data_2GUN # _entry.id 2GUN # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 2GUN pdb_00002gun 10.2210/pdb2gun/pdb NDB AH0021 ? ? RCSB RCSB037570 ? ? WWPDB D_1000037570 ? ? # 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 2006-08-01 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-18 5 'Structure model' 1 4 2024-02-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Refinement description' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 5 'Structure model' 'Derived calculations' # 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' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 5 'Structure model' struct_conn 6 5 'Structure model' struct_site # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' 3 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 4 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2GUN _pdbx_database_status.recvd_initial_deposition_date 2006-05-01 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Pallan, P.S.' 1 'Egli, M.' 2 # _citation.id primary _citation.title 'RNA-Binding Affinities and Crystal Structure of Oligonucleotides Containing Five-Atom Amide-Based Backbone Structures.' _citation.journal_abbrev Biochemistry _citation.journal_volume 45 _citation.page_first 8048 _citation.page_last 8057 _citation.year 2006 _citation.journal_id_ASTM BICHAW _citation.country US _citation.journal_id_ISSN 0006-2960 _citation.journal_id_CSD 0033 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16800629 _citation.pdbx_database_id_DOI 10.1021/bi060354o # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Pallan, P.S.' 1 ? primary 'von Matt, P.' 2 ? primary 'Wilds, C.J.' 3 ? primary 'Altmann, K.-H.' 4 ? primary 'Egli, M.' 5 ? # 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'-D(*TP*TP*CP*(T2T)P*(CBR)P*TP*TP*C)-3'" 2745.793 1 ? ? ? ? 2 polymer syn "5'-R(*GP*AP*AP*GP*AP*AP*GP*AP*A)-3'" 2965.895 1 ? ? ? ? 3 non-polymer syn 'COBALT (III) ION' 58.933 2 ? ? ? ? 4 non-polymer syn SPERMINE 202.340 1 ? ? ? ? 5 water nat water 18.015 17 ? ? ? ? # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 polydeoxyribonucleotide no yes '(DT)(DT)(DC)(T2T)(CBR)(DT)(DT)(DC)' TTCNCTTC A ? 2 polyribonucleotide no no GAAGAAGAA GAAGAAGAA B ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 'COBALT (III) ION' 3CO 4 SPERMINE SPM 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DT n 1 2 DT n 1 3 DC n 1 4 T2T n 1 5 CBR n 1 6 DT n 1 7 DT n 1 8 DC n 2 1 G n 2 2 A n 2 3 A n 2 4 G n 2 5 A n 2 6 A n 2 7 G n 2 8 A n 2 9 A 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 3CO non-polymer . 'COBALT (III) ION' ? 'Co 3' 58.933 A 'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 CBR 'DNA linking' n "5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H13 Br N3 O7 P' 386.093 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 SPM non-polymer . SPERMINE ? 'C10 H26 N4' 202.340 T2T 'RNA linking' . ;[(2S,3S,5R)-3-[(2S)-3-({[(2R,3S,4R,5R)-3-HYDROXY-4-METHOXY-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL}AMINO)-2-METHYL-3-OXOPROPYL]-5-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)TETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN PHOSPHATE ; ? 'C25 H36 N5 O13 P' 645.553 # 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 DT 1 1 1 DT T A . n A 1 2 DT 2 2 2 DT T A . n A 1 3 DC 3 3 3 DC C A . n A 1 4 T2T 4 4 4 T2T T2T A . n A 1 5 CBR 5 6 6 CBR CBR A . n A 1 6 DT 6 7 7 DT T A . n A 1 7 DT 7 8 8 DT T A . n A 1 8 DC 8 9 9 DC C A . n B 2 1 G 1 10 10 G G B . n B 2 2 A 2 11 11 A A B . n B 2 3 A 3 12 12 A A B . n B 2 4 G 4 13 13 G G B . n B 2 5 A 5 14 14 A A B . n B 2 6 A 6 15 15 A A B . n B 2 7 G 7 16 16 G G B . n B 2 8 A 8 17 17 A A B . n B 2 9 A 9 18 18 A A 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 3 3CO 1 21 21 3CO 3CO B . D 3 3CO 1 22 22 3CO 3CO B . E 4 SPM 1 521 521 SPM SPM B . F 5 HOH 1 25 25 HOH HOH A . F 5 HOH 2 26 26 HOH HOH A . F 5 HOH 3 32 32 HOH HOH A . F 5 HOH 4 33 33 HOH HOH A . F 5 HOH 5 37 37 HOH HOH A . F 5 HOH 6 38 38 HOH HOH A . G 5 HOH 1 23 23 HOH HOH B . G 5 HOH 2 24 24 HOH HOH B . G 5 HOH 3 27 27 HOH HOH B . G 5 HOH 4 28 28 HOH HOH B . G 5 HOH 5 29 29 HOH HOH B . G 5 HOH 6 30 30 HOH HOH B . G 5 HOH 7 31 31 HOH HOH B . G 5 HOH 8 34 34 HOH HOH B . G 5 HOH 9 36 36 HOH HOH B . G 5 HOH 10 39 39 HOH HOH B . G 5 HOH 11 40 40 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345 'data collection' . ? 1 DENZO 'data reduction' . ? 2 CNS refinement . ? 3 SCALEPACK 'data scaling' . ? 4 CNS phasing . ? 5 # _cell.entry_id 2GUN _cell.length_a 47.231 _cell.length_b 47.231 _cell.length_c 24.464 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 2GUN _symmetry.space_group_name_H-M 'P 43' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? # _exptl.entry_id 2GUN _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.38 _exptl_crystal.density_percent_sol 48.22 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details ;0.5 mM cobalt hexamine, 5 mM spermine tetrachloride, 80 mM sodium cacodylate buffer (pH = 7.0) and 10% (v/v) 2-methyl-2,4-pentanediol (MPD)., VAPOR DIFFUSION, HANGING DROP, temperature 291K ; _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 'cobalt hexamine' ? ? ? 1 2 1 'spermine tetrachloride' ? ? ? 1 3 1 'sodium cacodylate' ? ? ? 1 4 1 MPD ? ? ? 1 5 1 H2O ? ? ? 1 6 2 'cobalt hexamine' ? ? ? 1 7 2 'sodium cacodylate' ? ? ? 1 8 2 H2O ? ? ? # _diffrn.id 1 _diffrn.ambient_temp 110 _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 2001-11-04 _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 'Si Monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9203 _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 0.9203 # _reflns.entry_id 2GUN _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 20.0 _reflns.d_resolution_high 2.80 _reflns.number_obs 2391 _reflns.number_all 2602 _reflns.percent_possible_obs 91.9 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.057 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.80 _reflns_shell.d_res_low ? _reflns_shell.percent_possible_all 92.3 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 2GUN _refine.ls_number_reflns_obs 2388 _refine.ls_number_reflns_all 2586 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 4 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.0 _refine.ls_d_res_high 2.80 _refine.ls_percent_reflns_obs 92.30 _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.235 _refine.ls_R_factor_R_free 0.272 _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 215 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ;L. Clowney et.al., Geometric Parameters in Nucleic Acids: Nitrogenous Bases J. Am. Chem. Soc., (1996) 118, 509-518; A. Gelbin et.al., Geometric Parameters in Nucleic Acids: Sugar and Phosphate Constituents J. Am. Chem. Soc., (1996) 118, 519-529. G. Parkinson et. al., New parameters for the refinement of nucleic acid-containing structures Acta Cryst. (1996). D52, 57-64. ; _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details Random _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _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 399 _refine_hist.pdbx_number_atoms_ligand 19 _refine_hist.number_atoms_solvent 17 _refine_hist.number_atoms_total 435 _refine_hist.d_res_high 2.80 _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 s_bond_d 0.006 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 1.30 ? ? ? 'X-RAY DIFFRACTION' ? # _database_PDB_matrix.entry_id 2GUN _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 2GUN _struct.title 'RNA-Binding Affinities and Crystal Structure of Oligonucleotides containing Five-Atom Amide-Based Backbone Structures' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2GUN _struct_keywords.pdbx_keywords DNA/RNA _struct_keywords.text 'DNA:RNA hybrid, amide bearing DNA, thymidine dimers, internucleosidic amide linkage, DNA, RNA, DNA-RNA COMPLEX' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 3 ? E N N 4 ? F N N 5 ? G N N 5 ? # loop_ _struct_ref.id _struct_ref.entity_id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 1 PDB 2GUN 2GUN ? ? ? 2 2 PDB 2GUN 2GUN ? ? ? # 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 2GUN A 1 ? 8 ? 2GUN 1 ? 9 ? 1 9 2 2 2GUN B 1 ? 9 ? 2GUN 10 ? 18 ? 10 18 # _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 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # _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 covale1 covale both ? A DC 3 "O3'" ? ? ? 1_555 A T2T 4 P ? ? A DC 3 A T2T 4 1_555 ? ? ? ? ? ? ? 1.610 ? ? covale2 covale both ? A T2T 4 "O3'" ? ? ? 1_555 A CBR 5 P ? ? A T2T 4 A CBR 6 1_555 ? ? ? ? ? ? ? 1.613 ? ? covale3 covale both ? A CBR 5 "O3'" ? ? ? 1_555 A DT 6 P ? ? A CBR 6 A DT 7 1_555 ? ? ? ? ? ? ? 1.609 ? ? hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 B A 9 N1 A ? A DT 1 B A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 B A 9 N6 A ? A DT 1 B A 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B A 8 N1 ? ? A DT 2 B A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B A 8 N6 ? ? A DT 2 B A 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B G 7 N1 ? ? A DC 3 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B G 7 O6 ? ? A DC 3 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B G 7 N2 ? ? A DC 3 B G 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A CBR 5 N3 ? ? ? 1_555 B G 4 N1 ? ? A CBR 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A CBR 5 N4 ? ? ? 1_555 B G 4 O6 ? ? A CBR 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A CBR 5 O2 ? ? ? 1_555 B G 4 N2 ? ? A CBR 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DT 6 N3 ? ? ? 1_555 B A 3 N1 ? ? A DT 7 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DT 6 O4 ? ? ? 1_555 B A 3 N6 ? ? A DT 7 B A 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B A 2 N1 ? ? A DT 8 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B A 2 N6 ? ? A DT 8 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DC 8 N3 ? ? ? 1_555 B G 1 N1 ? ? A DC 9 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DC 8 N4 ? ? ? 1_555 B G 1 O6 ? ? A DC 9 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DC 8 O2 ? ? ? 1_555 B G 1 N2 ? ? A DC 9 B G 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? hydrog ? ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id SPM _struct_site.pdbx_auth_seq_id 521 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 5 _struct_site.details 'BINDING SITE FOR RESIDUE SPM B 521' # 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 5 CBR A 5 ? CBR A 6 . ? 1_554 ? 2 AC1 5 DT A 7 ? DT A 8 . ? 4_564 ? 3 AC1 5 DT A 7 ? DT A 8 . ? 1_554 ? 4 AC1 5 DC A 8 ? DC A 9 . ? 1_554 ? 5 AC1 5 A B 6 ? A B 15 . ? 1_555 ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 "O3'" _pdbx_validate_rmsd_bond.auth_asym_id_1 B _pdbx_validate_rmsd_bond.auth_comp_id_1 A _pdbx_validate_rmsd_bond.auth_seq_id_1 17 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 P _pdbx_validate_rmsd_bond.auth_asym_id_2 B _pdbx_validate_rmsd_bond.auth_comp_id_2 A _pdbx_validate_rmsd_bond.auth_seq_id_2 18 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 B _pdbx_validate_rmsd_bond.bond_value 1.730 _pdbx_validate_rmsd_bond.bond_target_value 1.607 _pdbx_validate_rmsd_bond.bond_deviation 0.123 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.012 _pdbx_validate_rmsd_bond.linker_flag Y # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id CBR _pdbx_struct_mod_residue.label_seq_id 5 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id CBR _pdbx_struct_mod_residue.auth_seq_id 6 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id DC _pdbx_struct_mod_residue.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 3CO CO CO N N 1 A OP3 O N N 2 A P P N N 3 A OP1 O N N 4 A OP2 O N N 5 A "O5'" O N N 6 A "C5'" C N N 7 A "C4'" C N R 8 A "O4'" O N N 9 A "C3'" C N S 10 A "O3'" O N N 11 A "C2'" C N R 12 A "O2'" O N N 13 A "C1'" C N R 14 A N9 N Y N 15 A C8 C Y N 16 A N7 N Y N 17 A C5 C Y N 18 A C6 C Y N 19 A N6 N N N 20 A N1 N Y N 21 A C2 C Y N 22 A N3 N Y N 23 A C4 C Y N 24 A HOP3 H N N 25 A HOP2 H N N 26 A "H5'" H N N 27 A "H5''" H N N 28 A "H4'" H N N 29 A "H3'" H N N 30 A "HO3'" H N N 31 A "H2'" H N N 32 A "HO2'" H N N 33 A "H1'" H N N 34 A H8 H N N 35 A H61 H N N 36 A H62 H N N 37 A H2 H N N 38 CBR BR BR N N 39 CBR P P N N 40 CBR OP1 O N N 41 CBR OP2 O N N 42 CBR "O5'" O N N 43 CBR N1 N N N 44 CBR C6 C N N 45 CBR C2 C N N 46 CBR O2 O N N 47 CBR N3 N N N 48 CBR C4 C N N 49 CBR N4 N N N 50 CBR C5 C N N 51 CBR "C2'" C N N 52 CBR "C5'" C N N 53 CBR "C4'" C N R 54 CBR "O4'" O N N 55 CBR "C1'" C N R 56 CBR "C3'" C N S 57 CBR "O3'" O N N 58 CBR OP3 O N N 59 CBR HOP2 H N N 60 CBR H6 H N N 61 CBR H41 H N N 62 CBR H42 H N N 63 CBR "H2'" H N N 64 CBR "H2''" H N N 65 CBR "H5'" H N N 66 CBR "H5''" H N N 67 CBR "H4'" H N N 68 CBR "H1'" H N N 69 CBR "H3'" H N N 70 CBR "HO3'" H N N 71 CBR HOP3 H N N 72 DC OP3 O N N 73 DC P P N N 74 DC OP1 O N N 75 DC OP2 O N N 76 DC "O5'" O N N 77 DC "C5'" C N N 78 DC "C4'" C N R 79 DC "O4'" O N N 80 DC "C3'" C N S 81 DC "O3'" O N N 82 DC "C2'" C N N 83 DC "C1'" C N R 84 DC N1 N N N 85 DC C2 C N N 86 DC O2 O N N 87 DC N3 N N N 88 DC C4 C N N 89 DC N4 N N N 90 DC C5 C N N 91 DC C6 C N N 92 DC HOP3 H N N 93 DC HOP2 H N N 94 DC "H5'" H N N 95 DC "H5''" H N N 96 DC "H4'" H N N 97 DC "H3'" H N N 98 DC "HO3'" H N N 99 DC "H2'" H N N 100 DC "H2''" H N N 101 DC "H1'" H N N 102 DC H41 H N N 103 DC H42 H N N 104 DC H5 H N N 105 DC H6 H N N 106 DT OP3 O N N 107 DT P P N N 108 DT OP1 O N N 109 DT OP2 O N N 110 DT "O5'" O N N 111 DT "C5'" C N N 112 DT "C4'" C N R 113 DT "O4'" O N N 114 DT "C3'" C N S 115 DT "O3'" O N N 116 DT "C2'" C N N 117 DT "C1'" C N R 118 DT N1 N N N 119 DT C2 C N N 120 DT O2 O N N 121 DT N3 N N N 122 DT C4 C N N 123 DT O4 O N N 124 DT C5 C N N 125 DT C7 C N N 126 DT C6 C N N 127 DT HOP3 H N N 128 DT HOP2 H N N 129 DT "H5'" H N N 130 DT "H5''" H N N 131 DT "H4'" H N N 132 DT "H3'" H N N 133 DT "HO3'" H N N 134 DT "H2'" H N N 135 DT "H2''" H N N 136 DT "H1'" H N N 137 DT H3 H N N 138 DT H71 H N N 139 DT H72 H N N 140 DT H73 H N N 141 DT H6 H N N 142 G OP3 O N N 143 G P P N N 144 G OP1 O N N 145 G OP2 O N N 146 G "O5'" O N N 147 G "C5'" C N N 148 G "C4'" C N R 149 G "O4'" O N N 150 G "C3'" C N S 151 G "O3'" O N N 152 G "C2'" C N R 153 G "O2'" O N N 154 G "C1'" C N R 155 G N9 N Y N 156 G C8 C Y N 157 G N7 N Y N 158 G C5 C Y N 159 G C6 C N N 160 G O6 O N N 161 G N1 N N N 162 G C2 C N N 163 G N2 N N N 164 G N3 N N N 165 G C4 C Y N 166 G HOP3 H N N 167 G HOP2 H N N 168 G "H5'" H N N 169 G "H5''" H N N 170 G "H4'" H N N 171 G "H3'" H N N 172 G "HO3'" H N N 173 G "H2'" H N N 174 G "HO2'" H N N 175 G "H1'" H N N 176 G H8 H N N 177 G H1 H N N 178 G H21 H N N 179 G H22 H N N 180 HOH O O N N 181 HOH H1 H N N 182 HOH H2 H N N 183 SPM N1 N N N 184 SPM C2 C N N 185 SPM C3 C N N 186 SPM C4 C N N 187 SPM N5 N N N 188 SPM C6 C N N 189 SPM C7 C N N 190 SPM C8 C N N 191 SPM C9 C N N 192 SPM N10 N N N 193 SPM C11 C N N 194 SPM C12 C N N 195 SPM C13 C N N 196 SPM N14 N N N 197 SPM HN11 H N N 198 SPM HN12 H N N 199 SPM H21 H N N 200 SPM H22 H N N 201 SPM H31 H N N 202 SPM H32 H N N 203 SPM H41 H N N 204 SPM H42 H N N 205 SPM HN5 H N N 206 SPM H61 H N N 207 SPM H62 H N N 208 SPM H71 H N N 209 SPM H72 H N N 210 SPM H81 H N N 211 SPM H82 H N N 212 SPM H91 H N N 213 SPM H92 H N N 214 SPM HN0 H N N 215 SPM H111 H N N 216 SPM H112 H N N 217 SPM H121 H N N 218 SPM H122 H N N 219 SPM H131 H N N 220 SPM H132 H N N 221 SPM HN41 H N N 222 SPM HN42 H N N 223 T2T P P N N 224 T2T OP1 O N N 225 T2T OP2 O N N 226 T2T C4 C N N 227 T2T N3 N N N 228 T2T C2 C N N 229 T2T N1 N N N 230 T2T C6 C N N 231 T2T C5 C N N 232 T2T "O5'" O N N 233 T2T "C5'" C N N 234 T2T C4X C N S 235 T2T O4X O N N 236 T2T C1X C N R 237 T2T N1B N N N 238 T2T C6B C N N 239 T2T C2B C N N 240 T2T O2B O N N 241 T2T N3B N N N 242 T2T C4B C N N 243 T2T O4B O N N 244 T2T C5B C N N 245 T2T CAB C N N 246 T2T C2X C N N 247 T2T C3X C N S 248 T2T CH2 C N N 249 T2T CP C N S 250 T2T C2P C N N 251 T2T CX C N N 252 T2T OX O N N 253 T2T N5X N N N 254 T2T C5X C N N 255 T2T "C4'" C N R 256 T2T "O4'" O N N 257 T2T "C1'" C N R 258 T2T O2 O N N 259 T2T O4 O N N 260 T2T C5A C N N 261 T2T "C2'" C N R 262 T2T "O2'" O N N 263 T2T CH3 C N N 264 T2T "C3'" C N R 265 T2T "O3'" O N N 266 T2T OP3 O N N 267 T2T HOP2 H N N 268 T2T HN3 H N N 269 T2T H6 H N N 270 T2T "H5'" H N N 271 T2T "H5''" H N N 272 T2T H4X H N N 273 T2T H1X H N N 274 T2T H6B H N N 275 T2T H3B H N N 276 T2T HAB1 H N N 277 T2T HAB2 H N N 278 T2T HAB3 H N N 279 T2T H2X1 H N N 280 T2T H2X2 H N N 281 T2T H3X H N N 282 T2T HH21 H N N 283 T2T HH22 H N N 284 T2T H1P H N N 285 T2T H2P1 H N N 286 T2T H2P2 H N N 287 T2T H2P3 H N N 288 T2T H5X H N N 289 T2T H5X1 H N N 290 T2T H5X2 H N N 291 T2T "H4'" H N N 292 T2T "H1'" H N N 293 T2T H5A1 H N N 294 T2T H5A2 H N N 295 T2T H5A3 H N N 296 T2T "H2'" H N N 297 T2T HH31 H N N 298 T2T HH32 H N N 299 T2T HH33 H N N 300 T2T "H3'" H N N 301 T2T "HO3'" H N N 302 T2T HOP3 H N N 303 # 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 CBR BR C5 sing N N 40 CBR P OP1 doub N N 41 CBR P OP2 sing N N 42 CBR P "O5'" sing N N 43 CBR P OP3 sing N N 44 CBR OP2 HOP2 sing N N 45 CBR "O5'" "C5'" sing N N 46 CBR N1 C6 sing N N 47 CBR N1 C2 sing N N 48 CBR N1 "C1'" sing N N 49 CBR C6 C5 doub N N 50 CBR C6 H6 sing N N 51 CBR C2 O2 doub N N 52 CBR C2 N3 sing N N 53 CBR N3 C4 doub N N 54 CBR C4 N4 sing N N 55 CBR C4 C5 sing N N 56 CBR N4 H41 sing N N 57 CBR N4 H42 sing N N 58 CBR "C2'" "C1'" sing N N 59 CBR "C2'" "C3'" sing N N 60 CBR "C2'" "H2'" sing N N 61 CBR "C2'" "H2''" sing N N 62 CBR "C5'" "C4'" sing N N 63 CBR "C5'" "H5'" sing N N 64 CBR "C5'" "H5''" sing N N 65 CBR "C4'" "O4'" sing N N 66 CBR "C4'" "C3'" sing N N 67 CBR "C4'" "H4'" sing N N 68 CBR "O4'" "C1'" sing N N 69 CBR "C1'" "H1'" sing N N 70 CBR "C3'" "O3'" sing N N 71 CBR "C3'" "H3'" sing N N 72 CBR "O3'" "HO3'" sing N N 73 CBR OP3 HOP3 sing N N 74 DC OP3 P sing N N 75 DC OP3 HOP3 sing N N 76 DC P OP1 doub N N 77 DC P OP2 sing N N 78 DC P "O5'" sing N N 79 DC OP2 HOP2 sing N N 80 DC "O5'" "C5'" sing N N 81 DC "C5'" "C4'" sing N N 82 DC "C5'" "H5'" sing N N 83 DC "C5'" "H5''" sing N N 84 DC "C4'" "O4'" sing N N 85 DC "C4'" "C3'" sing N N 86 DC "C4'" "H4'" sing N N 87 DC "O4'" "C1'" sing N N 88 DC "C3'" "O3'" sing N N 89 DC "C3'" "C2'" sing N N 90 DC "C3'" "H3'" sing N N 91 DC "O3'" "HO3'" sing N N 92 DC "C2'" "C1'" sing N N 93 DC "C2'" "H2'" sing N N 94 DC "C2'" "H2''" sing N N 95 DC "C1'" N1 sing N N 96 DC "C1'" "H1'" sing N N 97 DC N1 C2 sing N N 98 DC N1 C6 sing N N 99 DC C2 O2 doub N N 100 DC C2 N3 sing N N 101 DC N3 C4 doub N N 102 DC C4 N4 sing N N 103 DC C4 C5 sing N N 104 DC N4 H41 sing N N 105 DC N4 H42 sing N N 106 DC C5 C6 doub N N 107 DC C5 H5 sing N N 108 DC C6 H6 sing N N 109 DT OP3 P sing N N 110 DT OP3 HOP3 sing N N 111 DT P OP1 doub N N 112 DT P OP2 sing N N 113 DT P "O5'" sing N N 114 DT OP2 HOP2 sing N N 115 DT "O5'" "C5'" sing N N 116 DT "C5'" "C4'" sing N N 117 DT "C5'" "H5'" sing N N 118 DT "C5'" "H5''" sing N N 119 DT "C4'" "O4'" sing N N 120 DT "C4'" "C3'" sing N N 121 DT "C4'" "H4'" sing N N 122 DT "O4'" "C1'" sing N N 123 DT "C3'" "O3'" sing N N 124 DT "C3'" "C2'" sing N N 125 DT "C3'" "H3'" sing N N 126 DT "O3'" "HO3'" sing N N 127 DT "C2'" "C1'" sing N N 128 DT "C2'" "H2'" sing N N 129 DT "C2'" "H2''" sing N N 130 DT "C1'" N1 sing N N 131 DT "C1'" "H1'" sing N N 132 DT N1 C2 sing N N 133 DT N1 C6 sing N N 134 DT C2 O2 doub N N 135 DT C2 N3 sing N N 136 DT N3 C4 sing N N 137 DT N3 H3 sing N N 138 DT C4 O4 doub N N 139 DT C4 C5 sing N N 140 DT C5 C7 sing N N 141 DT C5 C6 doub N N 142 DT C7 H71 sing N N 143 DT C7 H72 sing N N 144 DT C7 H73 sing N N 145 DT C6 H6 sing N N 146 G OP3 P sing N N 147 G OP3 HOP3 sing N N 148 G P OP1 doub N N 149 G P OP2 sing N N 150 G P "O5'" sing N N 151 G OP2 HOP2 sing N N 152 G "O5'" "C5'" sing N N 153 G "C5'" "C4'" sing N N 154 G "C5'" "H5'" sing N N 155 G "C5'" "H5''" sing N N 156 G "C4'" "O4'" sing N N 157 G "C4'" "C3'" sing N N 158 G "C4'" "H4'" sing N N 159 G "O4'" "C1'" sing N N 160 G "C3'" "O3'" sing N N 161 G "C3'" "C2'" sing N N 162 G "C3'" "H3'" sing N N 163 G "O3'" "HO3'" sing N N 164 G "C2'" "O2'" sing N N 165 G "C2'" "C1'" sing N N 166 G "C2'" "H2'" sing N N 167 G "O2'" "HO2'" sing N N 168 G "C1'" N9 sing N N 169 G "C1'" "H1'" sing N N 170 G N9 C8 sing Y N 171 G N9 C4 sing Y N 172 G C8 N7 doub Y N 173 G C8 H8 sing N N 174 G N7 C5 sing Y N 175 G C5 C6 sing N N 176 G C5 C4 doub Y N 177 G C6 O6 doub N N 178 G C6 N1 sing N N 179 G N1 C2 sing N N 180 G N1 H1 sing N N 181 G C2 N2 sing N N 182 G C2 N3 doub N N 183 G N2 H21 sing N N 184 G N2 H22 sing N N 185 G N3 C4 sing N N 186 HOH O H1 sing N N 187 HOH O H2 sing N N 188 SPM N1 C2 sing N N 189 SPM N1 HN11 sing N N 190 SPM N1 HN12 sing N N 191 SPM C2 C3 sing N N 192 SPM C2 H21 sing N N 193 SPM C2 H22 sing N N 194 SPM C3 C4 sing N N 195 SPM C3 H31 sing N N 196 SPM C3 H32 sing N N 197 SPM C4 N5 sing N N 198 SPM C4 H41 sing N N 199 SPM C4 H42 sing N N 200 SPM N5 C6 sing N N 201 SPM N5 HN5 sing N N 202 SPM C6 C7 sing N N 203 SPM C6 H61 sing N N 204 SPM C6 H62 sing N N 205 SPM C7 C8 sing N N 206 SPM C7 H71 sing N N 207 SPM C7 H72 sing N N 208 SPM C8 C9 sing N N 209 SPM C8 H81 sing N N 210 SPM C8 H82 sing N N 211 SPM C9 N10 sing N N 212 SPM C9 H91 sing N N 213 SPM C9 H92 sing N N 214 SPM N10 C11 sing N N 215 SPM N10 HN0 sing N N 216 SPM C11 C12 sing N N 217 SPM C11 H111 sing N N 218 SPM C11 H112 sing N N 219 SPM C12 C13 sing N N 220 SPM C12 H121 sing N N 221 SPM C12 H122 sing N N 222 SPM C13 N14 sing N N 223 SPM C13 H131 sing N N 224 SPM C13 H132 sing N N 225 SPM N14 HN41 sing N N 226 SPM N14 HN42 sing N N 227 T2T P OP1 doub N N 228 T2T P OP2 sing N N 229 T2T P "O5'" sing N N 230 T2T P OP3 sing N N 231 T2T OP2 HOP2 sing N N 232 T2T C4 N3 sing N N 233 T2T C4 C5 sing N N 234 T2T C4 O4 doub N N 235 T2T N3 C2 sing N N 236 T2T N3 HN3 sing N N 237 T2T C2 N1 sing N N 238 T2T C2 O2 doub N N 239 T2T N1 C6 sing N N 240 T2T N1 "C1'" sing N N 241 T2T C6 C5 doub N N 242 T2T C6 H6 sing N N 243 T2T C5 C5A sing N N 244 T2T "O5'" "C5'" sing N N 245 T2T "C5'" C4X sing N N 246 T2T "C5'" "H5'" sing N N 247 T2T "C5'" "H5''" sing N N 248 T2T C4X O4X sing N N 249 T2T C4X C3X sing N N 250 T2T C4X H4X sing N N 251 T2T O4X C1X sing N N 252 T2T C1X N1B sing N N 253 T2T C1X C2X sing N N 254 T2T C1X H1X sing N N 255 T2T N1B C6B sing N N 256 T2T N1B C2B sing N N 257 T2T C6B C5B doub N N 258 T2T C6B H6B sing N N 259 T2T C2B O2B doub N N 260 T2T C2B N3B sing N N 261 T2T N3B C4B sing N N 262 T2T N3B H3B sing N N 263 T2T C4B O4B doub N N 264 T2T C4B C5B sing N N 265 T2T C5B CAB sing N N 266 T2T CAB HAB1 sing N N 267 T2T CAB HAB2 sing N N 268 T2T CAB HAB3 sing N N 269 T2T C2X C3X sing N N 270 T2T C2X H2X1 sing N N 271 T2T C2X H2X2 sing N N 272 T2T C3X CH2 sing N N 273 T2T C3X H3X sing N N 274 T2T CH2 CP sing N N 275 T2T CH2 HH21 sing N N 276 T2T CH2 HH22 sing N N 277 T2T CP C2P sing N N 278 T2T CP CX sing N N 279 T2T CP H1P sing N N 280 T2T C2P H2P1 sing N N 281 T2T C2P H2P2 sing N N 282 T2T C2P H2P3 sing N N 283 T2T CX OX doub N N 284 T2T CX N5X sing N N 285 T2T N5X C5X sing N N 286 T2T N5X H5X sing N N 287 T2T C5X "C4'" sing N N 288 T2T C5X H5X1 sing N N 289 T2T C5X H5X2 sing N N 290 T2T "C4'" "O4'" sing N N 291 T2T "C4'" "C3'" sing N N 292 T2T "C4'" "H4'" sing N N 293 T2T "O4'" "C1'" sing N N 294 T2T "C1'" "C2'" sing N N 295 T2T "C1'" "H1'" sing N N 296 T2T C5A H5A1 sing N N 297 T2T C5A H5A2 sing N N 298 T2T C5A H5A3 sing N N 299 T2T "C2'" "O2'" sing N N 300 T2T "C2'" "C3'" sing N N 301 T2T "C2'" "H2'" sing N N 302 T2T "O2'" CH3 sing N N 303 T2T CH3 HH31 sing N N 304 T2T CH3 HH32 sing N N 305 T2T CH3 HH33 sing N N 306 T2T "C3'" "O3'" sing N N 307 T2T "C3'" "H3'" sing N N 308 T2T "O3'" "HO3'" sing N N 309 T2T OP3 HOP3 sing N N 310 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 2GUN 'a-form double helix' 2GUN 'internal loop' # 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 DT 1 1_555 B A 9 1_555 0.318 -0.122 -0.181 -10.923 -4.004 -2.182 1 A_DT1:A18_B A 1 ? B 18 ? 20 1 1 A DT 2 1_555 B A 8 1_555 -0.185 -0.398 -0.153 2.979 -13.637 1.562 2 A_DT2:A17_B A 2 ? B 17 ? 20 1 1 A DC 3 1_555 B G 7 1_555 0.710 -0.410 0.331 0.716 -13.678 -5.097 3 A_DC3:G16_B A 3 ? B 16 ? 19 1 1 A CBR 5 1_555 B G 4 1_555 0.287 -0.064 -0.040 -0.584 -3.538 3.067 4 A_CBR6:G13_B A 6 ? B 13 ? 19 1 1 A DT 6 1_555 B A 3 1_555 0.167 -0.618 -0.030 6.649 -2.014 -0.246 5 A_DT7:A12_B A 7 ? B 12 ? 20 1 1 A DT 7 1_555 B A 2 1_555 0.313 -0.293 -0.116 10.386 -4.081 -1.292 6 A_DT8:A11_B A 8 ? B 11 ? 20 1 1 A DC 8 1_555 B G 1 1_555 0.590 -0.135 -0.093 16.492 -3.328 -1.212 7 A_DC9:G10_B A 9 ? B 10 ? 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 DT 1 1_555 B A 9 1_555 A DT 2 1_555 B A 8 1_555 0.119 -0.444 3.069 -0.859 10.399 29.900 -2.579 -0.365 2.760 19.425 1.605 31.629 1 AA_DT1DT2:A17A18_BB A 1 ? B 18 ? A 2 ? B 17 ? 1 A DT 2 1_555 B A 8 1_555 A DC 3 1_555 B G 7 1_555 -0.038 -1.524 3.451 -6.040 -3.500 38.009 -1.839 -0.744 3.537 -5.320 9.179 38.621 2 AA_DT2DC3:G16A17_BB A 2 ? B 17 ? A 3 ? B 16 ? 1 A CBR 5 1_555 B G 4 1_555 A DT 6 1_555 B A 3 1_555 0.208 -1.739 3.143 0.098 4.813 29.687 -4.259 -0.383 2.833 9.317 -0.190 30.067 3 AA_CBR6DT7:A12G13_BB A 6 ? B 13 ? A 7 ? B 12 ? 1 A DT 6 1_555 B A 3 1_555 A DT 7 1_555 B A 2 1_555 -0.534 -1.588 3.182 -0.348 1.662 29.635 -3.436 0.972 3.096 3.247 0.679 29.683 4 AA_DT7DT8:A11A12_BB A 7 ? B 12 ? A 8 ? B 11 ? 1 A DT 7 1_555 B A 2 1_555 A DC 8 1_555 B G 1 1_555 -0.019 -1.779 3.229 0.192 5.233 29.259 -4.502 0.074 2.874 10.255 -0.376 29.713 5 AA_DT8DC9:G10A11_BB A 8 ? B 11 ? A 9 ? B 10 ? # _atom_sites.entry_id 2GUN _atom_sites.fract_transf_matrix[1][1] 0.021173 _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] 0.021173 _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] 0.040876 _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 BR C CO H N O P # loop_