14731.495 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#90: DNA chain STAPLE STRAND


Mass: 20185.957 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#91: DNA chain STAPLE STRAND


Mass: 14797.471 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#92: DNA chain STAPLE STRAND


Mass: 20881.359 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#93: DNA chain STAPLE STRAND


Mass: 15441.856 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#94: DNA chain STAPLE STRAND


Mass: 17205.010 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#95: DNA chain STAPLE STRAND


Mass: 14825.497 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#96: DNA chain STAPLE STRAND


Mass: 14900.536 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#97: DNA chain STAPLE STRAND


Mass: 14388.232 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#98: DNA chain STAPLE STRAND


Mass: 14887.535 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#99: DNA chain STAPLE STRAND


Mass: 20567.201 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#100: DNA chain STAPLE STRAND


Mass: 13759.860 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#101: DNA chain STAPLE STRAND


Mass: 20663.260 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#102: DNA chain STAPLE STRAND


Mass: 14911.580 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#103: DNA chain STAPLE STRAND


Mass: 14672.440 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#104: DNA chain STAPLE STRAND


Mass: 20798.240 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#105: DNA chain STAPLE STRAND


Mass: 20573.143 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#106: DNA chain STAPLE STRAND


Mass: 14902.566 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#107: DNA chain STAPLE STRAND


Mass: 18002.525 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#108: DNA chain STAPLE STRAND


Mass: 15694.010 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#109: DNA chain STAPLE STRAND


Mass: 16673.688 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#110: DNA chain STAPLE STRAND


Mass: 12603.098 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#111: DNA chain STAPLE STRAND


Mass: 15650.125 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#112: DNA chain STAPLE STRAND


Mass: 17173.100 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#113: DNA chain STAPLE STRAND


Mass: 14633.459 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#114: DNA chain STAPLE STRAND


Mass: 21768.979 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#115: DNA chain STAPLE STRAND


Mass: 19270.379 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#116: DNA chain STAPLE STRAND


Mass: 14873.601 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#117: DNA chain STAPLE STRAND


Mass: 16051.352 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#118: DNA chain STAPLE STRAND


Mass: 13617.758 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#119: DNA chain STAPLE STRAND


Mass: 16552.635 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#120: DNA chain STAPLE STRAND


Mass: 14576.394 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#121: DNA chain STAPLE STRAND


Mass: 14929.622 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#122: DNA chain STAPLE STRAND


Mass: 12401.041 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#123: DNA chain STAPLE STRAND


Mass: 12350.960 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#124: DNA chain STAPLE STRAND


Mass: 13706.768 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#125: DNA chain STAPLE STRAND


Mass: 14949.592 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#126: DNA chain STAPLE STRAND


Mass: 13565.741 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#127: DNA chain STAPLE STRAND


Mass: 18067.650 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#128: DNA chain STAPLE STRAND


Mass: 14922.639 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#129: DNA chain STAPLE STRAND


Mass: 14789.549 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#130: DNA chain STAPLE STRAND


Mass: 16638.734 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#131: DNA chain STAPLE STRAND


Mass: 12745.254 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#132: DNA chain STAPLE STRAND


Mass: 14860.582 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#133: DNA chain STAPLE STRAND


Mass: 17217.082 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#134: DNA chain STAPLE STRAND


Mass: 11567.484 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#135: DNA chain STAPLE STRAND


Mass: 14660.464 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#136: DNA chain STAPLE STRAND


Mass: 14767.515 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#137: DNA chain STAPLE STRAND


Mass: 14951.619 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#138: DNA chain STAPLE STRAND


Mass: 9754.358 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#139: DNA chain STAPLE STRAND


Mass: 16271.479 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#140: DNA chain STAPLE STRAND


Mass: 11708.513 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#141: DNA chain STAPLE STRAND


Mass: 14417.234 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#142: DNA chain STAPLE STRAND


Mass: 13206.617 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#143: DNA chain STAPLE STRAND


Mass: 14907.681 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#144: DNA chain STAPLE STRAND


Mass: 13626.824 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#145: DNA chain STAPLE STRAND


Mass: 19047.244 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#146: DNA chain STAPLE STRAND


Mass: 12966.436 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#147: DNA chain STAPLE STRAND


Mass: 16020.326 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#148: DNA chain STAPLE STRAND


Mass: 14770.532 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#149: DNA chain STAPLE STRAND


Mass: 14218.170 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#150: DNA chain STAPLE STRAND


Mass: 14330.200 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#151: DNA chain STAPLE STRAND


Mass: 8874.730 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#152: DNA chain STAPLE STRAND


Mass: 14865.575 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#153: DNA chain STAPLE STRAND


Mass: 12440.024 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#154: DNA chain STAPLE STRAND


Mass: 14115.087 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#155: DNA chain STAPLE STRAND


Mass: 15330.904 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#156: DNA chain STAPLE STRAND


Mass: 13488.727 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#157: DNA chain STAPLE STRAND


Mass: 18509.984 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#158: DNA chain STAPLE STRAND


Mass: 14077.056 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#159: DNA chain STAPLE STRAND


Mass: 16704.740 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#160: DNA chain STAPLE STRAND


Mass: 14153.132 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#161: DNA chain STAPLE STRAND


Mass: 20481.178 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)
#162: DNA chain STAPLE STRAND


Mass: 14727.513 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others)

-
Experimental details

-
Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

-
Sample preparation

ComponentName: POINTER-SHAPED 3D DNA- ORIGAMI OBJECT / Type: COMPLEX
Buffer solutionName: 10 MM TRIS-HCL, 20 MM MGCL2, 5 MM NACL, 1 MM EDTA / pH: 7.6 / Details: 10 MM TRIS-HCL, 20 MM MGCL2, 5 MM NACL, 1 MM EDTA
SpecimenConc.: 48 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportDetails: CARBON
VitrificationInstrument: FEI VITROBOT MARK III / Cryogen name: ETHANE / Details: LIQUID ETHANE

-
Electron microscopy imaging

Experimental equipment
Model: Tecnai Polara / Image courtesy: FEI Company
MicroscopyModel: FEI POLARA 300 / Date: Apr 1, 2012
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy / Nominal magnification: 31000 X / Calibrated magnification: 39436 X / Nominal defocus max: 4460 nm / Nominal defocus min: 890 nm / Cs: 2 mm
Specimen holderTemperature: 80 K
Image recordingElectron dose: 10 e/Å2 / Film or detector model: FEI FALCON I (4k x 4k)
Image scansNum. digital images: 283
Radiation wavelengthRelative weight: 1

-
Processing

EM software
IDNameVersionCategory
1CTFFIND3CTF correction
2RELION3D reconstruction
CTF correctionDetails: WIENER FILTER (RELION)
SymmetryPoint symmetry: C1 (asymmetric)
3D reconstructionMethod: MAXIMUM A POSTERIORI ESTIMATION / Resolution: 11.5 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 28502 / Nominal pixel size: 3.55 Å / Actual pixel size: 3.55 Å / Magnification calibration: EXPERIMENTAL CROSS-GRATING
Details: TWO MODELS WERE REFINED INDEPENDENTLY TO PREVENT OVERFITTING THROUGH GOLD-STANDARD FOURIER-SHELL CORRELATIONS. THERE IS A MISSING COVALENT BOND BETWEEN THE LAST BASE OF THIS PDB FILE AND THE ...Details: TWO MODELS WERE REFINED INDEPENDENTLY TO PREVENT OVERFITTING THROUGH GOLD-STANDARD FOURIER-SHELL CORRELATIONS. THERE IS A MISSING COVALENT BOND BETWEEN THE LAST BASE OF THIS PDB FILE AND THE FIRST ONE IN PDB ENTRY 2YMG. IN ADDITION THERE IS A COVALENT BOND BETWEEN THE FIRST BASE IN THIS FILE AND THE LAST IN 2YMG GIVING A CIRCULAR MOLECULE. IN TOTAL THERE ARE FIVE PDB FILES. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2210.(DEPOSITION ID: 11146).
Refinement type: HALF-MAPS REFINED INDEPENDENTLY / Symmetry type: POINT
Atomic model buildingProtocol: FLEXIBLE FIT / Space: RECIPROCAL
Details: METHOD--MOLECULAR DYNAMICS FLEXIBLE FITTING REFINEMENT PROTOCOL--THEORETICAL
RefinementHighest resolution: 11.5 Å
Refinement stepCycle: LAST / Highest resolution: 11.5 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms0 99989 0 0 99989

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