data_3GM7 # _entry.id 3GM7 # _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 3GM7 pdb_00003gm7 10.2210/pdb3gm7/pdb NDB AR0104 ? ? RCSB RCSB052034 ? ? WWPDB D_1000052034 ? ? # 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 2009-05-26 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-10-05 4 'Structure model' 1 3 2024-02-21 # _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' Other 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' # 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 # 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' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3GM7 _pdbx_database_status.recvd_initial_deposition_date 2009-03-13 _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.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1ZEV 'The refined model is based on a detwinned X-ray data deposited by Mooers et al. (PNAS 102, 16626-16631, 2005)' re-refinement PDB 3GLP '1.23 A resolution X-ray structure of (GCUGCUGC)2 (a shorter oligomer containing CUG repeats)' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kiliszek, A.' 1 'Kierzek, R.' 2 'Krzyzosiak, W.J.' 3 'Rypniewski, W.' 4 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary ;Structural insights into CUG repeats containing the 'stretched U-U wobble': implications for myotonic dystrophy. ; 'Nucleic Acids Res.' 37 4149 4156 2009 NARHAD UK 0305-1048 0389 ? 19433512 10.1093/nar/gkp350 original_data_1 'The structural basis of myotonic dystrophy from the crystal structure of CUG repeats.' Proc.Natl.Acad.Sci.USA 102 16626 16631 2005 PNASA6 US 0027-8424 0040 ? 16269545 10.1073/pnas.0505873102 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kiliszek, A.' 1 ? primary 'Kierzek, R.' 2 ? primary 'Krzyzosiak, W.J.' 3 ? primary 'Rypniewski, W.' 4 ? original_data_1 'Mooers, B.H.' 5 ? original_data_1 'Logue, J.S.' 6 ? original_data_1 'Berglund, J.A.' 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*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*GP*CP*UP*G)-3'" 5694.363 2 ? ? ? '(CUG)6 RNA duplex' 2 water nat water 18.015 52 ? ? ? ? # _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 CUGCUGCUGCUGCUGCUG _entity_poly.pdbx_seq_one_letter_code_can CUGCUGCUGCUGCUGCUG _entity_poly.pdbx_strand_id G,H _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id 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 U n 1 3 G n 1 4 C n 1 5 U n 1 6 G n 1 7 C n 1 8 U n 1 9 G n 1 10 C n 1 11 U n 1 12 G n 1 13 C n 1 14 U n 1 15 G n 1 16 C n 1 17 U n 1 18 G 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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'Synthetic mRNA with the sequence of the part of human mRNA' # 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 G 'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 HOH non-polymer . WATER ? 'H2 O' 18.015 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 C 1 1 1 C C G . n A 1 2 U 2 2 2 U U G . n A 1 3 G 3 3 3 G G G . n A 1 4 C 4 4 4 C C G . n A 1 5 U 5 5 5 U U G . n A 1 6 G 6 6 6 G G G . n A 1 7 C 7 7 7 C C G . n A 1 8 U 8 8 8 U U G . n A 1 9 G 9 9 9 G G G . n A 1 10 C 10 10 10 C C G . n A 1 11 U 11 11 11 U U G . n A 1 12 G 12 12 12 G G G . n A 1 13 C 13 13 13 C C G . n A 1 14 U 14 14 14 U U G . n A 1 15 G 15 15 15 G G G . n A 1 16 C 16 16 16 C C G . n A 1 17 U 17 17 17 U U G . n A 1 18 G 18 18 18 G G G . n B 1 1 C 1 1 1 C C H . n B 1 2 U 2 2 2 U U H . n B 1 3 G 3 3 3 G G H . n B 1 4 C 4 4 4 C C H . n B 1 5 U 5 5 5 U U H . n B 1 6 G 6 6 6 G G H . n B 1 7 C 7 7 7 C C H . n B 1 8 U 8 8 8 U U H . n B 1 9 G 9 9 9 G G H . n B 1 10 C 10 10 10 C C H . n B 1 11 U 11 11 11 U U H . n B 1 12 G 12 12 12 G G H . n B 1 13 C 13 13 13 C C H . n B 1 14 U 14 14 14 U U H . n B 1 15 G 15 15 15 G G H . n B 1 16 C 16 16 16 C C H . n B 1 17 U 17 17 17 U U H . n B 1 18 G 18 18 18 G G H . 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 HOH 1 19 1 HOH HOH G . C 2 HOH 2 20 20 HOH HOH G . C 2 HOH 3 21 21 HOH HOH G . C 2 HOH 4 22 2 HOH HOH G . C 2 HOH 5 23 23 HOH HOH G . C 2 HOH 6 24 24 HOH HOH G . C 2 HOH 7 25 25 HOH HOH G . C 2 HOH 8 26 26 HOH HOH G . C 2 HOH 9 27 27 HOH HOH G . C 2 HOH 10 28 28 HOH HOH G . C 2 HOH 11 29 29 HOH HOH G . C 2 HOH 12 30 3 HOH HOH G . C 2 HOH 13 31 31 HOH HOH G . C 2 HOH 14 32 4 HOH HOH G . C 2 HOH 15 33 6 HOH HOH G . C 2 HOH 16 34 7 HOH HOH G . C 2 HOH 17 35 12 HOH HOH G . C 2 HOH 18 36 36 HOH HOH G . C 2 HOH 19 37 37 HOH HOH G . C 2 HOH 20 38 14 HOH HOH G . C 2 HOH 21 39 39 HOH HOH G . C 2 HOH 22 40 15 HOH HOH G . C 2 HOH 23 49 49 HOH HOH G . D 2 HOH 1 19 19 HOH HOH H . D 2 HOH 2 20 5 HOH HOH H . D 2 HOH 3 21 9 HOH HOH H . D 2 HOH 4 22 22 HOH HOH H . D 2 HOH 5 23 10 HOH HOH H . D 2 HOH 6 24 11 HOH HOH H . D 2 HOH 7 25 13 HOH HOH H . D 2 HOH 8 26 16 HOH HOH H . D 2 HOH 9 27 17 HOH HOH H . D 2 HOH 10 28 18 HOH HOH H . D 2 HOH 11 30 30 HOH HOH H . D 2 HOH 12 32 32 HOH HOH H . D 2 HOH 13 33 33 HOH HOH H . D 2 HOH 14 34 34 HOH HOH H . D 2 HOH 15 35 35 HOH HOH H . D 2 HOH 16 38 38 HOH HOH H . D 2 HOH 17 40 40 HOH HOH H . D 2 HOH 18 41 41 HOH HOH H . D 2 HOH 19 42 42 HOH HOH H . D 2 HOH 20 43 43 HOH HOH H . D 2 HOH 21 44 44 HOH HOH H . D 2 HOH 22 45 45 HOH HOH H . D 2 HOH 23 46 46 HOH HOH H . D 2 HOH 24 47 47 HOH HOH H . D 2 HOH 25 48 48 HOH HOH H . D 2 HOH 26 50 50 HOH HOH H . D 2 HOH 27 51 51 HOH HOH H . D 2 HOH 28 52 52 HOH HOH H . D 2 HOH 29 53 53 HOH HOH H . # _software.name SHELXL-97 _software.classification refinement _software.version . _software.citation_id ? _software.pdbx_ordinal 1 # _cell.entry_id 3GM7 _cell.length_a 39.102 _cell.length_b 39.102 _cell.length_c 141.277 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _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 3GM7 _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3GM7 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.83 _exptl_crystal.density_percent_sol 32.61 _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 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details 'MOPS, NaCl, MgCl2, MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K' _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 MOPS ? ? ? 1 2 1 'Sodium chloride' ? ? ? 1 3 1 'Magnesium chloride' ? ? ? 1 4 1 MPD ? ? ? 1 5 2 MOPS ? ? ? 1 6 2 'Sodium chloride' ? ? ? 1 7 2 'Magnesium chloride' ? ? ? 1 8 2 MPD ? ? ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l ? _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _refine.entry_id 3GM7 _refine.ls_d_res_high 1.58 _refine.ls_d_res_low 19.6 _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all 11009 _refine.ls_number_reflns_obs 9925 _refine.ls_number_reflns_R_free 1084 _refine.ls_percent_reflns_obs 99.6 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.227 _refine.ls_R_factor_R_work 0.219 _refine.ls_R_factor_R_free 0.262 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'PDB entry 1ZEV' _refine.pdbx_starting_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_stereochemistry_target_values ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_mean 33.8 _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.details 'AUTHORS STATE THAT ALL THE ATOMS THAT ARE LISTED IN REMARK 500 FIT WELL THE ELECTRON DENSITY.' _refine.B_iso_min ? _refine.B_iso_max ? _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.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_overall_ESU_R ? _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 750 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 52 _refine_hist.number_atoms_total 802 _refine_hist.d_res_high 1.58 _refine_hist.d_res_low 19.6 # 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 0.01 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 0.028 ? ? ? 'X-RAY DIFFRACTION' ? s_anti_bump_dis_restr 0.34 ? ? ? 'X-RAY DIFFRACTION' ? s_similar_dist 0.00 ? ? ? 'X-RAY DIFFRACTION' ? s_non_zero_chiral_vol 0.00 ? ? ? 'X-RAY DIFFRACTION' ? s_from_restr_planes 0.019 ? ? ? 'X-RAY DIFFRACTION' ? s_approx_iso_adps 0.074 ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 1.58 _refine_ls_shell.d_res_low 1.64 _refine_ls_shell.number_reflns_R_work ? _refine_ls_shell.R_factor_R_work 0.267 _refine_ls_shell.percent_reflns_obs 90.6 _refine_ls_shell.R_factor_R_free ? _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 103 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 1169 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 3GM7 _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 3GM7 _struct.title '1.58 A resolution X-ray structure of (CUG)6' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3GM7 _struct_keywords.pdbx_keywords RNA _struct_keywords.text 'stretched U-U wobble, RNA, myotonic dystrophy, CUG repeats' # 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 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3GM7 _struct_ref.pdbx_db_accession 3GM7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code CUGCUGCUGCUGCUGCUG _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # 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 3GM7 G 1 ? 18 ? 3GM7 1 ? 18 ? 1 18 2 1 3GM7 H 1 ? 18 ? 3GM7 1 ? 18 ? 1 18 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _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)' 1760 ? 1 MORE -15.2 ? 1 'SSA (A^2)' 6590 ? # _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 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 _struct_biol.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 hydrog1 hydrog ? ? A C 1 N3 ? ? ? 1_555 B G 18 N1 ? ? G C 1 H G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A C 1 N4 ? ? ? 1_555 B G 18 O6 ? ? G C 1 H G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A C 1 O2 ? ? ? 1_555 B G 18 N2 ? ? G C 1 H G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A U 2 O4 ? ? ? 1_555 B U 17 N3 ? ? G U 2 H U 17 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog5 hydrog ? ? A G 3 N1 ? ? ? 1_555 B C 16 N3 ? ? G G 3 H C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A G 3 N2 ? ? ? 1_555 B C 16 O2 ? ? G G 3 H C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A G 3 O6 ? ? ? 1_555 B C 16 N4 ? ? G G 3 H C 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A C 4 N3 ? ? ? 1_555 B G 15 N1 ? ? G C 4 H G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A C 4 N4 ? ? ? 1_555 B G 15 O6 ? ? G C 4 H G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A C 4 O2 ? ? ? 1_555 B G 15 N2 ? ? G C 4 H G 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A U 5 N3 ? ? ? 1_555 B U 14 O4 ? ? G U 5 H U 14 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog12 hydrog ? ? A G 6 N1 ? ? ? 1_555 B C 13 N3 ? ? G G 6 H C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A G 6 N2 ? ? ? 1_555 B C 13 O2 ? ? G G 6 H C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A G 6 O6 ? ? ? 1_555 B C 13 N4 ? ? G G 6 H C 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 12 N1 ? ? G C 7 H G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 12 O6 ? ? G C 7 H G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 12 N2 ? ? G C 7 H G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A U 8 O4 ? ? ? 1_555 B U 11 N3 ? ? G U 8 H U 11 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog19 hydrog ? ? A G 9 N1 ? ? ? 1_555 B C 10 N3 ? ? G G 9 H C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A G 9 N2 ? ? ? 1_555 B C 10 O2 ? ? G G 9 H C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A G 9 O6 ? ? ? 1_555 B C 10 N4 ? ? G G 9 H C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A C 10 N3 ? ? ? 1_555 B G 9 N1 ? ? G C 10 H G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A C 10 N4 ? ? ? 1_555 B G 9 O6 ? ? G C 10 H G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A C 10 O2 ? ? ? 1_555 B G 9 N2 ? ? G C 10 H G 9 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A U 11 N3 ? ? ? 1_555 B U 8 O4 ? ? G U 11 H U 8 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog26 hydrog ? ? A G 12 N1 ? ? ? 1_555 B C 7 N3 ? ? G G 12 H C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A G 12 N2 ? ? ? 1_555 B C 7 O2 ? ? G G 12 H C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A G 12 O6 ? ? ? 1_555 B C 7 N4 ? ? G G 12 H C 7 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A C 13 N3 ? ? ? 1_555 B G 6 N1 ? ? G C 13 H G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A C 13 N4 ? ? ? 1_555 B G 6 O6 ? ? G C 13 H G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A C 13 O2 ? ? ? 1_555 B G 6 N2 ? ? G C 13 H G 6 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A U 14 N3 ? ? ? 1_555 B U 5 O4 ? ? G U 14 H U 5 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog33 hydrog ? ? A G 15 N1 ? ? ? 1_555 B C 4 N3 ? ? G G 15 H C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog34 hydrog ? ? A G 15 N2 ? ? ? 1_555 B C 4 O2 ? ? G G 15 H C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog35 hydrog ? ? A G 15 O6 ? ? ? 1_555 B C 4 N4 ? ? G G 15 H C 4 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog36 hydrog ? ? A C 16 N3 ? ? ? 1_555 B G 3 N1 ? ? G C 16 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog37 hydrog ? ? A C 16 N4 ? ? ? 1_555 B G 3 O6 ? ? G C 16 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog38 hydrog ? ? A C 16 O2 ? ? ? 1_555 B G 3 N2 ? ? G C 16 H G 3 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog39 hydrog ? ? A U 17 N3 ? ? ? 1_555 B U 2 O4 ? ? G U 17 H U 2 1_555 ? ? ? ? ? ? 'U-U MISPAIR' ? ? ? hydrog40 hydrog ? ? A G 18 N1 ? ? ? 1_555 B C 1 N3 ? ? G G 18 H C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog41 hydrog ? ? A G 18 N2 ? ? ? 1_555 B C 1 O2 ? ? G G 18 H C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog42 hydrog ? ? A G 18 O6 ? ? ? 1_555 B C 1 N4 ? ? G G 18 H C 1 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # _struct_conn_type.id hydrog _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O3'" G C 1 ? ? P G U 2 ? ? OP1 G U 2 ? ? 91.63 105.20 -13.57 2.20 Y 2 1 "O5'" G U 2 ? ? P G U 2 ? ? OP1 G U 2 ? ? 123.55 110.70 12.85 1.20 N 3 1 N3 G U 2 ? ? C4 G U 2 ? ? O4 G U 2 ? ? 114.86 119.40 -4.54 0.70 N 4 1 C5 G U 2 ? ? C4 G U 2 ? ? O4 G U 2 ? ? 129.93 125.90 4.03 0.60 N 5 1 N1 G G 3 ? ? C6 G G 3 ? ? O6 G G 3 ? ? 123.76 119.90 3.86 0.60 N 6 1 "C3'" G G 3 ? ? "O3'" G G 3 ? ? P G C 4 ? ? 127.00 119.70 7.30 1.20 Y 7 1 "O5'" G U 5 ? ? P G U 5 ? ? OP2 G U 5 ? ? 91.30 105.70 -14.40 0.90 N 8 1 C2 G U 5 ? ? N3 G U 5 ? ? C4 G U 5 ? ? 131.29 127.00 4.29 0.60 N 9 1 C5 G U 5 ? ? C6 G U 5 ? ? N1 G U 5 ? ? 127.09 122.70 4.39 0.50 N 10 1 "O5'" G G 6 ? ? P G G 6 ? ? OP2 G G 6 ? ? 97.25 105.70 -8.45 0.90 N 11 1 N3 G G 6 ? ? C4 G G 6 ? ? C5 G G 6 ? ? 132.54 128.60 3.94 0.50 N 12 1 N3 G C 7 ? ? C4 G C 7 ? ? C5 G C 7 ? ? 118.34 121.90 -3.56 0.40 N 13 1 "C3'" G C 7 ? ? "O3'" G C 7 ? ? P G U 8 ? ? 110.90 119.70 -8.80 1.20 Y 14 1 "O3'" G C 7 ? ? P G U 8 ? ? OP1 G U 8 ? ? 125.34 110.50 14.84 1.10 Y 15 1 "O5'" G U 8 ? ? P G U 8 ? ? OP1 G U 8 ? ? 96.74 105.70 -8.96 0.90 N 16 1 N3 G U 8 ? ? C2 G U 8 ? ? O2 G U 8 ? ? 126.44 122.20 4.24 0.70 N 17 1 "O5'" G G 9 ? ? P G G 9 ? ? OP1 G G 9 ? ? 94.95 105.70 -10.75 0.90 N 18 1 C6 G G 9 ? ? N1 G G 9 ? ? C2 G G 9 ? ? 129.09 125.10 3.99 0.60 N 19 1 N3 G G 9 ? ? C4 G G 9 ? ? C5 G G 9 ? ? 132.74 128.60 4.14 0.50 N 20 1 N3 G G 9 ? ? C4 G G 9 ? ? N9 G G 9 ? ? 122.23 126.00 -3.77 0.60 N 21 1 N1 G U 11 ? ? C2 G U 11 ? ? O2 G U 11 ? ? 116.89 122.80 -5.91 0.70 N 22 1 N3 G U 11 ? ? C2 G U 11 ? ? O2 G U 11 ? ? 127.16 122.20 4.96 0.70 N 23 1 N3 G U 11 ? ? C4 G U 11 ? ? O4 G U 11 ? ? 125.81 119.40 6.41 0.70 N 24 1 C5 G U 11 ? ? C4 G U 11 ? ? O4 G U 11 ? ? 117.05 125.90 -8.85 0.60 N 25 1 "O3'" G U 11 ? ? P G G 12 ? ? OP2 G G 12 ? ? 117.34 110.50 6.84 1.10 Y 26 1 "O5'" G G 12 ? ? P G G 12 ? ? OP2 G G 12 ? ? 96.25 105.70 -9.45 0.90 N 27 1 N1 G G 12 ? ? C6 G G 12 ? ? O6 G G 12 ? ? 124.08 119.90 4.18 0.60 N 28 1 C5 G G 12 ? ? C6 G G 12 ? ? O6 G G 12 ? ? 123.32 128.60 -5.28 0.60 N 29 1 "O3'" G G 12 ? ? P G C 13 ? ? OP2 G C 13 ? ? 124.20 110.50 13.70 1.10 Y 30 1 "O5'" G C 13 ? ? P G C 13 ? ? OP2 G C 13 ? ? 86.70 105.70 -19.00 0.90 N 31 1 C6 G G 15 ? ? N1 G G 15 ? ? C2 G G 15 ? ? 130.54 125.10 5.44 0.60 N 32 1 N3 G G 15 ? ? C4 G G 15 ? ? C5 G G 15 ? ? 132.97 128.60 4.37 0.50 N 33 1 C4 G G 15 ? ? C5 G G 15 ? ? N7 G G 15 ? ? 113.91 110.80 3.11 0.40 N 34 1 N9 G G 15 ? ? C4 G G 15 ? ? C5 G G 15 ? ? 102.87 105.40 -2.53 0.40 N 35 1 N1 G G 15 ? ? C6 G G 15 ? ? O6 G G 15 ? ? 126.71 119.90 6.81 0.60 N 36 1 C5 G G 15 ? ? C6 G G 15 ? ? O6 G G 15 ? ? 124.46 128.60 -4.14 0.60 N 37 1 "O5'" G C 16 ? ? P G C 16 ? ? OP2 G C 16 ? ? 92.71 105.70 -12.99 0.90 N 38 1 "O5'" G U 17 ? ? P G U 17 ? ? OP2 G U 17 ? ? 98.70 105.70 -7.00 0.90 N 39 1 N1 G U 17 ? ? C2 G U 17 ? ? N3 G U 17 ? ? 118.75 114.90 3.85 0.60 N 40 1 C2 G U 17 ? ? N3 G U 17 ? ? C4 G U 17 ? ? 121.42 127.00 -5.58 0.60 N 41 1 C5 G U 17 ? ? C4 G U 17 ? ? O4 G U 17 ? ? 120.15 125.90 -5.75 0.60 N 42 1 "O5'" H U 2 ? ? P H U 2 ? ? OP2 H U 2 ? ? 88.93 105.70 -16.77 0.90 N 43 1 N3 H C 4 ? ? C4 H C 4 ? ? C5 H C 4 ? ? 119.23 121.90 -2.67 0.40 N 44 1 C5 H C 4 ? ? C4 H C 4 ? ? N4 H C 4 ? ? 125.58 120.20 5.38 0.70 N 45 1 "C5'" H U 5 ? ? "C4'" H U 5 ? ? "O4'" H U 5 ? ? 115.79 109.80 5.99 0.90 N 46 1 "O4'" H U 5 ? ? "C1'" H U 5 ? ? N1 H U 5 ? ? 115.53 108.50 7.03 0.70 N 47 1 C5 H U 5 ? ? C4 H U 5 ? ? O4 H U 5 ? ? 130.11 125.90 4.21 0.60 N 48 1 C8 H G 6 ? ? N9 H G 6 ? ? C4 H G 6 ? ? 109.17 106.40 2.77 0.40 N 49 1 N1 H G 6 ? ? C6 H G 6 ? ? O6 H G 6 ? ? 123.81 119.90 3.91 0.60 N 50 1 C5 H G 6 ? ? C6 H G 6 ? ? O6 H G 6 ? ? 124.66 128.60 -3.94 0.60 N 51 1 N3 H U 8 ? ? C4 H U 8 ? ? O4 H U 8 ? ? 112.80 119.40 -6.60 0.70 N 52 1 C5 H U 8 ? ? C4 H U 8 ? ? O4 H U 8 ? ? 130.78 125.90 4.88 0.60 N 53 1 "O5'" H C 10 ? ? P H C 10 ? ? OP2 H C 10 ? ? 119.18 110.70 8.48 1.20 N 54 1 "O3'" H G 12 ? ? P H C 13 ? ? OP2 H C 13 ? ? 80.71 105.20 -24.49 2.20 Y 55 1 "O5'" H C 13 ? ? P H C 13 ? ? OP2 H C 13 ? ? 123.16 110.70 12.46 1.20 N 56 1 "O3'" H C 13 ? ? P H U 14 ? ? OP2 H U 14 ? ? 122.36 110.50 11.86 1.10 Y 57 1 "O5'" H U 14 ? ? P H U 14 ? ? OP2 H U 14 ? ? 97.73 105.70 -7.97 0.90 N 58 1 "O5'" H C 16 ? ? P H C 16 ? ? OP1 H C 16 ? ? 119.65 110.70 8.95 1.20 N 59 1 N3 H U 17 ? ? C4 H U 17 ? ? O4 H U 17 ? ? 123.65 119.40 4.25 0.70 N 60 1 C5 H U 17 ? ? C4 H U 17 ? ? O4 H U 17 ? ? 120.28 125.90 -5.62 0.60 N 61 1 "O5'" H G 18 ? ? P H G 18 ? ? OP2 H G 18 ? ? 99.77 105.70 -5.93 0.90 N # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 G HOH 20 ? C HOH . 2 1 G HOH 21 ? C HOH . 3 1 G HOH 38 ? C HOH . 4 1 G HOH 39 ? C HOH . 5 1 G HOH 40 ? C HOH . 6 1 H HOH 20 ? D HOH . 7 1 H HOH 28 ? D HOH . # _pdbx_database_remark.id 0 _pdbx_database_remark.text ;THIS ENTRY (3GM7) REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL STRUCTURE (PDB ID 1ZEV) DETERMINED BY THE AUTHORS: B.H. MOOERS, J.S. LOGUE, J.A. BERGLUND ; # 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 G OP3 O N N 36 G P P N N 37 G OP1 O N N 38 G OP2 O N N 39 G "O5'" O N N 40 G "C5'" C N N 41 G "C4'" C N R 42 G "O4'" O N N 43 G "C3'" C N S 44 G "O3'" O N N 45 G "C2'" C N R 46 G "O2'" O N N 47 G "C1'" C N R 48 G N9 N Y N 49 G C8 C Y N 50 G N7 N Y N 51 G C5 C Y N 52 G C6 C N N 53 G O6 O N N 54 G N1 N N N 55 G C2 C N N 56 G N2 N N N 57 G N3 N N N 58 G C4 C Y N 59 G HOP3 H N N 60 G HOP2 H N N 61 G "H5'" H N N 62 G "H5''" H N N 63 G "H4'" H N N 64 G "H3'" H N N 65 G "HO3'" H N N 66 G "H2'" H N N 67 G "HO2'" H N N 68 G "H1'" H N N 69 G H8 H N N 70 G H1 H N N 71 G H21 H N N 72 G H22 H N N 73 HOH O O N N 74 HOH H1 H N N 75 HOH H2 H N N 76 U OP3 O N N 77 U P P N N 78 U OP1 O N N 79 U OP2 O N N 80 U "O5'" O N N 81 U "C5'" C N N 82 U "C4'" C N R 83 U "O4'" O N N 84 U "C3'" C N S 85 U "O3'" O N N 86 U "C2'" C N R 87 U "O2'" O N N 88 U "C1'" C N R 89 U N1 N N N 90 U C2 C N N 91 U O2 O N N 92 U N3 N N N 93 U C4 C N N 94 U O4 O N N 95 U C5 C N N 96 U C6 C N N 97 U HOP3 H N N 98 U HOP2 H N N 99 U "H5'" H N N 100 U "H5''" H N N 101 U "H4'" H N N 102 U "H3'" H N N 103 U "HO3'" H N N 104 U "H2'" H N N 105 U "HO2'" H N N 106 U "H1'" H N N 107 U H3 H N N 108 U H5 H N N 109 U H6 H N N 110 # 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 U OP3 P sing N N 79 U OP3 HOP3 sing N N 80 U P OP1 doub N N 81 U P OP2 sing N N 82 U P "O5'" sing N N 83 U OP2 HOP2 sing N N 84 U "O5'" "C5'" sing N N 85 U "C5'" "C4'" sing N N 86 U "C5'" "H5'" sing N N 87 U "C5'" "H5''" sing N N 88 U "C4'" "O4'" sing N N 89 U "C4'" "C3'" sing N N 90 U "C4'" "H4'" sing N N 91 U "O4'" "C1'" sing N N 92 U "C3'" "O3'" sing N N 93 U "C3'" "C2'" sing N N 94 U "C3'" "H3'" sing N N 95 U "O3'" "HO3'" sing N N 96 U "C2'" "O2'" sing N N 97 U "C2'" "C1'" sing N N 98 U "C2'" "H2'" sing N N 99 U "O2'" "HO2'" sing N N 100 U "C1'" N1 sing N N 101 U "C1'" "H1'" sing N N 102 U N1 C2 sing N N 103 U N1 C6 sing N N 104 U C2 O2 doub N N 105 U C2 N3 sing N N 106 U N3 C4 sing N N 107 U N3 H3 sing N N 108 U C4 O4 doub N N 109 U C4 C5 sing N N 110 U C5 C6 doub N N 111 U C5 H5 sing N N 112 U C6 H6 sing N N 113 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3GM7 'double helix' 3GM7 'a-form double helix' 3GM7 '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 B G 18 1_555 -1.439 -0.203 -0.353 11.127 -19.158 -13.193 1 G_C1:G18_H G 1 ? H 18 ? 19 1 1 A U 2 1_555 B U 17 1_555 -2.320 -1.376 -0.182 0.885 -9.984 -21.231 2 G_U2:U17_H G 2 ? H 17 ? ? ? 1 A G 3 1_555 B C 16 1_555 1.165 -0.446 0.223 -0.677 -7.192 -6.767 3 G_G3:C16_H G 3 ? H 16 ? 19 1 1 A C 4 1_555 B G 15 1_555 0.216 -0.347 0.022 -0.942 -7.694 0.766 4 G_C4:G15_H G 4 ? H 15 ? 19 1 1 A U 5 1_555 B U 14 1_555 2.268 -1.166 -0.357 -6.026 -15.032 -22.062 5 G_U5:U14_H G 5 ? H 14 ? ? ? 1 A G 6 1_555 B C 13 1_555 0.080 -0.353 0.358 -3.329 -10.685 -3.508 6 G_G6:C13_H G 6 ? H 13 ? 19 1 1 A C 7 1_555 B G 12 1_555 0.139 -0.430 0.300 2.582 -9.009 -1.457 7 G_C7:G12_H G 7 ? H 12 ? 19 1 1 A U 8 1_555 B U 11 1_555 -2.504 -1.479 0.452 2.362 -11.273 -21.024 8 G_U8:U11_H G 8 ? H 11 ? ? ? 1 A G 9 1_555 B C 10 1_555 -0.143 -0.429 0.241 1.622 -10.123 -0.716 9 G_G9:C10_H G 9 ? H 10 ? 19 1 1 A C 10 1_555 B G 9 1_555 0.312 -0.377 0.167 -5.354 -14.661 1.645 10 G_C10:G9_H G 10 ? H 9 ? 19 1 1 A U 11 1_555 B U 8 1_555 1.714 -1.287 -0.437 -1.859 -12.204 -11.930 11 G_U11:U8_H G 11 ? H 8 ? ? ? 1 A G 12 1_555 B C 7 1_555 -0.304 -0.437 -0.171 -7.688 -6.448 -5.127 12 G_G12:C7_H G 12 ? H 7 ? 19 1 1 A C 13 1_555 B G 6 1_555 -0.223 -0.130 0.122 -2.445 -2.512 1.847 13 G_C13:G6_H G 13 ? H 6 ? 19 1 1 A U 14 1_555 B U 5 1_555 2.647 -1.288 -0.233 6.921 -11.442 -28.007 14 G_U14:U5_H G 14 ? H 5 ? ? ? 1 A G 15 1_555 B C 4 1_555 -0.087 -0.467 0.188 2.549 -9.310 -2.206 15 G_G15:C4_H G 15 ? H 4 ? 19 1 1 A C 16 1_555 B G 3 1_555 0.126 -0.034 0.160 2.257 -9.959 2.033 16 G_C16:G3_H G 16 ? H 3 ? 19 1 1 A U 17 1_555 B U 2 1_555 2.044 -1.107 -0.152 -4.689 -14.810 -14.803 17 G_U17:U2_H G 17 ? H 2 ? ? ? 1 A G 18 1_555 B C 1 1_555 -0.204 -0.322 0.170 2.013 -7.029 1.252 18 G_G18:C1_H G 18 ? H 1 ? 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 B G 18 1_555 A U 2 1_555 B U 17 1_555 -0.114 -2.329 3.562 -5.650 15.951 30.001 -6.255 -0.626 2.084 28.172 9.979 34.348 1 GG_C1U2:U17G18_HH G 1 ? H 18 ? G 2 ? H 17 ? 1 A U 2 1_555 B U 17 1_555 A G 3 1_555 B C 16 1_555 0.425 -1.600 3.402 -5.232 5.819 50.439 -2.267 -0.860 3.155 6.781 6.098 51.003 2 GG_U2G3:C16U17_HH G 2 ? H 17 ? G 3 ? H 16 ? 1 A G 3 1_555 B C 16 1_555 A C 4 1_555 B G 15 1_555 0.075 -2.141 3.173 3.883 8.876 27.217 -6.020 0.603 2.360 18.147 -7.940 28.859 3 GG_G3C4:G15C16_HH G 3 ? H 16 ? G 4 ? H 15 ? 1 A C 4 1_555 B G 15 1_555 A U 5 1_555 B U 14 1_555 -1.133 -1.706 3.424 3.625 14.797 42.434 -3.504 1.794 2.618 19.698 -4.826 44.967 4 GG_C4U5:U14G15_HH G 4 ? H 15 ? G 5 ? H 14 ? 1 A U 5 1_555 B U 14 1_555 A G 6 1_555 B C 13 1_555 0.831 -2.304 3.064 -1.781 10.870 21.056 -8.332 -2.467 1.617 27.456 4.499 23.734 5 GG_U5G6:C13U14_HH G 5 ? H 14 ? G 6 ? H 13 ? 1 A G 6 1_555 B C 13 1_555 A C 7 1_555 B G 12 1_555 0.303 -1.830 3.027 2.266 3.266 34.065 -3.566 -0.193 2.858 5.551 -3.852 34.289 6 GG_G6C7:G12C13_HH G 6 ? H 13 ? G 7 ? H 12 ? 1 A C 7 1_555 B G 12 1_555 A U 8 1_555 B U 11 1_555 -0.557 -1.804 3.099 -1.436 3.560 19.729 -6.657 0.995 2.766 10.265 4.141 20.096 7 GG_C7U8:U11G12_HH G 7 ? H 12 ? G 8 ? H 11 ? 1 A U 8 1_555 B U 11 1_555 A G 9 1_555 B C 10 1_555 1.344 -1.917 3.205 2.222 12.882 47.434 -3.197 -1.464 2.686 15.668 -2.702 49.101 8 GG_U8G9:C10U11_HH G 8 ? H 11 ? G 9 ? H 10 ? 1 A G 9 1_555 B C 10 1_555 A C 10 1_555 B G 9 1_555 -0.011 -1.636 3.411 -1.031 5.610 33.978 -3.639 -0.142 3.109 9.517 1.749 34.440 9 GG_G9C10:G9C10_HH G 9 ? H 10 ? G 10 ? H 9 ? 1 A C 10 1_555 B G 9 1_555 A U 11 1_555 B U 8 1_555 -1.131 -1.344 3.252 4.761 13.806 40.236 -3.113 1.990 2.535 19.317 -6.661 42.701 10 GG_C10U11:U8G9_HH G 10 ? H 9 ? G 11 ? H 8 ? 1 A U 11 1_555 B U 8 1_555 A G 12 1_555 B C 7 1_555 0.768 -2.116 3.458 0.901 10.440 20.617 -8.605 -1.632 2.174 27.032 -2.332 23.101 11 GG_U11G12:C7U8_HH G 11 ? H 8 ? G 12 ? H 7 ? 1 A G 12 1_555 B C 7 1_555 A C 13 1_555 B G 6 1_555 0.730 -2.360 3.082 0.090 6.388 27.375 -6.154 -1.486 2.480 13.270 -0.186 28.097 12 GG_G12C13:G6C7_HH G 12 ? H 7 ? G 13 ? H 6 ? 1 A C 13 1_555 B G 6 1_555 A U 14 1_555 B U 5 1_555 -1.995 -1.798 3.100 -0.438 -0.528 44.604 -2.323 2.590 3.138 -0.696 0.577 44.609 13 GG_C13U14:U5G6_HH G 13 ? H 6 ? G 14 ? H 5 ? 1 A U 14 1_555 B U 5 1_555 A G 15 1_555 B C 4 1_555 0.742 -2.429 3.347 0.345 15.426 17.736 -9.903 -1.736 0.964 41.298 -0.923 23.468 14 GG_U14G15:C4U5_HH G 14 ? H 5 ? G 15 ? H 4 ? 1 A G 15 1_555 B C 4 1_555 A C 16 1_555 B G 3 1_555 0.227 -1.625 3.205 0.037 7.963 32.576 -4.028 -0.388 2.743 13.938 -0.065 33.510 15 GG_G15C16:G3C4_HH G 15 ? H 4 ? G 16 ? H 3 ? 1 A C 16 1_555 B G 3 1_555 A U 17 1_555 B U 2 1_555 -0.817 -1.649 3.471 4.686 14.202 42.535 -3.405 1.480 2.714 18.892 -6.233 44.973 16 GG_C16U17:U2G3_HH G 16 ? H 3 ? G 17 ? H 2 ? 1 A U 17 1_555 B U 2 1_555 A G 18 1_555 B C 1 1_555 0.459 -1.768 2.882 -1.685 6.393 25.067 -5.378 -1.402 2.331 14.411 3.799 25.910 17 GG_U17G18:C1U2_HH G 17 ? H 2 ? G 18 ? H 1 ? # _atom_sites.entry_id 3GM7 _atom_sites.fract_transf_matrix[1][1] 0.025574 _atom_sites.fract_transf_matrix[1][2] 0.014765 _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] 0.029530 _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] 0.007078 _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 N O P # loop_