data_1S1L
# 
_entry.id   1S1L 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.389 
_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   1S1L         pdb_00001s1l 10.2210/pdb1s1l/pdb 
NDB   UD0052       ?            ?                   
RCSB  RCSB021251   ?            ?                   
WWPDB D_1000021251 ?            ?                   
# 
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 2004-08-31 
2 'Structure model' 1 1 2008-04-29 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2017-10-11 
5 'Structure model' 1 4 2024-02-14 
6 'Structure model' 1 5 2024-04-03 
# 
_pdbx_audit_revision_details.ordinal             1 
_pdbx_audit_revision_details.revision_ordinal    1 
_pdbx_audit_revision_details.data_content_type   'Structure model' 
_pdbx_audit_revision_details.provider            repository 
_pdbx_audit_revision_details.type                'Initial release' 
_pdbx_audit_revision_details.description         ? 
_pdbx_audit_revision_details.details             ? 
# 
loop_
_pdbx_audit_revision_group.ordinal 
_pdbx_audit_revision_group.revision_ordinal 
_pdbx_audit_revision_group.data_content_type 
_pdbx_audit_revision_group.group 
1 2 'Structure model' 'Version format compliance' 
2 3 'Structure model' 'Version format compliance' 
3 4 'Structure model' 'Refinement description'    
4 5 'Structure model' 'Data collection'           
5 5 'Structure model' 'Database references'       
6 5 'Structure model' 'Derived calculations'      
7 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' chem_comp_atom                
3 5 'Structure model' chem_comp_bond                
4 5 'Structure model' database_2                    
5 5 'Structure model' struct_conn                   
6 6 'Structure model' pdbx_initial_refinement_model 
# 
loop_
_pdbx_audit_revision_item.ordinal 
_pdbx_audit_revision_item.revision_ordinal 
_pdbx_audit_revision_item.data_content_type 
_pdbx_audit_revision_item.item 
1 5 'Structure model' '_database_2.pdbx_DOI'                
2 5 'Structure model' '_database_2.pdbx_database_accession' 
3 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1S1L 
_pdbx_database_status.recvd_initial_deposition_date   2004-01-06 
_pdbx_database_status.deposit_site                    RCSB 
_pdbx_database_status.process_site                    RCSB 
_pdbx_database_status.status_code_sf                  REL 
_pdbx_database_status.SG_entry                        . 
_pdbx_database_status.pdb_format_compatible           Y 
_pdbx_database_status.status_code_mr                  ? 
_pdbx_database_status.status_code_cs                  ? 
_pdbx_database_status.methods_development_category    ? 
_pdbx_database_status.status_code_nmr_data            ? 
# 
loop_
_pdbx_database_related.db_name 
_pdbx_database_related.db_id 
_pdbx_database_related.details 
_pdbx_database_related.content_type 
NDB UD0006 'DNA Holliday Junction' unspecified 
NDB UD0008 'DNA Holliday Junction' unspecified 
NDB UD0019 'DNA Holliday Junction' unspecified 
NDB UD0028 'DNA Holliday Junction' unspecified 
NDB UD0030 'DNA Holliday Junction' unspecified 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Hays, F.A.'  1 
'Jones, Z.J.' 2 
'Ho, P.S.'    3 
# 
_citation.id                        primary 
_citation.title                     'Influence of minor groove substituents on the structure of DNA holliday junctions.' 
_citation.journal_abbrev            Biochemistry 
_citation.journal_volume            43 
_citation.page_first                9813 
_citation.page_last                 9822 
_citation.year                      2004 
_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   15274635 
_citation.pdbx_database_id_DOI      10.1021/bi049461d 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Hays, F.A.'  1 ? 
primary 'Jones, Z.J.' 2 ? 
primary 'Ho, P.S.'    3 ? 
# 
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(*CP*CP*(OIP)*GP*TP*AP*CP*(5CM)P*GP*G)-3'" 3045.006 2  ? ? ? ? 
2 water   nat water                                           18.015   62 ? ? ? ? 
# 
_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       '(DC)(DC)(DI)(DG)(DT)(DA)(DC)(5CM)(DG)(DG)' 
_entity_poly.pdbx_seq_one_letter_code_can   CCIGTACCGG 
_entity_poly.pdbx_strand_id                 A,B 
_entity_poly.pdbx_target_identifier         ? 
# 
_pdbx_entity_nonpoly.entity_id   2 
_pdbx_entity_nonpoly.name        water 
_pdbx_entity_nonpoly.comp_id     HOH 
# 
loop_
_entity_poly_seq.entity_id 
_entity_poly_seq.num 
_entity_poly_seq.mon_id 
_entity_poly_seq.hetero 
1 1  DC  n 
1 2  DC  n 
1 3  DI  n 
1 4  DG  n 
1 5  DT  n 
1 6  DA  n 
1 7  DC  n 
1 8  5CM n 
1 9  DG  n 
1 10 DG  n 
# 
loop_
_chem_comp.id 
_chem_comp.type 
_chem_comp.mon_nstd_flag 
_chem_comp.name 
_chem_comp.pdbx_synonyms 
_chem_comp.formula 
_chem_comp.formula_weight 
5CM 'DNA linking' n "5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE" ? 'C10 H16 N3 O7 P' 321.224 
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 
DI  'DNA linking' y "2'-DEOXYINOSINE-5'-MONOPHOSPHATE"            ? 'C10 H13 N4 O7 P' 332.207 
DT  'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE"                  ? 'C10 H15 N2 O8 P' 322.208 
HOH non-polymer   . WATER                                         ? 'H2 O'            18.015  
# 
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  DC  1  1  1  DC  C   A . n 
A 1 2  DC  2  2  2  DC  C   A . n 
A 1 3  DI  3  3  3  DI  DI  A . n 
A 1 4  DG  4  4  4  DG  G   A . n 
A 1 5  DT  5  5  5  DT  T   A . n 
A 1 6  DA  6  6  6  DA  A   A . n 
A 1 7  DC  7  7  7  DC  C   A . n 
A 1 8  5CM 8  8  8  5CM 5CM A . n 
A 1 9  DG  9  9  9  DG  G   A . n 
A 1 10 DG  10 10 10 DG  G   A . n 
B 1 1  DC  1  1  11 DC  C   B . n 
B 1 2  DC  2  2  12 DC  C   B . n 
B 1 3  DI  3  3  13 DI  DI  B . n 
B 1 4  DG  4  4  14 DG  G   B . n 
B 1 5  DT  5  5  15 DT  T   B . n 
B 1 6  DA  6  6  16 DA  A   B . n 
B 1 7  DC  7  7  17 DC  C   B . n 
B 1 8  5CM 8  8  18 5CM 5CM B . n 
B 1 9  DG  9  9  19 DG  G   B . n 
B 1 10 DG  10 10 20 DG  G   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  21 21 HOH WAT A . 
C 2 HOH 2  22 22 HOH WAT A . 
C 2 HOH 3  23 23 HOH WAT A . 
C 2 HOH 4  24 24 HOH WAT A . 
C 2 HOH 5  25 25 HOH WAT A . 
C 2 HOH 6  28 28 HOH WAT A . 
C 2 HOH 7  29 29 HOH WAT A . 
C 2 HOH 8  33 33 HOH WAT A . 
C 2 HOH 9  34 34 HOH WAT A . 
C 2 HOH 10 35 35 HOH WAT A . 
C 2 HOH 11 36 36 HOH WAT A . 
C 2 HOH 12 37 37 HOH WAT A . 
C 2 HOH 13 38 38 HOH WAT A . 
C 2 HOH 14 39 39 HOH WAT A . 
C 2 HOH 15 41 41 HOH WAT A . 
C 2 HOH 16 43 43 HOH WAT A . 
C 2 HOH 17 44 44 HOH WAT A . 
C 2 HOH 18 45 45 HOH WAT A . 
C 2 HOH 19 47 47 HOH WAT A . 
C 2 HOH 20 50 50 HOH WAT A . 
C 2 HOH 21 54 54 HOH WAT A . 
C 2 HOH 22 55 55 HOH WAT A . 
C 2 HOH 23 56 56 HOH WAT A . 
C 2 HOH 24 58 58 HOH WAT A . 
C 2 HOH 25 59 59 HOH WAT A . 
C 2 HOH 26 62 62 HOH WAT A . 
C 2 HOH 27 64 64 HOH WAT A . 
C 2 HOH 28 67 67 HOH WAT A . 
C 2 HOH 29 68 68 HOH WAT A . 
C 2 HOH 30 70 70 HOH WAT A . 
C 2 HOH 31 73 73 HOH WAT A . 
C 2 HOH 32 74 74 HOH WAT A . 
C 2 HOH 33 76 76 HOH WAT A . 
C 2 HOH 34 77 77 HOH WAT A . 
C 2 HOH 35 79 79 HOH WAT A . 
C 2 HOH 36 80 80 HOH WAT A . 
C 2 HOH 37 81 81 HOH WAT A . 
C 2 HOH 38 82 82 HOH WAT A . 
D 2 HOH 1  26 26 HOH WAT B . 
D 2 HOH 2  27 27 HOH WAT B . 
D 2 HOH 3  30 30 HOH WAT B . 
D 2 HOH 4  31 31 HOH WAT B . 
D 2 HOH 5  32 32 HOH WAT B . 
D 2 HOH 6  40 40 HOH WAT B . 
D 2 HOH 7  42 42 HOH WAT B . 
D 2 HOH 8  46 46 HOH WAT B . 
D 2 HOH 9  48 48 HOH WAT B . 
D 2 HOH 10 49 49 HOH WAT B . 
D 2 HOH 11 51 51 HOH WAT B . 
D 2 HOH 12 52 52 HOH WAT B . 
D 2 HOH 13 53 53 HOH WAT B . 
D 2 HOH 14 57 57 HOH WAT B . 
D 2 HOH 15 60 60 HOH WAT B . 
D 2 HOH 16 61 61 HOH WAT B . 
D 2 HOH 17 63 63 HOH WAT B . 
D 2 HOH 18 65 65 HOH WAT B . 
D 2 HOH 19 66 66 HOH WAT B . 
D 2 HOH 20 69 69 HOH WAT B . 
D 2 HOH 21 71 71 HOH WAT B . 
D 2 HOH 22 72 72 HOH WAT B . 
D 2 HOH 23 75 75 HOH WAT B . 
D 2 HOH 24 78 78 HOH WAT B . 
# 
loop_
_software.name 
_software.classification 
_software.version 
_software.citation_id 
_software.pdbx_ordinal 
CNS       refinement     1.1 ? 1 
SCALEPACK 'data scaling' .   ? 2 
EPMR      phasing        .   ? 3 
# 
_cell.entry_id           1S1L 
_cell.length_a           64.923 
_cell.length_b           24.869 
_cell.length_c           37.095 
_cell.angle_alpha        90.00 
_cell.angle_beta         109.22 
_cell.angle_gamma        90.00 
_cell.Z_PDB              8 
_cell.pdbx_unique_axis   ? 
# 
_symmetry.entry_id                         1S1L 
_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 
_symmetry.space_group_name_Hall            ? 
# 
_exptl.entry_id          1S1L 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_percent_sol   42.8 
_exptl_crystal.description           ? 
_exptl_crystal.density_Matthews      2.17 
_exptl_crystal.F_000                 ? 
_exptl_crystal.preparation           ? 
# 
_exptl_crystal_grow.crystal_id      1 
_exptl_crystal_grow.method          'VAPOR DIFFUSION, SITTING DROP' 
_exptl_crystal_grow.temp            ? 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              7.0 
_exptl_crystal_grow.pdbx_details    
'25mM Na Cacodylate, .5mM DNA, 180mM CaCl2, 2.4mM spermine against 20% resevoir MPD, pH 7.0, VAPOR DIFFUSION, SITTING DROP' 
_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 'Na Cacodylate' ? ? ? 
1 2 1 '.5mM DNA'      ? ? ? 
1 3 1 CaCl2           ? ? ? 
1 4 1 spermine        ? ? ? 
1 5 2 MPD             ? ? ? 
1 6 2 'Na Cacodylate' ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           103 
_diffrn.ambient_temp_details   ? 
_diffrn.crystal_id             1 
# 
_diffrn_detector.diffrn_id              1 
_diffrn_detector.detector               'IMAGE PLATE' 
_diffrn_detector.type                   'RIGAKU RAXIS IV' 
_diffrn_detector.pdbx_collection_date   2003-11-08 
_diffrn_detector.details                'osmic mirrors' 
# 
_diffrn_radiation.diffrn_id                        1 
_diffrn_radiation.wavelength_id                    1 
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l   M 
_diffrn_radiation.monochromator                    ? 
_diffrn_radiation.pdbx_diffrn_protocol             'SINGLE WAVELENGTH' 
_diffrn_radiation.pdbx_scattering_type             x-ray 
# 
_diffrn_radiation_wavelength.id           1 
_diffrn_radiation_wavelength.wavelength   1.542 
_diffrn_radiation_wavelength.wt           1.0 
# 
_diffrn_source.diffrn_id                   1 
_diffrn_source.source                      'ROTATING ANODE' 
_diffrn_source.type                        RIGAKU 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             ? 
_diffrn_source.pdbx_wavelength_list        1.542 
# 
_reflns.entry_id                     1S1L 
_reflns.observed_criterion_sigma_I   0 
_reflns.observed_criterion_sigma_F   ? 
_reflns.d_resolution_low             18.2 
_reflns.d_resolution_high            2.0 
_reflns.number_obs                   3492 
_reflns.number_all                   3492 
_reflns.percent_possible_obs         93.4 
_reflns.pdbx_Rmerge_I_obs            0.05 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        ? 
_reflns.B_iso_Wilson_estimate        11.2 
_reflns.pdbx_redundancy              ? 
_reflns.R_free_details               ? 
_reflns.pdbx_chi_squared             ? 
_reflns.pdbx_scaling_rejects         ? 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
# 
_reflns_shell.d_res_high             2.00 
_reflns_shell.d_res_low              2.07 
_reflns_shell.percent_possible_all   61.8 
_reflns_shell.Rmerge_I_obs           0.291 
_reflns_shell.pdbx_Rsym_value        ? 
_reflns_shell.meanI_over_sigI_obs    2.4 
_reflns_shell.pdbx_redundancy        ? 
_reflns_shell.percent_possible_obs   ? 
_reflns_shell.number_unique_all      ? 
_reflns_shell.number_measured_all    ? 
_reflns_shell.number_measured_obs    ? 
_reflns_shell.number_unique_obs      ? 
_reflns_shell.pdbx_chi_squared       ? 
_reflns_shell.pdbx_diffrn_id         ? 
_reflns_shell.pdbx_ordinal           1 
# 
_refine.entry_id                                 1S1L 
_refine.ls_number_reflns_obs                     2852 
_refine.ls_number_reflns_all                     3492 
_refine.pdbx_ls_sigma_I                          0 
_refine.pdbx_ls_sigma_F                          0.0 
_refine.pdbx_data_cutoff_high_absF               44978.75 
_refine.pdbx_data_cutoff_low_absF                0.000000 
_refine.pdbx_data_cutoff_high_rms_absF           44978.75 
_refine.ls_d_res_low                             18.2 
_refine.ls_d_res_high                            2.20 
_refine.ls_percent_reflns_obs                    96.2 
_refine.ls_R_factor_obs                          0.236 
_refine.ls_R_factor_all                          0.266 
_refine.ls_R_factor_R_work                       0.236 
_refine.ls_R_factor_R_free                       0.258 
_refine.ls_R_factor_R_free_error                 0.015 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 10.0 
_refine.ls_number_reflns_R_free                  286 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.correlation_coeff_Fo_to_Fc               ? 
_refine.correlation_coeff_Fo_to_Fc_free          ? 
_refine.B_iso_mean                               11.2 
_refine.aniso_B[1][1]                            2.08 
_refine.aniso_B[2][2]                            2.33 
_refine.aniso_B[3][3]                            -4.41 
_refine.aniso_B[1][2]                            0.00 
_refine.aniso_B[1][3]                            -1.93 
_refine.aniso_B[2][3]                            0.00 
_refine.solvent_model_details                    'FLAT MODEL' 
_refine.solvent_model_param_ksol                 0.360393 
_refine.solvent_model_param_bsol                 50.3728 
_refine.pdbx_solvent_vdw_probe_radii             ? 
_refine.pdbx_solvent_ion_probe_radii             ? 
_refine.pdbx_solvent_shrinkage_radii             ? 
_refine.pdbx_ls_cross_valid_method               THROUGHOUT 
_refine.details                                  ? 
_refine.pdbx_starting_model                      'ndb id UD0019' 
_refine.pdbx_method_to_determine_struct          'MOLECULAR REPLACEMENT' 
_refine.pdbx_isotropic_thermal_model             RESTRAINED 
_refine.pdbx_stereochemistry_target_values       ? 
_refine.pdbx_stereochem_target_val_spec_case     ? 
_refine.pdbx_R_Free_selection_details            RANDOM 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_overall_ESU_R_Free                  ? 
_refine.overall_SU_ML                            ? 
_refine.overall_SU_B                             ? 
_refine.ls_redundancy_reflns_obs                 ? 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.overall_SU_R_free                        ? 
_refine.ls_wR_factor_R_free                      ? 
_refine.ls_wR_factor_R_work                      ? 
_refine.overall_FOM_free_R_set                   ? 
_refine.overall_FOM_work_R_set                   ? 
_refine.pdbx_refine_id                           'X-RAY DIFFRACTION' 
_refine.pdbx_diffrn_id                           1 
_refine.pdbx_TLS_residual_ADP_flag               ? 
_refine.pdbx_overall_phase_error                 ? 
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI   ? 
_refine.pdbx_overall_SU_R_Blow_DPI               ? 
_refine.pdbx_overall_SU_R_free_Blow_DPI          ? 
# 
_refine_analyze.entry_id                        1S1L 
_refine_analyze.Luzzati_coordinate_error_obs    0.28 
_refine_analyze.Luzzati_sigma_a_obs             0.16 
_refine_analyze.Luzzati_d_res_low_obs           5.00 
_refine_analyze.Luzzati_coordinate_error_free   0.29 
_refine_analyze.Luzzati_sigma_a_free            0.37 
_refine_analyze.Luzzati_d_res_low_free          ? 
_refine_analyze.number_disordered_residues      ? 
_refine_analyze.occupancy_sum_hydrogen          ? 
_refine_analyze.occupancy_sum_non_hydrogen      ? 
_refine_analyze.pdbx_refine_id                  'X-RAY DIFFRACTION' 
# 
_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   404 
_refine_hist.pdbx_number_atoms_ligand         0 
_refine_hist.number_atoms_solvent             62 
_refine_hist.number_atoms_total               466 
_refine_hist.d_res_high                       2.20 
_refine_hist.d_res_low                        18.2 
# 
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                0.003 ? ? ? 'X-RAY DIFFRACTION' ? 
c_bond_d_na             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_bond_d_prot           ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d               ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d_na            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_d_prot          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg             0.8   ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_na          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_prot        ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d      18.4  ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_na   ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_prot ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d      1.28  ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d_na   ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d_prot ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_mcbond_it             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_mcangle_it            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_scbond_it             ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_scangle_it            ?     ? ? ? 'X-RAY DIFFRACTION' ? 
# 
_refine_ls_shell.pdbx_total_number_of_bins_used   6 
_refine_ls_shell.d_res_high                       2.20 
_refine_ls_shell.d_res_low                        2.34 
_refine_ls_shell.number_reflns_R_work             391 
_refine_ls_shell.R_factor_R_work                  0.267 
_refine_ls_shell.percent_reflns_obs               88.0 
_refine_ls_shell.R_factor_R_free                  0.334 
_refine_ls_shell.R_factor_R_free_error            0.053 
_refine_ls_shell.percent_reflns_R_free            9.3 
_refine_ls_shell.number_reflns_R_free             40 
_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                     ? 
# 
loop_
_pdbx_xplor_file.serial_no 
_pdbx_xplor_file.param_file 
_pdbx_xplor_file.topol_file 
_pdbx_xplor_file.pdbx_refine_id 
1 DNA-RNA_REP.PARAM DNA-RNA.TOP 'X-RAY DIFFRACTION' 
2 ION.PARAM         ION.TOP     'X-RAY DIFFRACTION' 
3 WATER_REP.PARAM   WATER.TOP   'X-RAY DIFFRACTION' 
# 
_database_PDB_matrix.entry_id          1S1L 
_database_PDB_matrix.origx[1][1]       1.000000 
_database_PDB_matrix.origx[1][2]       0.000000 
_database_PDB_matrix.origx[1][3]       0.000000 
_database_PDB_matrix.origx[2][1]       0.000000 
_database_PDB_matrix.origx[2][2]       1.000000 
_database_PDB_matrix.origx[2][3]       0.000000 
_database_PDB_matrix.origx[3][1]       0.000000 
_database_PDB_matrix.origx[3][2]       0.000000 
_database_PDB_matrix.origx[3][3]       1.000000 
_database_PDB_matrix.origx_vector[1]   0.00000 
_database_PDB_matrix.origx_vector[2]   0.00000 
_database_PDB_matrix.origx_vector[3]   0.00000 
# 
_struct.entry_id                  1S1L 
_struct.title                     'Influence of Groove Interactions on the Formation of DNA Holliday Junctions' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1S1L 
_struct_keywords.pdbx_keywords   DNA 
_struct_keywords.text            'Holliday Junction, DNA Four-Way Junction, major groove, Inosine, minor groove, 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_ref.id                         1 
_struct_ref.entity_id                  1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    1S1L 
_struct_ref.pdbx_db_accession          1S1L 
_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 1S1L A 1 ? 10 ? 1S1L 1 ? 10 ? 1 10 
2 1 1S1L B 1 ? 10 ? 1S1L 1 ? 10 ? 1 10 
# 
_pdbx_struct_assembly.id                   1 
_pdbx_struct_assembly.details              author_defined_assembly 
_pdbx_struct_assembly.method_details       ? 
_pdbx_struct_assembly.oligomeric_details   tetrameric 
_pdbx_struct_assembly.oligomeric_count     4 
# 
_pdbx_struct_assembly_gen.assembly_id       1 
_pdbx_struct_assembly_gen.oper_expression   1,2 
_pdbx_struct_assembly_gen.asym_id_list      A,B,C,D 
# 
loop_
_pdbx_struct_oper_list.id 
_pdbx_struct_oper_list.type 
_pdbx_struct_oper_list.name 
_pdbx_struct_oper_list.symmetry_operation 
_pdbx_struct_oper_list.matrix[1][1] 
_pdbx_struct_oper_list.matrix[1][2] 
_pdbx_struct_oper_list.matrix[1][3] 
_pdbx_struct_oper_list.vector[1] 
_pdbx_struct_oper_list.matrix[2][1] 
_pdbx_struct_oper_list.matrix[2][2] 
_pdbx_struct_oper_list.matrix[2][3] 
_pdbx_struct_oper_list.vector[2] 
_pdbx_struct_oper_list.matrix[3][1] 
_pdbx_struct_oper_list.matrix[3][2] 
_pdbx_struct_oper_list.matrix[3][3] 
_pdbx_struct_oper_list.vector[3] 
1 'identity operation'         1_555 x,y,z       1.0000000000  0.0000000000 0.0000000000 0.0000000000  0.0000000000 1.0000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000  0.0000000000  
2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 52.7114641330 0.0000000000 1.0000000000 
0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 35.0273809579 
# 
_struct_biol.id                    1 
_struct_biol.details               'Full four stranded Holliday junction structure is generated by a 2-fold symmetry axis.' 
_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 DC  7 "O3'" ? ? ? 1_555 A 5CM 8  P  ? ? A DC  7 A 5CM 8  1_555 ? ? ? ? ? ? ?            1.602 ? ? 
covale2  covale both ? A 5CM 8 "O3'" ? ? ? 1_555 A DG  9  P  ? ? A 5CM 8 A DG  9  1_555 ? ? ? ? ? ? ?            1.600 ? ? 
covale3  covale both ? B DC  7 "O3'" ? ? ? 1_555 B 5CM 8  P  ? ? B DC  7 B 5CM 8  1_555 ? ? ? ? ? ? ?            1.604 ? ? 
covale4  covale both ? B 5CM 8 "O3'" ? ? ? 1_555 B DG  9  P  ? ? B 5CM 8 B DG  9  1_555 ? ? ? ? ? ? ?            1.604 ? ? 
hydrog1  hydrog ?    ? A DC  1 N3    ? ? ? 1_555 B DG  10 N1 ? ? A DC  1 B DG  10 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog2  hydrog ?    ? A DC  1 N4    ? ? ? 1_555 B DG  10 O6 ? ? A DC  1 B DG  10 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog3  hydrog ?    ? A DC  1 O2    ? ? ? 1_555 B DG  10 N2 ? ? A DC  1 B DG  10 1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog4  hydrog ?    ? A DC  2 N3    ? ? ? 1_555 B DG  9  N1 ? ? A DC  2 B DG  9  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog5  hydrog ?    ? A DC  2 N4    ? ? ? 1_555 B DG  9  O6 ? ? A DC  2 B DG  9  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog6  hydrog ?    ? A DC  2 O2    ? ? ? 1_555 B DG  9  N2 ? ? A DC  2 B DG  9  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog7  hydrog ?    ? A DG  4 N1    ? ? ? 1_555 B DC  7  O2 ? ? A DG  4 B DC  7  1_555 ? ? ? ? ? ? 'DG-DC PAIR' ?     ? ? 
hydrog8  hydrog ?    ? A DT  5 N3    ? ? ? 1_555 B DA  6  N1 ? ? A DT  5 B DA  6  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog9  hydrog ?    ? A DT  5 O4    ? ? ? 1_555 B DA  6  N6 ? ? A DT  5 B DA  6  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog10 hydrog ?    ? A DA  6 N1    ? ? ? 1_555 B DT  5  N3 ? ? A DA  6 B DT  5  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
hydrog11 hydrog ?    ? A DA  6 N6    ? ? ? 1_555 B DT  5  O4 ? ? A DA  6 B DT  5  1_555 ? ? ? ? ? ? WATSON-CRICK ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
covale ? ? 
hydrog ? ? 
# 
_pdbx_validate_symm_contact.id                1 
_pdbx_validate_symm_contact.PDB_model_num     1 
_pdbx_validate_symm_contact.auth_atom_id_1    O 
_pdbx_validate_symm_contact.auth_asym_id_1    B 
_pdbx_validate_symm_contact.auth_comp_id_1    HOH 
_pdbx_validate_symm_contact.auth_seq_id_1     42 
_pdbx_validate_symm_contact.PDB_ins_code_1    ? 
_pdbx_validate_symm_contact.label_alt_id_1    ? 
_pdbx_validate_symm_contact.site_symmetry_1   1_555 
_pdbx_validate_symm_contact.auth_atom_id_2    O 
_pdbx_validate_symm_contact.auth_asym_id_2    B 
_pdbx_validate_symm_contact.auth_comp_id_2    HOH 
_pdbx_validate_symm_contact.auth_seq_id_2     42 
_pdbx_validate_symm_contact.PDB_ins_code_2    ? 
_pdbx_validate_symm_contact.label_alt_id_2    ? 
_pdbx_validate_symm_contact.site_symmetry_2   2_655 
_pdbx_validate_symm_contact.dist              1.47 
# 
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 5CM 8 A 5CM 8 ? DC ? 
2 B 5CM 8 B 5CM 8 ? DC ? 
# 
_pdbx_struct_special_symmetry.id              1 
_pdbx_struct_special_symmetry.PDB_model_num   1 
_pdbx_struct_special_symmetry.auth_asym_id    B 
_pdbx_struct_special_symmetry.auth_comp_id    HOH 
_pdbx_struct_special_symmetry.auth_seq_id     49 
_pdbx_struct_special_symmetry.PDB_ins_code    ? 
_pdbx_struct_special_symmetry.label_asym_id   D 
_pdbx_struct_special_symmetry.label_comp_id   HOH 
_pdbx_struct_special_symmetry.label_seq_id    . 
# 
_pdbx_database_remark.id     300 
_pdbx_database_remark.text   
;BIOMOLECULE: 1   
THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT
WHICH CONSISTS OF 2 CHAIN(S). THE FULL BIOLOGICAL UNIT
CONSISTS OF A FOUR STRANDED DNA HOLLIDAY JUNCTION. SEE 
REMARK 350 FOR INFORMATION ON GENERATING THE BIOLOGICAL 
MOLECULE(S).                
;
# 
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 
5CM N1     N N N 1   
5CM C2     C N N 2   
5CM N3     N N N 3   
5CM C4     C N N 4   
5CM C5     C N N 5   
5CM C5A    C N N 6   
5CM C6     C N N 7   
5CM O2     O N N 8   
5CM N4     N N N 9   
5CM "C1'"  C N R 10  
5CM "C2'"  C N N 11  
5CM "C3'"  C N S 12  
5CM "C4'"  C N R 13  
5CM "O4'"  O N N 14  
5CM "O3'"  O N N 15  
5CM "C5'"  C N N 16  
5CM "O5'"  O N N 17  
5CM P      P N N 18  
5CM OP1    O N N 19  
5CM OP2    O N N 20  
5CM OP3    O N N 21  
5CM H5A1   H N N 22  
5CM H5A2   H N N 23  
5CM H5A3   H N N 24  
5CM H6     H N N 25  
5CM HN41   H N N 26  
5CM HN42   H N N 27  
5CM "H1'"  H N N 28  
5CM "H2'"  H N N 29  
5CM "H2''" H N N 30  
5CM "H3'"  H N N 31  
5CM "H4'"  H N N 32  
5CM "HO3'" H N N 33  
5CM "H5'"  H N N 34  
5CM "H5''" H N N 35  
5CM HOP2   H N N 36  
5CM HOP3   H N N 37  
DA  OP3    O N N 38  
DA  P      P N N 39  
DA  OP1    O N N 40  
DA  OP2    O N N 41  
DA  "O5'"  O N N 42  
DA  "C5'"  C N N 43  
DA  "C4'"  C N R 44  
DA  "O4'"  O N N 45  
DA  "C3'"  C N S 46  
DA  "O3'"  O N N 47  
DA  "C2'"  C N N 48  
DA  "C1'"  C N R 49  
DA  N9     N Y N 50  
DA  C8     C Y N 51  
DA  N7     N Y N 52  
DA  C5     C Y N 53  
DA  C6     C Y N 54  
DA  N6     N N N 55  
DA  N1     N Y N 56  
DA  C2     C Y N 57  
DA  N3     N Y N 58  
DA  C4     C Y N 59  
DA  HOP3   H N N 60  
DA  HOP2   H N N 61  
DA  "H5'"  H N N 62  
DA  "H5''" H N N 63  
DA  "H4'"  H N N 64  
DA  "H3'"  H N N 65  
DA  "HO3'" H N N 66  
DA  "H2'"  H N N 67  
DA  "H2''" H N N 68  
DA  "H1'"  H N N 69  
DA  H8     H N N 70  
DA  H61    H N N 71  
DA  H62    H N N 72  
DA  H2     H N N 73  
DC  OP3    O N N 74  
DC  P      P N N 75  
DC  OP1    O N N 76  
DC  OP2    O N N 77  
DC  "O5'"  O N N 78  
DC  "C5'"  C N N 79  
DC  "C4'"  C N R 80  
DC  "O4'"  O N N 81  
DC  "C3'"  C N S 82  
DC  "O3'"  O N N 83  
DC  "C2'"  C N N 84  
DC  "C1'"  C N R 85  
DC  N1     N N N 86  
DC  C2     C N N 87  
DC  O2     O N N 88  
DC  N3     N N N 89  
DC  C4     C N N 90  
DC  N4     N N N 91  
DC  C5     C N N 92  
DC  C6     C N N 93  
DC  HOP3   H N N 94  
DC  HOP2   H N N 95  
DC  "H5'"  H N N 96  
DC  "H5''" H N N 97  
DC  "H4'"  H N N 98  
DC  "H3'"  H N N 99  
DC  "HO3'" H N N 100 
DC  "H2'"  H N N 101 
DC  "H2''" H N N 102 
DC  "H1'"  H N N 103 
DC  H41    H N N 104 
DC  H42    H N N 105 
DC  H5     H N N 106 
DC  H6     H N N 107 
DG  OP3    O N N 108 
DG  P      P N N 109 
DG  OP1    O N N 110 
DG  OP2    O N N 111 
DG  "O5'"  O N N 112 
DG  "C5'"  C N N 113 
DG  "C4'"  C N R 114 
DG  "O4'"  O N N 115 
DG  "C3'"  C N S 116 
DG  "O3'"  O N N 117 
DG  "C2'"  C N N 118 
DG  "C1'"  C N R 119 
DG  N9     N Y N 120 
DG  C8     C Y N 121 
DG  N7     N Y N 122 
DG  C5     C Y N 123 
DG  C6     C N N 124 
DG  O6     O N N 125 
DG  N1     N N N 126 
DG  C2     C N N 127 
DG  N2     N N N 128 
DG  N3     N N N 129 
DG  C4     C Y N 130 
DG  HOP3   H N N 131 
DG  HOP2   H N N 132 
DG  "H5'"  H N N 133 
DG  "H5''" H N N 134 
DG  "H4'"  H N N 135 
DG  "H3'"  H N N 136 
DG  "HO3'" H N N 137 
DG  "H2'"  H N N 138 
DG  "H2''" H N N 139 
DG  "H1'"  H N N 140 
DG  H8     H N N 141 
DG  H1     H N N 142 
DG  H21    H N N 143 
DG  H22    H N N 144 
DI  OP3    O N N 145 
DI  P      P N N 146 
DI  OP1    O N N 147 
DI  OP2    O N N 148 
DI  "O5'"  O N N 149 
DI  "C5'"  C N N 150 
DI  "C4'"  C N R 151 
DI  "O4'"  O N N 152 
DI  "C3'"  C N S 153 
DI  "O3'"  O N N 154 
DI  "C2'"  C N N 155 
DI  "C1'"  C N R 156 
DI  N9     N Y N 157 
DI  C8     C Y N 158 
DI  N7     N Y N 159 
DI  C5     C Y N 160 
DI  C6     C N N 161 
DI  O6     O N N 162 
DI  N1     N N N 163 
DI  C2     C N N 164 
DI  N3     N N N 165 
DI  C4     C Y N 166 
DI  HOP3   H N N 167 
DI  HOP2   H N N 168 
DI  "H5'"  H N N 169 
DI  "H5''" H N N 170 
DI  "H4'"  H N N 171 
DI  "H3'"  H N N 172 
DI  "HO3'" H N N 173 
DI  "H2'"  H N N 174 
DI  "H2''" H N N 175 
DI  "H1'"  H N N 176 
DI  H8     H N N 177 
DI  H1     H N N 178 
DI  H2     H N N 179 
DT  OP3    O N N 180 
DT  P      P N N 181 
DT  OP1    O N N 182 
DT  OP2    O N N 183 
DT  "O5'"  O N N 184 
DT  "C5'"  C N N 185 
DT  "C4'"  C N R 186 
DT  "O4'"  O N N 187 
DT  "C3'"  C N S 188 
DT  "O3'"  O N N 189 
DT  "C2'"  C N N 190 
DT  "C1'"  C N R 191 
DT  N1     N N N 192 
DT  C2     C N N 193 
DT  O2     O N N 194 
DT  N3     N N N 195 
DT  C4     C N N 196 
DT  O4     O N N 197 
DT  C5     C N N 198 
DT  C7     C N N 199 
DT  C6     C N N 200 
DT  HOP3   H N N 201 
DT  HOP2   H N N 202 
DT  "H5'"  H N N 203 
DT  "H5''" H N N 204 
DT  "H4'"  H N N 205 
DT  "H3'"  H N N 206 
DT  "HO3'" H N N 207 
DT  "H2'"  H N N 208 
DT  "H2''" H N N 209 
DT  "H1'"  H N N 210 
DT  H3     H N N 211 
DT  H71    H N N 212 
DT  H72    H N N 213 
DT  H73    H N N 214 
DT  H6     H N N 215 
HOH O      O N N 216 
HOH H1     H N N 217 
HOH H2     H N N 218 
# 
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 
5CM N1    C2     sing N N 1   
5CM N1    C6     sing N N 2   
5CM N1    "C1'"  sing N N 3   
5CM C2    N3     sing N N 4   
5CM C2    O2     doub N N 5   
5CM N3    C4     doub N N 6   
5CM C4    C5     sing N N 7   
5CM C4    N4     sing N N 8   
5CM C5    C5A    sing N N 9   
5CM C5    C6     doub N N 10  
5CM C5A   H5A1   sing N N 11  
5CM C5A   H5A2   sing N N 12  
5CM C5A   H5A3   sing N N 13  
5CM C6    H6     sing N N 14  
5CM N4    HN41   sing N N 15  
5CM N4    HN42   sing N N 16  
5CM "C1'" "C2'"  sing N N 17  
5CM "C1'" "O4'"  sing N N 18  
5CM "C1'" "H1'"  sing N N 19  
5CM "C2'" "C3'"  sing N N 20  
5CM "C2'" "H2'"  sing N N 21  
5CM "C2'" "H2''" sing N N 22  
5CM "C3'" "C4'"  sing N N 23  
5CM "C3'" "O3'"  sing N N 24  
5CM "C3'" "H3'"  sing N N 25  
5CM "C4'" "O4'"  sing N N 26  
5CM "C4'" "C5'"  sing N N 27  
5CM "C4'" "H4'"  sing N N 28  
5CM "O3'" "HO3'" sing N N 29  
5CM "C5'" "O5'"  sing N N 30  
5CM "C5'" "H5'"  sing N N 31  
5CM "C5'" "H5''" sing N N 32  
5CM "O5'" P      sing N N 33  
5CM P     OP1    doub N N 34  
5CM P     OP2    sing N N 35  
5CM P     OP3    sing N N 36  
5CM OP2   HOP2   sing N N 37  
5CM OP3   HOP3   sing N N 38  
DA  OP3   P      sing N N 39  
DA  OP3   HOP3   sing N N 40  
DA  P     OP1    doub N N 41  
DA  P     OP2    sing N N 42  
DA  P     "O5'"  sing N N 43  
DA  OP2   HOP2   sing N N 44  
DA  "O5'" "C5'"  sing N N 45  
DA  "C5'" "C4'"  sing N N 46  
DA  "C5'" "H5'"  sing N N 47  
DA  "C5'" "H5''" sing N N 48  
DA  "C4'" "O4'"  sing N N 49  
DA  "C4'" "C3'"  sing N N 50  
DA  "C4'" "H4'"  sing N N 51  
DA  "O4'" "C1'"  sing N N 52  
DA  "C3'" "O3'"  sing N N 53  
DA  "C3'" "C2'"  sing N N 54  
DA  "C3'" "H3'"  sing N N 55  
DA  "O3'" "HO3'" sing N N 56  
DA  "C2'" "C1'"  sing N N 57  
DA  "C2'" "H2'"  sing N N 58  
DA  "C2'" "H2''" sing N N 59  
DA  "C1'" N9     sing N N 60  
DA  "C1'" "H1'"  sing N N 61  
DA  N9    C8     sing Y N 62  
DA  N9    C4     sing Y N 63  
DA  C8    N7     doub Y N 64  
DA  C8    H8     sing N N 65  
DA  N7    C5     sing Y N 66  
DA  C5    C6     sing Y N 67  
DA  C5    C4     doub Y N 68  
DA  C6    N6     sing N N 69  
DA  C6    N1     doub Y N 70  
DA  N6    H61    sing N N 71  
DA  N6    H62    sing N N 72  
DA  N1    C2     sing Y N 73  
DA  C2    N3     doub Y N 74  
DA  C2    H2     sing N N 75  
DA  N3    C4     sing Y N 76  
DC  OP3   P      sing N N 77  
DC  OP3   HOP3   sing N N 78  
DC  P     OP1    doub N N 79  
DC  P     OP2    sing N N 80  
DC  P     "O5'"  sing N N 81  
DC  OP2   HOP2   sing N N 82  
DC  "O5'" "C5'"  sing N N 83  
DC  "C5'" "C4'"  sing N N 84  
DC  "C5'" "H5'"  sing N N 85  
DC  "C5'" "H5''" sing N N 86  
DC  "C4'" "O4'"  sing N N 87  
DC  "C4'" "C3'"  sing N N 88  
DC  "C4'" "H4'"  sing N N 89  
DC  "O4'" "C1'"  sing N N 90  
DC  "C3'" "O3'"  sing N N 91  
DC  "C3'" "C2'"  sing N N 92  
DC  "C3'" "H3'"  sing N N 93  
DC  "O3'" "HO3'" sing N N 94  
DC  "C2'" "C1'"  sing N N 95  
DC  "C2'" "H2'"  sing N N 96  
DC  "C2'" "H2''" sing N N 97  
DC  "C1'" N1     sing N N 98  
DC  "C1'" "H1'"  sing N N 99  
DC  N1    C2     sing N N 100 
DC  N1    C6     sing N N 101 
DC  C2    O2     doub N N 102 
DC  C2    N3     sing N N 103 
DC  N3    C4     doub N N 104 
DC  C4    N4     sing N N 105 
DC  C4    C5     sing N N 106 
DC  N4    H41    sing N N 107 
DC  N4    H42    sing N N 108 
DC  C5    C6     doub N N 109 
DC  C5    H5     sing N N 110 
DC  C6    H6     sing N N 111 
DG  OP3   P      sing N N 112 
DG  OP3   HOP3   sing N N 113 
DG  P     OP1    doub N N 114 
DG  P     OP2    sing N N 115 
DG  P     "O5'"  sing N N 116 
DG  OP2   HOP2   sing N N 117 
DG  "O5'" "C5'"  sing N N 118 
DG  "C5'" "C4'"  sing N N 119 
DG  "C5'" "H5'"  sing N N 120 
DG  "C5'" "H5''" sing N N 121 
DG  "C4'" "O4'"  sing N N 122 
DG  "C4'" "C3'"  sing N N 123 
DG  "C4'" "H4'"  sing N N 124 
DG  "O4'" "C1'"  sing N N 125 
DG  "C3'" "O3'"  sing N N 126 
DG  "C3'" "C2'"  sing N N 127 
DG  "C3'" "H3'"  sing N N 128 
DG  "O3'" "HO3'" sing N N 129 
DG  "C2'" "C1'"  sing N N 130 
DG  "C2'" "H2'"  sing N N 131 
DG  "C2'" "H2''" sing N N 132 
DG  "C1'" N9     sing N N 133 
DG  "C1'" "H1'"  sing N N 134 
DG  N9    C8     sing Y N 135 
DG  N9    C4     sing Y N 136 
DG  C8    N7     doub Y N 137 
DG  C8    H8     sing N N 138 
DG  N7    C5     sing Y N 139 
DG  C5    C6     sing N N 140 
DG  C5    C4     doub Y N 141 
DG  C6    O6     doub N N 142 
DG  C6    N1     sing N N 143 
DG  N1    C2     sing N N 144 
DG  N1    H1     sing N N 145 
DG  C2    N2     sing N N 146 
DG  C2    N3     doub N N 147 
DG  N2    H21    sing N N 148 
DG  N2    H22    sing N N 149 
DG  N3    C4     sing N N 150 
DI  OP3   P      sing N N 151 
DI  OP3   HOP3   sing N N 152 
DI  P     OP1    doub N N 153 
DI  P     OP2    sing N N 154 
DI  P     "O5'"  sing N N 155 
DI  OP2   HOP2   sing N N 156 
DI  "O5'" "C5'"  sing N N 157 
DI  "C5'" "C4'"  sing N N 158 
DI  "C5'" "H5'"  sing N N 159 
DI  "C5'" "H5''" sing N N 160 
DI  "C4'" "O4'"  sing N N 161 
DI  "C4'" "C3'"  sing N N 162 
DI  "C4'" "H4'"  sing N N 163 
DI  "O4'" "C1'"  sing N N 164 
DI  "C3'" "O3'"  sing N N 165 
DI  "C3'" "C2'"  sing N N 166 
DI  "C3'" "H3'"  sing N N 167 
DI  "O3'" "HO3'" sing N N 168 
DI  "C2'" "C1'"  sing N N 169 
DI  "C2'" "H2'"  sing N N 170 
DI  "C2'" "H2''" sing N N 171 
DI  "C1'" N9     sing N N 172 
DI  "C1'" "H1'"  sing N N 173 
DI  N9    C8     sing Y N 174 
DI  N9    C4     sing Y N 175 
DI  C8    N7     doub Y N 176 
DI  C8    H8     sing N N 177 
DI  N7    C5     sing Y N 178 
DI  C5    C6     sing N N 179 
DI  C5    C4     doub Y N 180 
DI  C6    O6     doub N N 181 
DI  C6    N1     sing N N 182 
DI  N1    C2     sing N N 183 
DI  N1    H1     sing N N 184 
DI  C2    N3     doub N N 185 
DI  C2    H2     sing N N 186 
DI  N3    C4     sing N N 187 
DT  OP3   P      sing N N 188 
DT  OP3   HOP3   sing N N 189 
DT  P     OP1    doub N N 190 
DT  P     OP2    sing N N 191 
DT  P     "O5'"  sing N N 192 
DT  OP2   HOP2   sing N N 193 
DT  "O5'" "C5'"  sing N N 194 
DT  "C5'" "C4'"  sing N N 195 
DT  "C5'" "H5'"  sing N N 196 
DT  "C5'" "H5''" sing N N 197 
DT  "C4'" "O4'"  sing N N 198 
DT  "C4'" "C3'"  sing N N 199 
DT  "C4'" "H4'"  sing N N 200 
DT  "O4'" "C1'"  sing N N 201 
DT  "C3'" "O3'"  sing N N 202 
DT  "C3'" "C2'"  sing N N 203 
DT  "C3'" "H3'"  sing N N 204 
DT  "O3'" "HO3'" sing N N 205 
DT  "C2'" "C1'"  sing N N 206 
DT  "C2'" "H2'"  sing N N 207 
DT  "C2'" "H2''" sing N N 208 
DT  "C1'" N1     sing N N 209 
DT  "C1'" "H1'"  sing N N 210 
DT  N1    C2     sing N N 211 
DT  N1    C6     sing N N 212 
DT  C2    O2     doub N N 213 
DT  C2    N3     sing N N 214 
DT  N3    C4     sing N N 215 
DT  N3    H3     sing N N 216 
DT  C4    O4     doub N N 217 
DT  C4    C5     sing N N 218 
DT  C5    C7     sing N N 219 
DT  C5    C6     doub N N 220 
DT  C7    H71    sing N N 221 
DT  C7    H72    sing N N 222 
DT  C7    H73    sing N N 223 
DT  C6    H6     sing N N 224 
HOH O     H1     sing N N 225 
HOH O     H2     sing N N 226 
# 
loop_
_ndb_struct_conf_na.entry_id 
_ndb_struct_conf_na.feature 
1S1L 'b-form double helix'  
1S1L '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 DC 1 1_555 B DG 10 1_555 0.616  -0.432 -0.114 2.947  -24.710 1.658  1 A_DC1:DG10_B A 1 ? B 10 ? 19 1 
1 A DC 2 1_555 B DG 9  1_555 0.974  -0.090 0.644  -6.868 -5.580  11.520 2 A_DC2:DG9_B  A 2 ? B 9  ? 19 1 
1 A DG 4 1_555 B DC 7  1_555 -1.617 -0.356 -0.660 -5.017 -38.558 4.531  3 A_DG4:DC7_B  A 4 ? B 7  ? ?  1 
1 A DT 5 1_555 B DA 6  1_555 0.025  0.083  0.219  -7.572 -26.722 -7.003 4 A_DT5:DA6_B  A 5 ? B 6  ? 20 1 
1 A DA 6 1_555 B DT 5  1_555 -0.054 -0.122 0.079  -9.693 -17.070 7.074  5 A_DA6:DT5_B  A 6 ? B 5  ? 20 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 DC 1 1_555 B DG 10 1_555 A DC 2 1_555 B DG 9 1_555 0.736  2.554 3.895 -1.865  4.206 43.094 2.958 -1.219 4.081 5.706 2.530  
43.327 1 AA_DC1DC2:DG9DG10_BB A 1 ? B 10 ? A 2 ? B 9 ? 
1 A DG 4 1_555 B DC 7  1_555 A DT 5 1_555 B DA 6 1_555 -0.493 0.451 3.367 -12.660 3.124 40.938 0.287 -0.660 3.392 4.336 17.572 
42.879 2 AA_DG4DT5:DA6DC7_BB  A 4 ? B 7  ? A 5 ? B 6 ? 
1 A DT 5 1_555 B DA 6  1_555 A DA 6 1_555 B DT 5 1_555 1.321  1.115 3.404 6.372   3.415 42.057 1.160 -1.122 3.633 4.716 -8.801 
42.646 3 AA_DT5DA6:DT5DA6_BB  A 5 ? B 6  ? A 6 ? B 5 ? 
# 
_pdbx_initial_refinement_model.accession_code   1L6B 
_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.details          'ndb id UD0019' 
# 
_atom_sites.entry_id                    1S1L 
_atom_sites.fract_transf_matrix[1][1]   0.015403 
_atom_sites.fract_transf_matrix[1][2]   0.000000 
_atom_sites.fract_transf_matrix[1][3]   0.005370 
_atom_sites.fract_transf_matrix[2][1]   0.000000 
_atom_sites.fract_transf_matrix[2][2]   0.040211 
_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]   0.028549 
_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_