data_1IDW
# 
_entry.id   1IDW 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.376 
_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   1IDW         pdb_00001idw 10.2210/pdb1idw/pdb 
NDB   AH0017       ?            ?                   
RCSB  RCSB013190   ?            ?                   
WWPDB D_1000013190 ?            ?                   
# 
_pdbx_database_related.db_name        PDB 
_pdbx_database_related.db_id          1ICG 
_pdbx_database_related.details        'A fluoro-Uracil replaces the chloro-uracil at position #9' 
_pdbx_database_related.content_type   unspecified 
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1IDW 
_pdbx_database_status.recvd_initial_deposition_date   2001-04-05 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    RCSB 
_pdbx_database_status.SG_entry                        . 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.status_code_sf                  ? 
_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 
'Cruse, W.'     1 
'Saludjian, P.' 2 
'Neuman, A.'    3 
'Prange, T.'    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 'Destabilizing effect of a fluorouracil extra base in a hybrid RNA duplex compared with bromo and chloro analogues' 
'Acta Crystallogr.,Sect.D' 57 1609 1613 2001 ABCRE6 DK 0907-4449 0766 ? 11679725 10.1107/S0907444901012318 
1       
'Structure of a Mispaired RNA Double Helix at 1.6 A Resolution and Implications for the Prediction of RNA Secondary Structure' 
Proc.Natl.Acad.Sci.USA     91 4160 4164 1994 PNASA6 US 0027-8424 0040 ? ?        ?                         
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Cruse, W.'      1  ? 
primary 'Saludjian, P.'  2  ? 
primary 'Neuman, A.'     3  ? 
primary 'Prange, T.'     4  ? 
1       'Cruse, W.'      5  ? 
1       'Saludjian, P.'  6  ? 
1       'Biala, E.'      7  ? 
1       'Strazewski, P.' 8  ? 
1       'Prange, T.'     9  ? 
1       'Kennard, O.'    10 ? 
# 
_cell.entry_id           1IDW 
_cell.length_a           53.820 
_cell.length_b           19.380 
_cell.length_c           50.300 
_cell.angle_alpha        90.00 
_cell.angle_beta         109.90 
_cell.angle_gamma        90.00 
_cell.Z_PDB              8 
_cell.pdbx_unique_axis   ? 
# 
_symmetry.entry_id                         1IDW 
_symmetry.space_group_name_H-M             'C 1 2 1' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     ? 
_symmetry.Int_Tables_number                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'-R(*GP*CP*UP*UP*CP*GP*GP*C)-D(P*(UCL))-3'" 2843.149 2  ? ? ? ? 
2 non-polymer syn 'RHODIUM HEXAMINE ION'                        205.089  2  ? ? ? ? 
3 non-polymer syn 'CHLORIDE ION'                                35.453   2  ? ? ? ? 
4 water       nat water                                         18.015   46 ? ? ? ? 
# 
_entity_poly.entity_id                      1 
_entity_poly.type                           'polydeoxyribonucleotide/polyribonucleotide hybrid' 
_entity_poly.nstd_linkage                   no 
_entity_poly.nstd_monomer                   yes 
_entity_poly.pdbx_seq_one_letter_code       'GCUUCGGC(UCL)' 
_entity_poly.pdbx_seq_one_letter_code_can   GCUUCGGCU 
_entity_poly.pdbx_strand_id                 A,B 
_entity_poly.pdbx_target_identifier         ? 
# 
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 U   n 
1 4 U   n 
1 5 C   n 
1 6 G   n 
1 7 G   n 
1 8 C   n 
1 9 UCL 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                'phosphoramidite method' 
# 
_struct_ref.id                         1 
_struct_ref.entity_id                  1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    1IDW 
_struct_ref.pdbx_db_accession          1IDW 
_struct_ref.pdbx_db_isoform            ? 
_struct_ref.pdbx_seq_one_letter_code   ? 
_struct_ref.pdbx_align_begin           ? 
# 
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 1IDW A 1 ? 9 ? 1IDW 1 ? 9 ? 1 9 
2 1 1IDW B 1 ? 9 ? 1IDW 1 ? 9 ? 1 9 
# 
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 
CL  non-polymer   . 'CHLORIDE ION'                                       ? 'Cl -1'             35.453  
G   'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE"                         ? 'C10 H14 N5 O8 P'   363.221 
HOH non-polymer   . WATER                                                ? 'H2 O'              18.015  
RHD non-polymer   . 'RHODIUM HEXAMINE ION'                               ? 'H18 N6 Rh 3'       205.089 
U   'RNA linking' y "URIDINE-5'-MONOPHOSPHATE"                           ? 'C9 H13 N2 O9 P'    324.181 
UCL 'DNA linking' n 
;5-CHLORO-2'-DEOXYURIDINE 5'-(DIHYDROGEN PHOSPHATE)
;
? 'C9 H12 Cl N2 O8 P' 342.627 
# 
_exptl.entry_id          1IDW 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_Matthews      2.18 
_exptl_crystal.density_percent_sol   43.66 
_exptl_crystal.description           ? 
# 
_exptl_crystal_grow.crystal_id      1 
_exptl_crystal_grow.method          'VAPOR DIFFUSION, SITTING DROP' 
_exptl_crystal_grow.temp            277 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              6.8 
_exptl_crystal_grow.pdbx_details    
'cacodylate buffer, MPD, Rhodium-hexammine, pH 6.8, VAPOR DIFFUSION, SITTING 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 'cacodylate buffer' ? ? ? 
1 2 1 MPD                 ? ? ? 
1 3 1 rhodium-hexammine   ? ? ? 
1 4 2 MPD                 ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           277 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               DIFFRACTOMETER 
_diffrn_detector.type                   'ENRAF-NONIUS FAST' 
_diffrn_detector.pdbx_collection_date   1997-03-20 
_diffrn_detector.details                mirrors 
# 
_diffrn_radiation.diffrn_id                        1 
_diffrn_radiation.wavelength_id                    1 
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l   M 
_diffrn_radiation.monochromator                    GRAPHITE 
_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                        'ENRAF-NONIUS FR571' 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             ? 
_diffrn_source.pdbx_wavelength_list        1.5418 
# 
_reflns.entry_id                     1IDW 
_reflns.observed_criterion_sigma_I   4 
_reflns.observed_criterion_sigma_F   2 
_reflns.d_resolution_low             6 
_reflns.d_resolution_high            1.81 
_reflns.number_obs                   3641 
_reflns.number_all                   3738 
_reflns.percent_possible_obs         97 
_reflns.pdbx_Rmerge_I_obs            0.039 
_reflns.pdbx_Rsym_value              0.041 
_reflns.pdbx_netI_over_sigmaI        18 
_reflns.B_iso_Wilson_estimate        16.4 
_reflns.pdbx_redundancy              3.5 
_reflns.R_free_details               ? 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
# 
_reflns_shell.d_res_high             1.8 
_reflns_shell.d_res_low              2. 
_reflns_shell.percent_possible_all   43.2 
_reflns_shell.Rmerge_I_obs           0.212 
_reflns_shell.pdbx_Rsym_value        0.206 
_reflns_shell.meanI_over_sigI_obs    3.0 
_reflns_shell.pdbx_redundancy        2.5 
_reflns_shell.percent_possible_obs   ? 
_reflns_shell.number_unique_all      517 
_reflns_shell.pdbx_diffrn_id         ? 
_reflns_shell.pdbx_ordinal           1 
# 
_refine.entry_id                                 1IDW 
_refine.ls_number_reflns_obs                     3641 
_refine.ls_number_reflns_all                     3738 
_refine.pdbx_ls_sigma_I                          4 
_refine.pdbx_ls_sigma_F                          2 
_refine.pdbx_data_cutoff_high_absF               ? 
_refine.pdbx_data_cutoff_low_absF                ? 
_refine.ls_d_res_low                             6.0 
_refine.ls_d_res_high                            1.8 
_refine.ls_percent_reflns_obs                    95 
_refine.ls_R_factor_obs                          0.172 
_refine.ls_R_factor_all                          0.176 
_refine.ls_R_factor_R_work                       0.172 
_refine.ls_R_factor_R_free                       0.202 
_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                  311 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.B_iso_mean                               18.4 
_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                                  
;Chloro-uracil 9 B disordered at the C2 position. 
Refined as two-component 1:1 static orientations 
paired to their symmetry-related mates. 
The two rhodium atoms are refined anisotropically. 
One chlorine atom is disordered.
;
_refine.pdbx_starting_model                      'PDB ENTRY 165D' 
_refine.pdbx_method_to_determine_struct          'FOURIER SYNTHESIS' 
_refine.pdbx_isotropic_thermal_model             isotropic 
_refine.pdbx_stereochemistry_target_values       'personal dictionary from small molecules' 
_refine.pdbx_stereochem_target_val_spec_case     ? 
_refine.pdbx_R_Free_selection_details            RANDOM 
_refine.pdbx_overall_ESU_R_Free                  ? 
_refine.overall_SU_B                             ? 
_refine.ls_redundancy_reflns_obs                 ? 
_refine.correlation_coeff_Fo_to_Fc               ? 
_refine.correlation_coeff_Fo_to_Fc_free          ? 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.overall_SU_R_free                        ? 
_refine.overall_SU_ML                            ? 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_refine.pdbx_solvent_vdw_probe_radii             ? 
_refine.pdbx_solvent_ion_probe_radii             ? 
_refine.pdbx_solvent_shrinkage_radii             ? 
_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   389 
_refine_hist.pdbx_number_atoms_ligand         20 
_refine_hist.number_atoms_solvent             46 
_refine_hist.number_atoms_total               455 
_refine_hist.d_res_high                       1.8 
_refine_hist.d_res_low                        6.0 
# 
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              0.011 ? ? ? 'X-RAY DIFFRACTION' ? 
s_angle_d             0.032 ? ? ? 'X-RAY DIFFRACTION' ? 
s_non_zero_chiral_vol 0.097 ? ? ? 'X-RAY DIFFRACTION' ? 
s_from_restr_planes   0.071 ? ? ? 'X-RAY DIFFRACTION' ? 
# 
loop_
_refine_ls_shell.pdbx_total_number_of_bins_used 
_refine_ls_shell.d_res_high 
_refine_ls_shell.d_res_low 
_refine_ls_shell.number_reflns_R_work 
_refine_ls_shell.R_factor_R_work 
_refine_ls_shell.percent_reflns_obs 
_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 
_refine_ls_shell.redundancy_reflns_obs 
_refine_ls_shell.pdbx_refine_id 
_refine_ls_shell.number_reflns_all 
_refine_ls_shell.R_factor_all 
. 1.8 2.0 . 0.169 43.2 0.21  0.02 . 40 . 'X-RAY DIFFRACTION' . . 
. 2.0 2.3 . 0.164 98.5 0.191 0.02 . 93 . 'X-RAY DIFFRACTION' . . 
. 2.3 2.7 . 0.176 98.7 0.211 0.02 . 80 . 'X-RAY DIFFRACTION' . . 
. 2.7 3.5 . 0.168 96.8 0.187 0.02 . 69 . 'X-RAY DIFFRACTION' . . 
. 3.5 6.0 . 0.195 76.5 0.19  0.02 . 30 . 'X-RAY DIFFRACTION' . . 
# 
_struct.entry_id                  1IDW 
_struct.title                     'STRUCTURE OF THE HYBRID RNA/DNA R-GCUUCGGC-D[CL]U IN PRESENCE OF RH(NH3)6+++' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1IDW 
_struct_keywords.pdbx_keywords   DNA/RNA 
_struct_keywords.text            'RNA/DNA HYBRID, RHODIUM HEXAMMINE, C-U MISMATCH, G-U MISMATCH, 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 1 ? 
C N N 2 ? 
D N N 2 ? 
E N N 3 ? 
F N N 3 ? 
G N N 4 ? 
H N N 4 ? 
# 
_struct_biol.id                    1 
_struct_biol.details               'The second strand of the dimer is not symmetric' 
_struct_biol.pdbx_parent_biol_id   ? 
# 
loop_
_struct_conn.id 
_struct_conn.conn_type_id 
_struct_conn.pdbx_leaving_atom_flag 
_struct_conn.pdbx_PDB_id 
_struct_conn.ptnr1_label_asym_id 
_struct_conn.ptnr1_label_comp_id 
_struct_conn.ptnr1_label_seq_id 
_struct_conn.ptnr1_label_atom_id 
_struct_conn.pdbx_ptnr1_label_alt_id 
_struct_conn.pdbx_ptnr1_PDB_ins_code 
_struct_conn.pdbx_ptnr1_standard_comp_id 
_struct_conn.ptnr1_symmetry 
_struct_conn.ptnr2_label_asym_id 
_struct_conn.ptnr2_label_comp_id 
_struct_conn.ptnr2_label_seq_id 
_struct_conn.ptnr2_label_atom_id 
_struct_conn.pdbx_ptnr2_label_alt_id 
_struct_conn.pdbx_ptnr2_PDB_ins_code 
_struct_conn.ptnr1_auth_asym_id 
_struct_conn.ptnr1_auth_comp_id 
_struct_conn.ptnr1_auth_seq_id 
_struct_conn.ptnr2_auth_asym_id 
_struct_conn.ptnr2_auth_comp_id 
_struct_conn.ptnr2_auth_seq_id 
_struct_conn.ptnr2_symmetry 
_struct_conn.pdbx_ptnr3_label_atom_id 
_struct_conn.pdbx_ptnr3_label_seq_id 
_struct_conn.pdbx_ptnr3_label_comp_id 
_struct_conn.pdbx_ptnr3_label_asym_id 
_struct_conn.pdbx_ptnr3_label_alt_id 
_struct_conn.pdbx_ptnr3_PDB_ins_code 
_struct_conn.details 
_struct_conn.pdbx_dist_value 
_struct_conn.pdbx_value_order 
_struct_conn.pdbx_role 
covale1  covale both ? A C 8 "O3'" ? ? ? 1_555 A UCL 9 P  ? ? A C 8 A UCL 9 1_555 ? ? ? ? ? ? ?             1.589 ? ? 
covale2  covale both ? B C 8 "O3'" ? ? ? 1_555 B UCL 9 P  A ? B C 8 B UCL 9 1_555 ? ? ? ? ? ? ?             1.591 ? ? 
covale3  covale both ? B C 8 "O3'" ? ? ? 1_555 B UCL 9 P  B ? B C 8 B UCL 9 1_555 ? ? ? ? ? ? ?             1.559 ? ? 
hydrog1  hydrog ?    ? A G 1 N1    ? ? ? 1_555 B C   8 N3 ? ? A G 1 B C   8 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog2  hydrog ?    ? A G 1 N2    ? ? ? 1_555 B C   8 O2 ? ? A G 1 B C   8 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog3  hydrog ?    ? A G 1 O6    ? ? ? 1_555 B C   8 N4 ? ? A G 1 B C   8 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog4  hydrog ?    ? A C 2 N3    ? ? ? 1_555 B G   7 N1 ? ? A C 2 B G   7 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog5  hydrog ?    ? A C 2 N4    ? ? ? 1_555 B G   7 O6 ? ? A C 2 B G   7 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog6  hydrog ?    ? A C 2 O2    ? ? ? 1_555 B G   7 N2 ? ? A C 2 B G   7 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog7  hydrog ?    ? A U 3 N3    ? ? ? 1_555 B G   6 O6 ? ? A U 3 B G   6 1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog8  hydrog ?    ? A U 3 O2    ? ? ? 1_555 B G   6 N1 ? ? A U 3 B G   6 1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog9  hydrog ?    ? A U 4 O4    ? ? ? 1_555 B C   5 N4 ? ? A U 4 B C   5 1_555 ? ? ? ? ? ? 'U-C MISPAIR' ?     ? ? 
hydrog10 hydrog ?    ? A C 5 N4    ? ? ? 1_555 B U   4 O4 ? ? A C 5 B U   4 1_555 ? ? ? ? ? ? 'C-U MISPAIR' ?     ? ? 
hydrog11 hydrog ?    ? A G 6 N1    ? ? ? 1_555 B U   3 O2 ? ? A G 6 B U   3 1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog12 hydrog ?    ? A G 6 O6    ? ? ? 1_555 B U   3 N3 ? ? A G 6 B U   3 1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog13 hydrog ?    ? A G 7 N1    ? ? ? 1_555 B C   2 N3 ? ? A G 7 B C   2 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog14 hydrog ?    ? A G 7 N2    ? ? ? 1_555 B C   2 O2 ? ? A G 7 B C   2 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog15 hydrog ?    ? A G 7 O6    ? ? ? 1_555 B C   2 N4 ? ? A G 7 B C   2 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog16 hydrog ?    ? A C 8 N3    ? ? ? 1_555 B G   1 N1 ? ? A C 8 B G   1 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog17 hydrog ?    ? A C 8 N4    ? ? ? 1_555 B G   1 O6 ? ? A C 8 B G   1 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog18 hydrog ?    ? A C 8 O2    ? ? ? 1_555 B G   1 N2 ? ? A C 8 B G   1 1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
covale ? ? 
hydrog ? ? 
# 
loop_
_struct_site.id 
_struct_site.pdbx_evidence_code 
_struct_site.pdbx_auth_asym_id 
_struct_site.pdbx_auth_comp_id 
_struct_site.pdbx_auth_seq_id 
_struct_site.pdbx_auth_ins_code 
_struct_site.pdbx_num_residues 
_struct_site.details 
AC1 Software A RHD 11 ? 4 'BINDING SITE FOR RESIDUE RHD A 11' 
AC2 Software A RHD 12 ? 5 'BINDING SITE FOR RESIDUE RHD A 12' 
# 
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 4 C   A 5 ? C   A 5   . ? 1_555 ? 
2 AC1 4 G   A 6 ? G   A 6   . ? 1_555 ? 
3 AC1 4 G   A 7 ? G   A 7   . ? 1_555 ? 
4 AC1 4 HOH G . ? HOH A 106 . ? 1_555 ? 
5 AC2 5 C   A 5 ? C   A 5   . ? 4_546 ? 
6 AC2 5 G   A 7 ? G   A 7   . ? 1_545 ? 
7 AC2 5 C   A 8 ? C   A 8   . ? 1_545 ? 
8 AC2 5 C   B 5 ? C   B 5   . ? 4_546 ? 
9 AC2 5 HOH H . ? HOH B 126 . ? 4_546 ? 
# 
_database_PDB_matrix.entry_id          1IDW 
_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 
# 
_atom_sites.entry_id                    1IDW 
_atom_sites.fract_transf_matrix[1][1]   0.018580 
_atom_sites.fract_transf_matrix[1][2]   0.000000 
_atom_sites.fract_transf_matrix[1][3]   0.006726 
_atom_sites.fract_transf_matrix[2][1]   0.000000 
_atom_sites.fract_transf_matrix[2][2]   0.051600 
_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]   0.021143 
_atom_sites.fract_transf_vector[1]      0.000000 
_atom_sites.fract_transf_vector[2]      0.000000 
_atom_sites.fract_transf_vector[3]      0.000000 
# 
loop_
_atom_type.symbol 
C  
CL 
N  
O  
P  
RH 
# 
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 U   3 3 3 U   U  A . n 
A 1 4 U   4 4 4 U   U  A . n 
A 1 5 C   5 5 5 C   C  A . n 
A 1 6 G   6 6 6 G   G  A . n 
A 1 7 G   7 7 7 G   G  A . n 
A 1 8 C   8 8 8 C   C  A . n 
A 1 9 UCL 9 9 9 UCL +U A . n 
B 1 1 G   1 1 1 G   G  B . n 
B 1 2 C   2 2 2 C   C  B . n 
B 1 3 U   3 3 3 U   U  B . n 
B 1 4 U   4 4 4 U   U  B . n 
B 1 5 C   5 5 5 C   C  B . n 
B 1 6 G   6 6 6 G   G  B . n 
B 1 7 G   7 7 7 G   G  B . n 
B 1 8 C   8 8 8 C   C  B . n 
B 1 9 UCL 9 9 9 UCL +U B . n 
# 
loop_
_pdbx_nonpoly_scheme.asym_id 
_pdbx_nonpoly_scheme.entity_id 
_pdbx_nonpoly_scheme.mon_id 
_pdbx_nonpoly_scheme.ndb_seq_num 
_pdbx_nonpoly_scheme.pdb_seq_num 
_pdbx_nonpoly_scheme.auth_seq_num 
_pdbx_nonpoly_scheme.pdb_mon_id 
_pdbx_nonpoly_scheme.auth_mon_id 
_pdbx_nonpoly_scheme.pdb_strand_id 
_pdbx_nonpoly_scheme.pdb_ins_code 
C 2 RHD 1  11  11  RHD RHD A . 
D 2 RHD 1  12  12  RHD RHD A . 
E 3 CL  1  32  32  CL  CL  A . 
F 3 CL  1  31  31  CL  CL  B . 
G 4 HOH 1  102 102 HOH HOH A . 
G 4 HOH 2  103 103 HOH HOH A . 
G 4 HOH 3  104 104 HOH HOH A . 
G 4 HOH 4  105 105 HOH HOH A . 
G 4 HOH 5  106 106 HOH HOH A . 
G 4 HOH 6  107 107 HOH HOH A . 
G 4 HOH 7  108 108 HOH HOH A . 
G 4 HOH 8  110 110 HOH HOH A . 
G 4 HOH 9  111 111 HOH HOH A . 
G 4 HOH 10 113 113 HOH HOH A . 
G 4 HOH 11 114 114 HOH HOH A . 
G 4 HOH 12 115 115 HOH HOH A . 
G 4 HOH 13 117 117 HOH HOH A . 
G 4 HOH 14 118 118 HOH HOH A . 
G 4 HOH 15 119 119 HOH HOH A . 
G 4 HOH 16 120 120 HOH HOH A . 
G 4 HOH 17 121 121 HOH HOH A . 
G 4 HOH 18 122 122 HOH HOH A . 
G 4 HOH 19 125 125 HOH HOH A . 
G 4 HOH 20 131 131 HOH HOH A . 
G 4 HOH 21 132 132 HOH HOH A . 
G 4 HOH 22 134 134 HOH HOH A . 
G 4 HOH 23 137 137 HOH HOH A . 
G 4 HOH 24 138 138 HOH HOH A . 
G 4 HOH 25 142 142 HOH HOH A . 
G 4 HOH 26 143 143 HOH HOH A . 
G 4 HOH 27 144 144 HOH HOH A . 
G 4 HOH 28 145 145 HOH HOH A . 
H 4 HOH 1  101 101 HOH HOH B . 
H 4 HOH 2  109 109 HOH HOH B . 
H 4 HOH 3  112 112 HOH HOH B . 
H 4 HOH 4  116 116 HOH HOH B . 
H 4 HOH 5  123 123 HOH HOH B . 
H 4 HOH 6  124 124 HOH HOH B . 
H 4 HOH 7  126 126 HOH HOH B . 
H 4 HOH 8  127 127 HOH HOH B . 
H 4 HOH 9  128 128 HOH HOH B . 
H 4 HOH 10 129 129 HOH HOH B . 
H 4 HOH 11 130 130 HOH HOH B . 
H 4 HOH 12 133 133 HOH HOH B . 
H 4 HOH 13 135 135 HOH HOH B . 
H 4 HOH 14 136 136 HOH HOH B . 
H 4 HOH 15 139 139 HOH HOH B . 
H 4 HOH 16 140 140 HOH HOH B . 
H 4 HOH 17 141 141 HOH HOH B . 
H 4 HOH 18 146 146 HOH HOH B . 
# 
loop_
_pdbx_struct_mod_residue.id 
_pdbx_struct_mod_residue.label_asym_id 
_pdbx_struct_mod_residue.label_comp_id 
_pdbx_struct_mod_residue.label_seq_id 
_pdbx_struct_mod_residue.auth_asym_id 
_pdbx_struct_mod_residue.auth_comp_id 
_pdbx_struct_mod_residue.auth_seq_id 
_pdbx_struct_mod_residue.PDB_ins_code 
_pdbx_struct_mod_residue.parent_comp_id 
_pdbx_struct_mod_residue.details 
1 A UCL 9 A UCL 9 ? DU ? 
2 B UCL 9 B UCL 9 ? DU ? 
# 
_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,H 
# 
_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_
_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 2001-04-12 
2 'Structure model' 1 1 2008-04-27 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2017-10-04 
5 'Structure model' 1 4 2018-04-18 
6 'Structure model' 1 5 2023-08-09 
# 
_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 6 'Structure model' 'Data collection'           
6 6 'Structure model' 'Database references'       
7 6 'Structure model' 'Derived calculations'      
8 6 'Structure model' 'Refinement description'    
# 
loop_
_pdbx_audit_revision_category.ordinal 
_pdbx_audit_revision_category.revision_ordinal 
_pdbx_audit_revision_category.data_content_type 
_pdbx_audit_revision_category.category 
1 4 'Structure model' software                      
2 5 'Structure model' diffrn_detector               
3 6 'Structure model' chem_comp_atom                
4 6 'Structure model' chem_comp_bond                
5 6 'Structure model' database_2                    
6 6 'Structure model' pdbx_initial_refinement_model 
7 6 'Structure model' struct_conn                   
8 6 '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 4 'Structure model' '_software.name'                      
2 5 'Structure model' '_diffrn_detector.detector'           
3 6 'Structure model' '_database_2.pdbx_DOI'                
4 6 'Structure model' '_database_2.pdbx_database_accession' 
5 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 
6 6 'Structure model' '_struct_site.pdbx_auth_asym_id'      
7 6 'Structure model' '_struct_site.pdbx_auth_comp_id'      
8 6 'Structure model' '_struct_site.pdbx_auth_seq_id'       
# 
loop_
_software.name 
_software.classification 
_software.version 
_software.citation_id 
_software.pdbx_ordinal 
MADNESS   'data collection' .           ? 1 
ROTAVATA  'data reduction'  .           ? 2 
AMoRE     phasing           .           ? 3 
SHELXL-97 refinement        .           ? 4 
MADNESS   'data reduction'  .           ? 5 
CCP4      'data scaling'    '(AGROVATA' ? 6 
ROTAVATA  'data scaling'    .           ? 7 
# 
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 C6    A G 1 ? ? N1    A G   1 ? ? C2    A G   1 ? ? 121.46 125.10 -3.64  0.60 N 
2  1 N1    A U 3 ? ? C2    A U   3 ? ? N3    A U   3 ? ? 119.05 114.90 4.15   0.60 N 
3  1 C2    A U 3 ? ? N3    A U   3 ? ? C4    A U   3 ? ? 122.28 127.00 -4.72  0.60 N 
4  1 C5    A U 3 ? ? C4    A U   3 ? ? O4    A U   3 ? ? 121.97 125.90 -3.93  0.60 N 
5  1 C5    A U 4 ? ? C4    A U   4 ? ? O4    A U   4 ? ? 120.97 125.90 -4.93  0.60 N 
6  1 N3    A C 5 ? ? C4    A C   5 ? ? C5    A C   5 ? ? 119.50 121.90 -2.40  0.40 N 
7  1 C5    A G 6 ? ? C6    A G   6 ? ? N1    A G   6 ? ? 114.52 111.50 3.02   0.50 N 
8  1 "O5'" A G 7 ? ? "C5'" A G   7 ? ? "C4'" A G   7 ? ? 103.17 109.40 -6.23  0.80 N 
9  1 C6    B G 1 ? ? N1    B G   1 ? ? C2    B G   1 ? ? 120.29 125.10 -4.81  0.60 N 
10 1 N1    B G 1 ? ? C6    B G   1 ? ? O6    B G   1 ? ? 115.80 119.90 -4.10  0.60 N 
11 1 C5    B U 3 ? ? C4    B U   3 ? ? O4    B U   3 ? ? 121.56 125.90 -4.34  0.60 N 
12 1 C2    B U 4 ? ? N3    B U   4 ? ? C4    B U   4 ? ? 122.75 127.00 -4.25  0.60 N 
13 1 "O5'" B G 6 ? ? "C5'" B G   6 ? ? "C4'" B G   6 ? ? 103.25 109.40 -6.15  0.80 N 
14 1 "O4'" B C 8 ? ? "C1'" B C   8 ? ? N1    B C   8 ? ? 101.78 108.20 -6.42  0.80 N 
15 1 "C3'" B C 8 ? ? "O3'" B C   8 ? ? P     B UCL 9 ? A 107.31 119.70 -12.39 1.20 Y 
16 1 "C3'" B C 8 ? ? "O3'" B C   8 ? ? P     B UCL 9 ? B 111.11 119.70 -8.59  1.20 Y 
17 1 "O3'" B C 8 ? ? P     B UCL 9 ? A "O5'" B UCL 9 ? A 121.68 104.00 17.68  1.90 Y 
18 1 "O3'" B C 8 ? ? P     B UCL 9 ? B "O5'" B UCL 9 ? B 116.75 104.00 12.75  1.90 Y 
# 
_pdbx_validate_chiral.id              1 
_pdbx_validate_chiral.PDB_model_num   1 
_pdbx_validate_chiral.auth_atom_id    "C4'" 
_pdbx_validate_chiral.label_alt_id    B 
_pdbx_validate_chiral.auth_asym_id    B 
_pdbx_validate_chiral.auth_comp_id    UCL 
_pdbx_validate_chiral.auth_seq_id     9 
_pdbx_validate_chiral.PDB_ins_code    ? 
_pdbx_validate_chiral.details         PLANAR 
_pdbx_validate_chiral.omega           . 
# 
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  
CL  CL     CL N N 36  
G   OP3    O  N N 37  
G   P      P  N N 38  
G   OP1    O  N N 39  
G   OP2    O  N N 40  
G   "O5'"  O  N N 41  
G   "C5'"  C  N N 42  
G   "C4'"  C  N R 43  
G   "O4'"  O  N N 44  
G   "C3'"  C  N S 45  
G   "O3'"  O  N N 46  
G   "C2'"  C  N R 47  
G   "O2'"  O  N N 48  
G   "C1'"  C  N R 49  
G   N9     N  Y N 50  
G   C8     C  Y N 51  
G   N7     N  Y N 52  
G   C5     C  Y N 53  
G   C6     C  N N 54  
G   O6     O  N N 55  
G   N1     N  N N 56  
G   C2     C  N N 57  
G   N2     N  N N 58  
G   N3     N  N N 59  
G   C4     C  Y N 60  
G   HOP3   H  N N 61  
G   HOP2   H  N N 62  
G   "H5'"  H  N N 63  
G   "H5''" H  N N 64  
G   "H4'"  H  N N 65  
G   "H3'"  H  N N 66  
G   "HO3'" H  N N 67  
G   "H2'"  H  N N 68  
G   "HO2'" H  N N 69  
G   "H1'"  H  N N 70  
G   H8     H  N N 71  
G   H1     H  N N 72  
G   H21    H  N N 73  
G   H22    H  N N 74  
HOH O      O  N N 75  
HOH H1     H  N N 76  
HOH H2     H  N N 77  
RHD RH     RH N N 78  
RHD N1     N  N N 79  
RHD N2     N  N N 80  
RHD N3     N  N N 81  
RHD N4     N  N N 82  
RHD N5     N  N N 83  
RHD N6     N  N N 84  
RHD HN11   H  N N 85  
RHD HN12   H  N N 86  
RHD HN13   H  N N 87  
RHD HN21   H  N N 88  
RHD HN22   H  N N 89  
RHD HN23   H  N N 90  
RHD HN31   H  N N 91  
RHD HN32   H  N N 92  
RHD HN33   H  N N 93  
RHD HN41   H  N N 94  
RHD HN42   H  N N 95  
RHD HN43   H  N N 96  
RHD HN51   H  N N 97  
RHD HN52   H  N N 98  
RHD HN53   H  N N 99  
RHD HN61   H  N N 100 
RHD HN62   H  N N 101 
RHD HN63   H  N N 102 
U   OP3    O  N N 103 
U   P      P  N N 104 
U   OP1    O  N N 105 
U   OP2    O  N N 106 
U   "O5'"  O  N N 107 
U   "C5'"  C  N N 108 
U   "C4'"  C  N R 109 
U   "O4'"  O  N N 110 
U   "C3'"  C  N S 111 
U   "O3'"  O  N N 112 
U   "C2'"  C  N R 113 
U   "O2'"  O  N N 114 
U   "C1'"  C  N R 115 
U   N1     N  N N 116 
U   C2     C  N N 117 
U   O2     O  N N 118 
U   N3     N  N N 119 
U   C4     C  N N 120 
U   O4     O  N N 121 
U   C5     C  N N 122 
U   C6     C  N N 123 
U   HOP3   H  N N 124 
U   HOP2   H  N N 125 
U   "H5'"  H  N N 126 
U   "H5''" H  N N 127 
U   "H4'"  H  N N 128 
U   "H3'"  H  N N 129 
U   "HO3'" H  N N 130 
U   "H2'"  H  N N 131 
U   "HO2'" H  N N 132 
U   "H1'"  H  N N 133 
U   H3     H  N N 134 
U   H5     H  N N 135 
U   H6     H  N N 136 
UCL O3P    O  N N 137 
UCL P      P  N N 138 
UCL O1P    O  N N 139 
UCL O2P    O  N N 140 
UCL "O5'"  O  N N 141 
UCL "C5'"  C  N N 142 
UCL "C4'"  C  N R 143 
UCL "O4'"  O  N N 144 
UCL "C3'"  C  N S 145 
UCL "O3'"  O  N N 146 
UCL "C2'"  C  N N 147 
UCL "C1'"  C  N R 148 
UCL N1     N  N N 149 
UCL C2     C  N N 150 
UCL O2     O  N N 151 
UCL N3     N  N N 152 
UCL C4     C  N N 153 
UCL O4     O  N N 154 
UCL C5     C  N N 155 
UCL C6     C  N N 156 
UCL CL     CL N N 157 
UCL HO1P   H  N N 158 
UCL HO2P   H  N N 159 
UCL "H5'1" H  N N 160 
UCL "H5'2" H  N N 161 
UCL "H4'"  H  N N 162 
UCL "H3'"  H  N N 163 
UCL "HO3'" H  N N 164 
UCL "H2'1" H  N N 165 
UCL "H2'2" H  N N 166 
UCL "H1'"  H  N N 167 
UCL HN3    H  N N 168 
UCL H6     H  N N 169 
# 
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  
RHD RH    N1     sing N N 79  
RHD RH    N2     sing N N 80  
RHD RH    N3     sing N N 81  
RHD RH    N4     sing N N 82  
RHD RH    N5     sing N N 83  
RHD RH    N6     sing N N 84  
RHD N1    HN11   sing N N 85  
RHD N1    HN12   sing N N 86  
RHD N1    HN13   sing N N 87  
RHD N2    HN21   sing N N 88  
RHD N2    HN22   sing N N 89  
RHD N2    HN23   sing N N 90  
RHD N3    HN31   sing N N 91  
RHD N3    HN32   sing N N 92  
RHD N3    HN33   sing N N 93  
RHD N4    HN41   sing N N 94  
RHD N4    HN42   sing N N 95  
RHD N4    HN43   sing N N 96  
RHD N5    HN51   sing N N 97  
RHD N5    HN52   sing N N 98  
RHD N5    HN53   sing N N 99  
RHD N6    HN61   sing N N 100 
RHD N6    HN62   sing N N 101 
RHD N6    HN63   sing N N 102 
U   OP3   P      sing N N 103 
U   OP3   HOP3   sing N N 104 
U   P     OP1    doub N N 105 
U   P     OP2    sing N N 106 
U   P     "O5'"  sing N N 107 
U   OP2   HOP2   sing N N 108 
U   "O5'" "C5'"  sing N N 109 
U   "C5'" "C4'"  sing N N 110 
U   "C5'" "H5'"  sing N N 111 
U   "C5'" "H5''" sing N N 112 
U   "C4'" "O4'"  sing N N 113 
U   "C4'" "C3'"  sing N N 114 
U   "C4'" "H4'"  sing N N 115 
U   "O4'" "C1'"  sing N N 116 
U   "C3'" "O3'"  sing N N 117 
U   "C3'" "C2'"  sing N N 118 
U   "C3'" "H3'"  sing N N 119 
U   "O3'" "HO3'" sing N N 120 
U   "C2'" "O2'"  sing N N 121 
U   "C2'" "C1'"  sing N N 122 
U   "C2'" "H2'"  sing N N 123 
U   "O2'" "HO2'" sing N N 124 
U   "C1'" N1     sing N N 125 
U   "C1'" "H1'"  sing N N 126 
U   N1    C2     sing N N 127 
U   N1    C6     sing N N 128 
U   C2    O2     doub N N 129 
U   C2    N3     sing N N 130 
U   N3    C4     sing N N 131 
U   N3    H3     sing N N 132 
U   C4    O4     doub N N 133 
U   C4    C5     sing N N 134 
U   C5    C6     doub N N 135 
U   C5    H5     sing N N 136 
U   C6    H6     sing N N 137 
UCL O3P   P      doub N N 138 
UCL P     O1P    sing N N 139 
UCL P     O2P    sing N N 140 
UCL P     "O5'"  sing N N 141 
UCL O1P   HO1P   sing N N 142 
UCL O2P   HO2P   sing N N 143 
UCL "O5'" "C5'"  sing N N 144 
UCL "C5'" "C4'"  sing N N 145 
UCL "C5'" "H5'1" sing N N 146 
UCL "C5'" "H5'2" sing N N 147 
UCL "C4'" "O4'"  sing N N 148 
UCL "C4'" "C3'"  sing N N 149 
UCL "C4'" "H4'"  sing N N 150 
UCL "O4'" "C1'"  sing N N 151 
UCL "C3'" "O3'"  sing N N 152 
UCL "C3'" "C2'"  sing N N 153 
UCL "C3'" "H3'"  sing N N 154 
UCL "O3'" "HO3'" sing N N 155 
UCL "C2'" "C1'"  sing N N 156 
UCL "C2'" "H2'1" sing N N 157 
UCL "C2'" "H2'2" sing N N 158 
UCL "C1'" N1     sing N N 159 
UCL "C1'" "H1'"  sing N N 160 
UCL N1    C2     sing N N 161 
UCL N1    C6     sing N N 162 
UCL C2    O2     doub N N 163 
UCL C2    N3     sing N N 164 
UCL N3    C4     sing N N 165 
UCL N3    HN3    sing N N 166 
UCL C4    O4     doub N N 167 
UCL C4    C5     sing N N 168 
UCL C5    C6     doub N N 169 
UCL C5    CL     sing N N 170 
UCL C6    H6     sing N N 171 
# 
loop_
_ndb_struct_conf_na.entry_id 
_ndb_struct_conf_na.feature 
1IDW 'double helix'         
1IDW 'a-form double helix'  
1IDW '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 G 1 1_555 B C 8 1_555 -0.689 -0.341 0.220  0.213  -7.216  -3.177  1 A_G1:C8_B A 1 ? B 8 ? 19 1 
1 A C 2 1_555 B G 7 1_555 0.123  -0.139 -0.027 3.982  -13.355 -1.020  2 A_C2:G7_B A 2 ? B 7 ? 19 1 
1 A U 3 1_555 B G 6 1_555 2.396  -0.531 0.168  0.295  -8.164  -1.163  3 A_U3:G6_B A 3 ? B 6 ? 28 ? 
1 A U 4 1_555 B C 5 1_555 -0.552 0.232  0.004  2.194  0.772   -43.178 4 A_U4:C5_B A 4 ? B 5 ? ?  ? 
1 A C 5 1_555 B U 4 1_555 0.664  0.070  -0.444 7.951  -4.351  -40.763 5 A_C5:U4_B A 5 ? B 4 ? ?  ? 
1 A G 6 1_555 B U 3 1_555 -2.353 -0.576 -0.282 -1.934 -11.060 -1.535  6 A_G6:U3_B A 6 ? B 3 ? 28 ? 
1 A G 7 1_555 B C 2 1_555 -0.268 -0.175 -0.043 -5.396 -11.113 -1.176  7 A_G7:C2_B A 7 ? B 2 ? 19 1 
1 A C 8 1_555 B G 1 1_555 0.307  -0.147 0.279  -4.870 -5.215  -0.551  8 A_C8:G1_B A 8 ? B 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 G 1 1_555 B C 8 1_555 A C 2 1_555 B G 7 1_555 -0.127 -1.818 3.248 0.335  1.211  35.904 -3.117 0.252  3.186 1.964  -0.543 
35.926 1 AA_G1C2:G7C8_BB A 1 ? B 8 ? A 2 ? B 7 ? 
1 A C 2 1_555 B G 7 1_555 A U 3 1_555 B G 6 1_555 0.071  -1.349 3.481 0.271  6.855  40.496 -2.693 -0.071 3.221 9.818  -0.388 
41.049 2 AA_C2U3:G6G7_BB A 2 ? B 7 ? A 3 ? B 6 ? 
1 A U 3 1_555 B G 6 1_555 A U 4 1_555 B C 5 1_555 -4.109 -1.956 3.289 -3.710 4.106  19.658 -7.466 9.833  3.518 11.728 10.597 
20.414 3 AA_U3U4:C5G6_BB A 3 ? B 6 ? A 4 ? B 5 ? 
1 A U 4 1_555 B C 5 1_555 A C 5 1_555 B U 4 1_555 -0.095 -1.892 3.481 1.290  8.582  38.045 -3.876 0.298  2.996 12.959 -1.948 
38.987 4 AA_U4C5:U4C5_BB A 4 ? B 5 ? A 5 ? B 4 ? 
1 A C 5 1_555 B U 4 1_555 A G 6 1_555 B U 3 1_555 3.175  -1.532 3.612 -0.842 11.833 24.663 -6.145 -6.926 2.516 25.875 1.841  
27.328 5 AA_C5G6:U3U4_BB A 5 ? B 4 ? A 6 ? B 3 ? 
1 A G 6 1_555 B U 3 1_555 A G 7 1_555 B C 2 1_555 0.200  -1.625 3.444 -3.719 4.609  39.317 -2.939 -0.737 3.210 6.803  5.489  
39.743 6 AA_G6G7:C2U3_BB A 6 ? B 3 ? A 7 ? B 2 ? 
1 A G 7 1_555 B C 2 1_555 A C 8 1_555 B G 1 1_555 0.199  -1.910 3.380 -0.201 0.250  34.826 -3.230 -0.364 3.365 0.417  0.336  
34.828 7 AA_G7C8:G1C2_BB A 7 ? B 2 ? A 8 ? B 1 ? 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
2 'RHODIUM HEXAMINE ION' RHD 
3 'CHLORIDE ION'         CL  
4 water                  HOH 
# 
_pdbx_initial_refinement_model.id               1 
_pdbx_initial_refinement_model.entity_id_list   ? 
_pdbx_initial_refinement_model.type             'experimental model' 
_pdbx_initial_refinement_model.source_name      PDB 
_pdbx_initial_refinement_model.accession_code   165D 
_pdbx_initial_refinement_model.details          'PDB ENTRY 165D' 
#