data_1G2J # _entry.id 1G2J # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _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 1G2J pdb_00001g2j 10.2210/pdb1g2j/pdb NDB AR0030 ? ? RCSB RCSB012153 ? ? WWPDB D_1000012153 ? ? # 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 2000-12-06 2 'Structure model' 1 1 2008-04-27 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2024-02-07 5 'Structure model' 1 4 2024-04-03 # _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' 'Derived calculations' 6 5 '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' pdbx_struct_conn_angle 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_site 7 5 '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' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 4 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 7 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 8 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 9 4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_symmetry' 10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_symmetry' 17 4 'Structure model' '_pdbx_struct_conn_angle.value' 18 4 'Structure model' '_struct_conn.pdbx_dist_value' 19 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 20 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 21 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 22 4 'Structure model' '_struct_conn.ptnr1_label_asym_id' 23 4 'Structure model' '_struct_conn.ptnr1_label_atom_id' 24 4 'Structure model' '_struct_conn.ptnr1_label_comp_id' 25 4 'Structure model' '_struct_conn.ptnr1_label_seq_id' 26 4 'Structure model' '_struct_conn.ptnr1_symmetry' 27 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 28 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 29 4 'Structure model' '_struct_conn.ptnr2_label_asym_id' 30 4 'Structure model' '_struct_conn.ptnr2_label_atom_id' 31 4 'Structure model' '_struct_conn.ptnr2_label_comp_id' 32 4 'Structure model' '_struct_conn.ptnr2_label_seq_id' 33 4 'Structure model' '_struct_conn.ptnr2_symmetry' 34 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 35 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 36 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1G2J _pdbx_database_status.recvd_initial_deposition_date 2000-10-20 _pdbx_database_status.deposit_site NDB _pdbx_database_status.process_site NDB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Minasov, G.' 1 'Matulic-Adamic, J.' 2 'Wilds, C.J.' 3 'Haeberli, P.' 4 'Usman, N.' 5 'Beigelman, L.' 6 'Egli, M.' 7 # _citation.id primary _citation.title 'Crystal structure of an RNA duplex containing phenyl-ribonucleotides, hydrophobic isosteres of the natural pyrimidines.' _citation.journal_abbrev RNA _citation.journal_volume 6 _citation.page_first 1516 _citation.page_last 1528 _citation.year 2000 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 11105752 _citation.pdbx_database_id_DOI 10.1017/S1355838200001114 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Minasov, G.' 1 ? primary 'Matulic-Adamic, J.' 2 ? primary 'Wilds, C.J.' 3 ? primary 'Haeberli, P.' 4 ? primary 'Usman, N.' 5 ? primary 'Beigelman, L.' 6 ? primary 'Egli, M.' 7 ? # 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 "5'-R(*CP*CP*CP*(PYY)P*GP*GP*GP*G)-3'" 2523.602 1 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 2 ? ? ? ? 3 water nat water 18.015 37 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'CCC(PYY)GGGG' _entity_poly.pdbx_seq_one_letter_code_can CCCNGGGG _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 'CALCIUM ION' CA 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 C n 1 2 C n 1 3 C n 1 4 PYY n 1 5 G n 1 6 G n 1 7 G n 1 8 G n # 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 C 'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O8 P' 323.197 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 PYY 'RNA linking' . "D-RIBOFURANOSYL-BENZENE-5'-MONOPHOSPHATE" ? 'C11 H15 O7 P' 290.206 # 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 C 1 1 1 C C A . n A 1 2 C 2 2 2 C C A . n A 1 3 C 3 3 3 C C A . n A 1 4 PYY 4 4 4 PYY PYL 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 G 7 7 7 G G A . n A 1 8 G 8 8 8 G G 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 CA 1 9 9 CA CA A . C 2 CA 1 14 14 CA CA A . D 3 HOH 1 10 10 HOH HOH A . D 3 HOH 2 11 11 HOH HOH A . D 3 HOH 3 12 12 HOH HOH A . D 3 HOH 4 13 13 HOH HOH A . D 3 HOH 5 15 15 HOH HOH A . D 3 HOH 6 16 16 HOH HOH A . D 3 HOH 7 17 17 HOH HOH A . D 3 HOH 8 18 18 HOH HOH A . D 3 HOH 9 19 19 HOH HOH A . D 3 HOH 10 20 20 HOH HOH A . D 3 HOH 11 21 21 HOH HOH A . D 3 HOH 12 22 22 HOH HOH A . D 3 HOH 13 23 23 HOH HOH A . D 3 HOH 14 24 24 HOH HOH A . D 3 HOH 15 25 25 HOH HOH A . D 3 HOH 16 26 26 HOH HOH A . D 3 HOH 17 27 27 HOH HOH A . D 3 HOH 18 28 28 HOH HOH A . D 3 HOH 19 29 29 HOH HOH A . D 3 HOH 20 30 30 HOH HOH A . D 3 HOH 21 31 31 HOH HOH A . D 3 HOH 22 32 32 HOH HOH A . D 3 HOH 23 33 33 HOH HOH A . D 3 HOH 24 34 34 HOH HOH A . D 3 HOH 25 35 35 HOH HOH A . D 3 HOH 26 36 36 HOH HOH A . D 3 HOH 27 37 37 HOH HOH A . D 3 HOH 28 38 38 HOH HOH A . D 3 HOH 29 39 39 HOH HOH A . D 3 HOH 30 40 40 HOH HOH A . D 3 HOH 31 41 41 HOH HOH A . D 3 HOH 32 42 42 HOH HOH A . D 3 HOH 33 43 43 HOH HOH A . D 3 HOH 34 44 44 HOH HOH A . D 3 HOH 35 45 45 HOH HOH A . D 3 HOH 36 46 46 HOH HOH A . D 3 HOH 37 47 47 HOH HOH A . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 CNS refinement 0.9 ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # _cell.entry_id 1G2J _cell.length_a 24.310 _cell.length_b 24.310 _cell.length_c 123.790 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1G2J _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 # _exptl.entry_id 1G2J _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.09 _exptl_crystal.density_percent_sol 41.21 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 277.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_details 'Oligonucleotide, Calcium Acetate, Sodium Cacodylate, PEG 8000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K' _exptl_crystal_grow.pdbx_pH_range ? # loop_ _exptl_crystal_grow_comp.crystal_id _exptl_crystal_grow_comp.id _exptl_crystal_grow_comp.sol_id _exptl_crystal_grow_comp.name _exptl_crystal_grow_comp.volume _exptl_crystal_grow_comp.conc _exptl_crystal_grow_comp.details 1 1 1 Oligonucleotide ? ? ? 1 2 1 'Calcium Acetate' ? ? ? 1 3 1 'Sodium Cacodylate' ? ? ? 1 4 1 'PEG 8000' ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 2000-03-15 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 5ID-B' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 5ID-B _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0000 # _reflns.entry_id 1G2J _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 1.97 _reflns.number_obs 1904 _reflns.number_all 1904 _reflns.percent_possible_obs 99.1 _reflns.pdbx_Rmerge_I_obs 0.0460000 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 20.5 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 13.6 _reflns.R_free_details ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.97 _reflns_shell.d_res_low 2.04 _reflns_shell.percent_possible_all 99.5 _reflns_shell.Rmerge_I_obs 0.2430000 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 17.3 _reflns_shell.pdbx_redundancy 11.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 186 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1G2J _refine.ls_number_reflns_obs 1736 _refine.ls_number_reflns_all 1736 _refine.pdbx_ls_sigma_I 0.0 _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 20.0 _refine.ls_d_res_high 1.97 _refine.ls_percent_reflns_obs 95.3 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2170000 _refine.ls_R_factor_R_free 0.2690000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free ? _refine.ls_number_reflns_R_free 185 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] -17.632 _refine.aniso_B[2][2] -17.632 _refine.aniso_B[3][3] 35.264 _refine.aniso_B[1][2] -3.890 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'Used residual target' _refine.pdbx_starting_model 'RNA tetramer duplex' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_stereochemistry_target_values 'G. Parkinson, J. Vojtechovsky, L. Clowney, A.T. Brunger, H.M. Berman, Acta Cryst. D, 52, 57-64 (1996).' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details random _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 167 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 45 _refine_hist.number_atoms_total 214 _refine_hist.d_res_high 1.97 _refine_hist.d_res_low 20.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function c_bond_d 0.009 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.40 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 29.47 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.94 ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 1G2J _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 1G2J _struct.title 'RNA OCTAMER R(CCCP*GGGG) CONTAINING PHENYL RIBONUCLEOTIDE' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1G2J _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'RNA duplex, phenyl-ribonucleotide, 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 2 ? C N N 2 ? D N N 3 ? # _struct_ref.id 1 _struct_ref.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 1G2J _struct_ref.pdbx_db_accession 1G2J _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1G2J _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 8 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1G2J _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 8 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 8 # _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 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 12_565 x,x-y+1,-z+1/6 0.5000000000 0.8660254038 0.0000000000 -12.1550000000 0.8660254038 -0.5000000000 0.0000000000 21.0530775660 0.0000000000 0.0000000000 -1.0000000000 20.6316666667 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # 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 covale1 covale both ? A C 3 "O3'" ? ? ? 1_555 A PYY 4 P ? ? A C 3 A PYY 4 1_555 ? ? ? ? ? ? ? 1.606 ? ? covale2 covale both ? A PYY 4 "O3'" ? ? ? 1_555 A G 5 P ? ? A PYY 4 A G 5 1_555 ? ? ? ? ? ? ? 1.603 ? ? metalc1 metalc ? ? A PYY 4 O1P ? ? ? 1_565 B CA . CA ? ? A PYY 4 A CA 9 1_555 ? ? ? ? ? ? ? 2.580 ? ? metalc2 metalc ? ? A G 8 "O3'" ? ? ? 1_555 B CA . CA ? ? A G 8 A CA 9 1_555 ? ? ? ? ? ? ? 2.284 ? ? metalc3 metalc ? ? A G 8 "O2'" ? ? ? 1_555 B CA . CA ? ? A G 8 A CA 9 1_555 ? ? ? ? ? ? ? 2.543 ? ? metalc4 metalc ? ? A G 8 OP1 ? ? ? 1_555 C CA . CA ? ? A G 8 A CA 14 1_555 ? ? ? ? ? ? ? 2.366 ? ? metalc5 metalc ? ? A G 8 OP1 ? ? ? 8_675 C CA . CA ? ? A G 8 A CA 14 1_555 ? ? ? ? ? ? ? 2.361 ? ? metalc6 metalc ? ? B CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 9 A HOH 10 1_555 ? ? ? ? ? ? ? 2.419 ? ? metalc7 metalc ? ? B CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 9 A HOH 11 1_555 ? ? ? ? ? ? ? 2.332 ? ? metalc8 metalc ? ? B CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 9 A HOH 12 1_555 ? ? ? ? ? ? ? 2.593 ? ? metalc9 metalc ? ? B CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 9 A HOH 13 1_555 ? ? ? ? ? ? ? 2.463 ? ? metalc10 metalc ? ? C CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 14 A HOH 15 1_555 ? ? ? ? ? ? ? 2.653 ? ? metalc11 metalc ? ? C CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 14 A HOH 15 8_675 ? ? ? ? ? ? ? 2.647 ? ? metalc12 metalc ? ? C CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 14 A HOH 16 1_555 ? ? ? ? ? ? ? 2.272 ? ? metalc13 metalc ? ? C CA . CA ? ? ? 1_555 D HOH . O ? ? A CA 14 A HOH 16 8_675 ? ? ? ? ? ? ? 2.274 ? ? hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 A G 7 N1 ? ? A C 1 A G 7 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 A G 7 O6 ? ? A C 1 A G 7 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 A G 7 N2 ? ? A C 1 A G 7 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A C 2 N3 ? ? ? 1_555 A G 6 N1 ? ? A C 2 A G 6 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A C 2 N4 ? ? ? 1_555 A G 6 O6 ? ? A C 2 A G 6 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A C 2 O2 ? ? ? 1_555 A G 6 N2 ? ? A C 2 A G 6 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A C 3 N3 ? ? ? 1_555 A G 5 N1 ? ? A C 3 A G 5 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 3 N4 ? ? ? 1_555 A G 5 O6 ? ? A C 3 A G 5 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 3 O2 ? ? ? 1_555 A G 5 N2 ? ? A C 3 A G 5 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A G 5 N1 ? ? ? 1_555 A C 3 N3 ? ? A G 5 A C 3 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A G 5 N2 ? ? ? 1_555 A C 3 O2 ? ? A G 5 A C 3 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A G 5 O6 ? ? ? 1_555 A C 3 N4 ? ? A G 5 A C 3 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 6 N1 ? ? ? 1_555 A C 2 N3 ? ? A G 6 A C 2 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 N2 ? ? ? 1_555 A C 2 O2 ? ? A G 6 A C 2 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A G 6 O6 ? ? ? 1_555 A C 2 N4 ? ? A G 6 A C 2 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A G 7 N1 ? ? ? 1_555 A C 1 N3 ? ? A G 7 A C 1 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A G 7 N2 ? ? ? 1_555 A C 1 O2 ? ? A G 7 A C 1 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A G 7 O6 ? ? ? 1_555 A C 1 N4 ? ? A G 7 A C 1 12_565 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? 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 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 "O3'" ? A G 8 ? A G 8 ? 1_555 88.9 ? 2 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 "O2'" ? A G 8 ? A G 8 ? 1_555 113.7 ? 3 "O3'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 "O2'" ? A G 8 ? A G 8 ? 1_555 71.2 ? 4 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 10 ? 1_555 166.9 ? 5 "O3'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 10 ? 1_555 82.0 ? 6 "O2'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 10 ? 1_555 72.2 ? 7 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 11 ? 1_555 92.7 ? 8 "O3'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 11 ? 1_555 145.9 ? 9 "O2'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 11 ? 1_555 137.0 ? 10 O ? D HOH . ? A HOH 10 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 11 ? 1_555 89.7 ? 11 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 12 ? 1_555 100.8 ? 12 "O3'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 12 ? 1_555 137.9 ? 13 "O2'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 12 ? 1_555 67.4 ? 14 O ? D HOH . ? A HOH 10 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 12 ? 1_555 92.3 ? 15 O ? D HOH . ? A HOH 11 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 12 ? 1_555 75.0 ? 16 O1P ? A PYY 4 ? A PYY 4 ? 1_565 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 84.9 ? 17 "O3'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 76.6 ? 18 "O2'" ? A G 8 ? A G 8 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 141.9 ? 19 O ? D HOH . ? A HOH 10 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 83.8 ? 20 O ? D HOH . ? A HOH 11 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 69.7 ? 21 O ? D HOH . ? A HOH 12 ? 1_555 CA ? B CA . ? A CA 9 ? 1_555 O ? D HOH . ? A HOH 13 ? 1_555 144.5 ? 22 OP1 ? A G 8 ? A G 8 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 OP1 ? A G 8 ? A G 8 ? 8_675 82.5 ? 23 OP1 ? A G 8 ? A G 8 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 15 ? 1_555 91.4 ? 24 OP1 ? A G 8 ? A G 8 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 15 ? 1_555 173.2 ? 25 OP1 ? A G 8 ? A G 8 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 15 ? 8_675 173.4 ? 26 OP1 ? A G 8 ? A G 8 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 15 ? 8_675 91.7 ? 27 O ? D HOH . ? A HOH 15 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 15 ? 8_675 94.5 ? 28 OP1 ? A G 8 ? A G 8 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 1_555 92.5 ? 29 OP1 ? A G 8 ? A G 8 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 1_555 91.4 ? 30 O ? D HOH . ? A HOH 15 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 1_555 85.9 ? 31 O ? D HOH . ? A HOH 15 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 1_555 90.7 ? 32 OP1 ? A G 8 ? A G 8 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 8_675 91.2 ? 33 OP1 ? A G 8 ? A G 8 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 8_675 92.6 ? 34 O ? D HOH . ? A HOH 15 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 8_675 90.5 ? 35 O ? D HOH . ? A HOH 15 ? 8_675 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 8_675 86.0 ? 36 O ? D HOH . ? A HOH 16 ? 1_555 CA ? C CA . ? A CA 14 ? 1_555 O ? D HOH . ? A HOH 16 ? 8_675 174.9 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A CA 9 ? 6 'BINDING SITE FOR RESIDUE CA A 9' AC2 Software A CA 14 ? 6 'BINDING SITE FOR RESIDUE CA A 14' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 PYY A 4 ? PYY A 4 . ? 1_565 ? 2 AC1 6 G A 8 ? G A 8 . ? 1_555 ? 3 AC1 6 HOH D . ? HOH A 10 . ? 1_555 ? 4 AC1 6 HOH D . ? HOH A 11 . ? 1_555 ? 5 AC1 6 HOH D . ? HOH A 12 . ? 1_555 ? 6 AC1 6 HOH D . ? HOH A 13 . ? 1_555 ? 7 AC2 6 G A 8 ? G A 8 . ? 1_555 ? 8 AC2 6 G A 8 ? G A 8 . ? 8_675 ? 9 AC2 6 HOH D . ? HOH A 15 . ? 8_675 ? 10 AC2 6 HOH D . ? HOH A 15 . ? 1_555 ? 11 AC2 6 HOH D . ? HOH A 16 . ? 8_675 ? 12 AC2 6 HOH D . ? HOH A 16 . ? 1_555 ? # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id G _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 7 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.051 _pdbx_validate_planes.type 'SIDE CHAIN' # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id CA _pdbx_struct_special_symmetry.auth_seq_id 14 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id CA _pdbx_struct_special_symmetry.label_seq_id . # 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 C OP3 O N N 1 C P P N N 2 C OP1 O N N 3 C OP2 O N N 4 C "O5'" O N N 5 C "C5'" C N N 6 C "C4'" C N R 7 C "O4'" O N N 8 C "C3'" C N S 9 C "O3'" O N N 10 C "C2'" C N R 11 C "O2'" O N N 12 C "C1'" C N R 13 C N1 N N N 14 C C2 C N N 15 C O2 O N N 16 C N3 N N N 17 C C4 C N N 18 C N4 N N N 19 C C5 C N N 20 C C6 C N N 21 C HOP3 H N N 22 C HOP2 H N N 23 C "H5'" H N N 24 C "H5''" H N N 25 C "H4'" H N N 26 C "H3'" H N N 27 C "HO3'" H N N 28 C "H2'" H N N 29 C "HO2'" H N N 30 C "H1'" H N N 31 C H41 H N N 32 C H42 H N N 33 C H5 H N N 34 C H6 H N N 35 CA CA CA N N 36 G OP3 O N N 37 G P P N N 38 G OP1 O N N 39 G OP2 O N N 40 G "O5'" O N N 41 G "C5'" C N N 42 G "C4'" C N R 43 G "O4'" O N N 44 G "C3'" C N S 45 G "O3'" O N N 46 G "C2'" C N R 47 G "O2'" O N N 48 G "C1'" C N R 49 G N9 N Y N 50 G C8 C Y N 51 G N7 N Y N 52 G C5 C Y N 53 G C6 C N N 54 G O6 O N N 55 G N1 N N N 56 G C2 C N N 57 G N2 N N N 58 G N3 N N N 59 G C4 C Y N 60 G HOP3 H N N 61 G HOP2 H N N 62 G "H5'" H N N 63 G "H5''" H N N 64 G "H4'" H N N 65 G "H3'" H N N 66 G "HO3'" H N N 67 G "H2'" H N N 68 G "HO2'" H N N 69 G "H1'" H N N 70 G H8 H N N 71 G H1 H N N 72 G H21 H N N 73 G H22 H N N 74 HOH O O N N 75 HOH H1 H N N 76 HOH H2 H N N 77 PYY P P N N 78 PYY O1P O N N 79 PYY O2P O N N 80 PYY "O5'" O N N 81 PYY "C5'" C N N 82 PYY "C4'" C N R 83 PYY "O4'" O N N 84 PYY "C1'" C N S 85 PYY C1 C Y N 86 PYY C6 C Y N 87 PYY C2 C Y N 88 PYY C3 C Y N 89 PYY C4 C Y N 90 PYY C5 C Y N 91 PYY "C2'" C N R 92 PYY "O2'" O N N 93 PYY "C3'" C N S 94 PYY "O3'" O N N 95 PYY O3P O N N 96 PYY HOP2 H N N 97 PYY "H5'1" H N N 98 PYY "H5'2" H N N 99 PYY "H4'" H N N 100 PYY "H1'" H N N 101 PYY H6 H N N 102 PYY H2 H N N 103 PYY H3 H N N 104 PYY H4 H N N 105 PYY H5 H N N 106 PYY "H2'" H N N 107 PYY "HO'2" H N N 108 PYY "H3'" H N N 109 PYY H3T H N N 110 PYY HOP3 H N N 111 # 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 C OP3 P sing N N 1 C OP3 HOP3 sing N N 2 C P OP1 doub N N 3 C P OP2 sing N N 4 C P "O5'" sing N N 5 C OP2 HOP2 sing N N 6 C "O5'" "C5'" sing N N 7 C "C5'" "C4'" sing N N 8 C "C5'" "H5'" sing N N 9 C "C5'" "H5''" sing N N 10 C "C4'" "O4'" sing N N 11 C "C4'" "C3'" sing N N 12 C "C4'" "H4'" sing N N 13 C "O4'" "C1'" sing N N 14 C "C3'" "O3'" sing N N 15 C "C3'" "C2'" sing N N 16 C "C3'" "H3'" sing N N 17 C "O3'" "HO3'" sing N N 18 C "C2'" "O2'" sing N N 19 C "C2'" "C1'" sing N N 20 C "C2'" "H2'" sing N N 21 C "O2'" "HO2'" sing N N 22 C "C1'" N1 sing N N 23 C "C1'" "H1'" sing N N 24 C N1 C2 sing N N 25 C N1 C6 sing N N 26 C C2 O2 doub N N 27 C C2 N3 sing N N 28 C N3 C4 doub N N 29 C C4 N4 sing N N 30 C C4 C5 sing N N 31 C N4 H41 sing N N 32 C N4 H42 sing N N 33 C C5 C6 doub N N 34 C C5 H5 sing N N 35 C C6 H6 sing N N 36 G OP3 P sing N N 37 G OP3 HOP3 sing N N 38 G P OP1 doub N N 39 G P OP2 sing N N 40 G P "O5'" sing N N 41 G OP2 HOP2 sing N N 42 G "O5'" "C5'" sing N N 43 G "C5'" "C4'" sing N N 44 G "C5'" "H5'" sing N N 45 G "C5'" "H5''" sing N N 46 G "C4'" "O4'" sing N N 47 G "C4'" "C3'" sing N N 48 G "C4'" "H4'" sing N N 49 G "O4'" "C1'" sing N N 50 G "C3'" "O3'" sing N N 51 G "C3'" "C2'" sing N N 52 G "C3'" "H3'" sing N N 53 G "O3'" "HO3'" sing N N 54 G "C2'" "O2'" sing N N 55 G "C2'" "C1'" sing N N 56 G "C2'" "H2'" sing N N 57 G "O2'" "HO2'" sing N N 58 G "C1'" N9 sing N N 59 G "C1'" "H1'" sing N N 60 G N9 C8 sing Y N 61 G N9 C4 sing Y N 62 G C8 N7 doub Y N 63 G C8 H8 sing N N 64 G N7 C5 sing Y N 65 G C5 C6 sing N N 66 G C5 C4 doub Y N 67 G C6 O6 doub N N 68 G C6 N1 sing N N 69 G N1 C2 sing N N 70 G N1 H1 sing N N 71 G C2 N2 sing N N 72 G C2 N3 doub N N 73 G N2 H21 sing N N 74 G N2 H22 sing N N 75 G N3 C4 sing N N 76 HOH O H1 sing N N 77 HOH O H2 sing N N 78 PYY P O1P doub N N 79 PYY P O2P sing N N 80 PYY P "O5'" sing N N 81 PYY P O3P sing N N 82 PYY O2P HOP2 sing N N 83 PYY "O5'" "C5'" sing N N 84 PYY "C5'" "C4'" sing N N 85 PYY "C5'" "H5'1" sing N N 86 PYY "C5'" "H5'2" sing N N 87 PYY "C4'" "O4'" sing N N 88 PYY "C4'" "C3'" sing N N 89 PYY "C4'" "H4'" sing N N 90 PYY "O4'" "C1'" sing N N 91 PYY "C1'" C1 sing N N 92 PYY "C1'" "C2'" sing N N 93 PYY "C1'" "H1'" sing N N 94 PYY C1 C6 doub Y N 95 PYY C1 C2 sing Y N 96 PYY C6 C5 sing Y N 97 PYY C6 H6 sing N N 98 PYY C2 C3 doub Y N 99 PYY C2 H2 sing N N 100 PYY C3 C4 sing Y N 101 PYY C3 H3 sing N N 102 PYY C4 C5 doub Y N 103 PYY C4 H4 sing N N 104 PYY C5 H5 sing N N 105 PYY "C2'" "O2'" sing N N 106 PYY "C2'" "C3'" sing N N 107 PYY "C2'" "H2'" sing N N 108 PYY "O2'" "HO'2" sing N N 109 PYY "C3'" "O3'" sing N N 110 PYY "C3'" "H3'" sing N N 111 PYY "O3'" H3T sing N N 112 PYY O3P HOP3 sing N N 113 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 1G2J 'a-form double helix' 1G2J 'mismatched base pair' # 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 C 1 1_555 A G 7 12_565 0.210 -0.150 -0.295 15.048 -11.386 -3.413 1 A_C1:G7_A A 1 ? A 7 ? 19 1 1 A C 2 1_555 A G 6 12_565 0.304 0.015 0.050 4.968 -10.992 5.896 2 A_C2:G6_A A 2 ? A 6 ? 19 1 1 A C 3 1_555 A G 5 12_565 0.517 -0.187 0.073 4.991 -5.811 -1.767 3 A_C3:G5_A A 3 ? A 5 ? 19 1 1 A C 1 1_555 A G 7 1_555 0.210 -0.150 -0.295 15.048 -11.386 -3.413 4 A_C1:G7_A A 1 ? A 7 ? 19 1 1 A C 2 1_555 A G 6 1_555 0.304 0.015 0.050 4.968 -10.992 5.896 5 A_C2:G6_A A 2 ? A 6 ? 19 1 1 A C 3 1_555 A G 5 1_555 0.517 -0.187 0.073 4.991 -5.811 -1.767 6 A_C3:G5_A A 3 ? A 5 ? 19 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 C 1 1_555 A G 7 12_565 A C 2 1_555 A G 6 12_565 -0.039 -2.010 3.483 -2.938 8.564 32.555 -4.835 -0.404 2.870 14.920 5.118 33.758 1 AA_C1C2:G6G7_AA A 1 ? A 7 ? A 2 ? A 6 ? 1 A C 2 1_555 A G 6 12_565 A C 3 1_555 A G 5 12_565 -0.291 -2.083 3.234 0.738 8.372 32.716 -4.824 0.610 2.629 14.565 -1.285 33.750 2 AA_C2C3:G5G6_AA A 2 ? A 6 ? A 3 ? A 5 ? 1 A C 1 1_555 A G 7 1_555 A C 2 1_555 A G 6 1_555 -0.039 -2.010 3.483 -2.938 8.564 32.555 -4.835 -0.404 2.870 14.920 5.118 33.758 3 AA_C1C2:G6G7_AA A 1 ? A 7 ? A 2 ? A 6 ? 1 A C 2 1_555 A G 6 1_555 A C 3 1_555 A G 5 1_555 -0.291 -2.083 3.234 0.738 8.372 32.716 -4.824 0.610 2.629 14.565 -1.285 33.750 4 AA_C2C3:G5G6_AA A 2 ? A 6 ? A 3 ? A 5 ? # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'RNA tetramer duplex' # _atom_sites.entry_id 1G2J _atom_sites.fract_transf_matrix[1][1] 0.041135 _atom_sites.fract_transf_matrix[1][2] 0.023749 _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] 0.047499 _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] 0.008078 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C CA N O P # loop_