data_1T1O # _entry.id 1T1O # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.386 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1T1O pdb_00001t1o 10.2210/pdb1t1o/pdb RCSB RCSB022199 ? ? WWPDB D_1000022199 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2004-06-15 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' em_3d_fitting_list 5 4 'Structure model' em_image_scans 6 4 'Structure model' pdbx_initial_refinement_model # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' 3 4 'Structure model' '_em_3d_fitting_list.accession_code' 4 4 'Structure model' '_em_3d_fitting_list.initial_refinement_model_id' 5 4 'Structure model' '_em_3d_fitting_list.source_name' 6 4 'Structure model' '_em_3d_fitting_list.type' # _pdbx_database_status.entry_id 1T1O _pdbx_database_status.status_code REL _pdbx_database_status.recvd_initial_deposition_date 2004-04-16 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1KC9 'X-ray crystallographic Structure of the 50S ribosomal subunit from D. radiodurans' unspecified PDB 1FJF 'X-ray crystallographic Structure of the 30S ribosomal subunit from T. thermophilu' unspecified PDB 1T1M . unspecified EMDB EMD-1077 . 'associated EM volume' # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Agrawal, R.K.' 1 'Sharma, M.R.' 2 'Kiel, M.C.' 3 'Hirokawa, G.' 4 'Booth, T.M.' 5 'Spahn, C.M.' 6 'Grassucci, R.A.' 7 'Kaji, A.' 8 'Frank, J.' 9 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Visualization of ribosome-recycling factor on the Escherichia coli 70S ribosome: Functional implications' Proc.Natl.Acad.Sci.USA 101 8900 8905 2004 PNASA6 US 0027-8424 0040 ? 15178758 10.1073/pnas.0401904101 1 'High resolution structure of the large ribosomal subunit from a mesophilic eubacterium' 'Cell(Cambridge,Mass.)' 107 679 688 2001 CELLB5 US 0092-8674 0998 ? 11733066 '10.1016/S0092-8674(01)00546-3' 2 'Structure of the 30S ribosomal subunit' Nature 407 327 339 2000 NATUAS UK 0028-0836 0006 ? 11014182 10.1038/35030006 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Agrawal, R.K.' 1 ? primary 'Sharma, M.R.' 2 ? primary 'Kiel, M.C.' 3 ? primary 'Hirokawa, G.' 4 ? primary 'Booth, T.M.' 5 ? primary 'Spahn, C.M.' 6 ? primary 'Grassucci, R.A.' 7 ? primary 'Kaji, A.' 8 ? primary 'Frank, J.' 9 ? 1 'Harms, J.' 10 ? 1 'Schluenzen, F.' 11 ? 1 'Zarivach, R.' 12 ? 1 'Bashan, A.' 13 ? 1 'Gat, S.' 14 ? 1 'Agmon, I.' 15 ? 1 'Bartels, H.' 16 ? 1 'Franceschi, F.' 17 ? 1 'Yonath, A.' 18 ? 2 'Wimberly, B.T.' 19 ? 2 'Brodersen, D.E.' 20 ? 2 'Clemons Jr., W.M.' 21 ? 2 'Morgan-Warren, R.J.' 22 ? 2 'Carter, A.P.' 23 ? 2 'Vonrhein, C.' 24 ? 2 'Hartsch, T.' 25 ? 2 'Ramakrishnan, V.' 26 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer nat 'dodecamer fragment of double helix from 23S rRNA' 3852.344 1 ? ? 'Apical loop of Helix 43' 'fitted into the cryo-EM map of the 70S ribosome' 2 polymer nat '19-mer fragment of the 23S rRNA' 6077.673 1 ? ? 'Helix 69' 'fitted into the cryo-EM map of the 70S ribosome' 3 polymer nat '42-mer fragment of double helix from 16S rRNA' 13581.124 1 ? ? 'Top portion of helix 44' 'fitted into the cryo-EM map of the 70S ribosome' # _entity_name_com.entity_id 3 _entity_name_com.name 'Ribosome releasing factor; RRF' # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polyribonucleotide no no UGGCUUAGAAGC UGGCUUAGAAGC A ? 2 polyribonucleotide no no GGCCGUAACUAUAACGGUC GGCCGUAACUAUAACGGUC B ? 3 polyribonucleotide no no GCCCGUCACACCAUGGGAGUAUGACUGGGGUGAAGUCGUAAC GCCCGUCACACCAUGGGAGUAUGACUGGGGUGAAGUCGUAAC C ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 U n 1 2 G n 1 3 G n 1 4 C n 1 5 U n 1 6 U n 1 7 A n 1 8 G n 1 9 A n 1 10 A n 1 11 G n 1 12 C n 2 1 G n 2 2 G n 2 3 C n 2 4 C n 2 5 G n 2 6 U n 2 7 A n 2 8 A n 2 9 C n 2 10 U n 2 11 A n 2 12 U n 2 13 A n 2 14 A n 2 15 C n 2 16 G n 2 17 G n 2 18 U n 2 19 C n 3 1 G n 3 2 C n 3 3 C n 3 4 C n 3 5 G n 3 6 U n 3 7 C n 3 8 A n 3 9 C n 3 10 A n 3 11 C n 3 12 C n 3 13 A n 3 14 U n 3 15 G n 3 16 G n 3 17 G n 3 18 A n 3 19 G n 3 20 U n 3 21 A n 3 22 U n 3 23 G n 3 24 A n 3 25 C n 3 26 U n 3 27 G n 3 28 G n 3 29 G n 3 30 G n 3 31 U n 3 32 G n 3 33 A n 3 34 A n 3 35 G n 3 36 U n 3 37 C n 3 38 G n 3 39 U n 3 40 A n 3 41 A n 3 42 C n # loop_ _entity_src_nat.entity_id _entity_src_nat.pdbx_src_id _entity_src_nat.pdbx_alt_source_flag _entity_src_nat.pdbx_beg_seq_num _entity_src_nat.pdbx_end_seq_num _entity_src_nat.common_name _entity_src_nat.pdbx_organism_scientific _entity_src_nat.pdbx_ncbi_taxonomy_id _entity_src_nat.genus _entity_src_nat.species _entity_src_nat.strain _entity_src_nat.tissue _entity_src_nat.tissue_fraction _entity_src_nat.pdbx_secretion _entity_src_nat.pdbx_fragment _entity_src_nat.pdbx_variant _entity_src_nat.pdbx_cell_line _entity_src_nat.pdbx_atcc _entity_src_nat.pdbx_cellular_location _entity_src_nat.pdbx_organ _entity_src_nat.pdbx_organelle _entity_src_nat.pdbx_cell _entity_src_nat.pdbx_plasmid_name _entity_src_nat.pdbx_plasmid_details _entity_src_nat.details 1 1 sample ? ? ? 'Escherichia coli' 562 Escherichia ? MRE600 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 2 1 sample ? ? ? 'Escherichia coli' 562 Escherichia ? MRE600 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 3 1 sample ? ? ? 'Escherichia coli' 562 Escherichia ? MRE600 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 U 'RNA linking' y "URIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 N2 O9 P' 324.181 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 U 1 1061 1061 U U A . n A 1 2 G 2 1062 1062 G G A . n A 1 3 G 3 1063 1063 G G A . n A 1 4 C 4 1064 1064 C C A . n A 1 5 U 5 1065 1065 U U A . n A 1 6 U 6 1066 1066 U U A . n A 1 7 A 7 1067 1067 A A A . n A 1 8 G 8 1068 1068 G G A . n A 1 9 A 9 1069 1069 A A A . n A 1 10 A 10 1070 1070 A A A . n A 1 11 G 11 1071 1071 G G A . n A 1 12 C 12 1072 1072 C C A . n B 2 1 G 1 1906 1906 G G B . n B 2 2 G 2 1907 1907 G G B . n B 2 3 C 3 1908 1908 C C B . n B 2 4 C 4 1909 1909 C C B . n B 2 5 G 5 1910 1910 G G B . n B 2 6 U 6 1911 1911 U U B . n B 2 7 A 7 1912 1912 A A B . n B 2 8 A 8 1913 1913 A A B . n B 2 9 C 9 1914 1914 C C B . n B 2 10 U 10 1915 1915 U U B . n B 2 11 A 11 1916 1916 A A B . n B 2 12 U 12 1917 1917 U U B . n B 2 13 A 13 1918 1918 A A B . n B 2 14 A 14 1919 1919 A A B . n B 2 15 C 15 1920 1920 C C B . n B 2 16 G 16 1921 1921 G G B . n B 2 17 G 17 1922 1922 G G B . n B 2 18 U 18 1923 1923 U U B . n B 2 19 C 19 1924 1924 C C B . n C 3 1 G 1 1401 1401 G G C . n C 3 2 C 2 1402 1402 C C C . n C 3 3 C 3 1403 1403 C C C . n C 3 4 C 4 1404 1404 C C C . n C 3 5 G 5 1405 1405 G G C . n C 3 6 U 6 1406 1406 U U C . n C 3 7 C 7 1407 1407 C C C . n C 3 8 A 8 1408 1408 A A C . n C 3 9 C 9 1409 1409 C C C . n C 3 10 A 10 1410 1410 A A C . n C 3 11 C 11 1411 1411 C C C . n C 3 12 C 12 1412 1412 C C C . n C 3 13 A 13 1413 1413 A A C . n C 3 14 U 14 1414 1414 U U C . n C 3 15 G 15 1415 1415 G G C . n C 3 16 G 16 1416 1416 G G C . n C 3 17 G 17 1417 1417 G G C . n C 3 18 A 18 1418 1418 A A C . n C 3 19 G 19 1419 1419 G G C . n C 3 20 U 20 1420 1420 U U C . n C 3 21 A 21 1480 1480 A A C . n C 3 22 U 22 1481 1481 U U C . n C 3 23 G 23 1482 1482 G G C . n C 3 24 A 24 1483 1483 A A C . n C 3 25 C 25 1484 1484 C C C . n C 3 26 U 26 1485 1485 U U C . n C 3 27 G 27 1486 1486 G G C . n C 3 28 G 28 1487 1487 G G C . n C 3 29 G 29 1488 1488 G G C . n C 3 30 G 30 1489 1489 G G C . n C 3 31 U 31 1490 1490 U U C . n C 3 32 G 32 1491 1491 G G C . n C 3 33 A 33 1492 1492 A A C . n C 3 34 A 34 1493 1493 A A C . n C 3 35 G 35 1494 1494 G G C . n C 3 36 U 36 1495 1495 U U C . n C 3 37 C 37 1496 1496 C C C . n C 3 38 G 38 1497 1497 G G C . n C 3 39 U 39 1498 1498 U U C . n C 3 40 A 40 1499 1499 A A C . n C 3 41 A 41 1500 1500 A A C . n C 3 42 C 42 1501 1501 C C C . n # _exptl.entry_id 1T1O _exptl.method 'ELECTRON MICROSCOPY' _exptl.crystals_number ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 73 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 73 _refine_hist.d_res_high . _refine_hist.d_res_low . # _struct.entry_id 1T1O _struct.title 'Components of the control 70S ribosome to provide reference for the RRF binding site' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1T1O _struct_keywords.pdbx_keywords RIBOSOME _struct_keywords.text 'RRF binding position on the ribosome, RIBOSOME' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 1T1O 1T1O ? ? ? 2 2 PDB 1T1O 1T1O ? ? ? 3 3 PDB 1T1O 1T1O ? ? ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 1T1O A 1 ? 12 ? 1T1O 1061 ? 1072 ? 1061 1072 2 2 1T1O B 1 ? 19 ? 1T1O 1906 ? 1924 ? 1906 1924 3 3 1T1O C 1 ? 42 ? 1T1O 1401 ? 1501 ? 1401 1501 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 1T1O _em_3d_fitting.ref_protocol OTHER _em_3d_fitting.ref_space ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details 'METHOD--Cross corelation coefficient based manual fitting in O' _em_3d_fitting.method ? # loop_ _em_3d_fitting_list.3d_fitting_id _em_3d_fitting_list.id _em_3d_fitting_list.pdb_entry_id _em_3d_fitting_list.pdb_chain_id _em_3d_fitting_list.details _em_3d_fitting_list.initial_refinement_model_id _em_3d_fitting_list.chain_id _em_3d_fitting_list.chain_residue_range _em_3d_fitting_list.pdb_chain_residue_range _em_3d_fitting_list.source_name _em_3d_fitting_list.type _em_3d_fitting_list.accession_code 1 1 1KC9 ? ? 1 ? ? ? PDB 'experimental model' 1KC9 1 2 1JFJ ? ? 2 ? ? ? PDB 'experimental model' 1JFJ # _em_3d_reconstruction.entry_id 1T1O _em_3d_reconstruction.id 1 _em_3d_reconstruction.symmetry_type POINT _em_3d_reconstruction.num_particles 51217 _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.method '3D projection matching; conjugate gradients with regularization' _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size 2.82 _em_3d_reconstruction.resolution 12 _em_3d_reconstruction.magnification_calibration TMV _em_3d_reconstruction.details 'SPIDER package' _em_3d_reconstruction.resolution_method ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.algorithm ? # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.pH 7.5 _em_buffer.details ? # _em_entity_assembly.id 1 _em_entity_assembly.name '70S-RRF complex' _em_entity_assembly.type RIBOSOME _em_entity_assembly.parent_id 0 _em_entity_assembly.synonym ? _em_entity_assembly.details ? _em_entity_assembly.oligomeric_details ? # _em_imaging.entry_id 1T1O _em_imaging.id 1 _em_imaging.specimen_id 1 _em_imaging.date 2002-06-01 _em_imaging.temperature 93 _em_imaging.microscope_model 'FEI TECNAI F20' _em_imaging.nominal_defocus_min 1400 _em_imaging.nominal_defocus_max 4400 _em_imaging.tilt_angle_min 0 _em_imaging.tilt_angle_max 0 _em_imaging.nominal_cs 2.0 _em_imaging.mode 'BRIGHT FIELD' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.nominal_magnification 50000 _em_imaging.calibrated_magnification 49696 _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.accelerating_voltage 200 _em_imaging.details ? _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.citation_id ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details 'Quantifoil holley-carbon film grids' _em_sample_support.film_material ? _em_sample_support.grid_material ? _em_sample_support.grid_mesh_size ? _em_sample_support.grid_type ? _em_sample_support.method ? # _em_vitrification.entry_id 1T1O _em_vitrification.id 1 _em_vitrification.instrument 'HOMEMADE PLUNGER' _em_vitrification.cryogen_name ETHANE _em_vitrification.details 'Rapid-freezing in liquid ethane' _em_vitrification.citation_id ? _em_vitrification.humidity ? _em_vitrification.method ? _em_vitrification.specimen_id 1 _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 1T1O _em_experiment.id 1 _em_experiment.aggregation_state PARTICLE _em_experiment.entity_assembly_id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' # _em_single_particle_entity.entry_id 1T1O _em_single_particle_entity.id 1 _em_single_particle_entity.point_symmetry C1 _em_single_particle_entity.image_processing_id 1 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal A OP3 O N N 1 A P P N N 2 A OP1 O N N 3 A OP2 O N N 4 A "O5'" O N N 5 A "C5'" C N N 6 A "C4'" C N R 7 A "O4'" O N N 8 A "C3'" C N S 9 A "O3'" O N N 10 A "C2'" C N R 11 A "O2'" O N N 12 A "C1'" C N R 13 A N9 N Y N 14 A C8 C Y N 15 A N7 N Y N 16 A C5 C Y N 17 A C6 C Y N 18 A N6 N N N 19 A N1 N Y N 20 A C2 C Y N 21 A N3 N Y N 22 A C4 C Y N 23 A HOP3 H N N 24 A HOP2 H N N 25 A "H5'" H N N 26 A "H5''" H N N 27 A "H4'" H N N 28 A "H3'" H N N 29 A "HO3'" H N N 30 A "H2'" H N N 31 A "HO2'" H N N 32 A "H1'" H N N 33 A H8 H N N 34 A H61 H N N 35 A H62 H N N 36 A H2 H N N 37 C OP3 O N N 38 C P P N N 39 C OP1 O N N 40 C OP2 O N N 41 C "O5'" O N N 42 C "C5'" C N N 43 C "C4'" C N R 44 C "O4'" O N N 45 C "C3'" C N S 46 C "O3'" O N N 47 C "C2'" C N R 48 C "O2'" O N N 49 C "C1'" C N R 50 C N1 N N N 51 C C2 C N N 52 C O2 O N N 53 C N3 N N N 54 C C4 C N N 55 C N4 N N N 56 C C5 C N N 57 C C6 C N N 58 C HOP3 H N N 59 C HOP2 H N N 60 C "H5'" H N N 61 C "H5''" H N N 62 C "H4'" H N N 63 C "H3'" H N N 64 C "HO3'" H N N 65 C "H2'" H N N 66 C "HO2'" H N N 67 C "H1'" H N N 68 C H41 H N N 69 C H42 H N N 70 C H5 H N N 71 C H6 H N N 72 G OP3 O N N 73 G P P N N 74 G OP1 O N N 75 G OP2 O N N 76 G "O5'" O N N 77 G "C5'" C N N 78 G "C4'" C N R 79 G "O4'" O N N 80 G "C3'" C N S 81 G "O3'" O N N 82 G "C2'" C N R 83 G "O2'" O N N 84 G "C1'" C N R 85 G N9 N Y N 86 G C8 C Y N 87 G N7 N Y N 88 G C5 C Y N 89 G C6 C N N 90 G O6 O N N 91 G N1 N N N 92 G C2 C N N 93 G N2 N N N 94 G N3 N N N 95 G C4 C Y N 96 G HOP3 H N N 97 G HOP2 H N N 98 G "H5'" H N N 99 G "H5''" H N N 100 G "H4'" H N N 101 G "H3'" H N N 102 G "HO3'" H N N 103 G "H2'" H N N 104 G "HO2'" H N N 105 G "H1'" H N N 106 G H8 H N N 107 G H1 H N N 108 G H21 H N N 109 G H22 H N N 110 U OP3 O N N 111 U P P N N 112 U OP1 O N N 113 U OP2 O N N 114 U "O5'" O N N 115 U "C5'" C N N 116 U "C4'" C N R 117 U "O4'" O N N 118 U "C3'" C N S 119 U "O3'" O N N 120 U "C2'" C N R 121 U "O2'" O N N 122 U "C1'" C N R 123 U N1 N N N 124 U C2 C N N 125 U O2 O N N 126 U N3 N N N 127 U C4 C N N 128 U O4 O N N 129 U C5 C N N 130 U C6 C N N 131 U HOP3 H N N 132 U HOP2 H N N 133 U "H5'" H N N 134 U "H5''" H N N 135 U "H4'" H N N 136 U "H3'" H N N 137 U "HO3'" H N N 138 U "H2'" H N N 139 U "HO2'" H N N 140 U "H1'" H N N 141 U H3 H N N 142 U H5 H N N 143 U H6 H N N 144 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A OP3 P sing N N 1 A OP3 HOP3 sing N N 2 A P OP1 doub N N 3 A P OP2 sing N N 4 A P "O5'" sing N N 5 A OP2 HOP2 sing N N 6 A "O5'" "C5'" sing N N 7 A "C5'" "C4'" sing N N 8 A "C5'" "H5'" sing N N 9 A "C5'" "H5''" sing N N 10 A "C4'" "O4'" sing N N 11 A "C4'" "C3'" sing N N 12 A "C4'" "H4'" sing N N 13 A "O4'" "C1'" sing N N 14 A "C3'" "O3'" sing N N 15 A "C3'" "C2'" sing N N 16 A "C3'" "H3'" sing N N 17 A "O3'" "HO3'" sing N N 18 A "C2'" "O2'" sing N N 19 A "C2'" "C1'" sing N N 20 A "C2'" "H2'" sing N N 21 A "O2'" "HO2'" sing N N 22 A "C1'" N9 sing N N 23 A "C1'" "H1'" sing N N 24 A N9 C8 sing Y N 25 A N9 C4 sing Y N 26 A C8 N7 doub Y N 27 A C8 H8 sing N N 28 A N7 C5 sing Y N 29 A C5 C6 sing Y N 30 A C5 C4 doub Y N 31 A C6 N6 sing N N 32 A C6 N1 doub Y N 33 A N6 H61 sing N N 34 A N6 H62 sing N N 35 A N1 C2 sing Y N 36 A C2 N3 doub Y N 37 A C2 H2 sing N N 38 A N3 C4 sing Y N 39 C OP3 P sing N N 40 C OP3 HOP3 sing N N 41 C P OP1 doub N N 42 C P OP2 sing N N 43 C P "O5'" sing N N 44 C OP2 HOP2 sing N N 45 C "O5'" "C5'" sing N N 46 C "C5'" "C4'" sing N N 47 C "C5'" "H5'" sing N N 48 C "C5'" "H5''" sing N N 49 C "C4'" "O4'" sing N N 50 C "C4'" "C3'" sing N N 51 C "C4'" "H4'" sing N N 52 C "O4'" "C1'" sing N N 53 C "C3'" "O3'" sing N N 54 C "C3'" "C2'" sing N N 55 C "C3'" "H3'" sing N N 56 C "O3'" "HO3'" sing N N 57 C "C2'" "O2'" sing N N 58 C "C2'" "C1'" sing N N 59 C "C2'" "H2'" sing N N 60 C "O2'" "HO2'" sing N N 61 C "C1'" N1 sing N N 62 C "C1'" "H1'" sing N N 63 C N1 C2 sing N N 64 C N1 C6 sing N N 65 C C2 O2 doub N N 66 C C2 N3 sing N N 67 C N3 C4 doub N N 68 C C4 N4 sing N N 69 C C4 C5 sing N N 70 C N4 H41 sing N N 71 C N4 H42 sing N N 72 C C5 C6 doub N N 73 C C5 H5 sing N N 74 C C6 H6 sing N N 75 G OP3 P sing N N 76 G OP3 HOP3 sing N N 77 G P OP1 doub N N 78 G P OP2 sing N N 79 G P "O5'" sing N N 80 G OP2 HOP2 sing N N 81 G "O5'" "C5'" sing N N 82 G "C5'" "C4'" sing N N 83 G "C5'" "H5'" sing N N 84 G "C5'" "H5''" sing N N 85 G "C4'" "O4'" sing N N 86 G "C4'" "C3'" sing N N 87 G "C4'" "H4'" sing N N 88 G "O4'" "C1'" sing N N 89 G "C3'" "O3'" sing N N 90 G "C3'" "C2'" sing N N 91 G "C3'" "H3'" sing N N 92 G "O3'" "HO3'" sing N N 93 G "C2'" "O2'" sing N N 94 G "C2'" "C1'" sing N N 95 G "C2'" "H2'" sing N N 96 G "O2'" "HO2'" sing N N 97 G "C1'" N9 sing N N 98 G "C1'" "H1'" sing N N 99 G N9 C8 sing Y N 100 G N9 C4 sing Y N 101 G C8 N7 doub Y N 102 G C8 H8 sing N N 103 G N7 C5 sing Y N 104 G C5 C6 sing N N 105 G C5 C4 doub Y N 106 G C6 O6 doub N N 107 G C6 N1 sing N N 108 G N1 C2 sing N N 109 G N1 H1 sing N N 110 G C2 N2 sing N N 111 G C2 N3 doub N N 112 G N2 H21 sing N N 113 G N2 H22 sing N N 114 G N3 C4 sing N N 115 U OP3 P sing N N 116 U OP3 HOP3 sing N N 117 U P OP1 doub N N 118 U P OP2 sing N N 119 U P "O5'" sing N N 120 U OP2 HOP2 sing N N 121 U "O5'" "C5'" sing N N 122 U "C5'" "C4'" sing N N 123 U "C5'" "H5'" sing N N 124 U "C5'" "H5''" sing N N 125 U "C4'" "O4'" sing N N 126 U "C4'" "C3'" sing N N 127 U "C4'" "H4'" sing N N 128 U "O4'" "C1'" sing N N 129 U "C3'" "O3'" sing N N 130 U "C3'" "C2'" sing N N 131 U "C3'" "H3'" sing N N 132 U "O3'" "HO3'" sing N N 133 U "C2'" "O2'" sing N N 134 U "C2'" "C1'" sing N N 135 U "C2'" "H2'" sing N N 136 U "O2'" "HO2'" sing N N 137 U "C1'" N1 sing N N 138 U "C1'" "H1'" sing N N 139 U N1 C2 sing N N 140 U N1 C6 sing N N 141 U C2 O2 doub N N 142 U C2 N3 sing N N 143 U N3 C4 sing N N 144 U N3 H3 sing N N 145 U C4 O4 doub N N 146 U C4 C5 sing N N 147 U C5 C6 doub N N 148 U C5 H5 sing N N 149 U C6 H6 sing N N 150 # _em_ctf_correction.id 1 _em_ctf_correction.details 'CTF correction of 3D-maps by Wiener filtration' _em_ctf_correction.type . # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.details ? _em_image_recording.id 1 _em_image_recording.avg_electron_dose_per_image 20 _em_image_recording.film_or_detector_model 'KODAK SO-163 FILM' _em_image_recording.imaging_id 1 _em_image_recording.detector_mode ? _em_image_recording.average_exposure_time ? _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.concentration 32 _em_specimen.vitrification_applied YES _em_specimen.staining_applied NO _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.details ? # loop_ _pdbx_coordinate_model.asym_id _pdbx_coordinate_model.type A 'P ATOMS ONLY' B 'P ATOMS ONLY' C 'P ATOMS ONLY' # loop_ _pdbx_initial_refinement_model.id _pdbx_initial_refinement_model.type _pdbx_initial_refinement_model.source_name _pdbx_initial_refinement_model.accession_code 1 'experimental model' PDB 1KC9 2 'experimental model' PDB 1JFJ # _atom_sites.entry_id 1T1O _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # _atom_type.symbol P # loop_