data_1Y9S
# 
_entry.id   1Y9S 
# 
_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   1Y9S         pdb_00001y9s 10.2210/pdb1y9s/pdb 
NDB   AD0040       ?            ?                   
RCSB  RCSB031295   ?            ?                   
WWPDB D_1000031295 ?            ?                   
# 
loop_
_pdbx_database_related.db_name 
_pdbx_database_related.db_id 
_pdbx_database_related.details 
_pdbx_database_related.content_type 
PDB 1Y7F 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-[hydroxy(methyleneamino)oxy]ethyl] Thymidine (T*)
;
unspecified 
PDB 1Y84 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-(imidazolyl)ethyl] Thymidine (T*)
;
unspecified 
PDB 1Y86 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-(fluoro)ethyl] Thymidine (T*)
;
unspecified 
PDB 1Y8L 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-(trifluoro)ethyl] Thymidine (T*)
;
unspecified 
PDB 1Y8V 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-propyl Thymidine (T*)
;
unspecified 
PDB 1Y9S 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-propargyl Thymidine (T*)
;
unspecified 
PDB 1WV5 
;X-RAY STRUCTURE OF THE A-DECAMER GCGTATACGC WITH A SINGLE 2'-O-BUTYL  THYMINE IN PLACE OF T6, MG-FORM
;
unspecified 
PDB 1WV6 
;X-RAY STRUCTURE OF THE A-DECAMER GCGTATACGC WITH A SINGLE 2'-O-BUTYL  THYMINE IN PLACE OF T6, SR-FORM
;
unspecified 
PDB 1Y9F 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-allyl Thymidine (T*)
;
unspecified 
PDB 1YB9 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-(N,N-dimethylaminooxy)ethyl] Thymidine (T*)
;
unspecified 
PDB 1YBC 
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-[2-(benzyloxy)ethyl] Thymidine (T*)
;
unspecified 
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1Y9S 
_pdbx_database_status.recvd_initial_deposition_date   2004-12-16 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    RCSB 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.SG_entry                        ? 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.status_code_nmr_data            ? 
_pdbx_database_status.methods_development_category    ? 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Egli, M.'      1  
'Minasov, G.'   2  
'Tereshko, V.'  3  
'Pallan, P.S.'  4  
'Teplova, M.'   5  
'Inamati, G.B.' 6  
'Lesnik, E.A.'  7  
'Owens, S.R.'   8  
'Ross, B.S.'    9  
'Prakash, T.P.' 10 
'Manoharan, M.' 11 
# 
_citation.id                        primary 
_citation.title                     
;Probing the Influence of Stereoelectronic Effects on the Biophysical Properties of Oligonucleotides: Comprehensive Analysis of the RNA Affinity, Nuclease Resistance, and Crystal Structure of Ten 2'-O-Ribonucleic Acid Modifications.
;
_citation.journal_abbrev            Biochemistry 
_citation.journal_volume            44 
_citation.page_first                9045 
_citation.page_last                 9057 
_citation.year                      2005 
_citation.journal_id_ASTM           BICHAW 
_citation.country                   US 
_citation.journal_id_ISSN           0006-2960 
_citation.journal_id_CSD            0033 
_citation.book_publisher            ? 
_citation.pdbx_database_id_PubMed   15966728 
_citation.pdbx_database_id_DOI      10.1021/bi050574m 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Egli, M.'      1  ? 
primary 'Minasov, G.'   2  ? 
primary 'Tereshko, V.'  3  ? 
primary 'Pallan, P.S.'  4  ? 
primary 'Teplova, M.'   5  ? 
primary 'Inamati, G.B.' 6  ? 
primary 'Lesnik, E.A.'  7  ? 
primary 'Owens, S.R.'   8  ? 
primary 'Ross, B.S.'    9  ? 
primary 'Prakash, T.P.' 10 ? 
primary 'Manoharan, M.' 11 ? 
# 
_cell.entry_id           1Y9S 
_cell.length_a           24.831 
_cell.length_b           44.983 
_cell.length_c           45.409 
_cell.angle_alpha        90.00 
_cell.angle_beta         90.00 
_cell.angle_gamma        90.00 
_cell.Z_PDB              8 
_cell.pdbx_unique_axis   ? 
# 
_symmetry.entry_id                         1Y9S 
_symmetry.space_group_name_H-M             'P 21 21 21' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     ? 
_symmetry.Int_Tables_number                19 
_symmetry.space_group_name_Hall            ? 
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1 polymer syn "5'-D(*GP*CP*GP*TP*AP*(2GT)P*AP*CP*GP*C)-3')" 3099.053 2   ? ? ? ? 
2 water   nat water                                         18.015   119 ? ? ? ? 
# 
_entity_poly.entity_id                      1 
_entity_poly.type                           polydeoxyribonucleotide 
_entity_poly.nstd_linkage                   no 
_entity_poly.nstd_monomer                   yes 
_entity_poly.pdbx_seq_one_letter_code       '(DG)(DC)(DG)(DT)(DA)(2GT)(DA)(DC)(DG)(DC)' 
_entity_poly.pdbx_seq_one_letter_code_can   GCGTATACGC 
_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  DG  n 
1 2  DC  n 
1 3  DG  n 
1 4  DT  n 
1 5  DA  n 
1 6  2GT n 
1 7  DA  n 
1 8  DC  n 
1 9  DG  n 
1 10 DC  n 
# 
_struct_ref.id                         1 
_struct_ref.entity_id                  1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    1Y9S 
_struct_ref.pdbx_db_accession          1Y9S 
_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 1Y9S A 1 ? 10 ? 1Y9S 1  ? 10 ? 1  10 
2 1 1Y9S B 1 ? 10 ? 1Y9S 11 ? 20 ? 11 20 
# 
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 
2GT 'RNA linking' n 
;2'-O-PROPARGYL THYMIDINE-5'-MONOPHOSPHATE
;
? 'C13 H17 N2 O9 P' 376.256 
DA  'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE"        ? 'C10 H14 N5 O6 P' 331.222 
DC  'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE"         ? 'C9 H14 N3 O7 P'  307.197 
DG  'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE"        ? 'C10 H14 N5 O7 P' 347.221 
DT  'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE"                ? 'C10 H15 N2 O8 P' 322.208 
HOH non-polymer   . WATER                                       ? 'H2 O'            18.015  
# 
_exptl.entry_id          1Y9S 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_Matthews      2.05 
_exptl_crystal.density_percent_sol   39.88 
_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            295 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              6.0 
_exptl_crystal_grow.pdbx_details    
'10%MPD, 40mM Na-Cacodilate, 12 mM Spermine, 80mM KCL, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K' 
_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 MPD           ? ? ? 
1 2 1 Na-Cacodilate ? ? ? 
1 3 1 Spermine      ? ? ? 
1 4 1 KCL           ? ? ? 
1 5 1 H2O           ? ? ? 
1 6 2 MPD           ? ? ? 
1 7 2 Na-Cacodilate ? ? ? 
1 8 2 KCL           ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           110 
_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   1998-08-24 
_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                    No 
_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 RU200' 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             1.5418 
_diffrn_source.pdbx_wavelength_list        ? 
# 
_reflns.entry_id                     1Y9S 
_reflns.observed_criterion_sigma_F   ? 
_reflns.observed_criterion_sigma_I   -3.0 
_reflns.d_resolution_high            1.55 
_reflns.d_resolution_low             40.0 
_reflns.number_all                   7408 
_reflns.number_obs                   7408 
_reflns.percent_possible_obs         94.9 
_reflns.pdbx_Rmerge_I_obs            0.062 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        23.9 
_reflns.B_iso_Wilson_estimate        ? 
_reflns.pdbx_redundancy              5.8 
_reflns.R_free_details               ? 
_reflns.pdbx_chi_squared             ? 
_reflns.pdbx_scaling_rejects         ? 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
# 
_reflns_shell.d_res_high             1.55 
_reflns_shell.d_res_low              1.61 
_reflns_shell.percent_possible_all   83.0 
_reflns_shell.Rmerge_I_obs           0.265 
_reflns_shell.pdbx_Rsym_value        ? 
_reflns_shell.meanI_over_sigI_obs    4.0 
_reflns_shell.pdbx_redundancy        3.0 
_reflns_shell.percent_possible_obs   ? 
_reflns_shell.number_unique_all      626 
_reflns_shell.number_measured_all    ? 
_reflns_shell.number_measured_obs    ? 
_reflns_shell.number_unique_obs      ? 
_reflns_shell.pdbx_chi_squared       ? 
_reflns_shell.pdbx_diffrn_id         ? 
_reflns_shell.pdbx_ordinal           1 
# 
_refine.entry_id                                 1Y9S 
_refine.ls_d_res_high                            1.55 
_refine.ls_d_res_low                             20.0 
_refine.pdbx_ls_sigma_F                          0.0 
_refine.pdbx_ls_sigma_I                          ? 
_refine.ls_number_reflns_all                     7257 
_refine.ls_number_reflns_obs                     7257 
_refine.ls_number_reflns_R_free                  761 
_refine.ls_percent_reflns_obs                    93.0 
_refine.ls_R_factor_all                          ? 
_refine.ls_R_factor_obs                          ? 
_refine.ls_R_factor_R_work                       0.1626 
_refine.ls_R_factor_R_free                       0.2049 
_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          'MOLECULAR REPLACEMENT' 
_refine.pdbx_starting_model                      'pdb entry 410D' 
_refine.pdbx_ls_cross_valid_method               THROUGHOUT 
_refine.pdbx_R_Free_selection_details            Random 
_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             Isotropic 
_refine.B_iso_mean                               22.6 
_refine.aniso_B[1][1]                            2.712 
_refine.aniso_B[1][2]                            0.000 
_refine.aniso_B[1][3]                            0.000 
_refine.aniso_B[2][2]                            -5.760 
_refine.aniso_B[2][3]                            0.000 
_refine.aniso_B[3][3]                            3.048 
_refine.details                                  'Conjugate gradient refinement using maximum likelihood target for amplitudes' 
_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_B                             ? 
_refine.overall_SU_ML                            ? 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_overall_ESU_R_Free                  ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.ls_wR_factor_R_free                      ? 
_refine.ls_wR_factor_R_work                      ? 
_refine.overall_FOM_free_R_set                   ? 
_refine.overall_FOM_work_R_set                   ? 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_refine.pdbx_overall_phase_error                 ? 
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI   ? 
_refine.pdbx_overall_SU_R_Blow_DPI               ? 
_refine.pdbx_overall_SU_R_free_Blow_DPI          ? 
# 
_refine_hist.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_hist.cycle_id                         LAST 
_refine_hist.pdbx_number_atoms_protein        0 
_refine_hist.pdbx_number_atoms_nucleic_acid   412 
_refine_hist.pdbx_number_atoms_ligand         0 
_refine_hist.number_atoms_solvent             125 
_refine_hist.number_atoms_total               537 
_refine_hist.d_res_high                       1.55 
_refine_hist.d_res_low                        20.0 
# 
loop_
_refine_ls_restr.type 
_refine_ls_restr.dev_ideal 
_refine_ls_restr.dev_ideal_target 
_refine_ls_restr.weight 
_refine_ls_restr.number 
_refine_ls_restr.pdbx_refine_id 
_refine_ls_restr.pdbx_restraint_function 
c_bond_d    0.009 ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg 1.29  ? ? ? 'X-RAY DIFFRACTION' ? 
# 
_refine_ls_shell.pdbx_total_number_of_bins_used   ? 
_refine_ls_shell.d_res_high                       1.55 
_refine_ls_shell.d_res_low                        1.59 
_refine_ls_shell.number_reflns_R_work             ? 
_refine_ls_shell.R_factor_R_work                  0.2715 
_refine_ls_shell.percent_reflns_obs               51.6 
_refine_ls_shell.R_factor_R_free                  0.3245 
_refine_ls_shell.R_factor_R_free_error            ? 
_refine_ls_shell.percent_reflns_R_free            ? 
_refine_ls_shell.number_reflns_R_free             35 
_refine_ls_shell.redundancy_reflns_obs            ? 
_refine_ls_shell.pdbx_refine_id                   'X-RAY DIFFRACTION' 
_refine_ls_shell.number_reflns_all                ? 
_refine_ls_shell.R_factor_all                     ? 
# 
_struct.entry_id                  1Y9S 
_struct.title                     
;Crystal structure of the A-DNA GCGTAT*CGC with a 2'-O-propargyl Thymidine (T*)
;
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1Y9S 
_struct_keywords.pdbx_keywords   DNA 
_struct_keywords.text            
;A-DNA decamer, O2'-modification, DNA
;
# 
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_biol.id                    1 
_struct_biol.details               'Chains A and B form duplex' 
_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 DA  5  "O3'" ? ? ? 1_555 A 2GT 6  P  ? ? A DA  5  A 2GT 6  1_555 ? ? ? ? ? ? ?            1.591 ? ? 
covale2  covale both ? A 2GT 6  "O3'" ? ? ? 1_555 A DA  7  P  ? ? A 2GT 6  A DA  7  1_555 ? ? ? ? ? ? ?            1.604 ? ? 
covale3  covale both ? B DA  5  "O3'" ? ? ? 1_555 B 2GT 6  P  ? ? B DA  15 B 2GT 16 1_555 ? ? ? ? ? ? ?            1.591 ? ? 
covale4  covale both ? B 2GT 6  "O3'" ? ? ? 1_555 B DA  7  P  ? ? B 2GT 16 B DA  17 1_555 ? ? ? ? ? ? ?            1.593 ? ? 
hydrog1  hydrog ?    ? A DG  1  N1    ? ? ? 1_555 B DC  10 N3 ? ? A DG  1  B DC  20 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog2  hydrog ?    ? A DG  1  N2    ? ? ? 1_555 B DC  10 O2 ? ? A DG  1  B DC  20 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog3  hydrog ?    ? A DG  1  O6    ? ? ? 1_555 B DC  10 N4 ? ? A DG  1  B DC  20 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog4  hydrog ?    ? A DC  2  N3    ? ? ? 1_555 B DG  9  N1 ? ? A DC  2  B DG  19 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog5  hydrog ?    ? A DC  2  N4    ? ? ? 1_555 B DG  9  O6 ? ? A DC  2  B DG  19 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog6  hydrog ?    ? A DC  2  O2    ? ? ? 1_555 B DG  9  N2 ? ? A DC  2  B DG  19 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog7  hydrog ?    ? A DG  3  N1    ? ? ? 1_555 B DC  8  N3 ? ? A DG  3  B DC  18 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog8  hydrog ?    ? A DG  3  N2    ? ? ? 1_555 B DC  8  O2 ? ? A DG  3  B DC  18 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog9  hydrog ?    ? A DG  3  O6    ? ? ? 1_555 B DC  8  N4 ? ? A DG  3  B DC  18 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog10 hydrog ?    ? A DT  4  N3    ? ? ? 1_555 B DA  7  N1 ? ? A DT  4  B DA  17 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog11 hydrog ?    ? A DT  4  O4    ? ? ? 1_555 B DA  7  N6 ? ? A DT  4  B DA  17 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog12 hydrog ?    ? A DA  5  N1    ? ? ? 1_555 B 2GT 6  N3 ? ? A DA  5  B 2GT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog13 hydrog ?    ? A DA  5  N6    ? ? ? 1_555 B 2GT 6  O4 ? ? A DA  5  B 2GT 16 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog14 hydrog ?    ? A 2GT 6  N3    ? ? ? 1_555 B DA  5  N1 ? ? A 2GT 6  B DA  15 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog15 hydrog ?    ? A 2GT 6  O4    ? ? ? 1_555 B DA  5  N6 ? ? A 2GT 6  B DA  15 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog16 hydrog ?    ? A DA  7  N1    ? ? ? 1_555 B DT  4  N3 ? ? A DA  7  B DT  14 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog17 hydrog ?    ? A DA  7  N6    ? ? ? 1_555 B DT  4  O4 ? ? A DA  7  B DT  14 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog18 hydrog ?    ? A DC  8  N3    ? ? ? 1_555 B DG  3  N1 ? ? A DC  8  B DG  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog19 hydrog ?    ? A DC  8  N4    ? ? ? 1_555 B DG  3  O6 ? ? A DC  8  B DG  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog20 hydrog ?    ? A DC  8  O2    ? ? ? 1_555 B DG  3  N2 ? ? A DC  8  B DG  13 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog21 hydrog ?    ? A DG  9  N1    ? ? ? 1_555 B DC  2  N3 ? ? A DG  9  B DC  12 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog22 hydrog ?    ? A DG  9  N2    ? ? ? 1_555 B DC  2  O2 ? ? A DG  9  B DC  12 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog23 hydrog ?    ? A DG  9  O6    ? ? ? 1_555 B DC  2  N4 ? ? A DG  9  B DC  12 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog24 hydrog ?    ? A DC  10 N3    ? ? ? 1_555 B DG  1  N1 ? ? A DC  10 B DG  11 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog25 hydrog ?    ? A DC  10 N4    ? ? ? 1_555 B DG  1  O6 ? ? A DC  10 B DG  11 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog26 hydrog ?    ? A DC  10 O2    ? ? ? 1_555 B DG  1  N2 ? ? A DC  10 B DG  11 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
covale ? ? 
hydrog ? ? 
# 
_database_PDB_matrix.entry_id          1Y9S 
_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                    1Y9S 
_atom_sites.fract_transf_matrix[1][1]   0.040272 
_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]   0.022231 
_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]   0.022022 
_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_
_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  DG  1  1  1  DG  G   A . n 
A 1 2  DC  2  2  2  DC  C   A . n 
A 1 3  DG  3  3  3  DG  G   A . n 
A 1 4  DT  4  4  4  DT  T   A . n 
A 1 5  DA  5  5  5  DA  A   A . n 
A 1 6  2GT 6  6  6  2GT PRG A . n 
A 1 7  DA  7  7  7  DA  A   A . n 
A 1 8  DC  8  8  8  DC  C   A . n 
A 1 9  DG  9  9  9  DG  G   A . n 
A 1 10 DC  10 10 10 DC  C   A . n 
B 1 1  DG  1  11 11 DG  G   B . n 
B 1 2  DC  2  12 12 DC  C   B . n 
B 1 3  DG  3  13 13 DG  G   B . n 
B 1 4  DT  4  14 14 DT  T   B . n 
B 1 5  DA  5  15 15 DA  A   B . n 
B 1 6  2GT 6  16 16 2GT PRG B . n 
B 1 7  DA  7  17 17 DA  A   B . n 
B 1 8  DC  8  18 18 DC  C   B . n 
B 1 9  DG  9  19 19 DG  G   B . n 
B 1 10 DC  10 20 20 DC  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 2 HOH 1  101 101 HOH HOH A . 
C 2 HOH 2  102 102 HOH HOH A . 
C 2 HOH 3  104 104 HOH HOH A . 
C 2 HOH 4  105 105 HOH HOH A . 
C 2 HOH 5  106 106 HOH HOH A . 
C 2 HOH 6  107 107 HOH HOH A . 
C 2 HOH 7  108 108 HOH HOH A . 
C 2 HOH 8  109 109 HOH HOH A . 
C 2 HOH 9  110 110 HOH HOH A . 
C 2 HOH 10 112 112 HOH HOH A . 
C 2 HOH 11 113 113 HOH HOH A . 
C 2 HOH 12 114 114 HOH HOH A . 
C 2 HOH 13 115 115 HOH HOH A . 
C 2 HOH 14 118 118 HOH HOH A . 
C 2 HOH 15 119 119 HOH HOH A . 
C 2 HOH 16 120 120 HOH HOH A . 
C 2 HOH 17 127 127 HOH HOH A . 
C 2 HOH 18 128 128 HOH HOH A . 
C 2 HOH 19 129 129 HOH HOH A . 
C 2 HOH 20 130 130 HOH HOH A . 
C 2 HOH 21 132 132 HOH HOH A . 
C 2 HOH 22 133 133 HOH HOH A . 
C 2 HOH 23 134 134 HOH HOH A . 
C 2 HOH 24 136 136 HOH HOH A . 
C 2 HOH 25 138 138 HOH HOH A . 
C 2 HOH 26 139 139 HOH HOH A . 
C 2 HOH 27 142 142 HOH HOH A . 
C 2 HOH 28 145 145 HOH HOH A . 
C 2 HOH 29 146 146 HOH HOH A . 
C 2 HOH 30 148 148 HOH HOH A . 
C 2 HOH 31 149 149 HOH HOH A . 
C 2 HOH 32 150 150 HOH HOH A . 
C 2 HOH 33 151 151 HOH HOH A . 
C 2 HOH 34 152 152 HOH HOH A . 
C 2 HOH 35 153 153 HOH HOH A . 
C 2 HOH 36 154 154 HOH HOH A . 
C 2 HOH 37 156 156 HOH HOH A . 
C 2 HOH 38 157 157 HOH HOH A . 
C 2 HOH 39 158 158 HOH HOH A . 
C 2 HOH 40 159 159 HOH HOH A . 
C 2 HOH 41 160 160 HOH HOH A . 
C 2 HOH 42 162 162 HOH HOH A . 
C 2 HOH 43 163 163 HOH HOH A . 
C 2 HOH 44 165 165 HOH HOH A . 
C 2 HOH 45 170 170 HOH HOH A . 
C 2 HOH 46 171 171 HOH HOH A . 
C 2 HOH 47 174 174 HOH HOH A . 
C 2 HOH 48 175 175 HOH HOH A . 
C 2 HOH 49 176 176 HOH HOH A . 
C 2 HOH 50 183 183 HOH HOH A . 
C 2 HOH 51 185 185 HOH HOH A . 
C 2 HOH 52 187 187 HOH HOH A . 
C 2 HOH 53 188 188 HOH HOH A . 
C 2 HOH 54 189 189 HOH HOH A . 
C 2 HOH 55 190 190 HOH HOH A . 
C 2 HOH 56 191 191 HOH HOH A . 
C 2 HOH 57 192 192 HOH HOH A . 
C 2 HOH 58 193 193 HOH HOH A . 
C 2 HOH 59 194 194 HOH HOH A . 
C 2 HOH 60 195 195 HOH HOH A . 
C 2 HOH 61 196 196 HOH HOH A . 
C 2 HOH 62 197 197 HOH HOH A . 
C 2 HOH 63 201 201 HOH HOH A . 
C 2 HOH 64 202 202 HOH HOH A . 
C 2 HOH 65 204 204 HOH HOH A . 
C 2 HOH 66 205 205 HOH HOH A . 
C 2 HOH 67 206 206 HOH HOH A . 
C 2 HOH 68 207 207 HOH HOH A . 
C 2 HOH 69 208 208 HOH HOH A . 
C 2 HOH 70 210 210 HOH HOH A . 
C 2 HOH 71 213 213 HOH HOH A . 
C 2 HOH 72 214 214 HOH HOH A . 
C 2 HOH 73 215 215 HOH HOH A . 
C 2 HOH 74 217 217 HOH HOH A . 
C 2 HOH 75 219 219 HOH HOH A . 
D 2 HOH 1  103 103 HOH HOH B . 
D 2 HOH 2  111 111 HOH HOH B . 
D 2 HOH 3  116 116 HOH HOH B . 
D 2 HOH 4  117 117 HOH HOH B . 
D 2 HOH 5  121 121 HOH HOH B . 
D 2 HOH 6  122 122 HOH HOH B . 
D 2 HOH 7  123 123 HOH HOH B . 
D 2 HOH 8  124 124 HOH HOH B . 
D 2 HOH 9  125 125 HOH HOH B . 
D 2 HOH 10 126 126 HOH HOH B . 
D 2 HOH 11 131 131 HOH HOH B . 
D 2 HOH 12 135 135 HOH HOH B . 
D 2 HOH 13 137 137 HOH HOH B . 
D 2 HOH 14 140 140 HOH HOH B . 
D 2 HOH 15 141 141 HOH HOH B . 
D 2 HOH 16 143 143 HOH HOH B . 
D 2 HOH 17 144 144 HOH HOH B . 
D 2 HOH 18 147 147 HOH HOH B . 
D 2 HOH 19 155 155 HOH HOH B . 
D 2 HOH 20 161 161 HOH HOH B . 
D 2 HOH 21 164 164 HOH HOH B . 
D 2 HOH 22 166 166 HOH HOH B . 
D 2 HOH 23 167 167 HOH HOH B . 
D 2 HOH 24 168 168 HOH HOH B . 
D 2 HOH 25 169 169 HOH HOH B . 
D 2 HOH 26 172 172 HOH HOH B . 
D 2 HOH 27 173 173 HOH HOH B . 
D 2 HOH 28 177 177 HOH HOH B . 
D 2 HOH 29 178 178 HOH HOH B . 
D 2 HOH 30 179 179 HOH HOH B . 
D 2 HOH 31 180 180 HOH HOH B . 
D 2 HOH 32 181 181 HOH HOH B . 
D 2 HOH 33 182 182 HOH HOH B . 
D 2 HOH 34 184 184 HOH HOH B . 
D 2 HOH 35 186 186 HOH HOH B . 
D 2 HOH 36 198 198 HOH HOH B . 
D 2 HOH 37 199 199 HOH HOH B . 
D 2 HOH 38 200 200 HOH HOH B . 
D 2 HOH 39 203 203 HOH HOH B . 
D 2 HOH 40 209 209 HOH HOH B . 
D 2 HOH 41 211 211 HOH HOH B . 
D 2 HOH 42 212 212 HOH HOH B . 
D 2 HOH 43 216 216 HOH HOH B . 
D 2 HOH 44 218 218 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 2GT 6 A 2GT 6  ? DT ? 
2 B 2GT 6 B 2GT 16 ? DT ? 
# 
_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 
# 
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 2005-06-28 
2 'Structure model' 1 1 2008-04-30 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2023-08-23 
# 
_pdbx_audit_revision_details.ordinal             1 
_pdbx_audit_revision_details.revision_ordinal    1 
_pdbx_audit_revision_details.data_content_type   'Structure model' 
_pdbx_audit_revision_details.provider            repository 
_pdbx_audit_revision_details.type                'Initial release' 
_pdbx_audit_revision_details.description         ? 
_pdbx_audit_revision_details.details             ? 
# 
loop_
_pdbx_audit_revision_group.ordinal 
_pdbx_audit_revision_group.revision_ordinal 
_pdbx_audit_revision_group.data_content_type 
_pdbx_audit_revision_group.group 
1 2 'Structure model' 'Version format compliance' 
2 3 'Structure model' 'Version format compliance' 
3 4 'Structure model' 'Data collection'           
4 4 'Structure model' 'Database references'       
5 4 'Structure model' 'Derived calculations'      
6 4 'Structure model' 'Refinement description'    
# 
loop_
_pdbx_audit_revision_category.ordinal 
_pdbx_audit_revision_category.revision_ordinal 
_pdbx_audit_revision_category.data_content_type 
_pdbx_audit_revision_category.category 
1 4 'Structure model' chem_comp_atom                
2 4 'Structure model' chem_comp_bond                
3 4 'Structure model' database_2                    
4 4 'Structure model' pdbx_initial_refinement_model 
5 4 'Structure model' struct_conn                   
# 
loop_
_pdbx_audit_revision_item.ordinal 
_pdbx_audit_revision_item.revision_ordinal 
_pdbx_audit_revision_item.data_content_type 
_pdbx_audit_revision_item.item 
1 4 'Structure model' '_database_2.pdbx_DOI'                
2 4 'Structure model' '_database_2.pdbx_database_accession' 
3 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 
# 
loop_
_software.name 
_software.classification 
_software.version 
_software.citation_id 
_software.pdbx_ordinal 
DENZO     'data reduction' . ? 1 
SCALEPACK 'data scaling'   . ? 2 
AMoRE     phasing          . ? 3 
CNS       refinement       . ? 4 
# 
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 
2GT P      P N N 1   
2GT OP1    O N N 2   
2GT OP2    O N N 3   
2GT "O5'"  O N N 4   
2GT "C5'"  C N N 5   
2GT "C4'"  C N R 6   
2GT "O4'"  O N N 7   
2GT "C1'"  C N R 8   
2GT N1     N N N 9   
2GT C6     C N N 10  
2GT C2     C N N 11  
2GT O2     O N N 12  
2GT N3     N N N 13  
2GT C4     C N N 14  
2GT O4     O N N 15  
2GT C5     C N N 16  
2GT C5M    C N N 17  
2GT "C2'"  C N R 18  
2GT "O2'"  O N N 19  
2GT "CB'"  C N N 20  
2GT "CC'"  C N N 21  
2GT "CD'"  C N N 22  
2GT "C3'"  C N R 23  
2GT "O3'"  O N N 24  
2GT OP3    O N N 25  
2GT HOP2   H N N 26  
2GT "H5'"  H N N 27  
2GT "H5''" H N N 28  
2GT "H4'"  H N N 29  
2GT "H1'"  H N N 30  
2GT H6     H N N 31  
2GT HN3    H N N 32  
2GT H71    H N N 33  
2GT H72    H N N 34  
2GT H73    H N N 35  
2GT "H2'"  H N N 36  
2GT "HB'1" H N N 37  
2GT "HB'2" H N N 38  
2GT "HD'"  H N N 39  
2GT "H3'"  H N N 40  
2GT "HO3'" H N N 41  
2GT HOP3   H N N 42  
DA  OP3    O N N 43  
DA  P      P N N 44  
DA  OP1    O N N 45  
DA  OP2    O N N 46  
DA  "O5'"  O N N 47  
DA  "C5'"  C N N 48  
DA  "C4'"  C N R 49  
DA  "O4'"  O N N 50  
DA  "C3'"  C N S 51  
DA  "O3'"  O N N 52  
DA  "C2'"  C N N 53  
DA  "C1'"  C N R 54  
DA  N9     N Y N 55  
DA  C8     C Y N 56  
DA  N7     N Y N 57  
DA  C5     C Y N 58  
DA  C6     C Y N 59  
DA  N6     N N N 60  
DA  N1     N Y N 61  
DA  C2     C Y N 62  
DA  N3     N Y N 63  
DA  C4     C Y N 64  
DA  HOP3   H N N 65  
DA  HOP2   H N N 66  
DA  "H5'"  H N N 67  
DA  "H5''" H N N 68  
DA  "H4'"  H N N 69  
DA  "H3'"  H N N 70  
DA  "HO3'" H N N 71  
DA  "H2'"  H N N 72  
DA  "H2''" H N N 73  
DA  "H1'"  H N N 74  
DA  H8     H N N 75  
DA  H61    H N N 76  
DA  H62    H N N 77  
DA  H2     H N N 78  
DC  OP3    O N N 79  
DC  P      P N N 80  
DC  OP1    O N N 81  
DC  OP2    O N N 82  
DC  "O5'"  O N N 83  
DC  "C5'"  C N N 84  
DC  "C4'"  C N R 85  
DC  "O4'"  O N N 86  
DC  "C3'"  C N S 87  
DC  "O3'"  O N N 88  
DC  "C2'"  C N N 89  
DC  "C1'"  C N R 90  
DC  N1     N N N 91  
DC  C2     C N N 92  
DC  O2     O N N 93  
DC  N3     N N N 94  
DC  C4     C N N 95  
DC  N4     N N N 96  
DC  C5     C N N 97  
DC  C6     C N N 98  
DC  HOP3   H N N 99  
DC  HOP2   H N N 100 
DC  "H5'"  H N N 101 
DC  "H5''" H N N 102 
DC  "H4'"  H N N 103 
DC  "H3'"  H N N 104 
DC  "HO3'" H N N 105 
DC  "H2'"  H N N 106 
DC  "H2''" H N N 107 
DC  "H1'"  H N N 108 
DC  H41    H N N 109 
DC  H42    H N N 110 
DC  H5     H N N 111 
DC  H6     H N N 112 
DG  OP3    O N N 113 
DG  P      P N N 114 
DG  OP1    O N N 115 
DG  OP2    O N N 116 
DG  "O5'"  O N N 117 
DG  "C5'"  C N N 118 
DG  "C4'"  C N R 119 
DG  "O4'"  O N N 120 
DG  "C3'"  C N S 121 
DG  "O3'"  O N N 122 
DG  "C2'"  C N N 123 
DG  "C1'"  C N R 124 
DG  N9     N Y N 125 
DG  C8     C Y N 126 
DG  N7     N Y N 127 
DG  C5     C Y N 128 
DG  C6     C N N 129 
DG  O6     O N N 130 
DG  N1     N N N 131 
DG  C2     C N N 132 
DG  N2     N N N 133 
DG  N3     N N N 134 
DG  C4     C Y N 135 
DG  HOP3   H N N 136 
DG  HOP2   H N N 137 
DG  "H5'"  H N N 138 
DG  "H5''" H N N 139 
DG  "H4'"  H N N 140 
DG  "H3'"  H N N 141 
DG  "HO3'" H N N 142 
DG  "H2'"  H N N 143 
DG  "H2''" H N N 144 
DG  "H1'"  H N N 145 
DG  H8     H N N 146 
DG  H1     H N N 147 
DG  H21    H N N 148 
DG  H22    H N N 149 
DT  OP3    O N N 150 
DT  P      P N N 151 
DT  OP1    O N N 152 
DT  OP2    O N N 153 
DT  "O5'"  O N N 154 
DT  "C5'"  C N N 155 
DT  "C4'"  C N R 156 
DT  "O4'"  O N N 157 
DT  "C3'"  C N S 158 
DT  "O3'"  O N N 159 
DT  "C2'"  C N N 160 
DT  "C1'"  C N R 161 
DT  N1     N N N 162 
DT  C2     C N N 163 
DT  O2     O N N 164 
DT  N3     N N N 165 
DT  C4     C N N 166 
DT  O4     O N N 167 
DT  C5     C N N 168 
DT  C7     C N N 169 
DT  C6     C N N 170 
DT  HOP3   H N N 171 
DT  HOP2   H N N 172 
DT  "H5'"  H N N 173 
DT  "H5''" H N N 174 
DT  "H4'"  H N N 175 
DT  "H3'"  H N N 176 
DT  "HO3'" H N N 177 
DT  "H2'"  H N N 178 
DT  "H2''" H N N 179 
DT  "H1'"  H N N 180 
DT  H3     H N N 181 
DT  H71    H N N 182 
DT  H72    H N N 183 
DT  H73    H N N 184 
DT  H6     H N N 185 
HOH O      O N N 186 
HOH H1     H N N 187 
HOH H2     H N N 188 
# 
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 
2GT P     OP1    doub N N 1   
2GT P     OP2    sing N N 2   
2GT P     "O5'"  sing N N 3   
2GT P     OP3    sing N N 4   
2GT OP2   HOP2   sing N N 5   
2GT "O5'" "C5'"  sing N N 6   
2GT "C5'" "C4'"  sing N N 7   
2GT "C5'" "H5'"  sing N N 8   
2GT "C5'" "H5''" sing N N 9   
2GT "C4'" "O4'"  sing N N 10  
2GT "C4'" "C3'"  sing N N 11  
2GT "C4'" "H4'"  sing N N 12  
2GT "O4'" "C1'"  sing N N 13  
2GT "C1'" N1     sing N N 14  
2GT "C1'" "C2'"  sing N N 15  
2GT "C1'" "H1'"  sing N N 16  
2GT N1    C6     sing N N 17  
2GT N1    C2     sing N N 18  
2GT C6    C5     doub N N 19  
2GT C6    H6     sing N N 20  
2GT C2    O2     doub N N 21  
2GT C2    N3     sing N N 22  
2GT N3    C4     sing N N 23  
2GT N3    HN3    sing N N 24  
2GT C4    O4     doub N N 25  
2GT C4    C5     sing N N 26  
2GT C5    C5M    sing N N 27  
2GT C5M   H71    sing N N 28  
2GT C5M   H72    sing N N 29  
2GT C5M   H73    sing N N 30  
2GT "C2'" "O2'"  sing N N 31  
2GT "C2'" "C3'"  sing N N 32  
2GT "C2'" "H2'"  sing N N 33  
2GT "O2'" "CB'"  sing N N 34  
2GT "CB'" "CC'"  sing N N 35  
2GT "CB'" "HB'1" sing N N 36  
2GT "CB'" "HB'2" sing N N 37  
2GT "CC'" "CD'"  trip N N 38  
2GT "CD'" "HD'"  sing N N 39  
2GT "C3'" "O3'"  sing N N 40  
2GT "C3'" "H3'"  sing N N 41  
2GT "O3'" "HO3'" sing N N 42  
2GT OP3   HOP3   sing N N 43  
DA  OP3   P      sing N N 44  
DA  OP3   HOP3   sing N N 45  
DA  P     OP1    doub N N 46  
DA  P     OP2    sing N N 47  
DA  P     "O5'"  sing N N 48  
DA  OP2   HOP2   sing N N 49  
DA  "O5'" "C5'"  sing N N 50  
DA  "C5'" "C4'"  sing N N 51  
DA  "C5'" "H5'"  sing N N 52  
DA  "C5'" "H5''" sing N N 53  
DA  "C4'" "O4'"  sing N N 54  
DA  "C4'" "C3'"  sing N N 55  
DA  "C4'" "H4'"  sing N N 56  
DA  "O4'" "C1'"  sing N N 57  
DA  "C3'" "O3'"  sing N N 58  
DA  "C3'" "C2'"  sing N N 59  
DA  "C3'" "H3'"  sing N N 60  
DA  "O3'" "HO3'" sing N N 61  
DA  "C2'" "C1'"  sing N N 62  
DA  "C2'" "H2'"  sing N N 63  
DA  "C2'" "H2''" sing N N 64  
DA  "C1'" N9     sing N N 65  
DA  "C1'" "H1'"  sing N N 66  
DA  N9    C8     sing Y N 67  
DA  N9    C4     sing Y N 68  
DA  C8    N7     doub Y N 69  
DA  C8    H8     sing N N 70  
DA  N7    C5     sing Y N 71  
DA  C5    C6     sing Y N 72  
DA  C5    C4     doub Y N 73  
DA  C6    N6     sing N N 74  
DA  C6    N1     doub Y N 75  
DA  N6    H61    sing N N 76  
DA  N6    H62    sing N N 77  
DA  N1    C2     sing Y N 78  
DA  C2    N3     doub Y N 79  
DA  C2    H2     sing N N 80  
DA  N3    C4     sing Y N 81  
DC  OP3   P      sing N N 82  
DC  OP3   HOP3   sing N N 83  
DC  P     OP1    doub N N 84  
DC  P     OP2    sing N N 85  
DC  P     "O5'"  sing N N 86  
DC  OP2   HOP2   sing N N 87  
DC  "O5'" "C5'"  sing N N 88  
DC  "C5'" "C4'"  sing N N 89  
DC  "C5'" "H5'"  sing N N 90  
DC  "C5'" "H5''" sing N N 91  
DC  "C4'" "O4'"  sing N N 92  
DC  "C4'" "C3'"  sing N N 93  
DC  "C4'" "H4'"  sing N N 94  
DC  "O4'" "C1'"  sing N N 95  
DC  "C3'" "O3'"  sing N N 96  
DC  "C3'" "C2'"  sing N N 97  
DC  "C3'" "H3'"  sing N N 98  
DC  "O3'" "HO3'" sing N N 99  
DC  "C2'" "C1'"  sing N N 100 
DC  "C2'" "H2'"  sing N N 101 
DC  "C2'" "H2''" sing N N 102 
DC  "C1'" N1     sing N N 103 
DC  "C1'" "H1'"  sing N N 104 
DC  N1    C2     sing N N 105 
DC  N1    C6     sing N N 106 
DC  C2    O2     doub N N 107 
DC  C2    N3     sing N N 108 
DC  N3    C4     doub N N 109 
DC  C4    N4     sing N N 110 
DC  C4    C5     sing N N 111 
DC  N4    H41    sing N N 112 
DC  N4    H42    sing N N 113 
DC  C5    C6     doub N N 114 
DC  C5    H5     sing N N 115 
DC  C6    H6     sing N N 116 
DG  OP3   P      sing N N 117 
DG  OP3   HOP3   sing N N 118 
DG  P     OP1    doub N N 119 
DG  P     OP2    sing N N 120 
DG  P     "O5'"  sing N N 121 
DG  OP2   HOP2   sing N N 122 
DG  "O5'" "C5'"  sing N N 123 
DG  "C5'" "C4'"  sing N N 124 
DG  "C5'" "H5'"  sing N N 125 
DG  "C5'" "H5''" sing N N 126 
DG  "C4'" "O4'"  sing N N 127 
DG  "C4'" "C3'"  sing N N 128 
DG  "C4'" "H4'"  sing N N 129 
DG  "O4'" "C1'"  sing N N 130 
DG  "C3'" "O3'"  sing N N 131 
DG  "C3'" "C2'"  sing N N 132 
DG  "C3'" "H3'"  sing N N 133 
DG  "O3'" "HO3'" sing N N 134 
DG  "C2'" "C1'"  sing N N 135 
DG  "C2'" "H2'"  sing N N 136 
DG  "C2'" "H2''" sing N N 137 
DG  "C1'" N9     sing N N 138 
DG  "C1'" "H1'"  sing N N 139 
DG  N9    C8     sing Y N 140 
DG  N9    C4     sing Y N 141 
DG  C8    N7     doub Y N 142 
DG  C8    H8     sing N N 143 
DG  N7    C5     sing Y N 144 
DG  C5    C6     sing N N 145 
DG  C5    C4     doub Y N 146 
DG  C6    O6     doub N N 147 
DG  C6    N1     sing N N 148 
DG  N1    C2     sing N N 149 
DG  N1    H1     sing N N 150 
DG  C2    N2     sing N N 151 
DG  C2    N3     doub N N 152 
DG  N2    H21    sing N N 153 
DG  N2    H22    sing N N 154 
DG  N3    C4     sing N N 155 
DT  OP3   P      sing N N 156 
DT  OP3   HOP3   sing N N 157 
DT  P     OP1    doub N N 158 
DT  P     OP2    sing N N 159 
DT  P     "O5'"  sing N N 160 
DT  OP2   HOP2   sing N N 161 
DT  "O5'" "C5'"  sing N N 162 
DT  "C5'" "C4'"  sing N N 163 
DT  "C5'" "H5'"  sing N N 164 
DT  "C5'" "H5''" sing N N 165 
DT  "C4'" "O4'"  sing N N 166 
DT  "C4'" "C3'"  sing N N 167 
DT  "C4'" "H4'"  sing N N 168 
DT  "O4'" "C1'"  sing N N 169 
DT  "C3'" "O3'"  sing N N 170 
DT  "C3'" "C2'"  sing N N 171 
DT  "C3'" "H3'"  sing N N 172 
DT  "O3'" "HO3'" sing N N 173 
DT  "C2'" "C1'"  sing N N 174 
DT  "C2'" "H2'"  sing N N 175 
DT  "C2'" "H2''" sing N N 176 
DT  "C1'" N1     sing N N 177 
DT  "C1'" "H1'"  sing N N 178 
DT  N1    C2     sing N N 179 
DT  N1    C6     sing N N 180 
DT  C2    O2     doub N N 181 
DT  C2    N3     sing N N 182 
DT  N3    C4     sing N N 183 
DT  N3    H3     sing N N 184 
DT  C4    O4     doub N N 185 
DT  C4    C5     sing N N 186 
DT  C5    C7     sing N N 187 
DT  C5    C6     doub N N 188 
DT  C7    H71    sing N N 189 
DT  C7    H72    sing N N 190 
DT  C7    H73    sing N N 191 
DT  C6    H6     sing N N 192 
HOH O     H1     sing N N 193 
HOH O     H2     sing N N 194 
# 
_ndb_struct_conf_na.entry_id   1Y9S 
_ndb_struct_conf_na.feature    'a-form double helix' 
# 
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 DG  1  1_555 B DC  10 1_555 -0.282 -0.120 0.136  3.166  -5.772  -0.176 1  A_DG1:DC20_B  A 1  ? B 20 ? 19 1 
1 A DC  2  1_555 B DG  9  1_555 0.116  -0.008 0.007  6.623  -15.124 0.711  2  A_DC2:DG19_B  A 2  ? B 19 ? 19 1 
1 A DG  3  1_555 B DC  8  1_555 -0.337 -0.140 -0.111 -9.527 -16.031 1.694  3  A_DG3:DC18_B  A 3  ? B 18 ? 19 1 
1 A DT  4  1_555 B DA  7  1_555 -0.177 -0.094 0.072  -4.355 -14.841 0.672  4  A_DT4:DA17_B  A 4  ? B 17 ? 20 1 
1 A DA  5  1_555 B 2GT 6  1_555 0.232  -0.065 0.119  -2.808 -14.842 -4.649 5  A_DA5:2GT16_B A 5  ? B 16 ? 20 1 
1 A 2GT 6  1_555 B DA  5  1_555 -0.143 -0.130 0.259  6.003  -12.455 4.204  6  A_2GT6:DA15_B A 6  ? B 15 ? 20 1 
1 A DA  7  1_555 B DT  4  1_555 0.039  -0.147 0.003  6.435  -10.541 2.380  7  A_DA7:DT14_B  A 7  ? B 14 ? 20 1 
1 A DC  8  1_555 B DG  3  1_555 0.223  -0.157 -0.181 10.292 -13.833 1.103  8  A_DC8:DG13_B  A 8  ? B 13 ? 19 1 
1 A DG  9  1_555 B DC  2  1_555 -0.210 -0.140 -0.102 -6.998 -11.297 1.121  9  A_DG9:DC12_B  A 9  ? B 12 ? 19 1 
1 A DC  10 1_555 B DG  1  1_555 0.161  -0.193 0.125  -2.478 5.582   -1.450 10 A_DC10:DG11_B A 10 ? B 11 ? 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 DG  1 1_555 B DC  10 1_555 A DC  2  1_555 B DG  9 1_555 0.237  -1.415 3.206 2.205  -0.527 39.181 -2.045 -0.094 3.233 -0.785 
-3.285 39.244 1 AA_DG1DC2:DG19DC20_BB   A 1 ? B 20 ? A 2  ? B 19 ? 
1 A DC  2 1_555 B DG  9  1_555 A DG  3  1_555 B DC  8 1_555 0.304  -2.122 3.621 1.976  10.943 25.008 -7.155 -0.162 2.504 23.825 
-4.302 27.333 2 AA_DC2DG3:DC18DG19_BB   A 2 ? B 19 ? A 3  ? B 18 ? 
1 A DG  3 1_555 B DC  8  1_555 A DT  4  1_555 B DA  7 1_555 -1.101 -1.441 3.088 -4.183 4.847  35.722 -2.949 1.221  2.979 7.823  
6.753  36.273 3 AA_DG3DT4:DA17DC18_BB   A 3 ? B 18 ? A 4  ? B 17 ? 
1 A DT  4 1_555 B DA  7  1_555 A DA  5  1_555 B 2GT 6 1_555 0.587  -1.587 3.157 2.466  19.686 26.894 -5.472 -0.685 1.684 36.658 
-4.591 33.312 4 AA_DT4DA5:2GT16DA17_BB  A 4 ? B 17 ? A 5  ? B 16 ? 
1 A DA  5 1_555 B 2GT 6  1_555 A 2GT 6  1_555 B DA  5 1_555 0.772  -1.384 3.018 0.011  5.759  31.500 -3.430 -1.399 2.729 10.498 
-0.021 32.009 5 AA_DA52GT6:DA152GT16_BB A 5 ? B 16 ? A 6  ? B 15 ? 
1 A 2GT 6 1_555 B DA  5  1_555 A DA  7  1_555 B DT  4 1_555 -0.266 -1.395 3.082 1.259  13.036 31.361 -4.192 0.630  2.323 22.905 
-2.212 33.922 6 AA_2GT6DA7:DT14DA15_BB  A 6 ? B 15 ? A 7  ? B 14 ? 
1 A DA  7 1_555 B DT  4  1_555 A DC  8  1_555 B DG  3 1_555 0.217  -1.696 3.283 1.479  4.168  30.872 -3.926 -0.129 3.040 7.780  
-2.761 31.179 7 AA_DA7DC8:DG13DT14_BB   A 7 ? B 14 ? A 8  ? B 13 ? 
1 A DC  8 1_555 B DG  3  1_555 A DG  9  1_555 B DC  2 1_555 -0.364 -1.940 3.601 -0.239 13.360 28.936 -5.928 0.622  2.488 25.116 
0.449  31.812 8 AA_DC8DG9:DC12DG13_BB   A 8 ? B 13 ? A 9  ? B 12 ? 
1 A DG  9 1_555 B DC  2  1_555 A DC  10 1_555 B DG  1 1_555 0.149  -1.683 3.280 -0.480 1.564  34.958 -3.032 -0.320 3.201 2.602  
0.799  34.995 9 AA_DG9DC10:DG11DC12_BB  A 9 ? B 12 ? A 10 ? B 11 ? 
# 
_pdbx_entity_nonpoly.entity_id   2 
_pdbx_entity_nonpoly.name        water 
_pdbx_entity_nonpoly.comp_id     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   410D 
_pdbx_initial_refinement_model.details          'pdb entry 410D' 
#