data_8AMI # _entry.id 8AMI # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.385 _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 8AMI pdb_00008ami 10.2210/pdb8ami/pdb WWPDB D_1292123846 ? ? # 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 2022-11-23 2 'Structure model' 1 1 2023-02-01 3 'Structure model' 1 2 2024-02-07 # _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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 '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 2 'Structure model' citation 2 3 'Structure model' chem_comp_atom 3 3 'Structure model' chem_comp_bond 4 3 '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 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8AMI _pdbx_database_status.recvd_initial_deposition_date 2022-08-03 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _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_database_related.db_name PDB _pdbx_database_related.details 'same RNA oligomer crystallized in different space group' _pdbx_database_related.db_id 8AMG _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email wojtekr@ibch.poznan.pl _pdbx_contact_author.name_first Wojciech _pdbx_contact_author.name_last Rypniewski _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-6097-5518 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kiliszek, A.' 1 0000-0002-2871-7535 'Rypniewski, W.' 2 0000-0002-6097-5518 # _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 UK _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Rna _citation.journal_id_ASTM RNARFU _citation.journal_id_CSD 2122 _citation.journal_id_ISSN 1469-9001 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 29 _citation.language ? _citation.page_first 44 _citation.page_last 54 _citation.title ;Structure and thermodynamics of a UGG motif interacting with Ba2+ and other metal ions: accommodating changes in the RNA structure and the presence of a G(syn)-G(syn) pair. ; _citation.year 2022 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1261/rna.079414.122 _citation.pdbx_database_id_PubMed 36319090 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kiliszek, A.' 1 0000-0002-2871-7535 primary 'Pluta, M.' 2 0000-0002-7326-0976 primary 'Bejger, M.' 3 0000-0003-1660-9745 primary 'Rypniewski, W.' 4 0000-0002-6097-5518 # 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 ;RNA (5'-R(*AP*UP*GP*UP*GP*GP*CP*AP*U)-3') ; 2872.751 2 ? ? ? ? 2 non-polymer syn 'BARIUM ION' 137.327 2 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 4 water nat water 18.015 42 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code AUGUGGCAU _entity_poly.pdbx_seq_one_letter_code_can AUGUGGCAU _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'BARIUM ION' BA 3 'SODIUM ION' NA 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 A n 1 2 U n 1 3 G n 1 4 U n 1 5 G n 1 6 G n 1 7 C n 1 8 A n 1 9 U 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 9 _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 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327 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 HOH non-polymer . WATER ? 'H2 O' 18.015 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 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 A 1 1 1 A A A . n A 1 2 U 2 2 2 U U A . n A 1 3 G 3 3 3 G G A . n A 1 4 U 4 4 4 U U A . n A 1 5 G 5 5 5 G G A . n A 1 6 G 6 6 6 G G A . n A 1 7 C 7 7 7 C C A . n A 1 8 A 8 8 8 A A A . n A 1 9 U 9 9 9 U U A . n B 1 1 A 1 1 1 A A B . n B 1 2 U 2 2 2 U U B . n B 1 3 G 3 3 3 G G B . n B 1 4 U 4 4 4 U U B . n B 1 5 G 5 5 5 G G B . n B 1 6 G 6 6 6 G G B . n B 1 7 C 7 7 7 C C B . n B 1 8 A 8 8 8 A A B . n B 1 9 U 9 9 9 U U B . 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 C 2 BA 1 101 1 BA BA A . D 2 BA 1 101 2 BA BA B . E 3 NA 1 102 1 NA NA B . F 4 HOH 1 201 30 HOH HOH A . F 4 HOH 2 202 36 HOH HOH A . F 4 HOH 3 203 15 HOH HOH A . F 4 HOH 4 204 17 HOH HOH A . F 4 HOH 5 205 40 HOH HOH A . F 4 HOH 6 206 34 HOH HOH A . F 4 HOH 7 207 31 HOH HOH A . F 4 HOH 8 208 7 HOH HOH A . F 4 HOH 9 209 29 HOH HOH A . F 4 HOH 10 210 19 HOH HOH A . F 4 HOH 11 211 11 HOH HOH A . F 4 HOH 12 212 6 HOH HOH A . F 4 HOH 13 213 20 HOH HOH A . F 4 HOH 14 214 12 HOH HOH A . F 4 HOH 15 215 4 HOH HOH A . F 4 HOH 16 216 1 HOH HOH A . F 4 HOH 17 217 21 HOH HOH A . F 4 HOH 18 218 32 HOH HOH A . F 4 HOH 19 219 41 HOH HOH A . F 4 HOH 20 220 5 HOH HOH A . F 4 HOH 21 221 42 HOH HOH A . G 4 HOH 1 201 38 HOH HOH B . G 4 HOH 2 202 13 HOH HOH B . G 4 HOH 3 203 33 HOH HOH B . G 4 HOH 4 204 28 HOH HOH B . G 4 HOH 5 205 26 HOH HOH B . G 4 HOH 6 206 14 HOH HOH B . G 4 HOH 7 207 22 HOH HOH B . G 4 HOH 8 208 35 HOH HOH B . G 4 HOH 9 209 23 HOH HOH B . G 4 HOH 10 210 25 HOH HOH B . G 4 HOH 11 211 27 HOH HOH B . G 4 HOH 12 212 8 HOH HOH B . G 4 HOH 13 213 43 HOH HOH B . G 4 HOH 14 214 3 HOH HOH B . G 4 HOH 15 215 9 HOH HOH B . G 4 HOH 16 216 39 HOH HOH B . G 4 HOH 17 217 18 HOH HOH B . G 4 HOH 18 218 10 HOH HOH B . G 4 HOH 19 219 2 HOH HOH B . G 4 HOH 20 220 24 HOH HOH B . G 4 HOH 21 221 16 HOH HOH B . # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.16_3549 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 8AMI _cell.details ? _cell.formula_units_Z ? _cell.length_a 34.109 _cell.length_a_esd ? _cell.length_b 34.109 _cell.length_b_esd ? _cell.length_c 81.353 _cell.length_c_esd ? _cell.volume 94648.026 _cell.volume_esd ? _cell.Z_PDB 16 _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 8AMI _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall 'P 4nw 2abw' _symmetry.space_group_name_H-M 'P 43 21 2' _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 8AMI _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.06 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 40.27 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 292 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.08 M NaCl 0.02 M BaCl2 0.04 M cacodylate sodium 45% MPD 0.012 M spermine ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'MARMOSAIC 225 mm CCD' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2016-08-27 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.895 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'BESSY BEAMLINE 14.3' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.895 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 14.3 _diffrn_source.pdbx_synchrotron_site BESSY # _reflns.B_iso_Wilson_estimate 21.67 _reflns.entry_id 8AMI _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.79 _reflns.d_resolution_low 31.5 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 8634 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.7 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 4.6 _reflns.pdbx_Rmerge_I_obs 0.09 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 11.49 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.998 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # _reflns_shell.d_res_high 1.79 _reflns_shell.d_res_low 1.90 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.89 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 1386 _reflns_shell.percent_possible_all ? _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.816 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.72 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _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 27.47 _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 8AMI _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 1.79 _refine.ls_d_res_low 31.46 _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 8629 _refine.ls_number_reflns_R_free 428 _refine.ls_number_reflns_R_work 8201 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.63 _refine.ls_percent_reflns_R_free 4.96 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1850 _refine.ls_R_factor_R_free 0.2361 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1825 _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.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 1.34 _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 8AMG _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _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 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 25.1995 _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 0.2192 _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 ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 1.79 _refine_hist.d_res_low 31.46 _refine_hist.number_atoms_solvent 42 _refine_hist.number_atoms_total 425 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 380 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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_restraint_function 'X-RAY DIFFRACTION' ? 0.0050 ? 451 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 0.9307 ? 703 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.0367 ? 93 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0065 ? 19 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 10.3616 ? 223 ? f_dihedral_angle_d ? ? # 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 _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.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 1.79 2.05 . . 142 2726 99.31 . . . 0.3093 . 0.2389 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.05 2.58 . . 139 2738 99.93 . . . 0.2817 . 0.1990 . . . . . . . . . . . 'X-RAY DIFFRACTION' 2.58 31.46 . . 147 2737 99.65 . . . 0.1992 . 0.1610 . . . . . . . . . . . # _struct.entry_id 8AMI _struct.title 'Crystal structure of AUGUGGCAU duplex with barium ions (model 2)' _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 8AMI _struct_keywords.text 'UG wobble, Ba ions, RNA, UGG repeats' _struct_keywords.pdbx_keywords RNA # 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 1 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 4 ? G N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8AMI _struct_ref.pdbx_db_accession 8AMI _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # 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 8AMI A 1 ? 9 ? 8AMI 1 ? 9 ? 1 9 2 1 8AMI B 1 ? 9 ? 8AMI 1 ? 9 ? 1 9 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1550 ? 1 MORE -34 ? 1 'SSA (A^2)' 3160 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # _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 # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? A G 3 O6 ? ? ? 1_555 D BA . BA ? ? A G 3 B BA 101 1_555 ? ? ? ? ? ? ? 2.758 ? ? metalc2 metalc ? ? A U 4 O4 ? ? ? 1_555 D BA . BA ? ? A U 4 B BA 101 1_555 ? ? ? ? ? ? ? 2.863 ? ? metalc3 metalc ? ? A G 5 O6 ? ? ? 1_555 C BA . BA ? ? A G 5 A BA 101 1_555 ? ? ? ? ? ? ? 2.946 ? ? metalc4 metalc ? ? A G 5 O6 ? ? ? 1_555 E NA . NA ? ? A G 5 B NA 102 1_555 ? ? ? ? ? ? ? 2.411 ? ? metalc5 metalc ? ? A G 6 O6 ? ? ? 1_555 C BA . BA ? ? A G 6 A BA 101 1_555 ? ? ? ? ? ? ? 2.852 ? ? metalc6 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 101 A HOH 215 1_555 ? ? ? ? ? ? ? 2.735 ? ? metalc7 metalc ? ? C BA . BA ? ? ? 1_555 F HOH . O ? ? A BA 101 A HOH 216 1_555 ? ? ? ? ? ? ? 2.660 ? ? metalc8 metalc ? ? C BA . BA ? ? ? 1_555 B G 3 O6 ? ? A BA 101 B G 3 1_555 ? ? ? ? ? ? ? 2.862 ? ? metalc9 metalc ? ? C BA . BA ? ? ? 1_555 B U 4 O4 ? ? A BA 101 B U 4 1_555 ? ? ? ? ? ? ? 2.815 ? ? metalc10 metalc ? ? C BA . BA ? ? ? 1_555 G HOH . O ? ? A BA 101 B HOH 214 1_555 ? ? ? ? ? ? ? 2.671 ? ? metalc11 metalc ? ? C BA . BA ? ? ? 1_555 G HOH . O ? ? A BA 101 B HOH 217 1_555 ? ? ? ? ? ? ? 2.930 ? ? metalc12 metalc ? ? C BA . BA ? ? ? 1_555 G HOH . O ? ? A BA 101 B HOH 219 1_555 ? ? ? ? ? ? ? 2.867 ? ? metalc13 metalc ? ? F HOH . O ? ? ? 1_555 E NA . NA ? ? A HOH 202 B NA 102 1_555 ? ? ? ? ? ? ? 2.225 ? ? metalc14 metalc ? ? F HOH . O ? ? ? 1_555 D BA . BA ? ? A HOH 208 B BA 101 1_555 ? ? ? ? ? ? ? 2.832 ? ? metalc15 metalc ? ? F HOH . O ? ? ? 1_555 D BA . BA ? ? A HOH 212 B BA 101 1_555 ? ? ? ? ? ? ? 2.943 ? ? metalc16 metalc ? ? B G 5 O6 A ? ? 1_555 D BA . BA ? ? B G 5 B BA 101 1_555 ? ? ? ? ? ? ? 2.887 ? ? metalc17 metalc ? ? B G 5 O6 B ? ? 1_555 D BA . BA ? ? B G 5 B BA 101 1_555 ? ? ? ? ? ? ? 3.209 ? ? metalc18 metalc ? ? B G 5 O6 A ? ? 1_555 E NA . NA ? ? B G 5 B NA 102 1_555 ? ? ? ? ? ? ? 2.740 ? ? metalc19 metalc ? ? B G 5 O6 B ? ? 1_555 E NA . NA ? ? B G 5 B NA 102 1_555 ? ? ? ? ? ? ? 2.186 ? ? metalc20 metalc ? ? B G 6 O6 ? ? ? 1_555 D BA . BA ? ? B G 6 B BA 101 1_555 ? ? ? ? ? ? ? 2.888 ? ? metalc21 metalc ? ? D BA . BA ? ? ? 1_555 G HOH . O ? ? B BA 101 B HOH 212 1_555 ? ? ? ? ? ? ? 2.714 ? ? metalc22 metalc ? ? D BA . BA ? ? ? 1_555 G HOH . O ? ? B BA 101 B HOH 215 1_555 ? ? ? ? ? ? ? 2.724 ? ? metalc23 metalc ? ? D BA . BA ? ? ? 1_555 G HOH . O ? ? B BA 101 B HOH 217 1_555 ? ? ? ? ? ? ? 2.855 ? ? hydrog1 hydrog ? ? A A 1 N1 ? ? ? 1_555 B U 9 N3 ? ? A A 1 B U 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A A 1 N6 ? ? ? 1_555 B U 9 O4 ? ? A A 1 B U 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A U 2 N3 ? ? ? 1_555 B A 8 N1 ? ? A U 2 B A 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 O4 ? ? ? 1_555 B A 8 N6 ? ? A U 2 B A 8 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 7 N3 ? ? A G 3 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 7 O2 ? ? A G 3 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 7 N4 ? ? A G 3 B C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A U 4 N3 ? ? ? 1_555 B G 6 O6 ? ? A U 4 B G 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog9 hydrog ? ? A U 4 O2 ? ? ? 1_555 B G 6 N1 ? ? A U 4 B G 6 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog10 hydrog ? ? A G 6 N1 ? ? ? 1_555 B U 4 O2 ? ? A G 6 B U 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog11 hydrog ? ? A G 6 O6 ? ? ? 1_555 B U 4 N3 ? ? A G 6 B U 4 1_555 ? ? ? ? ? ? TYPE_28_PAIR ? ? ? hydrog12 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 3 N1 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 3 O6 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 3 N2 ? ? A C 7 B G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A A 8 N1 ? ? ? 1_555 B U 2 N3 ? ? A A 8 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A A 8 N6 ? ? ? 1_555 B U 2 O4 ? ? A A 8 B U 2 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A U 9 N3 ? ? ? 1_555 B A 1 N1 ? ? A U 9 B A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A U 9 O4 ? ? ? 1_555 B A 1 N6 ? ? A U 9 B A 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O4 ? A U 4 ? A U 4 ? 1_555 69.3 ? 2 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? F HOH . ? A HOH 208 ? 1_555 65.4 ? 3 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? F HOH . ? A HOH 208 ? 1_555 121.0 ? 4 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? F HOH . ? A HOH 212 ? 1_555 73.3 ? 5 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? F HOH . ? A HOH 212 ? 1_555 64.9 ? 6 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? F HOH . ? A HOH 212 ? 1_555 67.4 ? 7 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 141.8 ? 8 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 107.6 ? 9 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 131.4 ? 10 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 141.9 ? 11 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 128.5 ? 12 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 105.8 ? 13 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 131.7 ? 14 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 153.6 ? 15 O6 A B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 13.4 ? 16 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 62.0 ? 17 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 73.8 ? 18 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 112.8 ? 19 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 127.2 ? 20 O6 A B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 80.3 ? 21 O6 B B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O6 ? B G 6 ? B G 6 ? 1_555 67.4 ? 22 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 92.5 ? 23 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 149.7 ? 24 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 67.2 ? 25 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 134.3 ? 26 O6 A B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 71.6 ? 27 O6 B B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 66.2 ? 28 O6 ? B G 6 ? B G 6 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 212 ? 1_555 76.3 ? 29 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 139.5 ? 30 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 133.8 ? 31 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 74.4 ? 32 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 87.6 ? 33 O6 A B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 71.3 ? 34 O6 B B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 82.3 ? 35 O6 ? B G 6 ? B G 6 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 145.0 ? 36 O ? G HOH . ? B HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 215 ? 1_555 75.7 ? 37 O6 ? A G 3 ? A G 3 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 132.8 ? 38 O4 ? A U 4 ? A U 4 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 71.9 ? 39 O ? F HOH . ? A HOH 208 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 116.9 ? 40 O ? F HOH . ? A HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 66.5 ? 41 O6 A B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 75.7 ? 42 O6 B B G 5 ? B G 5 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 87.2 ? 43 O6 ? B G 6 ? B G 6 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 129.1 ? 44 O ? G HOH . ? B HOH 212 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 133.5 ? 45 O ? G HOH . ? B HOH 215 ? 1_555 BA ? D BA . ? B BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 63.0 ? 46 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O6 ? A G 6 ? A G 6 ? 1_555 82.3 ? 47 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? F HOH . ? A HOH 215 ? 1_555 66.0 ? 48 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? F HOH . ? A HOH 215 ? 1_555 79.1 ? 49 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? F HOH . ? A HOH 216 ? 1_555 71.7 ? 50 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? F HOH . ? A HOH 216 ? 1_555 145.1 ? 51 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? F HOH . ? A HOH 216 ? 1_555 69.4 ? 52 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O6 ? B G 3 ? B G 3 ? 1_555 145.6 ? 53 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O6 ? B G 3 ? B G 3 ? 1_555 65.0 ? 54 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O6 ? B G 3 ? B G 3 ? 1_555 96.2 ? 55 O ? F HOH . ? A HOH 216 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O6 ? B G 3 ? B G 3 ? 1_555 131.5 ? 56 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O4 ? B U 4 ? B U 4 ? 1_555 111.9 ? 57 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O4 ? B U 4 ? B U 4 ? 1_555 75.8 ? 58 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O4 ? B U 4 ? B U 4 ? 1_555 154.9 ? 59 O ? F HOH . ? A HOH 216 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O4 ? B U 4 ? B U 4 ? 1_555 135.2 ? 60 O6 ? B G 3 ? B G 3 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O4 ? B U 4 ? B U 4 ? 1_555 71.5 ? 61 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 122.0 ? 62 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 109.9 ? 63 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 61.7 ? 64 O ? F HOH . ? A HOH 216 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 67.9 ? 65 O6 ? B G 3 ? B G 3 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 64.7 ? 66 O4 ? B U 4 ? B U 4 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 214 ? 1_555 126.1 ? 67 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 80.5 ? 68 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 125.0 ? 69 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 136.1 ? 70 O ? F HOH . ? A HOH 216 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 73.9 ? 71 O6 ? B G 3 ? B G 3 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 126.4 ? 72 O4 ? B U 4 ? B U 4 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 63.5 ? 73 O ? G HOH . ? B HOH 214 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 217 ? 1_555 123.5 ? 74 O6 ? A G 5 ? A G 5 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 144.0 ? 75 O6 ? A G 6 ? A G 6 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 130.3 ? 76 O ? F HOH . ? A HOH 215 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 127.2 ? 77 O ? F HOH . ? A HOH 216 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 82.3 ? 78 O6 ? B G 3 ? B G 3 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 70.3 ? 79 O4 ? B U 4 ? B U 4 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 70.3 ? 80 O ? G HOH . ? B HOH 214 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 66.6 ? 81 O ? G HOH . ? B HOH 217 ? 1_555 BA ? C BA . ? A BA 101 ? 1_555 O ? G HOH . ? B HOH 219 ? 1_555 68.5 ? 82 O6 ? A G 5 ? A G 5 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O ? F HOH . ? A HOH 202 ? 1_555 145.9 ? 83 O6 ? A G 5 ? A G 5 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 75.4 ? 84 O ? F HOH . ? A HOH 202 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O6 A B G 5 ? B G 5 ? 1_555 132.0 ? 85 O6 ? A G 5 ? A G 5 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 85.7 ? 86 O ? F HOH . ? A HOH 202 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 119.5 ? 87 O6 A B G 5 ? B G 5 ? 1_555 NA ? E NA . ? B NA 102 ? 1_555 O6 B B G 5 ? B G 5 ? 1_555 12.8 ? # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id B _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 220 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id G _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -y+1/2,x+1/2,z+3/4 3 y+1/2,-x+1/2,z+1/4 4 x+1/2,-y+1/2,-z+1/4 5 -x+1/2,y+1/2,-z+3/4 6 -x,-y,z+1/2 7 y,x,-z 8 -y,-x,-z+1/2 # _pdbx_entry_details.entry_id 8AMI _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # 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 BA BA BA N N 38 C OP3 O N N 39 C P P N N 40 C OP1 O N N 41 C OP2 O N N 42 C "O5'" O N N 43 C "C5'" C N N 44 C "C4'" C N R 45 C "O4'" O N N 46 C "C3'" C N S 47 C "O3'" O N N 48 C "C2'" C N R 49 C "O2'" O N N 50 C "C1'" C N R 51 C N1 N N N 52 C C2 C N N 53 C O2 O N N 54 C N3 N N N 55 C C4 C N N 56 C N4 N N N 57 C C5 C N N 58 C C6 C N N 59 C HOP3 H N N 60 C HOP2 H N N 61 C "H5'" H N N 62 C "H5''" H N N 63 C "H4'" H N N 64 C "H3'" H N N 65 C "HO3'" H N N 66 C "H2'" H N N 67 C "HO2'" H N N 68 C "H1'" H N N 69 C H41 H N N 70 C H42 H N N 71 C H5 H N N 72 C H6 H N N 73 G OP3 O N N 74 G P P N N 75 G OP1 O N N 76 G OP2 O N N 77 G "O5'" O N N 78 G "C5'" C N N 79 G "C4'" C N R 80 G "O4'" O N N 81 G "C3'" C N S 82 G "O3'" O N N 83 G "C2'" C N R 84 G "O2'" O N N 85 G "C1'" C N R 86 G N9 N Y N 87 G C8 C Y N 88 G N7 N Y N 89 G C5 C Y N 90 G C6 C N N 91 G O6 O N N 92 G N1 N N N 93 G C2 C N N 94 G N2 N N N 95 G N3 N N N 96 G C4 C Y N 97 G HOP3 H N N 98 G HOP2 H N N 99 G "H5'" H N N 100 G "H5''" H N N 101 G "H4'" H N N 102 G "H3'" H N N 103 G "HO3'" H N N 104 G "H2'" H N N 105 G "HO2'" H N N 106 G "H1'" H N N 107 G H8 H N N 108 G H1 H N N 109 G H21 H N N 110 G H22 H N N 111 HOH O O N N 112 HOH H1 H N N 113 HOH H2 H N N 114 NA NA NA N N 115 U OP3 O N N 116 U P P N N 117 U OP1 O N N 118 U OP2 O N N 119 U "O5'" O N N 120 U "C5'" C N N 121 U "C4'" C N R 122 U "O4'" O N N 123 U "C3'" C N S 124 U "O3'" O N N 125 U "C2'" C N R 126 U "O2'" O N N 127 U "C1'" C N R 128 U N1 N N N 129 U C2 C N N 130 U O2 O N N 131 U N3 N N N 132 U C4 C N N 133 U O4 O N N 134 U C5 C N N 135 U C6 C N N 136 U HOP3 H N N 137 U HOP2 H N N 138 U "H5'" H N N 139 U "H5''" H N N 140 U "H4'" H N N 141 U "H3'" H N N 142 U "HO3'" H N N 143 U "H2'" H N N 144 U "HO2'" H N N 145 U "H1'" H N N 146 U H3 H N N 147 U H5 H N N 148 U H6 H N N 149 # 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 HOH O H1 sing N N 116 HOH O H2 sing N N 117 U OP3 P sing N N 118 U OP3 HOP3 sing N N 119 U P OP1 doub N N 120 U P OP2 sing N N 121 U P "O5'" sing N N 122 U OP2 HOP2 sing N N 123 U "O5'" "C5'" sing N N 124 U "C5'" "C4'" sing N N 125 U "C5'" "H5'" sing N N 126 U "C5'" "H5''" sing N N 127 U "C4'" "O4'" sing N N 128 U "C4'" "C3'" sing N N 129 U "C4'" "H4'" sing N N 130 U "O4'" "C1'" sing N N 131 U "C3'" "O3'" sing N N 132 U "C3'" "C2'" sing N N 133 U "C3'" "H3'" sing N N 134 U "O3'" "HO3'" sing N N 135 U "C2'" "O2'" sing N N 136 U "C2'" "C1'" sing N N 137 U "C2'" "H2'" sing N N 138 U "O2'" "HO2'" sing N N 139 U "C1'" N1 sing N N 140 U "C1'" "H1'" sing N N 141 U N1 C2 sing N N 142 U N1 C6 sing N N 143 U C2 O2 doub N N 144 U C2 N3 sing N N 145 U N3 C4 sing N N 146 U N3 H3 sing N N 147 U C4 O4 doub N N 148 U C4 C5 sing N N 149 U C5 C6 doub N N 150 U C5 H5 sing N N 151 U C6 H6 sing N N 152 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 8AMI 'double helix' 8AMI 'a-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A A 1 1_555 B U 9 1_555 -0.096 -0.076 0.182 4.070 -10.413 0.869 1 A_A1:U9_B A 1 ? B 9 ? 20 1 1 A U 2 1_555 B A 8 1_555 -0.017 -0.113 0.000 5.806 -16.291 0.749 2 A_U2:A8_B A 2 ? B 8 ? 20 1 1 A G 3 1_555 B C 7 1_555 -0.227 -0.208 0.128 -4.457 -22.830 2.664 3 A_G3:C7_B A 3 ? B 7 ? 19 1 1 A U 4 1_555 B G 6 1_555 2.048 -0.594 0.115 -1.373 -15.272 -0.651 4 A_U4:G6_B A 4 ? B 6 ? 28 1 1 A G 6 1_555 B U 4 1_555 -1.980 -0.485 0.220 1.099 -13.844 -2.240 5 A_G6:U4_B A 6 ? B 4 ? 28 1 1 A C 7 1_555 B G 3 1_555 0.249 -0.150 0.025 4.595 -22.199 3.946 6 A_C7:G3_B A 7 ? B 3 ? 19 1 1 A A 8 1_555 B U 2 1_555 0.215 -0.117 -0.028 -4.904 -18.477 3.878 7 A_A8:U2_B A 8 ? B 2 ? 20 1 1 A U 9 1_555 B A 1 1_555 0.322 -0.061 0.190 -0.942 -13.139 -1.177 8 A_U9:A1_B A 9 ? B 1 ? 20 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A A 1 1_555 B U 9 1_555 A U 2 1_555 B A 8 1_555 -0.398 -1.097 3.178 -0.612 11.232 31.307 -3.646 0.601 2.646 20.021 1.091 33.219 1 AA_A1U2:A8U9_BB A 1 ? B 9 ? A 2 ? B 8 ? 1 A U 2 1_555 B A 8 1_555 A G 3 1_555 B C 7 1_555 0.630 -1.544 3.342 0.356 15.098 32.964 -4.459 -0.969 2.434 25.036 -0.590 36.171 2 AA_U2G3:C7A8_BB A 2 ? B 8 ? A 3 ? B 7 ? 1 A G 3 1_555 B C 7 1_555 A U 4 1_555 B G 6 1_555 -0.039 -0.860 3.048 0.863 8.062 44.811 -1.759 0.119 2.859 10.474 -1.121 45.501 3 AA_G3U4:G6C7_BB A 3 ? B 7 ? A 4 ? B 6 ? 1 A U 4 1_555 B G 6 1_555 A G 6 1_555 B U 4 1_555 0.016 -4.183 5.293 -0.464 28.044 47.946 -6.706 -0.053 2.646 31.576 0.522 55.126 4 AA_U4G6:U4G6_BB A 4 ? B 6 ? A 6 ? B 4 ? 1 A G 6 1_555 B U 4 1_555 A C 7 1_555 B G 3 1_555 0.107 -0.907 3.115 0.236 7.504 43.262 -1.877 -0.123 2.926 10.087 -0.317 43.878 5 AA_G6C7:G3U4_BB A 6 ? B 4 ? A 7 ? B 3 ? 1 A C 7 1_555 B G 3 1_555 A A 8 1_555 B U 2 1_555 -0.010 -1.583 3.322 0.131 14.621 30.564 -4.879 0.037 2.344 25.953 -0.233 33.805 6 AA_C7A8:U2G3_BB A 7 ? B 3 ? A 8 ? B 2 ? 1 A A 8 1_555 B U 2 1_555 A U 9 1_555 B A 1 1_555 -0.150 -1.185 3.088 -0.899 9.922 32.843 -3.405 0.129 2.632 17.066 1.546 34.281 7 AA_A8U9:A1U2_BB A 8 ? B 2 ? A 9 ? B 1 ? # _pdbx_audit_support.funding_organization 'Other government' _pdbx_audit_support.country Poland _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 BA ? ? BA ? ? 'SUBJECT OF INVESTIGATION' ? 2 NA ? ? NA ? ? 'SUBJECT OF INVESTIGATION' ? # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 8AMG _pdbx_initial_refinement_model.details ? # _space_group.name_H-M_alt 'P 43 21 2' _space_group.name_Hall 'P 4nw 2abw' _space_group.IT_number 96 _space_group.crystal_system tetragonal _space_group.id 1 # _atom_sites.entry_id 8AMI _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.fract_transf_matrix[1][1] 0.029318 _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] 0.029318 _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] 0.012292 _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 _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source BA ? ? ? ? ? ? ? ? ? ? ? ? ? BA2+ ? ? 38.10399 15.75217 ? ? 0.97656 16.56940 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? NA ? ? 9.38062 1.54875 ? ? 3.38349 72.32734 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # loop_