data_1KD4
# 
_entry.id   1KD4 
# 
_audit_conform.dict_name       mmcif_pdbx.dic 
_audit_conform.dict_version    5.386 
_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   1KD4         pdb_00001kd4 10.2210/pdb1kd4/pdb 
NDB   AR0037       ?            ?                   
RCSB  RCSB014829   ?            ?                   
WWPDB D_1000014829 ?            ?                   
# 
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 2003-03-04 
2 'Structure model' 1 1 2008-04-27 
3 'Structure model' 1 2 2011-07-13 
4 'Structure model' 1 3 2024-02-07 
# 
_pdbx_audit_revision_details.ordinal             1 
_pdbx_audit_revision_details.revision_ordinal    1 
_pdbx_audit_revision_details.data_content_type   'Structure model' 
_pdbx_audit_revision_details.provider            repository 
_pdbx_audit_revision_details.type                'Initial release' 
_pdbx_audit_revision_details.description         ? 
_pdbx_audit_revision_details.details             ? 
# 
loop_
_pdbx_audit_revision_group.ordinal 
_pdbx_audit_revision_group.revision_ordinal 
_pdbx_audit_revision_group.data_content_type 
_pdbx_audit_revision_group.group 
1 2 'Structure model' 'Version format compliance' 
2 3 'Structure model' 'Version format compliance' 
3 4 'Structure model' '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_struct_conn_angle 
5 4 'Structure model' software               
6 4 'Structure model' struct_conn            
7 4 'Structure model' struct_site            
# 
loop_
_pdbx_audit_revision_item.ordinal 
_pdbx_audit_revision_item.revision_ordinal 
_pdbx_audit_revision_item.data_content_type 
_pdbx_audit_revision_item.item 
1  4 'Structure model' '_database_2.pdbx_DOI'                        
2  4 'Structure model' '_database_2.pdbx_database_accession'         
3  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id'  
4  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id'  
5  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id'   
6  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 
7  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 
8  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 
9  4 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id'  
10 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id'  
11 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id'  
12 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'   
13 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 
14 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 
15 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 
16 4 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id'  
17 4 'Structure model' '_pdbx_struct_conn_angle.value'               
18 4 'Structure model' '_software.classification'                    
19 4 'Structure model' '_software.name'                              
20 4 'Structure model' '_struct_conn.pdbx_dist_value'                
21 4 'Structure model' '_struct_conn.ptnr1_auth_asym_id'             
22 4 'Structure model' '_struct_conn.ptnr1_auth_comp_id'             
23 4 'Structure model' '_struct_conn.ptnr1_auth_seq_id'              
24 4 'Structure model' '_struct_conn.ptnr1_label_asym_id'            
25 4 'Structure model' '_struct_conn.ptnr1_label_atom_id'            
26 4 'Structure model' '_struct_conn.ptnr1_label_comp_id'            
27 4 'Structure model' '_struct_conn.ptnr1_label_seq_id'             
28 4 'Structure model' '_struct_conn.ptnr2_auth_asym_id'             
29 4 'Structure model' '_struct_conn.ptnr2_auth_comp_id'             
30 4 'Structure model' '_struct_conn.ptnr2_auth_seq_id'              
31 4 'Structure model' '_struct_conn.ptnr2_label_asym_id'            
32 4 'Structure model' '_struct_conn.ptnr2_label_atom_id'            
33 4 'Structure model' '_struct_conn.ptnr2_label_comp_id'            
34 4 'Structure model' '_struct_conn.ptnr2_label_seq_id'             
35 4 'Structure model' '_struct_site.pdbx_auth_asym_id'              
36 4 'Structure model' '_struct_site.pdbx_auth_comp_id'              
37 4 'Structure model' '_struct_site.pdbx_auth_seq_id'               
# 
_pdbx_database_status.status_code                     REL 
_pdbx_database_status.entry_id                        1KD4 
_pdbx_database_status.recvd_initial_deposition_date   2001-11-12 
_pdbx_database_status.deposit_site                    NDB 
_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.status_code_nmr_data            ? 
_pdbx_database_status.methods_development_category    ? 
# 
loop_
_audit_author.name 
_audit_author.pdbx_ordinal 
'Kacer, V.'       1 
'Scaringe, S.A.'  2 
'Scarsdale, J.N.' 3 
'Rife, J.P.'      4 
# 
_citation.id                        primary 
_citation.title                     'Crystal structures of r(GGUCACAGCCC)2.' 
_citation.journal_abbrev            'Acta Crystallogr.,Sect.D' 
_citation.journal_volume            59 
_citation.page_first                423 
_citation.page_last                 432 
_citation.year                      2003 
_citation.journal_id_ASTM           ABCRE6 
_citation.country                   DK 
_citation.journal_id_ISSN           0907-4449 
_citation.journal_id_CSD            0766 
_citation.book_publisher            ? 
_citation.pdbx_database_id_PubMed   12595698 
_citation.pdbx_database_id_DOI      10.1107/S0907444902021911 
# 
loop_
_citation_author.citation_id 
_citation_author.name 
_citation_author.ordinal 
_citation_author.identifier_ORCID 
primary 'Kacer, V.'       1 ? 
primary 'Scaringe, S.A.'  2 ? 
primary 'Scarsdale, J.N.' 3 ? 
primary 'Rife, J.P.'      4 ? 
# 
loop_
_entity.id 
_entity.type 
_entity.src_method 
_entity.pdbx_description 
_entity.formula_weight 
_entity.pdbx_number_of_molecules 
_entity.pdbx_ec 
_entity.pdbx_mutation 
_entity.pdbx_fragment 
_entity.details 
1 polymer     syn "5'-R(*GP*GP*UP*CP*AP*CP*AP*GP*CP*CP*C)-3'" 3481.146 2  ? ? ? ? 
2 non-polymer syn 'BARIUM ION'                                137.327  2  ? ? ? ? 
3 water       nat water                                       18.015   69 ? ? ? ? 
# 
_entity_poly.entity_id                      1 
_entity_poly.type                           polyribonucleotide 
_entity_poly.nstd_linkage                   no 
_entity_poly.nstd_monomer                   no 
_entity_poly.pdbx_seq_one_letter_code       GGUCACAGCCC 
_entity_poly.pdbx_seq_one_letter_code_can   GGUCACAGCCC 
_entity_poly.pdbx_strand_id                 A,B 
_entity_poly.pdbx_target_identifier         ? 
# 
loop_
_pdbx_entity_nonpoly.entity_id 
_pdbx_entity_nonpoly.name 
_pdbx_entity_nonpoly.comp_id 
2 'BARIUM ION' BA  
3 water        HOH 
# 
loop_
_entity_poly_seq.entity_id 
_entity_poly_seq.num 
_entity_poly_seq.mon_id 
_entity_poly_seq.hetero 
1 1  G n 
1 2  G n 
1 3  U n 
1 4  C n 
1 5  A n 
1 6  C n 
1 7  A n 
1 8  G n 
1 9  C n 
1 10 C n 
1 11 C n 
# 
loop_
_chem_comp.id 
_chem_comp.type 
_chem_comp.mon_nstd_flag 
_chem_comp.name 
_chem_comp.pdbx_synonyms 
_chem_comp.formula 
_chem_comp.formula_weight 
A   'RNA linking' y "ADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 
BA  non-polymer   . 'BARIUM ION'                 ? 'Ba 2'            137.327 
C   'RNA linking' y "CYTIDINE-5'-MONOPHOSPHATE"  ? 'C9 H14 N3 O8 P'  323.197 
G   'RNA linking' y "GUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O8 P' 363.221 
HOH non-polymer   . WATER                        ? 'H2 O'            18.015  
U   'RNA linking' y "URIDINE-5'-MONOPHOSPHATE"   ? 'C9 H13 N2 O9 P'  324.181 
# 
loop_
_pdbx_poly_seq_scheme.asym_id 
_pdbx_poly_seq_scheme.entity_id 
_pdbx_poly_seq_scheme.seq_id 
_pdbx_poly_seq_scheme.mon_id 
_pdbx_poly_seq_scheme.ndb_seq_num 
_pdbx_poly_seq_scheme.pdb_seq_num 
_pdbx_poly_seq_scheme.auth_seq_num 
_pdbx_poly_seq_scheme.pdb_mon_id 
_pdbx_poly_seq_scheme.auth_mon_id 
_pdbx_poly_seq_scheme.pdb_strand_id 
_pdbx_poly_seq_scheme.pdb_ins_code 
_pdbx_poly_seq_scheme.hetero 
A 1 1  G 1  1  1  G G A . n 
A 1 2  G 2  2  2  G G A . n 
A 1 3  U 3  3  3  U U A . n 
A 1 4  C 4  4  4  C C A . n 
A 1 5  A 5  5  5  A A A . n 
A 1 6  C 6  6  6  C C A . n 
A 1 7  A 7  7  7  A A A . n 
A 1 8  G 8  8  8  G G A . n 
A 1 9  C 9  9  9  C C A . n 
A 1 10 C 10 10 10 C C A . n 
A 1 11 C 11 11 11 C C A . n 
B 1 1  G 1  1  1  G G B . n 
B 1 2  G 2  2  2  G G B . n 
B 1 3  U 3  3  3  U U B . n 
B 1 4  C 4  4  4  C C B . n 
B 1 5  A 5  5  5  A A B . n 
B 1 6  C 6  6  6  C C B . n 
B 1 7  A 7  7  7  A A B . n 
B 1 8  G 8  8  8  G G B . n 
B 1 9  C 9  9  9  C C B . n 
B 1 10 C 10 10 10 C C B . n 
B 1 11 C 11 11 11 C C B . n 
# 
loop_
_pdbx_nonpoly_scheme.asym_id 
_pdbx_nonpoly_scheme.entity_id 
_pdbx_nonpoly_scheme.mon_id 
_pdbx_nonpoly_scheme.ndb_seq_num 
_pdbx_nonpoly_scheme.pdb_seq_num 
_pdbx_nonpoly_scheme.auth_seq_num 
_pdbx_nonpoly_scheme.pdb_mon_id 
_pdbx_nonpoly_scheme.auth_mon_id 
_pdbx_nonpoly_scheme.pdb_strand_id 
_pdbx_nonpoly_scheme.pdb_ins_code 
C 2 BA  1  502 502 BA  BA  A . 
D 2 BA  1  501 501 BA  BA  B . 
E 3 HOH 1  70  70  HOH HOH A . 
E 3 HOH 2  73  73  HOH HOH A . 
E 3 HOH 3  74  74  HOH HOH A . 
E 3 HOH 4  76  76  HOH HOH A . 
E 3 HOH 5  77  77  HOH HOH A . 
E 3 HOH 6  78  78  HOH HOH A . 
E 3 HOH 7  81  81  HOH HOH A . 
E 3 HOH 8  85  85  HOH HOH A . 
E 3 HOH 9  87  87  HOH HOH A . 
E 3 HOH 10 90  90  HOH HOH A . 
E 3 HOH 11 94  94  HOH HOH A . 
E 3 HOH 12 97  97  HOH HOH A . 
E 3 HOH 13 98  98  HOH HOH A . 
E 3 HOH 14 102 102 HOH HOH A . 
E 3 HOH 15 107 107 HOH HOH A . 
E 3 HOH 16 114 114 HOH HOH A . 
E 3 HOH 17 122 122 HOH HOH A . 
E 3 HOH 18 128 128 HOH HOH A . 
E 3 HOH 19 138 138 HOH HOH A . 
E 3 HOH 20 139 139 HOH HOH A . 
E 3 HOH 21 142 142 HOH HOH A . 
E 3 HOH 22 147 147 HOH HOH A . 
E 3 HOH 23 156 156 HOH HOH A . 
E 3 HOH 24 158 158 HOH HOH A . 
E 3 HOH 25 162 162 HOH HOH A . 
E 3 HOH 26 163 163 HOH HOH A . 
E 3 HOH 27 166 166 HOH HOH A . 
E 3 HOH 28 168 168 HOH HOH A . 
E 3 HOH 29 170 170 HOH HOH A . 
E 3 HOH 30 174 174 HOH HOH A . 
E 3 HOH 31 175 175 HOH HOH A . 
F 3 HOH 1  71  71  HOH HOH B . 
F 3 HOH 2  72  72  HOH HOH B . 
F 3 HOH 3  75  75  HOH HOH B . 
F 3 HOH 4  79  79  HOH HOH B . 
F 3 HOH 5  80  80  HOH HOH B . 
F 3 HOH 6  82  82  HOH HOH B . 
F 3 HOH 7  83  83  HOH HOH B . 
F 3 HOH 8  84  84  HOH HOH B . 
F 3 HOH 9  86  86  HOH HOH B . 
F 3 HOH 10 88  88  HOH HOH B . 
F 3 HOH 11 91  91  HOH HOH B . 
F 3 HOH 12 92  92  HOH HOH B . 
F 3 HOH 13 93  93  HOH HOH B . 
F 3 HOH 14 95  95  HOH HOH B . 
F 3 HOH 15 96  96  HOH HOH B . 
F 3 HOH 16 99  99  HOH HOH B . 
F 3 HOH 17 103 103 HOH HOH B . 
F 3 HOH 18 106 106 HOH HOH B . 
F 3 HOH 19 127 127 HOH HOH B . 
F 3 HOH 20 134 134 HOH HOH B . 
F 3 HOH 21 135 135 HOH HOH B . 
F 3 HOH 22 137 137 HOH HOH B . 
F 3 HOH 23 141 141 HOH HOH B . 
F 3 HOH 24 143 143 HOH HOH B . 
F 3 HOH 25 144 144 HOH HOH B . 
F 3 HOH 26 146 146 HOH HOH B . 
F 3 HOH 27 148 148 HOH HOH B . 
F 3 HOH 28 153 153 HOH HOH B . 
F 3 HOH 29 155 155 HOH HOH B . 
F 3 HOH 30 160 160 HOH HOH B . 
F 3 HOH 31 161 161 HOH HOH B . 
F 3 HOH 32 164 164 HOH HOH B . 
F 3 HOH 33 165 165 HOH HOH B . 
F 3 HOH 34 167 167 HOH HOH B . 
F 3 HOH 35 169 169 HOH HOH B . 
F 3 HOH 36 171 171 HOH HOH B . 
F 3 HOH 37 172 172 HOH HOH B . 
F 3 HOH 38 173 173 HOH HOH B . 
# 
loop_
_software.name 
_software.classification 
_software.version 
_software.citation_id 
_software.pdbx_ordinal 
DENZO     'data reduction' .            ? 1 
SCALEPACK 'data scaling'   .            ? 2 
TRUNCATE  'data reduction' .            ? 3 
CNS       refinement       .            ? 4 
CCP4      'data scaling'   '(TRUNCATE)' ? 5 
CNS       phasing          .            ? 6 
# 
_cell.entry_id           1KD4 
_cell.length_a           39.990 
_cell.length_b           39.990 
_cell.length_c           52.620 
_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                         1KD4 
_symmetry.space_group_name_H-M             'P 43' 
_symmetry.pdbx_full_space_group_name_H-M   ? 
_symmetry.cell_setting                     tetragonal 
_symmetry.Int_Tables_number                78 
# 
_exptl.entry_id          1KD4 
_exptl.method            'X-RAY DIFFRACTION' 
_exptl.crystals_number   1 
# 
_exptl_crystal.id                    1 
_exptl_crystal.density_meas          ? 
_exptl_crystal.density_percent_sol   56.2 
_exptl_crystal.density_Matthews      2.83 
_exptl_crystal.description           ? 
# 
_exptl_crystal_grow.crystal_id      1 
_exptl_crystal_grow.method          'VAPOR DIFFUSION, HANGING DROP' 
_exptl_crystal_grow.temp            293 
_exptl_crystal_grow.temp_details    ? 
_exptl_crystal_grow.pH              6.0 
_exptl_crystal_grow.pdbx_details    
;MPD, 40mM Na cacodylate (pH 6.0), 12 mM spermine 4HCl, 80 mM KCl, 20 mM BaCl2,
VAPOR DIFFUSION, HANGING DROP at 293K
;
_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.conc 
_exptl_crystal_grow_comp.volume 
_exptl_crystal_grow_comp.details 
1 1 1 'sodium cacodylate' ? ? ? 
1 2 1 'spermine HCl'      ? ? ? 
1 3 1 KCl                 ? ? ? 
1 4 1 BaCl2               ? ? ? 
1 5 1 MPD                 ? ? ? 
1 6 2 'spermine HCl'      ? ? ? 
1 7 2 KCl                 ? ? ? 
1 8 2 BaCl2               ? ? ? 
1 9 2 MPD                 ? ? ? 
# 
_diffrn.id                     1 
_diffrn.ambient_temp           98 
_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   2000-06-05 
_diffrn_detector.details                'Osmic confocal optics' 
# 
_diffrn_radiation.diffrn_id                        1 
_diffrn_radiation.wavelength_id                    1 
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l   M 
_diffrn_radiation.monochromator                    'Osmic Confocal Optics' 
_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 
_diffrn_source.pdbx_synchrotron_site       ? 
_diffrn_source.pdbx_synchrotron_beamline   ? 
_diffrn_source.pdbx_wavelength             ? 
_diffrn_source.pdbx_wavelength_list        1.5418 
# 
_reflns.entry_id                     1KD4 
_reflns.observed_criterion_sigma_I   -3 
_reflns.observed_criterion_sigma_F   ? 
_reflns.d_resolution_low             20.0 
_reflns.d_resolution_high            1.85 
_reflns.number_obs                   7128 
_reflns.number_all                   7152 
_reflns.percent_possible_obs         99.7 
_reflns.pdbx_Rmerge_I_obs            0.092 
_reflns.pdbx_Rsym_value              ? 
_reflns.pdbx_netI_over_sigmaI        19.9 
_reflns.B_iso_Wilson_estimate        25.8 
_reflns.pdbx_redundancy              4.6 
_reflns.R_free_details               ? 
_reflns.pdbx_diffrn_id               1 
_reflns.pdbx_ordinal                 1 
# 
_reflns_shell.d_res_high             1.85 
_reflns_shell.d_res_low              1.88 
_reflns_shell.percent_possible_all   98.4 
_reflns_shell.Rmerge_I_obs           0.4 
_reflns_shell.pdbx_Rsym_value        ? 
_reflns_shell.meanI_over_sigI_obs    1.8 
_reflns_shell.pdbx_redundancy        4.6 
_reflns_shell.percent_possible_obs   ? 
_reflns_shell.number_unique_all      369 
_reflns_shell.pdbx_diffrn_id         ? 
_reflns_shell.pdbx_ordinal           1 
# 
_refine.entry_id                                 1KD4 
_refine.ls_number_reflns_obs                     6991 
_refine.ls_number_reflns_all                     ? 
_refine.pdbx_ls_sigma_I                          ? 
_refine.pdbx_ls_sigma_F                          2.0 
_refine.pdbx_data_cutoff_high_absF               583553.36 
_refine.pdbx_data_cutoff_low_absF                0.000000 
_refine.ls_d_res_low                             20.00 
_refine.ls_d_res_high                            1.85 
_refine.ls_percent_reflns_obs                    97.9 
_refine.ls_R_factor_obs                          0.203 
_refine.ls_R_factor_all                          ? 
_refine.ls_R_factor_R_work                       0.203 
_refine.ls_R_factor_R_free                       0.222 
_refine.ls_R_factor_R_free_error                 0.008 
_refine.ls_R_factor_R_free_error_details         ? 
_refine.ls_percent_reflns_R_free                 10.8 
_refine.ls_number_reflns_R_free                  756 
_refine.ls_number_parameters                     ? 
_refine.ls_number_restraints                     ? 
_refine.occupancy_min                            ? 
_refine.occupancy_max                            ? 
_refine.B_iso_mean                               29.0 
_refine.aniso_B[1][1]                            -0.03 
_refine.aniso_B[2][2]                            -0.03 
_refine.aniso_B[3][3]                            0.05 
_refine.aniso_B[1][2]                            0.00 
_refine.aniso_B[1][3]                            0.00 
_refine.aniso_B[2][3]                            0.00 
_refine.solvent_model_details                    'FLAT MODEL' 
_refine.solvent_model_param_ksol                 0.41998 
_refine.solvent_model_param_bsol                 51.1213 
_refine.pdbx_ls_cross_valid_method               THROUGHOUT 
_refine.details                                  ? 
_refine.pdbx_starting_model                      'metal free r(GGUCACAGCCC)2' 
_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_Free                  ? 
_refine.overall_SU_B                             ? 
_refine.ls_redundancy_reflns_obs                 ? 
_refine.correlation_coeff_Fo_to_Fc               ? 
_refine.overall_SU_R_Cruickshank_DPI             ? 
_refine.overall_SU_R_free                        ? 
_refine.overall_SU_ML                            ? 
_refine.pdbx_overall_ESU_R                       ? 
_refine.pdbx_data_cutoff_high_rms_absF           ? 
_refine.correlation_coeff_Fo_to_Fc_free          ? 
_refine.pdbx_solvent_vdw_probe_radii             ? 
_refine.pdbx_solvent_ion_probe_radii             ? 
_refine.pdbx_solvent_shrinkage_radii             ? 
_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                        1KD4 
_refine_analyze.Luzzati_coordinate_error_obs    0.21 
_refine_analyze.Luzzati_sigma_a_obs             0.17 
_refine_analyze.Luzzati_d_res_low_obs           5.00 
_refine_analyze.Luzzati_coordinate_error_free   0.23 
_refine_analyze.Luzzati_sigma_a_free            0.20 
_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   460 
_refine_hist.pdbx_number_atoms_ligand         2 
_refine_hist.number_atoms_solvent             69 
_refine_hist.number_atoms_total               531 
_refine_hist.d_res_high                       1.85 
_refine_hist.d_res_low                        20.00 
# 
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                0.004 ? ? ? '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             0.9   ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_na          ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_angle_deg_prot        ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d      10.3  ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_na   ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_dihedral_angle_d_prot ?     ? ? ? 'X-RAY DIFFRACTION' ? 
c_improper_angle_d      1.34  ? ? ? '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                       1.85 
_refine_ls_shell.d_res_low                        1.97 
_refine_ls_shell.number_reflns_R_work             1000 
_refine_ls_shell.R_factor_R_work                  0.244 
_refine_ls_shell.percent_reflns_obs               95.1 
_refine_ls_shell.R_factor_R_free                  0.277 
_refine_ls_shell.R_factor_R_free_error            0.025 
_refine_ls_shell.percent_reflns_R_free            11.0 
_refine_ls_shell.number_reflns_R_free             123 
_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 WATER_REP.PARAM   WATER.TOP   'X-RAY DIFFRACTION' 
3 BAR.PARAM         BAR.TOP     'X-RAY DIFFRACTION' 
# 
_database_PDB_matrix.entry_id          1KD4 
_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                  1KD4 
_struct.title                     'The Crystal Structure of r(GGUCACAGCCC)2, Barium form' 
_struct.pdbx_model_details        ? 
_struct.pdbx_CASP_flag            ? 
_struct.pdbx_model_type_details   ? 
# 
_struct_keywords.entry_id        1KD4 
_struct_keywords.pdbx_keywords   RNA 
_struct_keywords.text            'RNA duplex, metal binding, RNA' 
# 
loop_
_struct_asym.id 
_struct_asym.pdbx_blank_PDB_chainid_flag 
_struct_asym.pdbx_modified 
_struct_asym.entity_id 
_struct_asym.details 
A N N 1 ? 
B N N 1 ? 
C N N 2 ? 
D N N 2 ? 
E N N 3 ? 
F N N 3 ? 
# 
_struct_ref.id                         1 
_struct_ref.entity_id                  1 
_struct_ref.db_name                    PDB 
_struct_ref.db_code                    1KD4 
_struct_ref.pdbx_db_accession          1KD4 
_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 1KD4 A 1 ? 11 ? 1KD4 1 ? 11 ? 1 11 
2 1 1KD4 B 1 ? 11 ? 1KD4 1 ? 11 ? 1 11 
# 
_pdbx_struct_assembly.id                   1 
_pdbx_struct_assembly.details              author_defined_assembly 
_pdbx_struct_assembly.method_details       ? 
_pdbx_struct_assembly.oligomeric_details   dimeric 
_pdbx_struct_assembly.oligomeric_count     2 
# 
_pdbx_struct_assembly_gen.assembly_id       1 
_pdbx_struct_assembly_gen.oper_expression   1 
_pdbx_struct_assembly_gen.asym_id_list      A,B,C,D,E,F 
# 
_pdbx_struct_oper_list.id                   1 
_pdbx_struct_oper_list.type                 'identity operation' 
_pdbx_struct_oper_list.name                 1_555 
_pdbx_struct_oper_list.symmetry_operation   x,y,z 
_pdbx_struct_oper_list.matrix[1][1]         1.0000000000 
_pdbx_struct_oper_list.matrix[1][2]         0.0000000000 
_pdbx_struct_oper_list.matrix[1][3]         0.0000000000 
_pdbx_struct_oper_list.vector[1]            0.0000000000 
_pdbx_struct_oper_list.matrix[2][1]         0.0000000000 
_pdbx_struct_oper_list.matrix[2][2]         1.0000000000 
_pdbx_struct_oper_list.matrix[2][3]         0.0000000000 
_pdbx_struct_oper_list.vector[2]            0.0000000000 
_pdbx_struct_oper_list.matrix[3][1]         0.0000000000 
_pdbx_struct_oper_list.matrix[3][2]         0.0000000000 
_pdbx_struct_oper_list.matrix[3][3]         1.0000000000 
_pdbx_struct_oper_list.vector[3]            0.0000000000 
# 
_struct_biol.id                    1 
_struct_biol.pdbx_parent_biol_id   ? 
_struct_biol.details               ? 
# 
loop_
_struct_conn.id 
_struct_conn.conn_type_id 
_struct_conn.pdbx_leaving_atom_flag 
_struct_conn.pdbx_PDB_id 
_struct_conn.ptnr1_label_asym_id 
_struct_conn.ptnr1_label_comp_id 
_struct_conn.ptnr1_label_seq_id 
_struct_conn.ptnr1_label_atom_id 
_struct_conn.pdbx_ptnr1_label_alt_id 
_struct_conn.pdbx_ptnr1_PDB_ins_code 
_struct_conn.pdbx_ptnr1_standard_comp_id 
_struct_conn.ptnr1_symmetry 
_struct_conn.ptnr2_label_asym_id 
_struct_conn.ptnr2_label_comp_id 
_struct_conn.ptnr2_label_seq_id 
_struct_conn.ptnr2_label_atom_id 
_struct_conn.pdbx_ptnr2_label_alt_id 
_struct_conn.pdbx_ptnr2_PDB_ins_code 
_struct_conn.ptnr1_auth_asym_id 
_struct_conn.ptnr1_auth_comp_id 
_struct_conn.ptnr1_auth_seq_id 
_struct_conn.ptnr2_auth_asym_id 
_struct_conn.ptnr2_auth_comp_id 
_struct_conn.ptnr2_auth_seq_id 
_struct_conn.ptnr2_symmetry 
_struct_conn.pdbx_ptnr3_label_atom_id 
_struct_conn.pdbx_ptnr3_label_seq_id 
_struct_conn.pdbx_ptnr3_label_comp_id 
_struct_conn.pdbx_ptnr3_label_asym_id 
_struct_conn.pdbx_ptnr3_label_alt_id 
_struct_conn.pdbx_ptnr3_PDB_ins_code 
_struct_conn.details 
_struct_conn.pdbx_dist_value 
_struct_conn.pdbx_value_order 
_struct_conn.pdbx_role 
metalc1  metalc ? ? A G   2  O6 ? ? ? 1_555 C BA  .  BA ? ? A G   2   A BA  502 1_555 ? ? ? ? ? ? ?             2.810 ? ? 
metalc2  metalc ? ? A U   3  O4 ? ? ? 1_555 C BA  .  BA ? ? A U   3   A BA  502 1_555 ? ? ? ? ? ? ?             2.728 ? ? 
metalc3  metalc ? ? A G   8  O6 ? ? ? 1_555 D BA  .  BA ? ? A G   8   B BA  501 1_555 ? ? ? ? ? ? ?             2.929 ? ? 
metalc4  metalc ? ? E HOH .  O  ? ? ? 1_555 C BA  .  BA ? ? A HOH 70  A BA  502 1_555 ? ? ? ? ? ? ?             2.728 ? ? 
metalc5  metalc ? ? E HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? A HOH 73  B BA  501 1_555 ? ? ? ? ? ? ?             2.672 ? ? 
metalc6  metalc ? ? E HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? A HOH 81  B BA  501 1_555 ? ? ? ? ? ? ?             2.810 ? ? 
metalc7  metalc ? ? E HOH .  O  ? ? ? 1_555 C BA  .  BA ? ? A HOH 147 A BA  502 1_555 ? ? ? ? ? ? ?             2.762 ? ? 
metalc8  metalc ? ? E HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? A HOH 174 B BA  501 1_555 ? ? ? ? ? ? ?             2.795 ? ? 
metalc9  metalc ? ? E HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? A HOH 175 B BA  501 1_555 ? ? ? ? ? ? ?             2.682 ? ? 
metalc10 metalc ? ? C BA  .  BA ? ? ? 1_555 B G   8  O6 ? ? A BA  502 B G   8   1_555 ? ? ? ? ? ? ?             2.944 ? ? 
metalc11 metalc ? ? C BA  .  BA ? ? ? 1_555 F HOH .  O  ? ? A BA  502 B HOH 72  1_555 ? ? ? ? ? ? ?             2.747 ? ? 
metalc12 metalc ? ? C BA  .  BA ? ? ? 1_555 F HOH .  O  ? ? A BA  502 B HOH 75  1_555 ? ? ? ? ? ? ?             2.710 ? ? 
metalc13 metalc ? ? C BA  .  BA ? ? ? 1_555 F HOH .  O  ? ? A BA  502 B HOH 82  1_555 ? ? ? ? ? ? ?             2.821 ? ? 
metalc14 metalc ? ? C BA  .  BA ? ? ? 1_555 F HOH .  O  ? ? A BA  502 B HOH 141 1_555 ? ? ? ? ? ? ?             2.735 ? ? 
metalc15 metalc ? ? B G   2  O6 ? ? ? 1_555 D BA  .  BA ? ? B G   2   B BA  501 1_555 ? ? ? ? ? ? ?             2.813 ? ? 
metalc16 metalc ? ? B U   3  O4 ? ? ? 1_555 D BA  .  BA ? ? B U   3   B BA  501 1_555 ? ? ? ? ? ? ?             2.704 ? ? 
metalc17 metalc ? ? F HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? B HOH 84  B BA  501 1_555 ? ? ? ? ? ? ?             2.659 ? ? 
metalc18 metalc ? ? F HOH .  O  ? ? ? 1_555 D BA  .  BA ? ? B HOH 134 B BA  501 1_555 ? ? ? ? ? ? ?             2.710 ? ? 
hydrog1  hydrog ? ? A G   1  N1 ? ? ? 1_555 B C   10 N3 ? ? A G   1   B C   10  1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog2  hydrog ? ? A G   1  N2 ? ? ? 1_555 B C   10 O2 ? ? A G   1   B C   10  1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog3  hydrog ? ? A G   1  O6 ? ? ? 1_555 B C   10 N4 ? ? A G   1   B C   10  1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog4  hydrog ? ? A G   2  N1 ? ? ? 1_555 B C   9  N3 ? ? A G   2   B C   9   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog5  hydrog ? ? A G   2  N2 ? ? ? 1_555 B C   9  O2 ? ? A G   2   B C   9   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog6  hydrog ? ? A G   2  O6 ? ? ? 1_555 B C   9  N4 ? ? A G   2   B C   9   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog7  hydrog ? ? A U   3  N3 ? ? ? 1_555 B G   8  O6 ? ? A U   3   B G   8   1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog8  hydrog ? ? A U   3  O2 ? ? ? 1_555 B G   8  N1 ? ? A U   3   B G   8   1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog9  hydrog ? ? A C   4  O2 ? ? ? 1_555 B A   7  N6 ? ? A C   4   B A   7   1_555 ? ? ? ? ? ? 'C-A MISPAIR' ?     ? ? 
hydrog10 hydrog ? ? A A   5  N6 ? ? ? 1_555 B C   6  N3 ? ? A A   5   B C   6   1_555 ? ? ? ? ? ? TYPE_25_PAIR  ?     ? ? 
hydrog11 hydrog ? ? A A   5  N7 ? ? ? 1_555 B C   6  N4 ? ? A A   5   B C   6   1_555 ? ? ? ? ? ? TYPE_25_PAIR  ?     ? ? 
hydrog12 hydrog ? ? A C   6  N3 ? ? ? 1_555 B A   5  N6 ? ? A C   6   B A   5   1_555 ? ? ? ? ? ? TYPE_25_PAIR  ?     ? ? 
hydrog13 hydrog ? ? A C   6  N4 ? ? ? 1_555 B A   5  N7 ? ? A C   6   B A   5   1_555 ? ? ? ? ? ? TYPE_25_PAIR  ?     ? ? 
hydrog14 hydrog ? ? A A   7  N6 ? ? ? 1_555 B C   4  O2 ? ? A A   7   B C   4   1_555 ? ? ? ? ? ? 'A-C MISPAIR' ?     ? ? 
hydrog15 hydrog ? ? A G   8  N1 ? ? ? 1_555 B U   3  O2 ? ? A G   8   B U   3   1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog16 hydrog ? ? A G   8  O6 ? ? ? 1_555 B U   3  N3 ? ? A G   8   B U   3   1_555 ? ? ? ? ? ? TYPE_28_PAIR  ?     ? ? 
hydrog17 hydrog ? ? A C   9  N3 ? ? ? 1_555 B G   2  N1 ? ? A C   9   B G   2   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog18 hydrog ? ? A C   9  N4 ? ? ? 1_555 B G   2  O6 ? ? A C   9   B G   2   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog19 hydrog ? ? A C   9  O2 ? ? ? 1_555 B G   2  N2 ? ? A C   9   B G   2   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog20 hydrog ? ? A C   10 N3 ? ? ? 1_555 B G   1  N1 ? ? A C   10  B G   1   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog21 hydrog ? ? A C   10 N4 ? ? ? 1_555 B G   1  O6 ? ? A C   10  B G   1   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
hydrog22 hydrog ? ? A C   10 O2 ? ? ? 1_555 B G   1  N2 ? ? A C   10  B G   1   1_555 ? ? ? ? ? ? WATSON-CRICK  ?     ? ? 
# 
loop_
_struct_conn_type.id 
_struct_conn_type.criteria 
_struct_conn_type.reference 
metalc ? ? 
hydrog ? ? 
# 
loop_
_pdbx_struct_conn_angle.id 
_pdbx_struct_conn_angle.ptnr1_label_atom_id 
_pdbx_struct_conn_angle.ptnr1_label_alt_id 
_pdbx_struct_conn_angle.ptnr1_label_asym_id 
_pdbx_struct_conn_angle.ptnr1_label_comp_id 
_pdbx_struct_conn_angle.ptnr1_label_seq_id 
_pdbx_struct_conn_angle.ptnr1_auth_atom_id 
_pdbx_struct_conn_angle.ptnr1_auth_asym_id 
_pdbx_struct_conn_angle.ptnr1_auth_comp_id 
_pdbx_struct_conn_angle.ptnr1_auth_seq_id 
_pdbx_struct_conn_angle.ptnr1_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr1_symmetry 
_pdbx_struct_conn_angle.ptnr2_label_atom_id 
_pdbx_struct_conn_angle.ptnr2_label_alt_id 
_pdbx_struct_conn_angle.ptnr2_label_asym_id 
_pdbx_struct_conn_angle.ptnr2_label_comp_id 
_pdbx_struct_conn_angle.ptnr2_label_seq_id 
_pdbx_struct_conn_angle.ptnr2_auth_atom_id 
_pdbx_struct_conn_angle.ptnr2_auth_asym_id 
_pdbx_struct_conn_angle.ptnr2_auth_comp_id 
_pdbx_struct_conn_angle.ptnr2_auth_seq_id 
_pdbx_struct_conn_angle.ptnr2_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr2_symmetry 
_pdbx_struct_conn_angle.ptnr3_label_atom_id 
_pdbx_struct_conn_angle.ptnr3_label_alt_id 
_pdbx_struct_conn_angle.ptnr3_label_asym_id 
_pdbx_struct_conn_angle.ptnr3_label_comp_id 
_pdbx_struct_conn_angle.ptnr3_label_seq_id 
_pdbx_struct_conn_angle.ptnr3_auth_atom_id 
_pdbx_struct_conn_angle.ptnr3_auth_asym_id 
_pdbx_struct_conn_angle.ptnr3_auth_comp_id 
_pdbx_struct_conn_angle.ptnr3_auth_seq_id 
_pdbx_struct_conn_angle.ptnr3_PDB_ins_code 
_pdbx_struct_conn_angle.ptnr3_symmetry 
_pdbx_struct_conn_angle.value 
_pdbx_struct_conn_angle.value_esd 
1  O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O4 ? A U   3 ? A U   3   ? 1_555 73.9  ? 
2  O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? E HOH . ? A HOH 70  ? 1_555 71.0  ? 
3  O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? E HOH . ? A HOH 70  ? 1_555 69.4  ? 
4  O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? E HOH . ? A HOH 147 ? 1_555 64.9  ? 
5  O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? E HOH . ? A HOH 147 ? 1_555 129.2 ? 
6  O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? E HOH . ? A HOH 147 ? 1_555 70.0  ? 
7  O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O6 ? B G   8 ? B G   8   ? 1_555 66.6  ? 
8  O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O6 ? B G   8 ? B G   8   ? 1_555 76.2  ? 
9  O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O6 ? B G   8 ? B G   8   ? 1_555 131.0 ? 
10 O  ? E HOH . ? A HOH 147 ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O6 ? B G   8 ? B G   8   ? 1_555 110.7 ? 
11 O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 72  ? 1_555 135.4 ? 
12 O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 72  ? 1_555 84.2  ? 
13 O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 72  ? 1_555 135.9 ? 
14 O  ? E HOH . ? A HOH 147 ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 72  ? 1_555 146.5 ? 
15 O6 ? B G   8 ? B G   8   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 72  ? 1_555 70.6  ? 
16 O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 106.1 ? 
17 O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 153.3 ? 
18 O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 136.7 ? 
19 O  ? E HOH . ? A HOH 147 ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 70.1  ? 
20 O6 ? B G   8 ? B G   8   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 79.5  ? 
21 O  ? F HOH . ? B HOH 72  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 75  ? 1_555 77.6  ? 
22 O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 135.5 ? 
23 O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 68.2  ? 
24 O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 74.4  ? 
25 O  ? E HOH . ? A HOH 147 ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 126.3 ? 
26 O6 ? B G   8 ? B G   8   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 123.0 ? 
27 O  ? F HOH . ? B HOH 72  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 63.0  ? 
28 O  ? F HOH . ? B HOH 75  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 82  ? 1_555 118.3 ? 
29 O6 ? A G   2 ? A G   2   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 130.2 ? 
30 O4 ? A U   3 ? A U   3   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 133.2 ? 
31 O  ? E HOH . ? A HOH 70  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 81.5  ? 
32 O  ? E HOH . ? A HOH 147 ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 67.0  ? 
33 O6 ? B G   8 ? B G   8   ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 146.1 ? 
34 O  ? F HOH . ? B HOH 72  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 93.1  ? 
35 O  ? F HOH . ? B HOH 75  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 67.8  ? 
36 O  ? F HOH . ? B HOH 82  ? 1_555 BA ? C BA . ? A BA 502 ? 1_555 O  ? F HOH . ? B HOH 141 ? 1_555 69.1  ? 
37 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 73  ? 1_555 76.3  ? 
38 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 81  ? 1_555 67.6  ? 
39 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 81  ? 1_555 73.9  ? 
40 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 174 ? 1_555 123.7 ? 
41 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 174 ? 1_555 121.3 ? 
42 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 174 ? 1_555 68.2  ? 
43 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 175 ? 1_555 148.5 ? 
44 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 175 ? 1_555 73.1  ? 
45 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 175 ? 1_555 96.6  ? 
46 O  ? E HOH . ? A HOH 174 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? E HOH . ? A HOH 175 ? 1_555 68.8  ? 
47 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O6 ? B G   2 ? B G   2   ? 1_555 65.5  ? 
48 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O6 ? B G   2 ? B G   2   ? 1_555 105.4 ? 
49 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O6 ? B G   2 ? B G   2   ? 1_555 131.6 ? 
50 O  ? E HOH . ? A HOH 174 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O6 ? B G   2 ? B G   2   ? 1_555 133.3 ? 
51 O  ? E HOH . ? A HOH 175 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O6 ? B G   2 ? B G   2   ? 1_555 130.2 ? 
52 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 77.0  ? 
53 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 151.0 ? 
54 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 85.7  ? 
55 O  ? E HOH . ? A HOH 174 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 66.7  ? 
56 O  ? E HOH . ? A HOH 175 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 130.8 ? 
57 O6 ? B G   2 ? B G   2   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O4 ? B U   3 ? B U   3   ? 1_555 72.9  ? 
58 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 109.7 ? 
59 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 73.2  ? 
60 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 146.5 ? 
61 O  ? E HOH . ? A HOH 174 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 126.4 ? 
62 O  ? E HOH . ? A HOH 175 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 68.0  ? 
63 O6 ? B G   2 ? B G   2   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 64.4  ? 
64 O4 ? B U   3 ? B U   3   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 84  ? 1_555 127.1 ? 
65 O6 ? A G   8 ? A G   8   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 131.2 ? 
66 O  ? E HOH . ? A HOH 73  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 140.8 ? 
67 O  ? E HOH . ? A HOH 81  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 137.3 ? 
68 O  ? E HOH . ? A HOH 174 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 70.9  ? 
69 O  ? E HOH . ? A HOH 175 ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 79.1  ? 
70 O6 ? B G   2 ? B G   2   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 72.6  ? 
71 O4 ? B U   3 ? B U   3   ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 67.4  ? 
72 O  ? F HOH . ? B HOH 84  ? 1_555 BA ? D BA . ? B BA 501 ? 1_555 O  ? F HOH . ? B HOH 134 ? 1_555 71.1  ? 
# 
loop_
_struct_site.id 
_struct_site.pdbx_evidence_code 
_struct_site.pdbx_auth_asym_id 
_struct_site.pdbx_auth_comp_id 
_struct_site.pdbx_auth_seq_id 
_struct_site.pdbx_auth_ins_code 
_struct_site.pdbx_num_residues 
_struct_site.details 
AC1 Software B BA 501 ? 9 'BINDING SITE FOR RESIDUE BA B 501' 
AC2 Software A BA 502 ? 9 'BINDING SITE FOR RESIDUE BA A 502' 
# 
loop_
_struct_site_gen.id 
_struct_site_gen.site_id 
_struct_site_gen.pdbx_num_res 
_struct_site_gen.label_comp_id 
_struct_site_gen.label_asym_id 
_struct_site_gen.label_seq_id 
_struct_site_gen.pdbx_auth_ins_code 
_struct_site_gen.auth_comp_id 
_struct_site_gen.auth_asym_id 
_struct_site_gen.auth_seq_id 
_struct_site_gen.label_atom_id 
_struct_site_gen.label_alt_id 
_struct_site_gen.symmetry 
_struct_site_gen.details 
1  AC1 9 G   A 8 ? G   A 8   . ? 1_555 ? 
2  AC1 9 HOH E . ? HOH A 73  . ? 1_555 ? 
3  AC1 9 HOH E . ? HOH A 81  . ? 1_555 ? 
4  AC1 9 HOH E . ? HOH A 174 . ? 1_555 ? 
5  AC1 9 HOH E . ? HOH A 175 . ? 1_555 ? 
6  AC1 9 G   B 2 ? G   B 2   . ? 1_555 ? 
7  AC1 9 U   B 3 ? U   B 3   . ? 1_555 ? 
8  AC1 9 HOH F . ? HOH B 84  . ? 1_555 ? 
9  AC1 9 HOH F . ? HOH B 134 . ? 1_555 ? 
10 AC2 9 G   A 2 ? G   A 2   . ? 1_555 ? 
11 AC2 9 U   A 3 ? U   A 3   . ? 1_555 ? 
12 AC2 9 HOH E . ? HOH A 70  . ? 1_555 ? 
13 AC2 9 HOH E . ? HOH A 147 . ? 1_555 ? 
14 AC2 9 G   B 8 ? G   B 8   . ? 1_555 ? 
15 AC2 9 HOH F . ? HOH B 72  . ? 1_555 ? 
16 AC2 9 HOH F . ? HOH B 75  . ? 1_555 ? 
17 AC2 9 HOH F . ? HOH B 82  . ? 1_555 ? 
18 AC2 9 HOH F . ? HOH B 141 . ? 1_555 ? 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.pdbx_ordinal 
A   OP3    O  N N 1   
A   P      P  N N 2   
A   OP1    O  N N 3   
A   OP2    O  N N 4   
A   "O5'"  O  N N 5   
A   "C5'"  C  N N 6   
A   "C4'"  C  N R 7   
A   "O4'"  O  N N 8   
A   "C3'"  C  N S 9   
A   "O3'"  O  N N 10  
A   "C2'"  C  N R 11  
A   "O2'"  O  N N 12  
A   "C1'"  C  N R 13  
A   N9     N  Y N 14  
A   C8     C  Y N 15  
A   N7     N  Y N 16  
A   C5     C  Y N 17  
A   C6     C  Y N 18  
A   N6     N  N N 19  
A   N1     N  Y N 20  
A   C2     C  Y N 21  
A   N3     N  Y N 22  
A   C4     C  Y N 23  
A   HOP3   H  N N 24  
A   HOP2   H  N N 25  
A   "H5'"  H  N N 26  
A   "H5''" H  N N 27  
A   "H4'"  H  N N 28  
A   "H3'"  H  N N 29  
A   "HO3'" H  N N 30  
A   "H2'"  H  N N 31  
A   "HO2'" H  N N 32  
A   "H1'"  H  N N 33  
A   H8     H  N N 34  
A   H61    H  N N 35  
A   H62    H  N N 36  
A   H2     H  N N 37  
BA  BA     BA N N 38  
C   OP3    O  N N 39  
C   P      P  N N 40  
C   OP1    O  N N 41  
C   OP2    O  N N 42  
C   "O5'"  O  N N 43  
C   "C5'"  C  N N 44  
C   "C4'"  C  N R 45  
C   "O4'"  O  N N 46  
C   "C3'"  C  N S 47  
C   "O3'"  O  N N 48  
C   "C2'"  C  N R 49  
C   "O2'"  O  N N 50  
C   "C1'"  C  N R 51  
C   N1     N  N N 52  
C   C2     C  N N 53  
C   O2     O  N N 54  
C   N3     N  N N 55  
C   C4     C  N N 56  
C   N4     N  N N 57  
C   C5     C  N N 58  
C   C6     C  N N 59  
C   HOP3   H  N N 60  
C   HOP2   H  N N 61  
C   "H5'"  H  N N 62  
C   "H5''" H  N N 63  
C   "H4'"  H  N N 64  
C   "H3'"  H  N N 65  
C   "HO3'" H  N N 66  
C   "H2'"  H  N N 67  
C   "HO2'" H  N N 68  
C   "H1'"  H  N N 69  
C   H41    H  N N 70  
C   H42    H  N N 71  
C   H5     H  N N 72  
C   H6     H  N N 73  
G   OP3    O  N N 74  
G   P      P  N N 75  
G   OP1    O  N N 76  
G   OP2    O  N N 77  
G   "O5'"  O  N N 78  
G   "C5'"  C  N N 79  
G   "C4'"  C  N R 80  
G   "O4'"  O  N N 81  
G   "C3'"  C  N S 82  
G   "O3'"  O  N N 83  
G   "C2'"  C  N R 84  
G   "O2'"  O  N N 85  
G   "C1'"  C  N R 86  
G   N9     N  Y N 87  
G   C8     C  Y N 88  
G   N7     N  Y N 89  
G   C5     C  Y N 90  
G   C6     C  N N 91  
G   O6     O  N N 92  
G   N1     N  N N 93  
G   C2     C  N N 94  
G   N2     N  N N 95  
G   N3     N  N N 96  
G   C4     C  Y N 97  
G   HOP3   H  N N 98  
G   HOP2   H  N N 99  
G   "H5'"  H  N N 100 
G   "H5''" H  N N 101 
G   "H4'"  H  N N 102 
G   "H3'"  H  N N 103 
G   "HO3'" H  N N 104 
G   "H2'"  H  N N 105 
G   "HO2'" H  N N 106 
G   "H1'"  H  N N 107 
G   H8     H  N N 108 
G   H1     H  N N 109 
G   H21    H  N N 110 
G   H22    H  N N 111 
HOH O      O  N N 112 
HOH H1     H  N N 113 
HOH H2     H  N N 114 
U   OP3    O  N N 115 
U   P      P  N N 116 
U   OP1    O  N N 117 
U   OP2    O  N N 118 
U   "O5'"  O  N N 119 
U   "C5'"  C  N N 120 
U   "C4'"  C  N R 121 
U   "O4'"  O  N N 122 
U   "C3'"  C  N S 123 
U   "O3'"  O  N N 124 
U   "C2'"  C  N R 125 
U   "O2'"  O  N N 126 
U   "C1'"  C  N R 127 
U   N1     N  N N 128 
U   C2     C  N N 129 
U   O2     O  N N 130 
U   N3     N  N N 131 
U   C4     C  N N 132 
U   O4     O  N N 133 
U   C5     C  N N 134 
U   C6     C  N N 135 
U   HOP3   H  N N 136 
U   HOP2   H  N N 137 
U   "H5'"  H  N N 138 
U   "H5''" H  N N 139 
U   "H4'"  H  N N 140 
U   "H3'"  H  N N 141 
U   "HO3'" H  N N 142 
U   "H2'"  H  N N 143 
U   "HO2'" H  N N 144 
U   "H1'"  H  N N 145 
U   H3     H  N N 146 
U   H5     H  N N 147 
U   H6     H  N N 148 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
A   OP3   P      sing N N 1   
A   OP3   HOP3   sing N N 2   
A   P     OP1    doub N N 3   
A   P     OP2    sing N N 4   
A   P     "O5'"  sing N N 5   
A   OP2   HOP2   sing N N 6   
A   "O5'" "C5'"  sing N N 7   
A   "C5'" "C4'"  sing N N 8   
A   "C5'" "H5'"  sing N N 9   
A   "C5'" "H5''" sing N N 10  
A   "C4'" "O4'"  sing N N 11  
A   "C4'" "C3'"  sing N N 12  
A   "C4'" "H4'"  sing N N 13  
A   "O4'" "C1'"  sing N N 14  
A   "C3'" "O3'"  sing N N 15  
A   "C3'" "C2'"  sing N N 16  
A   "C3'" "H3'"  sing N N 17  
A   "O3'" "HO3'" sing N N 18  
A   "C2'" "O2'"  sing N N 19  
A   "C2'" "C1'"  sing N N 20  
A   "C2'" "H2'"  sing N N 21  
A   "O2'" "HO2'" sing N N 22  
A   "C1'" N9     sing N N 23  
A   "C1'" "H1'"  sing N N 24  
A   N9    C8     sing Y N 25  
A   N9    C4     sing Y N 26  
A   C8    N7     doub Y N 27  
A   C8    H8     sing N N 28  
A   N7    C5     sing Y N 29  
A   C5    C6     sing Y N 30  
A   C5    C4     doub Y N 31  
A   C6    N6     sing N N 32  
A   C6    N1     doub Y N 33  
A   N6    H61    sing N N 34  
A   N6    H62    sing N N 35  
A   N1    C2     sing Y N 36  
A   C2    N3     doub Y N 37  
A   C2    H2     sing N N 38  
A   N3    C4     sing Y N 39  
C   OP3   P      sing N N 40  
C   OP3   HOP3   sing N N 41  
C   P     OP1    doub N N 42  
C   P     OP2    sing N N 43  
C   P     "O5'"  sing N N 44  
C   OP2   HOP2   sing N N 45  
C   "O5'" "C5'"  sing N N 46  
C   "C5'" "C4'"  sing N N 47  
C   "C5'" "H5'"  sing N N 48  
C   "C5'" "H5''" sing N N 49  
C   "C4'" "O4'"  sing N N 50  
C   "C4'" "C3'"  sing N N 51  
C   "C4'" "H4'"  sing N N 52  
C   "O4'" "C1'"  sing N N 53  
C   "C3'" "O3'"  sing N N 54  
C   "C3'" "C2'"  sing N N 55  
C   "C3'" "H3'"  sing N N 56  
C   "O3'" "HO3'" sing N N 57  
C   "C2'" "O2'"  sing N N 58  
C   "C2'" "C1'"  sing N N 59  
C   "C2'" "H2'"  sing N N 60  
C   "O2'" "HO2'" sing N N 61  
C   "C1'" N1     sing N N 62  
C   "C1'" "H1'"  sing N N 63  
C   N1    C2     sing N N 64  
C   N1    C6     sing N N 65  
C   C2    O2     doub N N 66  
C   C2    N3     sing N N 67  
C   N3    C4     doub N N 68  
C   C4    N4     sing N N 69  
C   C4    C5     sing N N 70  
C   N4    H41    sing N N 71  
C   N4    H42    sing N N 72  
C   C5    C6     doub N N 73  
C   C5    H5     sing N N 74  
C   C6    H6     sing N N 75  
G   OP3   P      sing N N 76  
G   OP3   HOP3   sing N N 77  
G   P     OP1    doub N N 78  
G   P     OP2    sing N N 79  
G   P     "O5'"  sing N N 80  
G   OP2   HOP2   sing N N 81  
G   "O5'" "C5'"  sing N N 82  
G   "C5'" "C4'"  sing N N 83  
G   "C5'" "H5'"  sing N N 84  
G   "C5'" "H5''" sing N N 85  
G   "C4'" "O4'"  sing N N 86  
G   "C4'" "C3'"  sing N N 87  
G   "C4'" "H4'"  sing N N 88  
G   "O4'" "C1'"  sing N N 89  
G   "C3'" "O3'"  sing N N 90  
G   "C3'" "C2'"  sing N N 91  
G   "C3'" "H3'"  sing N N 92  
G   "O3'" "HO3'" sing N N 93  
G   "C2'" "O2'"  sing N N 94  
G   "C2'" "C1'"  sing N N 95  
G   "C2'" "H2'"  sing N N 96  
G   "O2'" "HO2'" sing N N 97  
G   "C1'" N9     sing N N 98  
G   "C1'" "H1'"  sing N N 99  
G   N9    C8     sing Y N 100 
G   N9    C4     sing Y N 101 
G   C8    N7     doub Y N 102 
G   C8    H8     sing N N 103 
G   N7    C5     sing Y N 104 
G   C5    C6     sing N N 105 
G   C5    C4     doub Y N 106 
G   C6    O6     doub N N 107 
G   C6    N1     sing N N 108 
G   N1    C2     sing N N 109 
G   N1    H1     sing N N 110 
G   C2    N2     sing N N 111 
G   C2    N3     doub N N 112 
G   N2    H21    sing N N 113 
G   N2    H22    sing N N 114 
G   N3    C4     sing N N 115 
HOH O     H1     sing N N 116 
HOH O     H2     sing N N 117 
U   OP3   P      sing N N 118 
U   OP3   HOP3   sing N N 119 
U   P     OP1    doub N N 120 
U   P     OP2    sing N N 121 
U   P     "O5'"  sing N N 122 
U   OP2   HOP2   sing N N 123 
U   "O5'" "C5'"  sing N N 124 
U   "C5'" "C4'"  sing N N 125 
U   "C5'" "H5'"  sing N N 126 
U   "C5'" "H5''" sing N N 127 
U   "C4'" "O4'"  sing N N 128 
U   "C4'" "C3'"  sing N N 129 
U   "C4'" "H4'"  sing N N 130 
U   "O4'" "C1'"  sing N N 131 
U   "C3'" "O3'"  sing N N 132 
U   "C3'" "C2'"  sing N N 133 
U   "C3'" "H3'"  sing N N 134 
U   "O3'" "HO3'" sing N N 135 
U   "C2'" "O2'"  sing N N 136 
U   "C2'" "C1'"  sing N N 137 
U   "C2'" "H2'"  sing N N 138 
U   "O2'" "HO2'" sing N N 139 
U   "C1'" N1     sing N N 140 
U   "C1'" "H1'"  sing N N 141 
U   N1    C2     sing N N 142 
U   N1    C6     sing N N 143 
U   C2    O2     doub N N 144 
U   C2    N3     sing N N 145 
U   N3    C4     sing N N 146 
U   N3    H3     sing N N 147 
U   C4    O4     doub N N 148 
U   C4    C5     sing N N 149 
U   C5    C6     doub N N 150 
U   C5    H5     sing N N 151 
U   C6    H6     sing N N 152 
# 
loop_
_ndb_struct_conf_na.entry_id 
_ndb_struct_conf_na.feature 
1KD4 'double helix'         
1KD4 'a-form double helix'  
1KD4 'mismatched base pair' 
# 
loop_
_ndb_struct_na_base_pair.model_number 
_ndb_struct_na_base_pair.i_label_asym_id 
_ndb_struct_na_base_pair.i_label_comp_id 
_ndb_struct_na_base_pair.i_label_seq_id 
_ndb_struct_na_base_pair.i_symmetry 
_ndb_struct_na_base_pair.j_label_asym_id 
_ndb_struct_na_base_pair.j_label_comp_id 
_ndb_struct_na_base_pair.j_label_seq_id 
_ndb_struct_na_base_pair.j_symmetry 
_ndb_struct_na_base_pair.shear 
_ndb_struct_na_base_pair.stretch 
_ndb_struct_na_base_pair.stagger 
_ndb_struct_na_base_pair.buckle 
_ndb_struct_na_base_pair.propeller 
_ndb_struct_na_base_pair.opening 
_ndb_struct_na_base_pair.pair_number 
_ndb_struct_na_base_pair.pair_name 
_ndb_struct_na_base_pair.i_auth_asym_id 
_ndb_struct_na_base_pair.i_auth_seq_id 
_ndb_struct_na_base_pair.i_PDB_ins_code 
_ndb_struct_na_base_pair.j_auth_asym_id 
_ndb_struct_na_base_pair.j_auth_seq_id 
_ndb_struct_na_base_pair.j_PDB_ins_code 
_ndb_struct_na_base_pair.hbond_type_28 
_ndb_struct_na_base_pair.hbond_type_12 
1 A G 1  1_555 B C 10 1_555 -0.325 -0.094 -0.010 -6.172 -13.107 1.547   1  A_G1:C10_B A 1  ? B 10 ? 19 1 
1 A G 2  1_555 B C 9  1_555 -0.280 -0.125 0.065  -8.489 -16.605 1.932   2  A_G2:C9_B  A 2  ? B 9  ? 19 1 
1 A U 3  1_555 B G 8  1_555 2.073  -0.529 0.234  -3.599 -9.514  -2.208  3  A_U3:G8_B  A 3  ? B 8  ? 28 1 
1 A C 4  1_555 B A 7  1_555 7.380  -3.174 0.785  -8.031 -3.358  0.968   4  A_C4:A7_B  A 4  ? B 7  ? ?  ? 
1 A A 5  1_555 B C 6  1_555 -2.943 -0.056 -0.600 -0.494 -12.397 -93.826 5  A_A5:C6_B  A 5  ? B 6  ? 25 4 
1 A C 6  1_555 B A 5  1_555 2.949  -0.091 -0.697 0.107  -14.341 -93.922 6  A_C6:A5_B  A 6  ? B 5  ? 25 4 
1 A A 7  1_555 B C 4  1_555 -7.456 -3.181 0.865  8.473  -3.758  2.388   7  A_A7:C4_B  A 7  ? B 4  ? ?  ? 
1 A G 8  1_555 B U 3  1_555 -2.089 -0.534 0.338  4.873  -8.166  -2.212  8  A_G8:U3_B  A 8  ? B 3  ? 28 1 
1 A C 9  1_555 B G 2  1_555 0.312  -0.140 0.093  8.171  -16.746 1.316   9  A_C9:G2_B  A 9  ? B 2  ? 19 1 
1 A C 10 1_555 B G 1  1_555 0.334  -0.113 -0.072 5.512  -11.845 1.364   10 A_C10:G1_B A 10 ? B 1  ? 19 1 
# 
loop_
_ndb_struct_na_base_pair_step.model_number 
_ndb_struct_na_base_pair_step.i_label_asym_id_1 
_ndb_struct_na_base_pair_step.i_label_comp_id_1 
_ndb_struct_na_base_pair_step.i_label_seq_id_1 
_ndb_struct_na_base_pair_step.i_symmetry_1 
_ndb_struct_na_base_pair_step.j_label_asym_id_1 
_ndb_struct_na_base_pair_step.j_label_comp_id_1 
_ndb_struct_na_base_pair_step.j_label_seq_id_1 
_ndb_struct_na_base_pair_step.j_symmetry_1 
_ndb_struct_na_base_pair_step.i_label_asym_id_2 
_ndb_struct_na_base_pair_step.i_label_comp_id_2 
_ndb_struct_na_base_pair_step.i_label_seq_id_2 
_ndb_struct_na_base_pair_step.i_symmetry_2 
_ndb_struct_na_base_pair_step.j_label_asym_id_2 
_ndb_struct_na_base_pair_step.j_label_comp_id_2 
_ndb_struct_na_base_pair_step.j_label_seq_id_2 
_ndb_struct_na_base_pair_step.j_symmetry_2 
_ndb_struct_na_base_pair_step.shift 
_ndb_struct_na_base_pair_step.slide 
_ndb_struct_na_base_pair_step.rise 
_ndb_struct_na_base_pair_step.tilt 
_ndb_struct_na_base_pair_step.roll 
_ndb_struct_na_base_pair_step.twist 
_ndb_struct_na_base_pair_step.x_displacement 
_ndb_struct_na_base_pair_step.y_displacement 
_ndb_struct_na_base_pair_step.helical_rise 
_ndb_struct_na_base_pair_step.inclination 
_ndb_struct_na_base_pair_step.tip 
_ndb_struct_na_base_pair_step.helical_twist 
_ndb_struct_na_base_pair_step.step_number 
_ndb_struct_na_base_pair_step.step_name 
_ndb_struct_na_base_pair_step.i_auth_asym_id_1 
_ndb_struct_na_base_pair_step.i_auth_seq_id_1 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.j_auth_asym_id_1 
_ndb_struct_na_base_pair_step.j_auth_seq_id_1 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_1 
_ndb_struct_na_base_pair_step.i_auth_asym_id_2 
_ndb_struct_na_base_pair_step.i_auth_seq_id_2 
_ndb_struct_na_base_pair_step.i_PDB_ins_code_2 
_ndb_struct_na_base_pair_step.j_auth_asym_id_2 
_ndb_struct_na_base_pair_step.j_auth_seq_id_2 
_ndb_struct_na_base_pair_step.j_PDB_ins_code_2 
1 A G 1 1_555 B C 10 1_555 A G 2  1_555 B C 9 1_555 -0.550 -1.714 3.297 -0.481 4.587  34.489 -3.550 0.848   3.058 7.693   0.807   
34.786  1 AA_G1G2:C9C10_BB A 1 ? B 10 ? A 2  ? B 9 ? 
1 A G 2 1_555 B C 9  1_555 A U 3  1_555 B G 8 1_555 0.060  -0.871 3.076 0.407  5.156  42.653 -1.662 -0.045  2.957 7.057   -0.558  
42.951  2 AA_G2U3:G8C9_BB  A 2 ? B 9  ? A 3  ? B 8 ? 
1 A U 3 1_555 B G 8  1_555 A C 4  1_555 B A 7 1_555 0.882  -0.785 3.496 8.647  9.688  55.860 -1.388 -0.413  3.419 10.188  -9.094  
57.231  3 AA_U3C4:A7G8_BB  A 3 ? B 8  ? A 4  ? B 7 ? 
1 A C 4 1_555 B A 7  1_555 A A 5  1_555 B C 6 1_555 -5.752 -1.196 2.573 3.010  7.696  -8.478 -6.403 -23.127 4.082 -41.297 16.153  
-11.834 4 AA_C4A5:C6A7_BB  A 4 ? B 7  ? A 5  ? B 6 ? 
1 A A 5 1_555 B C 6  1_555 A C 6  1_555 B A 5 1_555 0.029  -4.232 3.270 0.430  -0.128 75.348 -3.458 -0.011  3.276 -0.105  -0.352  
75.349  5 AA_A5C6:A5C6_BB  A 5 ? B 6  ? A 6  ? B 5 ? 
1 A C 6 1_555 B A 5  1_555 A A 7  1_555 B C 4 1_555 5.795  -1.202 2.520 -3.114 7.585  -8.781 -5.775 22.970  4.101 -39.883 -16.375 
-12.009 6 AA_C6A7:C4A5_BB  A 6 ? B 5  ? A 7  ? B 4 ? 
1 A A 7 1_555 B C 4  1_555 A G 8  1_555 B U 3 1_555 -0.842 -0.741 3.490 -8.756 9.285  56.115 -1.311 0.367   3.425 9.730   9.176   
57.433  7 AA_A7G8:U3C4_BB  A 7 ? B 4  ? A 8  ? B 3 ? 
1 A G 8 1_555 B U 3  1_555 A C 9  1_555 B G 2 1_555 -0.099 -0.905 3.119 0.119  5.833  43.100 -1.750 0.145   2.977 7.897   -0.161  
43.475  8 AA_G8C9:G2U3_BB  A 8 ? B 3  ? A 9  ? B 2 ? 
1 A C 9 1_555 B G 2  1_555 A C 10 1_555 B G 1 1_555 0.527  -1.719 3.287 0.861  4.731  34.152 -3.614 -0.760  3.041 8.007   -1.457  
34.479  9 AA_C9C10:G1G2_BB A 9 ? B 2  ? A 10 ? B 1 ? 
# 
_atom_sites.entry_id                    1KD4 
_atom_sites.fract_transf_matrix[1][1]   0.025006 
_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]   0.025006 
_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]   0.019004 
_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 
BA 
C  
N  
O  
P  
# 
loop_