data_9Q2V # _entry.id 9Q2V # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.416 _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 9Q2V pdb_00009q2v 10.2210/pdb9q2v/pdb WWPDB D_1000299078 ? ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2026-08-26 _pdbx_audit_revision_history.part_number ? # _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 ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9Q2V _pdbx_database_status.recvd_initial_deposition_date 2025-08-15 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_contact_author.id 2 _pdbx_contact_author.email jrodriguez@mbi.ucla.edu _pdbx_contact_author.name_first Jose _pdbx_contact_author.name_last Rodriguez _pdbx_contact_author.name_mi A _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-0248-4964 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Vlahakis, N.W.' 1 0000-0002-5092-0265 'Rodriguez, J.A.' 2 0000-0002-0248-4964 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Structures of solvated organic molecules enabled by liquid cell MicroED' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Vlahakis, N.W.' 1 0000-0002-5092-0265 primary 'Konieczny, K.' 2 ? primary 'Flowers, C.W.' 3 ? primary 'Garcia-Garibay, M.A.' 4 ? primary 'Rodriguez, J.A.' 5 0000-0002-0248-4964 # 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 syn LYS-LEU-VAL-PHE-PHE-ALA 724.909 1 ? ? ? ? 2 non-polymer syn 'ACETATE ION' 59.044 1 ? ? ? ? 3 water nat water 18.015 2 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code KLVFFA _entity_poly.pdbx_seq_one_letter_code_can KLVFFA _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'ACETATE ION' ACT 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 LYS n 1 2 LEU n 1 3 VAL n 1 4 PHE n 1 5 PHE n 1 6 ALA n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 6 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # 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 ACT non-polymer . 'ACETATE ION' ? 'C2 H3 O2 -1' 59.044 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 HOH non-polymer . WATER ? 'H2 O' 18.015 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # 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 LYS 1 2 2 LYS LYS A . n A 1 2 LEU 2 3 3 LEU LEU A . n A 1 3 VAL 3 4 4 VAL VAL A . n A 1 4 PHE 4 5 5 PHE PHE A . n A 1 5 PHE 5 6 6 PHE PHE A . n A 1 6 ALA 6 7 7 ALA ALA A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 ACT 1 101 101 ACT ACT A . C 3 HOH 1 201 1 HOH HOH A . C 3 HOH 2 202 2 HOH HOH A . # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 9Q2V _cell.details ? _cell.formula_units_Z ? _cell.length_a 9.680 _cell.length_a_esd ? _cell.length_b 12.940 _cell.length_b_esd ? _cell.length_c 41.820 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 4 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9Q2V _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 9Q2V _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON CRYSTALLOGRAPHY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 9Q2V _refine.pdbx_refine_id 'ELECTRON CRYSTALLOGRAPHY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.00 _refine.ls_d_res_low 11.00 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 2442 _refine.ls_number_reflns_R_free 245 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 77.92 _refine.ls_percent_reflns_R_free 10.03 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2799 _refine.ls_R_factor_R_free 0.3183 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2757 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.35 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.10 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 40.34 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.15 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_Zscore _refine_ls_restr.pdbx_restraint_function 'ELECTRON CRYSTALLOGRAPHY' ? 0.005 ? 56 ? f_bond_d ? ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.595 ? 73 ? f_angle_d ? ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 6.367 ? 6 ? f_dihedral_angle_d ? ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.072 ? 8 ? f_chiral_restr ? ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.004 ? 9 ? f_plane_restr ? ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.correlation_coeff_Fo_to_Fc _refine_ls_shell.correlation_coeff_Fo_to_Fc_free _refine_ls_shell.correlation_coeff_I_to_Fcsqd_work _refine_ls_shell.correlation_coeff_I_to_Fcsqd_free _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'ELECTRON CRYSTALLOGRAPHY' 1.00 1.26 . . 118 1064 78.00 . . . . 0.3692 . . . . . . . . . . . . . . . 0.4173 'ELECTRON CRYSTALLOGRAPHY' 1.26 11.00 . . 127 1133 78.00 . . . . 0.2482 . . . . . . . . . . . . . . . 0.2916 # _struct.entry_id 9Q2V _struct.title 'Structure of peptide segment KLVFFA from amyloid-beta determined by liquid cell MicroED at room temperature' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 9Q2V _struct_keywords.text 'amyloid, liquid cell, room-temperature MicroED, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 9Q2V _struct_ref.pdbx_db_accession 9Q2V _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 9Q2V _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 9Q2V _struct_ref_seq.db_align_beg 2 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 7 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 7 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _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 # _pdbx_entry_details.entry_id 9Q2V _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.has_protein_modification N # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 9Q2V _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol ? # _em_3d_fitting_list.id 1 _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.pdb_entry_id 2Y29 _em_3d_fitting_list.pdb_chain_id ? _em_3d_fitting_list.pdb_chain_residue_range ? _em_3d_fitting_list.details ? _em_3d_fitting_list.chain_id ? _em_3d_fitting_list.chain_residue_range ? _em_3d_fitting_list.source_name PDB _em_3d_fitting_list.type 'experimental model' _em_3d_fitting_list.accession_code 2Y29 _em_3d_fitting_list.initial_refinement_model_id 1 # _em_3d_reconstruction.entry_id 9Q2V _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 1.0 _em_3d_reconstruction.resolution_method 'DIFFRACTION PATTERN/LAYERLINES' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles ? _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type '3D CRYSTAL' # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 8.5 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source NATURAL _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Hexapeptide segment KLVFFA from amyloid-beta' _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 9Q2V _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'TFS KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model ? _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode DIFFRACTION _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 0 _em_imaging.nominal_defocus_max 0 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum 293 _em_imaging.recording_temperature_maximum 293 _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter 50 _em_imaging.specimen_id 1 _em_imaging.cryogen ? _em_imaging.objective_aperture ? _em_imaging.microscope_serial_number ? _em_imaging.microscope_version ? # _em_experiment.entry_id 9Q2V _em_experiment.id 1 _em_experiment.reconstruction_method CRYSTALLOGRAPHY _em_experiment.aggregation_state '3D ARRAY' _em_experiment.entity_assembly_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 ACT C C N N 1 ACT O O N N 2 ACT OXT O N N 3 ACT CH3 C N N 4 ACT H1 H N N 5 ACT H2 H N N 6 ACT H3 H N N 7 ALA N N N N 8 ALA CA C N S 9 ALA C C N N 10 ALA O O N N 11 ALA CB C N N 12 ALA OXT O N N 13 ALA H H N N 14 ALA H2 H N N 15 ALA HA H N N 16 ALA HB1 H N N 17 ALA HB2 H N N 18 ALA HB3 H N N 19 ALA HXT H N N 20 HOH O O N N 21 HOH H1 H N N 22 HOH H2 H N N 23 LEU N N N N 24 LEU CA C N S 25 LEU C C N N 26 LEU O O N N 27 LEU CB C N N 28 LEU CG C N N 29 LEU CD1 C N N 30 LEU CD2 C N N 31 LEU OXT O N N 32 LEU H H N N 33 LEU H2 H N N 34 LEU HA H N N 35 LEU HB2 H N N 36 LEU HB3 H N N 37 LEU HG H N N 38 LEU HD11 H N N 39 LEU HD12 H N N 40 LEU HD13 H N N 41 LEU HD21 H N N 42 LEU HD22 H N N 43 LEU HD23 H N N 44 LEU HXT H N N 45 LYS N N N N 46 LYS CA C N S 47 LYS C C N N 48 LYS O O N N 49 LYS CB C N N 50 LYS CG C N N 51 LYS CD C N N 52 LYS CE C N N 53 LYS NZ N N N 54 LYS OXT O N N 55 LYS H H N N 56 LYS H2 H N N 57 LYS HA H N N 58 LYS HB2 H N N 59 LYS HB3 H N N 60 LYS HG2 H N N 61 LYS HG3 H N N 62 LYS HD2 H N N 63 LYS HD3 H N N 64 LYS HE2 H N N 65 LYS HE3 H N N 66 LYS HZ1 H N N 67 LYS HZ2 H N N 68 LYS HZ3 H N N 69 LYS HXT H N N 70 PHE N N N N 71 PHE CA C N S 72 PHE C C N N 73 PHE O O N N 74 PHE CB C N N 75 PHE CG C Y N 76 PHE CD1 C Y N 77 PHE CD2 C Y N 78 PHE CE1 C Y N 79 PHE CE2 C Y N 80 PHE CZ C Y N 81 PHE OXT O N N 82 PHE H H N N 83 PHE H2 H N N 84 PHE HA H N N 85 PHE HB2 H N N 86 PHE HB3 H N N 87 PHE HD1 H N N 88 PHE HD2 H N N 89 PHE HE1 H N N 90 PHE HE2 H N N 91 PHE HZ H N N 92 PHE HXT H N N 93 VAL N N N N 94 VAL CA C N S 95 VAL C C N N 96 VAL O O N N 97 VAL CB C N N 98 VAL CG1 C N N 99 VAL CG2 C N N 100 VAL OXT O N N 101 VAL H H N N 102 VAL H2 H N N 103 VAL HA H N N 104 VAL HB H N N 105 VAL HG11 H N N 106 VAL HG12 H N N 107 VAL HG13 H N N 108 VAL HG21 H N N 109 VAL HG22 H N N 110 VAL HG23 H N N 111 VAL HXT H N N 112 # 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 ACT C O doub N N 1 ACT C OXT sing N N 2 ACT C CH3 sing N N 3 ACT CH3 H1 sing N N 4 ACT CH3 H2 sing N N 5 ACT CH3 H3 sing N N 6 ALA N CA sing N N 7 ALA N H sing N N 8 ALA N H2 sing N N 9 ALA CA C sing N N 10 ALA CA CB sing N N 11 ALA CA HA sing N N 12 ALA C O doub N N 13 ALA C OXT sing N N 14 ALA CB HB1 sing N N 15 ALA CB HB2 sing N N 16 ALA CB HB3 sing N N 17 ALA OXT HXT sing N N 18 HOH O H1 sing N N 19 HOH O H2 sing N N 20 LEU N CA sing N N 21 LEU N H sing N N 22 LEU N H2 sing N N 23 LEU CA C sing N N 24 LEU CA CB sing N N 25 LEU CA HA sing N N 26 LEU C O doub N N 27 LEU C OXT sing N N 28 LEU CB CG sing N N 29 LEU CB HB2 sing N N 30 LEU CB HB3 sing N N 31 LEU CG CD1 sing N N 32 LEU CG CD2 sing N N 33 LEU CG HG sing N N 34 LEU CD1 HD11 sing N N 35 LEU CD1 HD12 sing N N 36 LEU CD1 HD13 sing N N 37 LEU CD2 HD21 sing N N 38 LEU CD2 HD22 sing N N 39 LEU CD2 HD23 sing N N 40 LEU OXT HXT sing N N 41 LYS N CA sing N N 42 LYS N H sing N N 43 LYS N H2 sing N N 44 LYS CA C sing N N 45 LYS CA CB sing N N 46 LYS CA HA sing N N 47 LYS C O doub N N 48 LYS C OXT sing N N 49 LYS CB CG sing N N 50 LYS CB HB2 sing N N 51 LYS CB HB3 sing N N 52 LYS CG CD sing N N 53 LYS CG HG2 sing N N 54 LYS CG HG3 sing N N 55 LYS CD CE sing N N 56 LYS CD HD2 sing N N 57 LYS CD HD3 sing N N 58 LYS CE NZ sing N N 59 LYS CE HE2 sing N N 60 LYS CE HE3 sing N N 61 LYS NZ HZ1 sing N N 62 LYS NZ HZ2 sing N N 63 LYS NZ HZ3 sing N N 64 LYS OXT HXT sing N N 65 PHE N CA sing N N 66 PHE N H sing N N 67 PHE N H2 sing N N 68 PHE CA C sing N N 69 PHE CA CB sing N N 70 PHE CA HA sing N N 71 PHE C O doub N N 72 PHE C OXT sing N N 73 PHE CB CG sing N N 74 PHE CB HB2 sing N N 75 PHE CB HB3 sing N N 76 PHE CG CD1 doub Y N 77 PHE CG CD2 sing Y N 78 PHE CD1 CE1 sing Y N 79 PHE CD1 HD1 sing N N 80 PHE CD2 CE2 doub Y N 81 PHE CD2 HD2 sing N N 82 PHE CE1 CZ doub Y N 83 PHE CE1 HE1 sing N N 84 PHE CE2 CZ sing Y N 85 PHE CE2 HE2 sing N N 86 PHE CZ HZ sing N N 87 PHE OXT HXT sing N N 88 VAL N CA sing N N 89 VAL N H sing N N 90 VAL N H2 sing N N 91 VAL CA C sing N N 92 VAL CA CB sing N N 93 VAL CA HA sing N N 94 VAL C O doub N N 95 VAL C OXT sing N N 96 VAL CB CG1 sing N N 97 VAL CB CG2 sing N N 98 VAL CB HB sing N N 99 VAL CG1 HG11 sing N N 100 VAL CG1 HG12 sing N N 101 VAL CG1 HG13 sing N N 102 VAL CG2 HG21 sing N N 103 VAL CG2 HG22 sing N N 104 VAL CG2 HG23 sing N N 105 VAL OXT HXT sing N N 106 # _em_3d_crystal_entity.angle_alpha 90 _em_3d_crystal_entity.angle_beta 90 _em_3d_crystal_entity.angle_gamma 90 _em_3d_crystal_entity.image_processing_id 1 _em_3d_crystal_entity.id 1 _em_3d_crystal_entity.length_a 9.68 _em_3d_crystal_entity.length_b 12.94 _em_3d_crystal_entity.length_c 41.82 _em_3d_crystal_entity.space_group_name P212121 _em_3d_crystal_entity.space_group_num 19 # _em_crystal_formation.atmosphere ? _em_crystal_formation.details ;95% pure peptide was dissolved at 5 mg/mL and crystals were grown in batch in a solution of 40% isopropanol, 0.3 M ammonium acetate, 0.1 M Tris pH 8.5. Crystals were mounted in a liquid cell for electron diffraction measurements. ; _em_crystal_formation.id 1 _em_crystal_formation.instrument ? _em_crystal_formation.lipid_mixture ? _em_crystal_formation.lipid_protein_ratio ? _em_crystal_formation.specimen_id 1 _em_crystal_formation.temperature 293 _em_crystal_formation.time 24 _em_crystal_formation.time_unit HOUR # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type NONE # _em_diffraction_shell.em_diffraction_stats_id 1 _em_diffraction_shell.fourier_space_coverage 79.1 _em_diffraction_shell.high_resolution 1.0 _em_diffraction_shell.id 1 _em_diffraction_shell.low_resolution 1.1 _em_diffraction_shell.multiplicity 16.7 _em_diffraction_shell.num_structure_factors 592 _em_diffraction_shell.phase_residual 42 # _em_diffraction_stats.details ? _em_diffraction_stats.fourier_space_coverage 78.1 _em_diffraction_stats.high_resolution 1.0 _em_diffraction_stats.id 1 _em_diffraction_stats.image_processing_id 1 _em_diffraction_stats.num_intensities_measured 39087 _em_diffraction_stats.num_structure_factors 2452 _em_diffraction_stats.overall_phase_error ? _em_diffraction_stats.overall_phase_residual ? _em_diffraction_stats.phase_error_rejection_criteria 'Not applicable' _em_diffraction_stats.r_merge 28.8 _em_diffraction_stats.r_sym ? # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 9606 _em_entity_assembly_naturalsource.organism 'Homo sapiens' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _em_entity_assembly_recombinant.cell ? _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 32630 _em_entity_assembly_recombinant.organism 'synthetic construct' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 0.01 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'FEI CETA (4k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version _em_software.reference_DOI 'IMAGE ACQUISITION' ? 1 ? ? 1 ? ? ? MASKING ? 2 ? ? ? ? ? ? 'CTF CORRECTION' ? 3 1 ? ? ? ? ? 'LAYERLINE INDEXING' ? 4 ? ? ? ? ? ? 'DIFFRACTION INDEXING' ? 5 ? ? ? ? ? ? 'MODEL FITTING' ? 6 ? 1 ? ? ? ? OTHER ? 7 ? ? ? ? ? ? 'MOLECULAR REPLACEMENT' ? 8 1 ? ? ? ? ? 'LATTICE DISTORTION CORRECTION' ? 9 1 ? ? ? ? ? 'SYMMETRY DETERMINATION' ? 10 1 ? ? ? ? ? 'CRYSTALLOGRAPHY MERGING' ? 11 1 ? ? ? ? ? RECONSTRUCTION ? 12 1 ? ? PHENIX ? ? 'MODEL REFINEMENT' ? 13 ? 1 ? ? ? ? # _em_specimen.concentration 5 _em_specimen.details ;95% pure peptide was dissolved at 5 mg/mL and crystals were grown in batch in a solution of 40% isopropanol, 0.3 M ammonium acetate, 0.1 M Tris pH 8.5. ; _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied NO # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Howard Hughes Medical Institute (HHMI)' 'United States' ? 1 'Department of Energy (DOE, United States)' 'United States' ? 2 'National Science Foundation (NSF, United States)' 'United States' ? 3 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 2Y29 # _atom_sites.entry_id 9Q2V _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 0.103306 _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] 0.077280 _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] 0.023912 _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_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O # loop_ #