data_1DQH
# 
_entry.id   1DQH 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.385 
_audit_conform.dict_location   http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 
# 
loop_
_database_2.database_id 
_database_2.database_code 
_database_2.pdbx_database_accession 
_database_2.pdbx_DOI 
PDB   1DQH         pdb_00001dqh 10.2210/pdb1dqh/pdb 
NDB   AR0027       ?            ?                   
RCSB  RCSB010294   ?            ?                   
WWPDB D_1000010294 ?            ?                   
# 
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 2000-11-13 
2 'Structure model' 1 1 2008-04-27 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2012-07-25 
5 'Structure model' 1 4 2024-02-07 
# 
_pdbx_audit_revision_details.ordinal             1 
_pdbx_audit_revision_details.revision_ordinal    1 
_pdbx_audit_revision_details.data_content_type   'Structure model' 
_pdbx_audit_revision_details.provider            repository 
_pdbx_audit_revision_details.type                'Initial release' 
_pdbx_audit_revision_details.description         ? 
_pdbx_audit_revision_details.details             ? 
# 
loop_
_pdbx_audit_revision_group.ordinal 
_pdbx_audit_revision_group.revision_ordinal 
_pdbx_audit_revision_group.data_content_type 
_pdbx_audit_revision_group.group 
1 2 'Structure model' 'Version format compliance' 
2 3 'Structure model' 'Version format compliance' 
3 4 'Structure model' Other                       
4 5 'Structure model' 'Data collection'           
5 5 '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 5 'Structure model' chem_comp_atom 
2 5 'Structure model' chem_comp_bond 
3 5 '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 5 'Structure model' '_database_2.pdbx_DOI'                
2 5 'Structure model' '_database_2.pdbx_database_accession' 
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1DQH 
_pdbx_database_status.recvd_initial_deposition_date   2000-01-04 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    RCSB 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.SG_entry                        . 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.methods_development_category    ? 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_nmr_data            ? 
# 
_pdbx_database_related.db_name        PDB 
_pdbx_database_related.db_id          1DQF 
_pdbx_database_related.details        . 
_pdbx_database_related.content_type   unspecified 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Xiong, Y.'         1 
'Sundaralingam, M.' 2 
# 
_citation.id                        primary 
_citation.title                     'Two crystal forms of helix II of Xenopus laevis 5S rRNA with a cytosine bulge.' 
_citation.journal_abbrev            RNA 
_citation.journal_volume            6 
_citation.page_first                1316 
_citation.page_last                 1324 
_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   10999608 
_citation.pdbx_database_id_DOI      10.1017/S135583820000090X 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Xiong, Y.'         1 ? 
primary 'Sundaralingam, M.' 2 ? 
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1 polymer syn 
;RNA (5'-R(*GP*CP*CP*AP*CP*CP*CP*UP*G)-3')
;
2806.735 1  ? ? 'HELIX II OF 5S RRNA' ? 
2 polymer syn 
;RNA (5'-R(*CP*AP*GP*GP*GP*UP*CP*GP*GP*C)-3')
;
3231.988 1  ? ? ?                     ? 
3 water   nat water                                          18.015   57 ? ? ?                     ? 
# 
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 polyribonucleotide no no GCCACCCUG  GCCACCCUG  A ? 
2 polyribonucleotide no no CAGGGUCGGC CAGGGUCGGC B ? 
# 
_pdbx_entity_nonpoly.entity_id   3 
_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  G n 
1 2  C n 
1 3  C n 
1 4  A n 
1 5  C n 
1 6  C n 
1 7  C n 
1 8  U n 
1 9  G n 
2 1  C n 
2 2  A n 
2 3  G n 
2 4  G n 
2 5  G n 
2 6  U n 
2 7  C n 
2 8  G n 
2 9  G n 
2 10 C 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 
A   'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 
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  G 1  1  1  G G 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  A 4  4  4  A A A . n 
A 1 5  C 5  5  5  C C A . n 
A 1 6  C 6  6  6  C C A . n 
A 1 7  C 7  7  7  C C A . n 
A 1 8  U 8  8  8  U U A . n 
A 1 9  G 9  9  9  G G A . n 
B 2 1  C 1  10 10 C C B . n 
B 2 2  A 2  11 11 A A B . n 
B 2 3  G 3  12 12 G G B . n 
B 2 4  G 4  13 13 G G B . n 
B 2 5  G 5  14 14 G G B . n 
B 2 6  U 6  15 15 U U B . n 
B 2 7  C 7  16 16 C C B . n 
B 2 8  G 8  17 17 G G B . n 
B 2 9  G 9  18 18 G G B . n 
B 2 10 C 10 19 19 C C 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 HOH 1  103 103 HOH WAT A . 
C 3 HOH 2  107 107 HOH WAT A . 
C 3 HOH 3  108 108 HOH WAT A . 
C 3 HOH 4  124 124 HOH WAT A . 
C 3 HOH 5  126 126 HOH WAT A . 
C 3 HOH 6  127 127 HOH WAT A . 
C 3 HOH 7  131 131 HOH WAT A . 
C 3 HOH 8  132 132 HOH WAT A . 
C 3 HOH 9  133 133 HOH WAT A . 
C 3 HOH 10 135 135 HOH WAT A . 
C 3 HOH 11 140 140 HOH WAT A . 
C 3 HOH 12 141 141 HOH WAT A . 
C 3 HOH 13 142 142 HOH WAT A . 
C 3 HOH 14 145 145 HOH WAT A . 
C 3 HOH 15 151 151 HOH WAT A . 
C 3 HOH 16 153 153 HOH WAT A . 
C 3 HOH 17 155 155 HOH WAT A . 
C 3 HOH 18 156 156 HOH WAT A . 
D 3 HOH 1  100 100 HOH WAT B . 
D 3 HOH 2  101 101 HOH WAT B . 
D 3 HOH 3  102 102 HOH WAT B . 
D 3 HOH 4  104 104 HOH WAT B . 
D 3 HOH 5  105 105 HOH WAT B . 
D 3 HOH 6  106 106 HOH WAT B . 
D 3 HOH 7  109 109 HOH WAT B . 
D 3 HOH 8  110 110 HOH WAT B . 
D 3 HOH 9  111 111 HOH WAT B . 
D 3 HOH 10 112 112 HOH WAT B . 
D 3 HOH 11 113 113 HOH WAT B . 
D 3 HOH 12 114 114 HOH WAT B . 
D 3 HOH 13 115 115 HOH WAT B . 
D 3 HOH 14 116 116 HOH WAT B . 
D 3 HOH 15 117 117 HOH WAT B . 
D 3 HOH 16 118 118 HOH WAT B . 
D 3 HOH 17 119 119 HOH WAT B . 
D 3 HOH 18 120 120 HOH WAT B . 
D 3 HOH 19 121 121 HOH WAT B . 
D 3 HOH 20 122 122 HOH WAT B . 
D 3 HOH 21 123 123 HOH WAT B . 
D 3 HOH 22 125 125 HOH WAT B . 
D 3 HOH 23 128 128 HOH WAT B . 
D 3 HOH 24 129 129 HOH WAT B . 
D 3 HOH 25 130 130 HOH WAT B . 
D 3 HOH 26 134 134 HOH WAT B . 
D 3 HOH 27 136 136 HOH WAT B . 
D 3 HOH 28 137 137 HOH WAT B . 
D 3 HOH 29 138 138 HOH WAT B . 
D 3 HOH 30 139 139 HOH WAT B . 
D 3 HOH 31 143 143 HOH WAT B . 
D 3 HOH 32 144 144 HOH WAT B . 
D 3 HOH 33 146 146 HOH WAT B . 
D 3 HOH 34 147 147 HOH WAT B . 
D 3 HOH 35 148 148 HOH WAT B . 
D 3 HOH 36 149 149 HOH WAT B . 
D 3 HOH 37 150 150 HOH WAT B . 
D 3 HOH 38 152 152 HOH WAT B . 
D 3 HOH 39 154 154 HOH WAT B . 
# 
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           1DQH 
_cell.length_a           32.78 
_cell.length_b           32.78 
_cell.length_c           102.5 
_cell.angle_alpha        90.0 
_cell.angle_beta         90.0 
_cell.angle_gamma        90.0 
_cell.Z_PDB              8 
_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                         1DQH 
_symmetry.space_group_name_H-M             'P 43 21 2' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     tetragonal 
_symmetry.Int_Tables_number                96 
_symmetry.space_group_name_Hall            ? 
# 
_exptl.entry_id          1DQH 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_percent_sol   46.05 
_exptl_crystal.density_Matthews      2.28 
_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            298 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              6.0 
_exptl_crystal_grow.pdbx_details    'MGCL2, CACL2, CACODYLATE, MPD, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K' 
_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 MGCL2      ? ? ? 
1 2 1 CACL2      ? ? ? 
1 3 1 CACODYLATE ? ? ? 
1 4 1 MPD        ? ? ? 
1 5 2 MPD        ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           263 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               'IMAGE PLATE' 
_diffrn_detector.type                   'RIGAKU RAXIS IIC' 
_diffrn_detector.pdbx_collection_date   ? 
_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   1.5418 
_diffrn_radiation_wavelength.wt           1.0 
# 
_diffrn_source.diffrn_id                   1 
_diffrn_source.source                      'ROTATING ANODE' 
_diffrn_source.type                        'RIGAKU RU300' 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             1.5418 
_diffrn_source.pdbx_wavelength_list        ? 
# 
_reflns.entry_id                     1DQH 
_reflns.observed_criterion_sigma_I   1.0 
_reflns.observed_criterion_sigma_F   2.0 
_reflns.d_resolution_low             22.59 
_reflns.d_resolution_high            1.7 
_reflns.number_obs                   6070 
_reflns.number_all                   6696 
_reflns.percent_possible_obs         90.7 
_reflns.pdbx_Rmerge_I_obs            0.0790000 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        20.2 
_reflns.B_iso_Wilson_estimate        ? 
_reflns.pdbx_redundancy              4.9 
_reflns.R_free_details               ? 
_reflns.pdbx_chi_squared             ? 
_reflns.pdbx_scaling_rejects         ? 
_reflns.pdbx_ordinal                 1 
_reflns.pdbx_diffrn_id               1 
# 
_refine.entry_id                                 1DQH 
_refine.ls_number_reflns_obs                     6022 
_refine.ls_number_reflns_all                     6645 
_refine.pdbx_ls_sigma_I                          ? 
_refine.pdbx_ls_sigma_F                          2.0 
_refine.pdbx_data_cutoff_high_absF               ? 
_refine.pdbx_data_cutoff_low_absF                ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.ls_d_res_low                             10.0 
_refine.ls_d_res_high                            1.7 
_refine.ls_percent_reflns_obs                    90.6 
_refine.ls_R_factor_obs                          0.2020000 
_refine.ls_R_factor_all                          ? 
_refine.ls_R_factor_R_work                       0.2020000 
_refine.ls_R_factor_R_free                       0.2430000 
_refine.ls_R_factor_R_free_error                 ? 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 10.8 
_refine.ls_number_reflns_R_free                  653 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_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_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       CNS 
_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.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_overall_phase_error                 ? 
_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.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_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   399 
_refine_hist.pdbx_number_atoms_ligand         0 
_refine_hist.number_atoms_solvent             57 
_refine_hist.number_atoms_total               456 
_refine_hist.d_res_high                       1.7 
_refine_hist.d_res_low                        10.0 
# 
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                0.008 ? ? ? 'X-RAY DIFFRACTION' ? 
c_bond_d_na             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_bond_d_prot           ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d               ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d_na            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d_prot          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg             1.26  ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_na          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_prot        ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d      ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_na   ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_prot ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d      ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d_na   ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d_prot ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_mcbond_it             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_mcangle_it            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_scbond_it             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_scangle_it            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
# 
_database_PDB_matrix.entry_id          1DQH 
_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                  1DQH 
_struct.title                     
'CRYSTAL STRUCTURE OF HELIX II OF THE X. LAEVIS SOMATIC 5S RRNA WITH A CYTOSINE BULGE IN TWO CONFORMATIONS' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1DQH 
_struct_keywords.pdbx_keywords   RNA 
_struct_keywords.text            'DOUBLE HELIX, CYTOSINE BULGE, 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 3 ? 
D N N 3 ? 
# 
loop_
_struct_ref.id 
_struct_ref.entity_id 
_struct_ref.db_name 
_struct_ref.db_code 
_struct_ref.pdbx_db_accession 
_struct_ref.pdbx_align_begin 
_struct_ref.pdbx_seq_one_letter_code 
_struct_ref.pdbx_db_isoform 
1 1 PDB 1DQH 1DQH ? ? ? 
2 2 PDB 1DQH 1DQH ? ? ? 
# 
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 1DQH A 1 ? 9  ? 1DQH 1  ? 9  ? 1  9  
2 2 1DQH B 1 ? 10 ? 1DQH 10 ? 19 ? 10 19 
# 
_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 
# 
_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.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 
hydrog1  hydrog ? ? A G 1 N1 ? ? ? 1_555 B C 10 N3 ? ? A G 1 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog2  hydrog ? ? A G 1 N2 ? ? ? 1_555 B C 10 O2 ? ? A G 1 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog3  hydrog ? ? A G 1 O6 ? ? ? 1_555 B C 10 N4 ? ? A G 1 B C 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog4  hydrog ? ? A C 2 N3 ? ? ? 1_555 B G 9  N1 ? ? A C 2 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog5  hydrog ? ? A C 2 N4 ? ? ? 1_555 B G 9  O6 ? ? A C 2 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog6  hydrog ? ? A C 2 O2 ? ? ? 1_555 B G 9  N2 ? ? A C 2 B G 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog7  hydrog ? ? A C 3 N3 ? ? ? 1_555 B G 8  N1 ? ? A C 3 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog8  hydrog ? ? A C 3 N4 ? ? ? 1_555 B G 8  O6 ? ? A C 3 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog9  hydrog ? ? A C 3 O2 ? ? ? 1_555 B G 8  N2 ? ? A C 3 B G 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog10 hydrog ? ? A A 4 N1 ? ? ? 1_555 B U 6  N3 ? ? A A 4 B U 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog11 hydrog ? ? A A 4 N6 ? ? ? 1_555 B U 6  O4 ? ? A A 4 B U 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog12 hydrog ? ? A C 5 N3 ? ? ? 1_555 B G 5  N1 ? ? A C 5 B G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog13 hydrog ? ? A C 5 N4 ? ? ? 1_555 B G 5  O6 ? ? A C 5 B G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog14 hydrog ? ? A C 5 O2 ? ? ? 1_555 B G 5  N2 ? ? A C 5 B G 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog15 hydrog ? ? A C 6 N3 ? ? ? 1_555 B G 4  N1 ? ? A C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog16 hydrog ? ? A C 6 N4 ? ? ? 1_555 B G 4  O6 ? ? A C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog17 hydrog ? ? A C 6 O2 ? ? ? 1_555 B G 4  N2 ? ? A C 6 B G 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog18 hydrog ? ? A C 7 N3 ? ? ? 1_555 B G 3  N1 ? ? A C 7 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog19 hydrog ? ? A C 7 N4 ? ? ? 1_555 B G 3  O6 ? ? A C 7 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog20 hydrog ? ? A C 7 O2 ? ? ? 1_555 B G 3  N2 ? ? A C 7 B G 12 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog21 hydrog ? ? A U 8 N3 ? ? ? 1_555 B A 2  N1 ? ? A U 8 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog22 hydrog ? ? A U 8 O4 ? ? ? 1_555 B A 2  N6 ? ? A U 8 B A 11 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog23 hydrog ? ? A G 9 N1 ? ? ? 1_555 B C 1  N3 ? ? A G 9 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog24 hydrog ? ? A G 9 N2 ? ? ? 1_555 B C 1  O2 ? ? A G 9 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
hydrog25 hydrog ? ? A G 9 O6 ? ? ? 1_555 B C 1  N4 ? ? A G 9 B C 10 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? 
# 
_struct_conn_type.id          hydrog 
_struct_conn_type.criteria    ? 
_struct_conn_type.reference   ? 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.pdbx_ordinal 
A   OP3    O N N 1   
A   P      P N N 2   
A   OP1    O N N 3   
A   OP2    O N N 4   
A   "O5'"  O N N 5   
A   "C5'"  C N N 6   
A   "C4'"  C N R 7   
A   "O4'"  O N N 8   
A   "C3'"  C N S 9   
A   "O3'"  O N N 10  
A   "C2'"  C N R 11  
A   "O2'"  O N N 12  
A   "C1'"  C N R 13  
A   N9     N Y N 14  
A   C8     C Y N 15  
A   N7     N Y N 16  
A   C5     C Y N 17  
A   C6     C Y N 18  
A   N6     N N N 19  
A   N1     N Y N 20  
A   C2     C Y N 21  
A   N3     N Y N 22  
A   C4     C Y N 23  
A   HOP3   H N N 24  
A   HOP2   H N N 25  
A   "H5'"  H N N 26  
A   "H5''" H N N 27  
A   "H4'"  H N N 28  
A   "H3'"  H N N 29  
A   "HO3'" H N N 30  
A   "H2'"  H N N 31  
A   "HO2'" H N N 32  
A   "H1'"  H N N 33  
A   H8     H N N 34  
A   H61    H N N 35  
A   H62    H N N 36  
A   H2     H N N 37  
C   OP3    O N N 38  
C   P      P N N 39  
C   OP1    O N N 40  
C   OP2    O N N 41  
C   "O5'"  O N N 42  
C   "C5'"  C N N 43  
C   "C4'"  C N R 44  
C   "O4'"  O N N 45  
C   "C3'"  C N S 46  
C   "O3'"  O N N 47  
C   "C2'"  C N R 48  
C   "O2'"  O N N 49  
C   "C1'"  C N R 50  
C   N1     N N N 51  
C   C2     C N N 52  
C   O2     O N N 53  
C   N3     N N N 54  
C   C4     C N N 55  
C   N4     N N N 56  
C   C5     C N N 57  
C   C6     C N N 58  
C   HOP3   H N N 59  
C   HOP2   H N N 60  
C   "H5'"  H N N 61  
C   "H5''" H N N 62  
C   "H4'"  H N N 63  
C   "H3'"  H N N 64  
C   "HO3'" H N N 65  
C   "H2'"  H N N 66  
C   "HO2'" H N N 67  
C   "H1'"  H N N 68  
C   H41    H N N 69  
C   H42    H N N 70  
C   H5     H N N 71  
C   H6     H N N 72  
G   OP3    O N N 73  
G   P      P N N 74  
G   OP1    O N N 75  
G   OP2    O N N 76  
G   "O5'"  O N N 77  
G   "C5'"  C N N 78  
G   "C4'"  C N R 79  
G   "O4'"  O N N 80  
G   "C3'"  C N S 81  
G   "O3'"  O N N 82  
G   "C2'"  C N R 83  
G   "O2'"  O N N 84  
G   "C1'"  C N R 85  
G   N9     N Y N 86  
G   C8     C Y N 87  
G   N7     N Y N 88  
G   C5     C Y N 89  
G   C6     C N N 90  
G   O6     O N N 91  
G   N1     N N N 92  
G   C2     C N N 93  
G   N2     N N N 94  
G   N3     N N N 95  
G   C4     C Y N 96  
G   HOP3   H N N 97  
G   HOP2   H N N 98  
G   "H5'"  H N N 99  
G   "H5''" H N N 100 
G   "H4'"  H N N 101 
G   "H3'"  H N N 102 
G   "HO3'" H N N 103 
G   "H2'"  H N N 104 
G   "HO2'" H N N 105 
G   "H1'"  H N N 106 
G   H8     H N N 107 
G   H1     H N N 108 
G   H21    H N N 109 
G   H22    H N N 110 
HOH O      O N N 111 
HOH H1     H N N 112 
HOH H2     H N N 113 
U   OP3    O N N 114 
U   P      P N N 115 
U   OP1    O N N 116 
U   OP2    O N N 117 
U   "O5'"  O N N 118 
U   "C5'"  C N N 119 
U   "C4'"  C N R 120 
U   "O4'"  O N N 121 
U   "C3'"  C N S 122 
U   "O3'"  O N N 123 
U   "C2'"  C N R 124 
U   "O2'"  O N N 125 
U   "C1'"  C N R 126 
U   N1     N N N 127 
U   C2     C N N 128 
U   O2     O N N 129 
U   N3     N N N 130 
U   C4     C N N 131 
U   O4     O N N 132 
U   C5     C N N 133 
U   C6     C N N 134 
U   HOP3   H N N 135 
U   HOP2   H N N 136 
U   "H5'"  H N N 137 
U   "H5''" H N N 138 
U   "H4'"  H N N 139 
U   "H3'"  H N N 140 
U   "HO3'" H N N 141 
U   "H2'"  H N N 142 
U   "HO2'" H N N 143 
U   "H1'"  H N N 144 
U   H3     H N N 145 
U   H5     H N N 146 
U   H6     H N N 147 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
A   OP3   P      sing N N 1   
A   OP3   HOP3   sing N N 2   
A   P     OP1    doub N N 3   
A   P     OP2    sing N N 4   
A   P     "O5'"  sing N N 5   
A   OP2   HOP2   sing N N 6   
A   "O5'" "C5'"  sing N N 7   
A   "C5'" "C4'"  sing N N 8   
A   "C5'" "H5'"  sing N N 9   
A   "C5'" "H5''" sing N N 10  
A   "C4'" "O4'"  sing N N 11  
A   "C4'" "C3'"  sing N N 12  
A   "C4'" "H4'"  sing N N 13  
A   "O4'" "C1'"  sing N N 14  
A   "C3'" "O3'"  sing N N 15  
A   "C3'" "C2'"  sing N N 16  
A   "C3'" "H3'"  sing N N 17  
A   "O3'" "HO3'" sing N N 18  
A   "C2'" "O2'"  sing N N 19  
A   "C2'" "C1'"  sing N N 20  
A   "C2'" "H2'"  sing N N 21  
A   "O2'" "HO2'" sing N N 22  
A   "C1'" N9     sing N N 23  
A   "C1'" "H1'"  sing N N 24  
A   N9    C8     sing Y N 25  
A   N9    C4     sing Y N 26  
A   C8    N7     doub Y N 27  
A   C8    H8     sing N N 28  
A   N7    C5     sing Y N 29  
A   C5    C6     sing Y N 30  
A   C5    C4     doub Y N 31  
A   C6    N6     sing N N 32  
A   C6    N1     doub Y N 33  
A   N6    H61    sing N N 34  
A   N6    H62    sing N N 35  
A   N1    C2     sing Y N 36  
A   C2    N3     doub Y N 37  
A   C2    H2     sing N N 38  
A   N3    C4     sing Y N 39  
C   OP3   P      sing N N 40  
C   OP3   HOP3   sing N N 41  
C   P     OP1    doub N N 42  
C   P     OP2    sing N N 43  
C   P     "O5'"  sing N N 44  
C   OP2   HOP2   sing N N 45  
C   "O5'" "C5'"  sing N N 46  
C   "C5'" "C4'"  sing N N 47  
C   "C5'" "H5'"  sing N N 48  
C   "C5'" "H5''" sing N N 49  
C   "C4'" "O4'"  sing N N 50  
C   "C4'" "C3'"  sing N N 51  
C   "C4'" "H4'"  sing N N 52  
C   "O4'" "C1'"  sing N N 53  
C   "C3'" "O3'"  sing N N 54  
C   "C3'" "C2'"  sing N N 55  
C   "C3'" "H3'"  sing N N 56  
C   "O3'" "HO3'" sing N N 57  
C   "C2'" "O2'"  sing N N 58  
C   "C2'" "C1'"  sing N N 59  
C   "C2'" "H2'"  sing N N 60  
C   "O2'" "HO2'" sing N N 61  
C   "C1'" N1     sing N N 62  
C   "C1'" "H1'"  sing N N 63  
C   N1    C2     sing N N 64  
C   N1    C6     sing N N 65  
C   C2    O2     doub N N 66  
C   C2    N3     sing N N 67  
C   N3    C4     doub N N 68  
C   C4    N4     sing N N 69  
C   C4    C5     sing N N 70  
C   N4    H41    sing N N 71  
C   N4    H42    sing N N 72  
C   C5    C6     doub N N 73  
C   C5    H5     sing N N 74  
C   C6    H6     sing N N 75  
G   OP3   P      sing N N 76  
G   OP3   HOP3   sing N N 77  
G   P     OP1    doub N N 78  
G   P     OP2    sing N N 79  
G   P     "O5'"  sing N N 80  
G   OP2   HOP2   sing N N 81  
G   "O5'" "C5'"  sing N N 82  
G   "C5'" "C4'"  sing N N 83  
G   "C5'" "H5'"  sing N N 84  
G   "C5'" "H5''" sing N N 85  
G   "C4'" "O4'"  sing N N 86  
G   "C4'" "C3'"  sing N N 87  
G   "C4'" "H4'"  sing N N 88  
G   "O4'" "C1'"  sing N N 89  
G   "C3'" "O3'"  sing N N 90  
G   "C3'" "C2'"  sing N N 91  
G   "C3'" "H3'"  sing N N 92  
G   "O3'" "HO3'" sing N N 93  
G   "C2'" "O2'"  sing N N 94  
G   "C2'" "C1'"  sing N N 95  
G   "C2'" "H2'"  sing N N 96  
G   "O2'" "HO2'" sing N N 97  
G   "C1'" N9     sing N N 98  
G   "C1'" "H1'"  sing N N 99  
G   N9    C8     sing Y N 100 
G   N9    C4     sing Y N 101 
G   C8    N7     doub Y N 102 
G   C8    H8     sing N N 103 
G   N7    C5     sing Y N 104 
G   C5    C6     sing N N 105 
G   C5    C4     doub Y N 106 
G   C6    O6     doub N N 107 
G   C6    N1     sing N N 108 
G   N1    C2     sing N N 109 
G   N1    H1     sing N N 110 
G   C2    N2     sing N N 111 
G   C2    N3     doub N N 112 
G   N2    H21    sing N N 113 
G   N2    H22    sing N N 114 
G   N3    C4     sing N N 115 
HOH O     H1     sing N N 116 
HOH O     H2     sing N N 117 
U   OP3   P      sing N N 118 
U   OP3   HOP3   sing N N 119 
U   P     OP1    doub N N 120 
U   P     OP2    sing N N 121 
U   P     "O5'"  sing N N 122 
U   OP2   HOP2   sing N N 123 
U   "O5'" "C5'"  sing N N 124 
U   "C5'" "C4'"  sing N N 125 
U   "C5'" "H5'"  sing N N 126 
U   "C5'" "H5''" sing N N 127 
U   "C4'" "O4'"  sing N N 128 
U   "C4'" "C3'"  sing N N 129 
U   "C4'" "H4'"  sing N N 130 
U   "O4'" "C1'"  sing N N 131 
U   "C3'" "O3'"  sing N N 132 
U   "C3'" "C2'"  sing N N 133 
U   "C3'" "H3'"  sing N N 134 
U   "O3'" "HO3'" sing N N 135 
U   "C2'" "O2'"  sing N N 136 
U   "C2'" "C1'"  sing N N 137 
U   "C2'" "H2'"  sing N N 138 
U   "O2'" "HO2'" sing N N 139 
U   "C1'" N1     sing N N 140 
U   "C1'" "H1'"  sing N N 141 
U   N1    C2     sing N N 142 
U   N1    C6     sing N N 143 
U   C2    O2     doub N N 144 
U   C2    N3     sing N N 145 
U   N3    C4     sing N N 146 
U   N3    H3     sing N N 147 
U   C4    O4     doub N N 148 
U   C4    C5     sing N N 149 
U   C5    C6     doub N N 150 
U   C5    H5     sing N N 151 
U   C6    H6     sing N N 152 
# 
loop_
_ndb_struct_conf_na.entry_id 
_ndb_struct_conf_na.feature 
1DQH 'a-form double helix' 
1DQH 'bulge 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 G 1 1_555 B C 10 1_555 -0.273 -0.127 0.185  -1.806 -9.823  0.072  1 A_G1:C19_B A 1 ? B 19 ? 19 1 
1 A C 2 1_555 B G 9  1_555 0.304  -0.226 0.239  0.018  -14.895 -1.095 2 A_C2:G18_B A 2 ? B 18 ? 19 1 
1 A C 3 1_555 B G 8  1_555 0.067  -0.128 0.300  -1.435 -11.965 -2.191 3 A_C3:G17_B A 3 ? B 17 ? 19 1 
1 A A 4 1_555 B U 6  1_555 -0.117 -0.114 0.271  10.217 -5.123  1.003  4 A_A4:U15_B A 4 ? B 15 ? 20 1 
1 A C 5 1_555 B G 5  1_555 0.423  -0.116 -0.070 13.201 -10.938 -2.123 5 A_C5:G14_B A 5 ? B 14 ? 19 1 
1 A C 6 1_555 B G 4  1_555 0.185  -0.236 0.005  7.330  -16.022 -0.668 6 A_C6:G13_B A 6 ? B 13 ? 19 1 
1 A C 7 1_555 B G 3  1_555 0.233  -0.185 0.004  1.426  -10.165 -0.584 7 A_C7:G12_B A 7 ? B 12 ? 19 1 
1 A U 8 1_555 B A 2  1_555 0.097  -0.159 0.046  0.191  -14.295 6.545  8 A_U8:A11_B A 8 ? B 11 ? 20 1 
1 A G 9 1_555 B C 1  1_555 -0.103 -0.142 0.055  -5.036 -10.958 0.161  9 A_G9:C10_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 G 1 1_555 B C 10 1_555 A C 2 1_555 B G 9 1_555 -0.716 -1.323 3.227 -2.385 5.499  38.289 -2.645 0.798  3.052 8.322  3.610  
38.738 1 AA_G1C2:G18C19_BB A 1 ? B 19 ? A 2 ? B 18 ? 
1 A C 2 1_555 B G 9  1_555 A C 3 1_555 B G 8 1_555 0.346  -0.983 3.229 0.791  6.378  34.897 -2.514 -0.456 3.015 10.524 -1.305 
35.465 2 AA_C2C3:G17G18_BB A 2 ? B 18 ? A 3 ? B 17 ? 
1 A C 3 1_555 B G 8  1_555 A A 4 1_555 B U 6 1_555 0.528  -1.255 3.047 -1.698 1.251  33.798 -2.341 -1.158 2.971 2.149  2.917  
33.862 3 AA_C3A4:U15G17_BB A 3 ? B 17 ? A 4 ? B 15 ? 
1 A A 4 1_555 B U 6  1_555 A C 5 1_555 B G 5 1_555 -0.402 -1.467 3.351 0.205  4.728  32.860 -3.355 0.737  3.113 8.305  -0.360 
33.190 4 AA_A4C5:G14U15_BB A 4 ? B 15 ? A 5 ? B 14 ? 
1 A C 5 1_555 B G 5  1_555 A C 6 1_555 B G 4 1_555 0.621  -1.720 3.397 0.820  7.078  33.574 -4.015 -0.925 2.997 12.084 -1.400 
34.300 5 AA_C5C6:G13G14_BB A 5 ? B 14 ? A 6 ? B 13 ? 
1 A C 6 1_555 B G 4  1_555 A C 7 1_555 B G 3 1_555 -0.412 -2.075 3.432 -1.398 8.219  29.540 -5.492 0.512  2.783 15.728 2.675  
30.669 6 AA_C6C7:G12G13_BB A 6 ? B 13 ? A 7 ? B 12 ? 
1 A C 7 1_555 B G 3  1_555 A U 8 1_555 B A 2 1_555 0.731  -1.495 3.219 2.268  9.066  31.521 -4.090 -0.932 2.740 16.247 -4.064 
32.844 7 AA_C7U8:A11G12_BB A 7 ? B 12 ? A 8 ? B 11 ? 
1 A U 8 1_555 B A 2  1_555 A G 9 1_555 B C 1 1_555 -0.071 -1.555 3.293 0.417  12.172 31.800 -4.456 0.183  2.543 21.264 -0.728 
33.996 8 AA_U8G9:C10A11_BB A 8 ? B 11 ? A 9 ? B 10 ? 
# 
_atom_sites.entry_id                    1DQH 
_atom_sites.fract_transf_matrix[1][1]   0.030506 
_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]   0.030506 
_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]   0.009756 
_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_