data_4E8S
#
_entry.id 4E8S
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.387
_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 4E8S pdb_00004e8s 10.2210/pdb4e8s/pdb
NDB NA1694 ? ?
RCSB RCSB071312 ? ?
WWPDB D_1000071312 ? ?
#
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 2013-03-20
2 'Structure model' 1 1 2015-05-13
3 'Structure model' 1 2 2017-03-08
4 'Structure model' 1 3 2017-11-15
5 'Structure model' 1 4 2024-02-28
#
_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' 'Database references'
2 3 'Structure model' Other
3 4 'Structure model' 'Refinement description'
4 5 'Structure model' 'Data collection'
5 5 'Structure model' 'Database references'
6 5 'Structure model' 'Derived calculations'
#
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' pdbx_struct_conn_angle
6 5 'Structure model' struct_conn
7 5 'Structure model' struct_site
#
loop_
_pdbx_audit_revision_item.ordinal
_pdbx_audit_revision_item.revision_ordinal
_pdbx_audit_revision_item.data_content_type
_pdbx_audit_revision_item.item
1 4 'Structure model' '_software.classification'
2 4 'Structure model' '_software.name'
3 4 'Structure model' '_software.version'
4 5 'Structure model' '_database_2.pdbx_DOI'
5 5 'Structure model' '_database_2.pdbx_database_accession'
6 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id'
7 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id'
8 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id'
9 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id'
10 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id'
11 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id'
12 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id'
13 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'
14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id'
15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id'
16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id'
17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id'
18 5 'Structure model' '_pdbx_struct_conn_angle.value'
19 5 'Structure model' '_struct_conn.pdbx_dist_value'
20 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id'
21 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id'
22 5 'Structure model' '_struct_conn.ptnr1_label_asym_id'
23 5 'Structure model' '_struct_conn.ptnr1_label_atom_id'
24 5 'Structure model' '_struct_conn.ptnr1_label_comp_id'
25 5 'Structure model' '_struct_conn.ptnr1_label_seq_id'
26 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
27 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
28 5 'Structure model' '_struct_conn.ptnr2_label_asym_id'
29 5 'Structure model' '_struct_conn.ptnr2_label_atom_id'
30 5 'Structure model' '_struct_conn.ptnr2_label_comp_id'
31 5 'Structure model' '_struct_conn.ptnr2_label_seq_id'
32 5 'Structure model' '_struct_site.pdbx_auth_asym_id'
33 5 'Structure model' '_struct_site.pdbx_auth_comp_id'
34 5 'Structure model' '_struct_site.pdbx_auth_seq_id'
#
_pdbx_database_PDB_obs_spr.id SPRSDE
_pdbx_database_PDB_obs_spr.date 2017-03-08
_pdbx_database_PDB_obs_spr.pdb_id 4E8S
_pdbx_database_PDB_obs_spr.replace_pdb_id 4DX4
_pdbx_database_PDB_obs_spr.details ?
#
_pdbx_database_status.status_code REL
_pdbx_database_status.entry_id 4E8S
_pdbx_database_status.recvd_initial_deposition_date 2012-03-20
_pdbx_database_status.deposit_site RCSB
_pdbx_database_status.process_site RCSB
_pdbx_database_status.status_code_sf REL
_pdbx_database_status.status_code_mr ?
_pdbx_database_status.SG_entry ?
_pdbx_database_status.status_code_cs ?
_pdbx_database_status.methods_development_category ?
_pdbx_database_status.pdb_format_compatible Y
_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
PDB 4DX4 'Lower resolution model' unspecified
PDB 4E7Y . unspecified
PDB 4E87 . unspecified
PDB 4E8X . unspecified
PDB 4E95 . unspecified
#
loop_
_audit_author.name
_audit_author.pdbx_ordinal
'Hall, J.P.' 1
'Cardin, C.J.' 2
#
_citation.id primary
_citation.title
'The Structural Effect of Methyl Substitution on the Binding of Polypyridyl Ru dppz Complexes to DNA'
_citation.journal_abbrev Organometallics
_citation.journal_volume ?
_citation.page_first ?
_citation.page_last ?
_citation.year 2015
_citation.journal_id_ASTM ?
_citation.country US
_citation.journal_id_ISSN 0276-7333
_citation.journal_id_CSD ?
_citation.book_publisher ?
_citation.pdbx_database_id_PubMed ?
_citation.pdbx_database_id_DOI 10.1021/om501208x
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Hall, J.P.' 1 ?
primary 'Beer, H.' 2 ?
primary 'Buchner, K.' 3 ?
primary 'Cardin, D.J.' 4 ?
primary 'Cardin, C.J.' 5 ?
#
loop_
_entity.id
_entity.type
_entity.src_method
_entity.pdbx_description
_entity.formula_weight
_entity.pdbx_number_of_molecules
_entity.pdbx_ec
_entity.pdbx_mutation
_entity.pdbx_fragment
_entity.details
1 polymer syn "5'-D(*TP*CP*GP*GP*CP*GP*CP*CP*GP*A)-3'" 3045.992 1 ? ? ? ?
2 non-polymer syn 'BARIUM ION' 137.327 1 ? ? ? ?
3 non-polymer syn
"(11,12-dimethyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)"
775.785 1 ? ? ? ?
4 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ?
5 water nat water 18.015 101 ? ? ? ?
#
_entity_poly.entity_id 1
_entity_poly.type polydeoxyribonucleotide
_entity_poly.nstd_linkage no
_entity_poly.nstd_monomer no
_entity_poly.pdbx_seq_one_letter_code '(DT)(DC)(DG)(DG)(DC)(DG)(DC)(DC)(DG)(DA)'
_entity_poly.pdbx_seq_one_letter_code_can TCGGCGCCGA
_entity_poly.pdbx_strand_id A
_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
"(11,12-dimethyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)"
RML
4 'CHLORIDE ION' CL
5 water HOH
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 DT n
1 2 DC n
1 3 DG n
1 4 DG n
1 5 DC n
1 6 DG n
1 7 DC n
1 8 DC n
1 9 DG n
1 10 DA n
#
_pdbx_entity_src_syn.entity_id 1
_pdbx_entity_src_syn.pdbx_src_id 1
_pdbx_entity_src_syn.pdbx_alt_source_flag sample
_pdbx_entity_src_syn.pdbx_beg_seq_num ?
_pdbx_entity_src_syn.pdbx_end_seq_num ?
_pdbx_entity_src_syn.organism_scientific ?
_pdbx_entity_src_syn.organism_common_name ?
_pdbx_entity_src_syn.ncbi_taxonomy_id ?
_pdbx_entity_src_syn.details 'DNA Purchased from ATDBio'
#
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
BA non-polymer . 'BARIUM ION' ? 'Ba 2' 137.327
CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453
DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222
DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197
DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221
DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ?
'C10 H15 N2 O8 P' 322.208
HOH non-polymer . WATER ? 'H2 O'
18.015
RML non-polymer .
"(11,12-dimethyldipyrido[3,2-a:2',3'-c]phenazine-kappa~2~N~4~,N~5~)[bis(pyrazino[2,3-f]quinoxaline-kappa~2~N~1~,N~10~)]ruthenium(2+)"
'Lambda-[Ru(1,4,5,8-tetraazaphenanthrene)2(11,12-dimethyl-dipyridophenazine)]2+' 'C40 H26 N12 Ru 2' 775.785
#
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 DT 1 1 1 DT DT A . n
A 1 2 DC 2 2 2 DC DC A . n
A 1 3 DG 3 3 3 DG DG A . n
A 1 4 DG 4 4 4 DG DG A . n
A 1 5 DC 5 5 5 DC DC A . n
A 1 6 DG 6 6 6 DG DG A . n
A 1 7 DC 7 7 7 DC DC A . n
A 1 8 DC 8 8 8 DC DC A . n
A 1 9 DG 9 9 9 DG DG A . n
A 1 10 DA 10 10 10 DA DA A . 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
B 2 BA 1 101 1 BA BA A .
C 3 RML 1 102 1 RML RML A .
D 4 CL 1 103 1 CL CL A .
E 5 HOH 1 201 1 HOH HOH A .
E 5 HOH 2 202 2 HOH HOH A .
E 5 HOH 3 203 3 HOH HOH A .
E 5 HOH 4 204 4 HOH HOH A .
E 5 HOH 5 205 5 HOH HOH A .
E 5 HOH 6 206 6 HOH HOH A .
E 5 HOH 7 207 7 HOH HOH A .
E 5 HOH 8 208 8 HOH HOH A .
E 5 HOH 9 209 12 HOH HOH A .
E 5 HOH 10 210 13 HOH HOH A .
E 5 HOH 11 211 14 HOH HOH A .
E 5 HOH 12 212 15 HOH HOH A .
E 5 HOH 13 213 16 HOH HOH A .
E 5 HOH 14 214 17 HOH HOH A .
E 5 HOH 15 215 18 HOH HOH A .
E 5 HOH 16 216 19 HOH HOH A .
E 5 HOH 17 217 20 HOH HOH A .
E 5 HOH 18 218 21 HOH HOH A .
E 5 HOH 19 219 22 HOH HOH A .
E 5 HOH 20 220 23 HOH HOH A .
E 5 HOH 21 221 24 HOH HOH A .
E 5 HOH 22 222 25 HOH HOH A .
E 5 HOH 23 223 26 HOH HOH A .
E 5 HOH 24 224 27 HOH HOH A .
E 5 HOH 25 225 28 HOH HOH A .
E 5 HOH 26 226 29 HOH HOH A .
E 5 HOH 27 227 30 HOH HOH A .
E 5 HOH 28 228 31 HOH HOH A .
E 5 HOH 29 229 33 HOH HOH A .
E 5 HOH 30 230 34 HOH HOH A .
E 5 HOH 31 231 37 HOH HOH A .
E 5 HOH 32 232 38 HOH HOH A .
E 5 HOH 33 233 39 HOH HOH A .
E 5 HOH 34 234 41 HOH HOH A .
E 5 HOH 35 235 42 HOH HOH A .
E 5 HOH 36 236 43 HOH HOH A .
E 5 HOH 37 237 44 HOH HOH A .
E 5 HOH 38 238 45 HOH HOH A .
E 5 HOH 39 239 46 HOH HOH A .
E 5 HOH 40 240 48 HOH HOH A .
E 5 HOH 41 241 49 HOH HOH A .
E 5 HOH 42 242 50 HOH HOH A .
E 5 HOH 43 243 51 HOH HOH A .
E 5 HOH 44 244 52 HOH HOH A .
E 5 HOH 45 245 53 HOH HOH A .
E 5 HOH 46 246 54 HOH HOH A .
E 5 HOH 47 247 55 HOH HOH A .
E 5 HOH 48 248 56 HOH HOH A .
E 5 HOH 49 249 57 HOH HOH A .
E 5 HOH 50 250 58 HOH HOH A .
E 5 HOH 51 251 60 HOH HOH A .
E 5 HOH 52 252 61 HOH HOH A .
E 5 HOH 53 253 62 HOH HOH A .
E 5 HOH 54 254 64 HOH HOH A .
E 5 HOH 55 255 67 HOH HOH A .
E 5 HOH 56 256 68 HOH HOH A .
E 5 HOH 57 257 69 HOH HOH A .
E 5 HOH 58 258 71 HOH HOH A .
E 5 HOH 59 259 72 HOH HOH A .
E 5 HOH 60 260 73 HOH HOH A .
E 5 HOH 61 261 75 HOH HOH A .
E 5 HOH 62 262 77 HOH HOH A .
E 5 HOH 63 263 78 HOH HOH A .
E 5 HOH 64 264 79 HOH HOH A .
E 5 HOH 65 265 81 HOH HOH A .
E 5 HOH 66 266 82 HOH HOH A .
E 5 HOH 67 267 83 HOH HOH A .
E 5 HOH 68 268 85 HOH HOH A .
E 5 HOH 69 269 86 HOH HOH A .
E 5 HOH 70 270 89 HOH HOH A .
E 5 HOH 71 271 99 HOH HOH A .
E 5 HOH 72 272 112 HOH HOH A .
E 5 HOH 73 273 115 HOH HOH A .
E 5 HOH 74 274 116 HOH HOH A .
E 5 HOH 75 275 118 HOH HOH A .
E 5 HOH 76 276 119 HOH HOH A .
E 5 HOH 77 277 120 HOH HOH A .
E 5 HOH 78 278 121 HOH HOH A .
E 5 HOH 79 279 122 HOH HOH A .
E 5 HOH 80 280 123 HOH HOH A .
E 5 HOH 81 281 124 HOH HOH A .
E 5 HOH 82 282 125 HOH HOH A .
E 5 HOH 83 283 126 HOH HOH A .
E 5 HOH 84 284 127 HOH HOH A .
E 5 HOH 85 285 128 HOH HOH A .
E 5 HOH 86 286 129 HOH HOH A .
E 5 HOH 87 287 130 HOH HOH A .
E 5 HOH 88 288 131 HOH HOH A .
E 5 HOH 89 289 132 HOH HOH A .
E 5 HOH 90 290 133 HOH HOH A .
E 5 HOH 91 291 134 HOH HOH A .
E 5 HOH 92 292 135 HOH HOH A .
E 5 HOH 93 293 136 HOH HOH A .
E 5 HOH 94 294 137 HOH HOH A .
E 5 HOH 95 295 138 HOH HOH A .
E 5 HOH 96 296 139 HOH HOH A .
E 5 HOH 97 297 140 HOH HOH A .
E 5 HOH 98 298 141 HOH HOH A .
E 5 HOH 99 299 142 HOH HOH A .
E 5 HOH 100 300 143 HOH HOH A .
E 5 HOH 101 301 144 HOH HOH A .
#
loop_
_software.name
_software.classification
_software.version
_software.citation_id
_software.pdbx_ordinal
GDA 'data collection' . ? 1
SHELXCD phasing . ? 2
SHELXE 'model building' . ? 3
REFMAC refinement 5.6.0117 ? 4
XDS 'data reduction' . ? 5
SCALA 'data scaling' . ? 6
#
_cell.entry_id 4E8S
_cell.length_a 42.400
_cell.length_b 42.400
_cell.length_c 39.670
_cell.angle_alpha 90.00
_cell.angle_beta 90.00
_cell.angle_gamma 90.00
_cell.Z_PDB 8
_cell.pdbx_unique_axis ?
_cell.length_a_esd ?
_cell.length_b_esd ?
_cell.length_c_esd ?
_cell.angle_alpha_esd ?
_cell.angle_beta_esd ?
_cell.angle_gamma_esd ?
#
_symmetry.entry_id 4E8S
_symmetry.space_group_name_H-M 'P 43 21 2'
_symmetry.pdbx_full_space_group_name_H-M ?
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 96
_symmetry.space_group_name_Hall ?
#
_exptl.entry_id 4E8S
_exptl.method 'X-RAY DIFFRACTION'
_exptl.crystals_number 1
#
_exptl_crystal.id 1
_exptl_crystal.density_meas ?
_exptl_crystal.density_Matthews 2.93
_exptl_crystal.density_percent_sol 57.97
_exptl_crystal.description ?
_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 277
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.pH 6
_exptl_crystal_grow.pdbx_details
;1ul 2mM DNA, 1ul 2mM Lambda-[Ru(TAP)2(dppz-(Me2))]Cl2, 6ul 10% 2-methyl-2,4-pentanediol, 40mM sodium cacodylate, 12mM spermine tetra-HCl, 80mM potassium chloride, 20mM barium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 277K
;
_exptl_crystal_grow.pdbx_pH_range ?
#
_diffrn.id 1
_diffrn.ambient_temp 100
_diffrn.ambient_temp_details ?
_diffrn.crystal_id 1
#
_diffrn_detector.diffrn_id 1
_diffrn_detector.detector CCD
_diffrn_detector.type 'ADSC QUANTUM 315r'
_diffrn_detector.pdbx_collection_date 2012-03-13
_diffrn_detector.details ?
#
_diffrn_radiation.diffrn_id 1
_diffrn_radiation.wavelength_id 1
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
_diffrn_radiation.monochromator 'Dual Crystal Si(111)'
_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
_diffrn_radiation.pdbx_scattering_type x-ray
#
_diffrn_radiation_wavelength.id 1
_diffrn_radiation_wavelength.wavelength 0.9795
_diffrn_radiation_wavelength.wt 1.0
#
_diffrn_source.diffrn_id 1
_diffrn_source.source SYNCHROTRON
_diffrn_source.type 'DIAMOND BEAMLINE I02'
_diffrn_source.pdbx_synchrotron_site Diamond
_diffrn_source.pdbx_synchrotron_beamline I02
_diffrn_source.pdbx_wavelength ?
_diffrn_source.pdbx_wavelength_list 0.9795
#
_reflns.entry_id 4E8S
_reflns.observed_criterion_sigma_I ?
_reflns.observed_criterion_sigma_F ?
_reflns.d_resolution_low 42.40
_reflns.d_resolution_high 1.24
_reflns.number_obs 10743
_reflns.number_all 10753
_reflns.percent_possible_obs 99.9
_reflns.pdbx_Rmerge_I_obs ?
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_sigmaI ?
_reflns.B_iso_Wilson_estimate ?
_reflns.pdbx_redundancy ?
_reflns.R_free_details ?
_reflns.limit_h_max ?
_reflns.limit_h_min ?
_reflns.limit_k_max ?
_reflns.limit_k_min ?
_reflns.limit_l_max ?
_reflns.limit_l_min ?
_reflns.observed_criterion_F_max ?
_reflns.observed_criterion_F_min ?
_reflns.pdbx_chi_squared ?
_reflns.pdbx_scaling_rejects ?
_reflns.pdbx_ordinal 1
_reflns.pdbx_diffrn_id 1
#
_reflns_shell.d_res_high 1.24
_reflns_shell.d_res_low 1.27
_reflns_shell.percent_possible_all 100
_reflns_shell.Rmerge_I_obs ?
_reflns_shell.pdbx_Rsym_value ?
_reflns_shell.meanI_over_sigI_obs ?
_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_ordinal 1
_reflns_shell.pdbx_diffrn_id 1
#
_refine.entry_id 4E8S
_refine.ls_number_reflns_obs 10212
_refine.ls_number_reflns_all 10216
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F .
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.ls_d_res_low 29.98
_refine.ls_d_res_high 1.24
_refine.ls_percent_reflns_obs 99.96
_refine.ls_R_factor_obs 0.10444
_refine.ls_R_factor_all ?
_refine.ls_R_factor_R_work 0.10321
_refine.ls_R_factor_R_free 0.12850
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_percent_reflns_R_free 4.8
_refine.ls_number_reflns_R_free 511
_refine.ls_number_parameters ?
_refine.ls_number_restraints ?
_refine.occupancy_min ?
_refine.occupancy_max ?
_refine.correlation_coeff_Fo_to_Fc 0.984
_refine.correlation_coeff_Fo_to_Fc_free 0.977
_refine.B_iso_mean 17.917
_refine.aniso_B[1][1] 0.45
_refine.aniso_B[2][2] 0.45
_refine.aniso_B[3][3] -0.90
_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 'BABINET MODEL WITH MASK'
_refine.solvent_model_param_ksol ?
_refine.solvent_model_param_bsol ?
_refine.pdbx_solvent_vdw_probe_radii 1.20
_refine.pdbx_solvent_ion_probe_radii 0.80
_refine.pdbx_solvent_shrinkage_radii 0.80
_refine.pdbx_ls_cross_valid_method THROUGHOUT
_refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS'
_refine.pdbx_starting_model ?
_refine.pdbx_method_to_determine_struct SAD
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES'
_refine.pdbx_stereochem_target_val_spec_case ?
_refine.pdbx_R_Free_selection_details RANDOM
_refine.pdbx_overall_ESU_R 0.029
_refine.pdbx_overall_ESU_R_Free 0.030
_refine.overall_SU_ML 0.018
_refine.pdbx_overall_phase_error ?
_refine.overall_SU_B 0.871
_refine.overall_SU_R_Cruickshank_DPI ?
_refine.ls_redundancy_reflns_obs ?
_refine.B_iso_min ?
_refine.B_iso_max ?
_refine.overall_SU_R_free ?
_refine.ls_wR_factor_R_free ?
_refine.ls_wR_factor_R_work ?
_refine.overall_FOM_free_R_set ?
_refine.overall_FOM_work_R_set ?
_refine.pdbx_diffrn_id 1
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI ?
_refine.pdbx_overall_SU_R_Blow_DPI ?
_refine.pdbx_overall_SU_R_free_Blow_DPI ?
#
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.cycle_id LAST
_refine_hist.pdbx_number_atoms_protein 0
_refine_hist.pdbx_number_atoms_nucleic_acid 202
_refine_hist.pdbx_number_atoms_ligand 55
_refine_hist.number_atoms_solvent 101
_refine_hist.number_atoms_total 358
_refine_hist.d_res_high 1.24
_refine_hist.d_res_low 29.98
#
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_restraint_function
_refine_ls_restr.pdbx_refine_id
r_bond_refined_d 0.038 0.013 ? 292 ? 'X-RAY DIFFRACTION'
r_bond_other_d 0.003 0.020 ? 129 ? 'X-RAY DIFFRACTION'
r_angle_refined_deg 2.845 1.751 ? 460 ? 'X-RAY DIFFRACTION'
r_angle_other_deg 2.440 3.000 ? 298 ? 'X-RAY DIFFRACTION'
r_dihedral_angle_1_deg ? ? ? ? ? 'X-RAY DIFFRACTION'
r_dihedral_angle_2_deg ? ? ? ? ? 'X-RAY DIFFRACTION'
r_dihedral_angle_3_deg ? ? ? ? ? 'X-RAY DIFFRACTION'
r_dihedral_angle_4_deg ? ? ? ? ? 'X-RAY DIFFRACTION'
r_chiral_restr 0.120 0.200 ? 30 ? 'X-RAY DIFFRACTION'
r_gen_planes_refined 0.037 0.020 ? 178 ? 'X-RAY DIFFRACTION'
r_gen_planes_other 0.008 0.020 ? 76 ? 'X-RAY DIFFRACTION'
r_nbd_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_nbtor_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_nbtor_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_xyhbond_nbd_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_xyhbond_nbd_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_vdw_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_vdw_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_hbond_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_hbond_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_metal_ion_refined ? ? ? ? ? 'X-RAY DIFFRACTION'
r_symmetry_metal_ion_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_mcbond_it ? ? ? ? ? 'X-RAY DIFFRACTION'
r_mcbond_other ? ? ? ? ? 'X-RAY DIFFRACTION'
r_mcangle_it ? ? ? ? ? 'X-RAY DIFFRACTION'
r_scbond_it ? ? ? ? ? 'X-RAY DIFFRACTION'
r_scangle_it ? ? ? ? ? 'X-RAY DIFFRACTION'
r_rigid_bond_restr 9.462 3.000 ? 267 ? 'X-RAY DIFFRACTION'
r_sphericity_free 29.040 5.000 ? 4 ? 'X-RAY DIFFRACTION'
r_sphericity_bonded 18.469 5.000 ? 306 ? 'X-RAY DIFFRACTION'
#
_refine_ls_shell.pdbx_total_number_of_bins_used 20
_refine_ls_shell.d_res_high 1.240
_refine_ls_shell.d_res_low 1.272
_refine_ls_shell.number_reflns_R_work 629
_refine_ls_shell.R_factor_R_work 0.195
_refine_ls_shell.percent_reflns_obs 100.00
_refine_ls_shell.R_factor_R_free 0.249
_refine_ls_shell.R_factor_R_free_error ?
_refine_ls_shell.percent_reflns_R_free ?
_refine_ls_shell.number_reflns_R_free 31
_refine_ls_shell.number_reflns_all ?
_refine_ls_shell.R_factor_all ?
_refine_ls_shell.number_reflns_obs ?
_refine_ls_shell.redundancy_reflns_obs ?
_refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION'
#
_database_PDB_matrix.entry_id 4E8S
_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 4E8S
_struct.title 'Lambda-[Ru(TAP)2(dppz{Me2}2)]2+ bound to TCGGCGCCGA at high resolution'
_struct.pdbx_model_details ?
_struct.pdbx_CASP_flag ?
_struct.pdbx_model_type_details ?
#
_struct_keywords.entry_id 4E8S
_struct_keywords.pdbx_keywords DNA
_struct_keywords.text 'Intercalation, Photoreactive, DNA, Ruthenium complex'
#
loop_
_struct_asym.id
_struct_asym.pdbx_blank_PDB_chainid_flag
_struct_asym.pdbx_modified
_struct_asym.entity_id
_struct_asym.details
A N N 1 ?
B N N 2 ?
C N N 3 ?
D N N 4 ?
E N N 5 ?
#
_struct_ref.id 1
_struct_ref.db_name PDB
_struct_ref.db_code 4E8S
_struct_ref.pdbx_db_accession 4E8S
_struct_ref.entity_id 1
_struct_ref.pdbx_align_begin ?
_struct_ref.pdbx_seq_one_letter_code TCGGCGCCGA
_struct_ref.pdbx_db_isoform ?
#
_struct_ref_seq.align_id 1
_struct_ref_seq.ref_id 1
_struct_ref_seq.pdbx_PDB_id_code 4E8S
_struct_ref_seq.pdbx_strand_id A
_struct_ref_seq.seq_align_beg 1
_struct_ref_seq.pdbx_seq_align_beg_ins_code ?
_struct_ref_seq.seq_align_end 10
_struct_ref_seq.pdbx_seq_align_end_ins_code ?
_struct_ref_seq.pdbx_db_accession 4E8S
_struct_ref_seq.db_align_beg 1
_struct_ref_seq.pdbx_db_align_beg_ins_code ?
_struct_ref_seq.db_align_end 10
_struct_ref_seq.pdbx_db_align_end_ins_code ?
_struct_ref_seq.pdbx_auth_seq_align_beg 1
_struct_ref_seq.pdbx_auth_seq_align_end 10
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details author_and_software_defined_assembly
_pdbx_struct_assembly.method_details PISA
_pdbx_struct_assembly.oligomeric_details dimeric
_pdbx_struct_assembly.oligomeric_count 2
#
loop_
_pdbx_struct_assembly_prop.biol_id
_pdbx_struct_assembly_prop.type
_pdbx_struct_assembly_prop.value
_pdbx_struct_assembly_prop.details
1 'ABSA (A^2)' 760 ?
1 MORE -4 ?
1 'SSA (A^2)' 4260 ?
#
_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,E
#
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' 8_554 -y,-x,-z-1/2 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000
0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 -19.8350000000
#
_struct_biol.id 1
_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 DG 3 N7 ? ? ? 1_555 B BA . BA ? ? A DG 3 A BA 101 1_555 ? ? ? ? ? ? ? 2.975 ? ?
metalc2 metalc ? ? A DG 4 O6 ? ? ? 1_555 B BA . BA ? ? A DG 4 A BA 101 1_555 ? ? ? ? ? ? ? 2.862 ? ?
metalc3 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 201 1_555 ? ? ? ? ? ? ? 2.825 ? ?
metalc4 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 202 1_555 ? ? ? ? ? ? ? 2.855 ? ?
metalc5 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 203 1_555 ? ? ? ? ? ? ? 2.804 ? ?
metalc6 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 224 1_555 ? ? ? ? ? ? ? 2.825 ? ?
metalc7 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 231 1_555 ? ? ? ? ? ? ? 2.801 ? ?
metalc8 metalc ? ? B BA . BA ? ? ? 1_555 E HOH . O ? ? A BA 101 A HOH 236 1_555 ? ? ? ? ? ? ? 2.796 ? ?
hydrog1 hydrog ? ? A DC 2 N3 ? ? ? 1_555 A DG 9 N1 ? ? A DC 2 A DG 9 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog2 hydrog ? ? A DC 2 N4 ? ? ? 1_555 A DG 9 O6 ? ? A DC 2 A DG 9 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog3 hydrog ? ? A DC 2 O2 ? ? ? 1_555 A DG 9 N2 ? ? A DC 2 A DG 9 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog4 hydrog ? ? A DG 3 N1 ? ? ? 1_555 A DC 8 N3 ? ? A DG 3 A DC 8 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog5 hydrog ? ? A DG 3 N2 ? ? ? 1_555 A DC 8 O2 ? ? A DG 3 A DC 8 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog6 hydrog ? ? A DG 3 O6 ? ? ? 1_555 A DC 8 N4 ? ? A DG 3 A DC 8 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog7 hydrog ? ? A DG 4 N1 ? ? ? 1_555 A DC 7 N3 ? ? A DG 4 A DC 7 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog8 hydrog ? ? A DG 4 N2 ? ? ? 1_555 A DC 7 O2 ? ? A DG 4 A DC 7 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog9 hydrog ? ? A DG 4 O6 ? ? ? 1_555 A DC 7 N4 ? ? A DG 4 A DC 7 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog10 hydrog ? ? A DC 5 N3 ? ? ? 1_555 A DG 6 N1 ? ? A DC 5 A DG 6 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog11 hydrog ? ? A DC 5 N4 ? ? ? 1_555 A DG 6 O6 ? ? A DC 5 A DG 6 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog12 hydrog ? ? A DC 5 O2 ? ? ? 1_555 A DG 6 N2 ? ? A DC 5 A DG 6 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog13 hydrog ? ? A DG 6 N1 ? ? ? 1_555 A DC 5 N3 ? ? A DG 6 A DC 5 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog14 hydrog ? ? A DG 6 N2 ? ? ? 1_555 A DC 5 O2 ? ? A DG 6 A DC 5 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog15 hydrog ? ? A DG 6 O6 ? ? ? 1_555 A DC 5 N4 ? ? A DG 6 A DC 5 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog16 hydrog ? ? A DC 7 N3 ? ? ? 1_555 A DG 4 N1 ? ? A DC 7 A DG 4 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog17 hydrog ? ? A DC 7 N4 ? ? ? 1_555 A DG 4 O6 ? ? A DC 7 A DG 4 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog18 hydrog ? ? A DC 7 O2 ? ? ? 1_555 A DG 4 N2 ? ? A DC 7 A DG 4 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog19 hydrog ? ? A DC 8 N3 ? ? ? 1_555 A DG 3 N1 ? ? A DC 8 A DG 3 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog20 hydrog ? ? A DC 8 N4 ? ? ? 1_555 A DG 3 O6 ? ? A DC 8 A DG 3 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog21 hydrog ? ? A DC 8 O2 ? ? ? 1_555 A DG 3 N2 ? ? A DC 8 A DG 3 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog22 hydrog ? ? A DG 9 N1 ? ? ? 1_555 A DC 2 N3 ? ? A DG 9 A DC 2 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog23 hydrog ? ? A DG 9 N2 ? ? ? 1_555 A DC 2 O2 ? ? A DG 9 A DC 2 8_554 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog24 hydrog ? ? A DG 9 O6 ? ? ? 1_555 A DC 2 N4 ? ? A DG 9 A DC 2 8_554 ? ? ? ? ? ? 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 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O6 ? A DG 4 ? A DG 4 ? 1_555 73.7 ?
2 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 201 ? 1_555 73.6 ?
3 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 201 ? 1_555 137.8 ?
4 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 76.6 ?
5 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 128.2 ?
6 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 202 ? 1_555 67.4 ?
7 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 138.7 ?
8 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 123.6 ?
9 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 70.4 ?
10 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 203 ? 1_555 106.8 ?
11 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 224 ? 1_555 136.4 ?
12 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 224 ? 1_555 63.3 ?
13 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 224 ? 1_555 137.4 ?
14 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 224 ? 1_555 136.7 ?
15 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 224 ? 1_555 68.6 ?
16 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 134.4 ?
17 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 107.3 ?
18 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 114.6 ?
19 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 67.7 ?
20 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 80.1 ?
21 O ? E HOH . ? A HOH 224 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 231 ? 1_555 69.1 ?
22 N7 ? A DG 3 ? A DG 3 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 76.0 ?
23 O6 ? A DG 4 ? A DG 4 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 69.8 ?
24 O ? E HOH . ? A HOH 201 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 76.9 ?
25 O ? E HOH . ? A HOH 202 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 139.7 ?
26 O ? E HOH . ? A HOH 203 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 76.7 ?
27 O ? E HOH . ? A HOH 224 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 82.8 ?
28 O ? E HOH . ? A HOH 231 ? 1_555 BA ? B BA . ? A BA 101 ? 1_555 O ? E HOH . ? A HOH 236 ? 1_555 148.7 ?
#
loop_
_struct_site.id
_struct_site.pdbx_evidence_code
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_struct_site.pdbx_auth_ins_code
_struct_site.pdbx_num_residues
_struct_site.details
AC1 Software A BA 101 ? 8 'BINDING SITE FOR RESIDUE BA A 101'
AC2 Software A RML 102 ? 12 'BINDING SITE FOR RESIDUE RML A 102'
AC3 Software A CL 103 ? 5 'BINDING SITE FOR RESIDUE CL A 103'
#
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 8 DG A 3 ? DG A 3 . ? 1_555 ?
2 AC1 8 DG A 4 ? DG A 4 . ? 1_555 ?
3 AC1 8 HOH E . ? HOH A 201 . ? 1_555 ?
4 AC1 8 HOH E . ? HOH A 202 . ? 1_555 ?
5 AC1 8 HOH E . ? HOH A 203 . ? 1_555 ?
6 AC1 8 HOH E . ? HOH A 224 . ? 1_555 ?
7 AC1 8 HOH E . ? HOH A 231 . ? 1_555 ?
8 AC1 8 HOH E . ? HOH A 236 . ? 1_555 ?
9 AC2 12 DT A 1 ? DT A 1 . ? 1_555 ?
10 AC2 12 DC A 2 ? DC A 2 . ? 1_555 ?
11 AC2 12 DG A 3 ? DG A 3 . ? 1_555 ?
12 AC2 12 DG A 3 ? DG A 3 . ? 4_455 ?
13 AC2 12 DG A 4 ? DG A 4 . ? 4_455 ?
14 AC2 12 DC A 5 ? DC A 5 . ? 4_455 ?
15 AC2 12 DC A 7 ? DC A 7 . ? 5_454 ?
16 AC2 12 DC A 8 ? DC A 8 . ? 5_454 ?
17 AC2 12 DG A 9 ? DG A 9 . ? 8_554 ?
18 AC2 12 DA A 10 ? DA A 10 . ? 5_454 ?
19 AC2 12 CL D . ? CL A 103 . ? 4_455 ?
20 AC2 12 HOH E . ? HOH A 261 . ? 1_555 ?
21 AC3 5 DG A 3 ? DG A 3 . ? 1_555 ?
22 AC3 5 DC A 8 ? DC A 8 . ? 8_554 ?
23 AC3 5 DA A 10 ? DA A 10 . ? 8_554 ?
24 AC3 5 RML C . ? RML A 102 . ? 3_554 ?
25 AC3 5 HOH E . ? HOH A 273 . ? 8_554 ?
#
loop_
_pdbx_validate_close_contact.id
_pdbx_validate_close_contact.PDB_model_num
_pdbx_validate_close_contact.auth_atom_id_1
_pdbx_validate_close_contact.auth_asym_id_1
_pdbx_validate_close_contact.auth_comp_id_1
_pdbx_validate_close_contact.auth_seq_id_1
_pdbx_validate_close_contact.PDB_ins_code_1
_pdbx_validate_close_contact.label_alt_id_1
_pdbx_validate_close_contact.auth_atom_id_2
_pdbx_validate_close_contact.auth_asym_id_2
_pdbx_validate_close_contact.auth_comp_id_2
_pdbx_validate_close_contact.auth_seq_id_2
_pdbx_validate_close_contact.PDB_ins_code_2
_pdbx_validate_close_contact.label_alt_id_2
_pdbx_validate_close_contact.dist
1 1 O A HOH 221 ? ? O A HOH 266 ? ? 1.65
2 1 O A HOH 254 ? ? O A HOH 271 ? ? 2.14
#
_pdbx_validate_planes.id 1
_pdbx_validate_planes.PDB_model_num 1
_pdbx_validate_planes.auth_comp_id DC
_pdbx_validate_planes.auth_asym_id A
_pdbx_validate_planes.auth_seq_id 5
_pdbx_validate_planes.PDB_ins_code ?
_pdbx_validate_planes.label_alt_id ?
_pdbx_validate_planes.rmsd 0.092
_pdbx_validate_planes.type 'SIDE CHAIN'
#
_pdbx_struct_special_symmetry.id 1
_pdbx_struct_special_symmetry.PDB_model_num 1
_pdbx_struct_special_symmetry.auth_asym_id A
_pdbx_struct_special_symmetry.auth_comp_id HOH
_pdbx_struct_special_symmetry.auth_seq_id 282
_pdbx_struct_special_symmetry.PDB_ins_code ?
_pdbx_struct_special_symmetry.label_asym_id E
_pdbx_struct_special_symmetry.label_comp_id HOH
_pdbx_struct_special_symmetry.label_seq_id .
#
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
BA BA BA N N 1
CL CL CL N N 2
DA OP3 O N N 3
DA P P N N 4
DA OP1 O N N 5
DA OP2 O N N 6
DA "O5'" O N N 7
DA "C5'" C N N 8
DA "C4'" C N R 9
DA "O4'" O N N 10
DA "C3'" C N S 11
DA "O3'" O N N 12
DA "C2'" C N N 13
DA "C1'" C N R 14
DA N9 N Y N 15
DA C8 C Y N 16
DA N7 N Y N 17
DA C5 C Y N 18
DA C6 C Y N 19
DA N6 N N N 20
DA N1 N Y N 21
DA C2 C Y N 22
DA N3 N Y N 23
DA C4 C Y N 24
DA HOP3 H N N 25
DA HOP2 H N N 26
DA "H5'" H N N 27
DA "H5''" H N N 28
DA "H4'" H N N 29
DA "H3'" H N N 30
DA "HO3'" H N N 31
DA "H2'" H N N 32
DA "H2''" H N N 33
DA "H1'" H N N 34
DA H8 H N N 35
DA H61 H N N 36
DA H62 H N N 37
DA H2 H N N 38
DC OP3 O N N 39
DC P P N N 40
DC OP1 O N N 41
DC OP2 O N N 42
DC "O5'" O N N 43
DC "C5'" C N N 44
DC "C4'" C N R 45
DC "O4'" O N N 46
DC "C3'" C N S 47
DC "O3'" O N N 48
DC "C2'" C N N 49
DC "C1'" C N R 50
DC N1 N N N 51
DC C2 C N N 52
DC O2 O N N 53
DC N3 N N N 54
DC C4 C N N 55
DC N4 N N N 56
DC C5 C N N 57
DC C6 C N N 58
DC HOP3 H N N 59
DC HOP2 H N N 60
DC "H5'" H N N 61
DC "H5''" H N N 62
DC "H4'" H N N 63
DC "H3'" H N N 64
DC "HO3'" H N N 65
DC "H2'" H N N 66
DC "H2''" H N N 67
DC "H1'" H N N 68
DC H41 H N N 69
DC H42 H N N 70
DC H5 H N N 71
DC H6 H N N 72
DG OP3 O N N 73
DG P P N N 74
DG OP1 O N N 75
DG OP2 O N N 76
DG "O5'" O N N 77
DG "C5'" C N N 78
DG "C4'" C N R 79
DG "O4'" O N N 80
DG "C3'" C N S 81
DG "O3'" O N N 82
DG "C2'" C N N 83
DG "C1'" C N R 84
DG N9 N Y N 85
DG C8 C Y N 86
DG N7 N Y N 87
DG C5 C Y N 88
DG C6 C N N 89
DG O6 O N N 90
DG N1 N N N 91
DG C2 C N N 92
DG N2 N N N 93
DG N3 N N N 94
DG C4 C Y N 95
DG HOP3 H N N 96
DG HOP2 H N N 97
DG "H5'" H N N 98
DG "H5''" H N N 99
DG "H4'" H N N 100
DG "H3'" H N N 101
DG "HO3'" H N N 102
DG "H2'" H N N 103
DG "H2''" H N N 104
DG "H1'" H N N 105
DG H8 H N N 106
DG H1 H N N 107
DG H21 H N N 108
DG H22 H N N 109
DT OP3 O N N 110
DT P P N N 111
DT OP1 O N N 112
DT OP2 O N N 113
DT "O5'" O N N 114
DT "C5'" C N N 115
DT "C4'" C N R 116
DT "O4'" O N N 117
DT "C3'" C N S 118
DT "O3'" O N N 119
DT "C2'" C N N 120
DT "C1'" C N R 121
DT N1 N N N 122
DT C2 C N N 123
DT O2 O N N 124
DT N3 N N N 125
DT C4 C N N 126
DT O4 O N N 127
DT C5 C N N 128
DT C7 C N N 129
DT C6 C N N 130
DT HOP3 H N N 131
DT HOP2 H N N 132
DT "H5'" H N N 133
DT "H5''" H N N 134
DT "H4'" H N N 135
DT "H3'" H N N 136
DT "HO3'" H N N 137
DT "H2'" H N N 138
DT "H2''" H N N 139
DT "H1'" H N N 140
DT H3 H N N 141
DT H71 H N N 142
DT H72 H N N 143
DT H73 H N N 144
DT H6 H N N 145
HOH O O N N 146
HOH H1 H N N 147
HOH H2 H N N 148
RML C53 C N N 149
RML C17 C Y N 150
RML C18 C Y N 151
RML C52 C N N 152
RML C14 C Y N 153
RML C16 C Y N 154
RML C15 C Y N 155
RML N3 N Y N 156
RML C13 C Y N 157
RML N4 N Y N 158
RML C7 C Y N 159
RML C6 C Y N 160
RML C5 C Y N 161
RML C4 C Y N 162
RML C3 C Y N 163
RML C2 C Y N 164
RML C8 C Y N 165
RML C10 C Y N 166
RML C1 C Y N 167
RML N2 N Y N 168
RML N1 N Y N 169
RML C12 C Y N 170
RML C11 C Y N 171
RML C9 C Y N 172
RML RU RU N N 173
RML N8 N Y N 174
RML C28 C Y N 175
RML C27 C Y N 176
RML N7 N Y N 177
RML C26 C Y N 178
RML C25 C Y N 179
RML C24 C Y N 180
RML C23 C Y N 181
RML C22 C Y N 182
RML N6 N Y N 183
RML C19 C Y N 184
RML N5 N Y N 185
RML C20 C Y N 186
RML C21 C Y N 187
RML N12 N Y N 188
RML C38 C Y N 189
RML C37 C Y N 190
RML N11 N Y N 191
RML C36 C Y N 192
RML C29 C Y N 193
RML N9 N Y N 194
RML C30 C Y N 195
RML C31 C Y N 196
RML C35 C Y N 197
RML C34 C Y N 198
RML C33 C Y N 199
RML C32 C Y N 200
RML N10 N Y N 201
RML H1 H N N 202
RML H2 H N N 203
RML H3 H N N 204
RML H4 H N N 205
RML H5 H N N 206
RML H6 H N N 207
RML H7 H N N 208
RML H8 H N N 209
RML H9 H N N 210
RML H10 H N N 211
RML H11 H N N 212
RML H12 H N N 213
RML H13 H N N 214
RML H14 H N N 215
RML H15 H N N 216
RML H16 H N N 217
RML H17 H N N 218
RML H18 H N N 219
RML H19 H N N 220
RML H20 H N N 221
RML H21 H N N 222
RML H22 H N N 223
RML H23 H N N 224
RML H24 H N N 225
RML H25 H N N 226
RML H26 H N N 227
#
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
DA OP3 P sing N N 1
DA OP3 HOP3 sing N N 2
DA P OP1 doub N N 3
DA P OP2 sing N N 4
DA P "O5'" sing N N 5
DA OP2 HOP2 sing N N 6
DA "O5'" "C5'" sing N N 7
DA "C5'" "C4'" sing N N 8
DA "C5'" "H5'" sing N N 9
DA "C5'" "H5''" sing N N 10
DA "C4'" "O4'" sing N N 11
DA "C4'" "C3'" sing N N 12
DA "C4'" "H4'" sing N N 13
DA "O4'" "C1'" sing N N 14
DA "C3'" "O3'" sing N N 15
DA "C3'" "C2'" sing N N 16
DA "C3'" "H3'" sing N N 17
DA "O3'" "HO3'" sing N N 18
DA "C2'" "C1'" sing N N 19
DA "C2'" "H2'" sing N N 20
DA "C2'" "H2''" sing N N 21
DA "C1'" N9 sing N N 22
DA "C1'" "H1'" sing N N 23
DA N9 C8 sing Y N 24
DA N9 C4 sing Y N 25
DA C8 N7 doub Y N 26
DA C8 H8 sing N N 27
DA N7 C5 sing Y N 28
DA C5 C6 sing Y N 29
DA C5 C4 doub Y N 30
DA C6 N6 sing N N 31
DA C6 N1 doub Y N 32
DA N6 H61 sing N N 33
DA N6 H62 sing N N 34
DA N1 C2 sing Y N 35
DA C2 N3 doub Y N 36
DA C2 H2 sing N N 37
DA N3 C4 sing Y N 38
DC OP3 P sing N N 39
DC OP3 HOP3 sing N N 40
DC P OP1 doub N N 41
DC P OP2 sing N N 42
DC P "O5'" sing N N 43
DC OP2 HOP2 sing N N 44
DC "O5'" "C5'" sing N N 45
DC "C5'" "C4'" sing N N 46
DC "C5'" "H5'" sing N N 47
DC "C5'" "H5''" sing N N 48
DC "C4'" "O4'" sing N N 49
DC "C4'" "C3'" sing N N 50
DC "C4'" "H4'" sing N N 51
DC "O4'" "C1'" sing N N 52
DC "C3'" "O3'" sing N N 53
DC "C3'" "C2'" sing N N 54
DC "C3'" "H3'" sing N N 55
DC "O3'" "HO3'" sing N N 56
DC "C2'" "C1'" sing N N 57
DC "C2'" "H2'" sing N N 58
DC "C2'" "H2''" sing N N 59
DC "C1'" N1 sing N N 60
DC "C1'" "H1'" sing N N 61
DC N1 C2 sing N N 62
DC N1 C6 sing N N 63
DC C2 O2 doub N N 64
DC C2 N3 sing N N 65
DC N3 C4 doub N N 66
DC C4 N4 sing N N 67
DC C4 C5 sing N N 68
DC N4 H41 sing N N 69
DC N4 H42 sing N N 70
DC C5 C6 doub N N 71
DC C5 H5 sing N N 72
DC C6 H6 sing N N 73
DG OP3 P sing N N 74
DG OP3 HOP3 sing N N 75
DG P OP1 doub N N 76
DG P OP2 sing N N 77
DG P "O5'" sing N N 78
DG OP2 HOP2 sing N N 79
DG "O5'" "C5'" sing N N 80
DG "C5'" "C4'" sing N N 81
DG "C5'" "H5'" sing N N 82
DG "C5'" "H5''" sing N N 83
DG "C4'" "O4'" sing N N 84
DG "C4'" "C3'" sing N N 85
DG "C4'" "H4'" sing N N 86
DG "O4'" "C1'" sing N N 87
DG "C3'" "O3'" sing N N 88
DG "C3'" "C2'" sing N N 89
DG "C3'" "H3'" sing N N 90
DG "O3'" "HO3'" sing N N 91
DG "C2'" "C1'" sing N N 92
DG "C2'" "H2'" sing N N 93
DG "C2'" "H2''" sing N N 94
DG "C1'" N9 sing N N 95
DG "C1'" "H1'" sing N N 96
DG N9 C8 sing Y N 97
DG N9 C4 sing Y N 98
DG C8 N7 doub Y N 99
DG C8 H8 sing N N 100
DG N7 C5 sing Y N 101
DG C5 C6 sing N N 102
DG C5 C4 doub Y N 103
DG C6 O6 doub N N 104
DG C6 N1 sing N N 105
DG N1 C2 sing N N 106
DG N1 H1 sing N N 107
DG C2 N2 sing N N 108
DG C2 N3 doub N N 109
DG N2 H21 sing N N 110
DG N2 H22 sing N N 111
DG N3 C4 sing N N 112
DT OP3 P sing N N 113
DT OP3 HOP3 sing N N 114
DT P OP1 doub N N 115
DT P OP2 sing N N 116
DT P "O5'" sing N N 117
DT OP2 HOP2 sing N N 118
DT "O5'" "C5'" sing N N 119
DT "C5'" "C4'" sing N N 120
DT "C5'" "H5'" sing N N 121
DT "C5'" "H5''" sing N N 122
DT "C4'" "O4'" sing N N 123
DT "C4'" "C3'" sing N N 124
DT "C4'" "H4'" sing N N 125
DT "O4'" "C1'" sing N N 126
DT "C3'" "O3'" sing N N 127
DT "C3'" "C2'" sing N N 128
DT "C3'" "H3'" sing N N 129
DT "O3'" "HO3'" sing N N 130
DT "C2'" "C1'" sing N N 131
DT "C2'" "H2'" sing N N 132
DT "C2'" "H2''" sing N N 133
DT "C1'" N1 sing N N 134
DT "C1'" "H1'" sing N N 135
DT N1 C2 sing N N 136
DT N1 C6 sing N N 137
DT C2 O2 doub N N 138
DT C2 N3 sing N N 139
DT N3 C4 sing N N 140
DT N3 H3 sing N N 141
DT C4 O4 doub N N 142
DT C4 C5 sing N N 143
DT C5 C7 sing N N 144
DT C5 C6 doub N N 145
DT C7 H71 sing N N 146
DT C7 H72 sing N N 147
DT C7 H73 sing N N 148
DT C6 H6 sing N N 149
HOH O H1 sing N N 150
HOH O H2 sing N N 151
RML C23 C24 doub Y N 152
RML C23 C22 sing Y N 153
RML C24 C25 sing Y N 154
RML N6 C22 doub Y N 155
RML N6 C21 sing Y N 156
RML C22 C19 sing Y N 157
RML C25 N7 doub Y N 158
RML C25 C26 sing Y N 159
RML N7 C27 sing Y N 160
RML C21 C20 doub Y N 161
RML C19 C26 sing Y N 162
RML C19 N5 doub Y N 163
RML C26 N8 doub Y N 164
RML C27 C28 doub Y N 165
RML C20 N5 sing Y N 166
RML N5 RU sing N N 167
RML N8 C28 sing Y N 168
RML N8 RU sing N N 169
RML C38 C37 doub Y N 170
RML C38 N12 sing Y N 171
RML C37 N11 sing Y N 172
RML C12 N1 doub Y N 173
RML C12 C11 sing Y N 174
RML N12 RU sing N N 175
RML N12 C36 doub Y N 176
RML RU N1 sing N N 177
RML RU N2 sing N N 178
RML RU N9 sing N N 179
RML N1 C10 sing Y N 180
RML C11 C9 doub Y N 181
RML N11 C35 doub Y N 182
RML C36 C35 sing Y N 183
RML C36 C29 sing Y N 184
RML C9 C8 sing Y N 185
RML C10 C8 doub Y N 186
RML C10 C1 sing Y N 187
RML C35 C34 sing Y N 188
RML N2 C2 doub Y N 189
RML N2 C1 sing Y N 190
RML C2 C3 sing Y N 191
RML C8 C7 sing Y N 192
RML C1 C5 doub Y N 193
RML N9 C29 doub Y N 194
RML N9 C30 sing Y N 195
RML C29 C32 sing Y N 196
RML C34 C33 doub Y N 197
RML C3 C4 doub Y N 198
RML C7 N4 doub Y N 199
RML C7 C6 sing Y N 200
RML C30 C31 doub Y N 201
RML C5 C4 sing Y N 202
RML C5 C6 sing Y N 203
RML N4 C13 sing Y N 204
RML C6 N3 doub Y N 205
RML C32 C33 sing Y N 206
RML C32 N10 doub Y N 207
RML C31 N10 sing Y N 208
RML C13 C14 doub Y N 209
RML C13 C15 sing Y N 210
RML N3 C15 sing Y N 211
RML C14 C18 sing Y N 212
RML C15 C16 doub Y N 213
RML C18 C52 sing N N 214
RML C18 C17 doub Y N 215
RML C16 C17 sing Y N 216
RML C17 C53 sing N N 217
RML C53 H1 sing N N 218
RML C53 H2 sing N N 219
RML C53 H3 sing N N 220
RML C52 H4 sing N N 221
RML C52 H5 sing N N 222
RML C52 H6 sing N N 223
RML C14 H7 sing N N 224
RML C16 H8 sing N N 225
RML C4 H9 sing N N 226
RML C3 H10 sing N N 227
RML C2 H11 sing N N 228
RML C12 H12 sing N N 229
RML C11 H13 sing N N 230
RML C9 H14 sing N N 231
RML C28 H15 sing N N 232
RML C27 H16 sing N N 233
RML C24 H17 sing N N 234
RML C23 H18 sing N N 235
RML C20 H19 sing N N 236
RML C21 H20 sing N N 237
RML C38 H21 sing N N 238
RML C37 H22 sing N N 239
RML C30 H23 sing N N 240
RML C31 H24 sing N N 241
RML C34 H25 sing N N 242
RML C33 H26 sing N N 243
#
_ndb_struct_conf_na.entry_id 4E8S
_ndb_struct_conf_na.feature 'b-form double helix'
#
loop_
_ndb_struct_na_base_pair.model_number
_ndb_struct_na_base_pair.i_label_asym_id
_ndb_struct_na_base_pair.i_label_comp_id
_ndb_struct_na_base_pair.i_label_seq_id
_ndb_struct_na_base_pair.i_symmetry
_ndb_struct_na_base_pair.j_label_asym_id
_ndb_struct_na_base_pair.j_label_comp_id
_ndb_struct_na_base_pair.j_label_seq_id
_ndb_struct_na_base_pair.j_symmetry
_ndb_struct_na_base_pair.shear
_ndb_struct_na_base_pair.stretch
_ndb_struct_na_base_pair.stagger
_ndb_struct_na_base_pair.buckle
_ndb_struct_na_base_pair.propeller
_ndb_struct_na_base_pair.opening
_ndb_struct_na_base_pair.pair_number
_ndb_struct_na_base_pair.pair_name
_ndb_struct_na_base_pair.i_auth_asym_id
_ndb_struct_na_base_pair.i_auth_seq_id
_ndb_struct_na_base_pair.i_PDB_ins_code
_ndb_struct_na_base_pair.j_auth_asym_id
_ndb_struct_na_base_pair.j_auth_seq_id
_ndb_struct_na_base_pair.j_PDB_ins_code
_ndb_struct_na_base_pair.hbond_type_28
_ndb_struct_na_base_pair.hbond_type_12
1 A DC 2 1_555 A DG 9 8_554 0.140 -0.068 0.259 -10.550 8.275 1.258 1 A_DC2:DG9_A A 2 ? A 9 ? 19 1
1 A DG 3 1_555 A DC 8 8_554 -0.204 -0.056 0.197 24.066 -4.806 -0.820 2 A_DG3:DC8_A A 3 ? A 8 ? 19 1
1 A DG 4 1_555 A DC 7 8_554 -0.148 -0.152 -0.078 -9.883 1.873 -1.117 3 A_DG4:DC7_A A 4 ? A 7 ? 19 1
1 A DC 5 1_555 A DG 6 8_554 0.209 -0.106 0.288 -4.814 -5.646 -0.533 4 A_DC5:DG6_A A 5 ? A 6 ? 19 1
1 A DG 6 1_555 A DC 5 8_554 -0.209 -0.106 0.288 4.814 -5.646 -0.533 5 A_DG6:DC5_A A 6 ? A 5 ? 19 1
1 A DC 7 1_555 A DG 4 8_554 0.148 -0.152 -0.078 9.883 1.873 -1.117 6 A_DC7:DG4_A A 7 ? A 4 ? 19 1
1 A DC 8 1_555 A DG 3 8_554 0.204 -0.056 0.197 -24.066 -4.806 -0.820 7 A_DC8:DG3_A A 8 ? A 3 ? 19 1
1 A DG 9 1_555 A DC 2 8_554 -0.140 -0.068 0.259 10.550 8.275 1.258 8 A_DG9:DC2_A A 9 ? A 2 ? 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 DC 2 1_555 A DG 9 8_554 A DG 3 1_555 A DC 8 8_554 -0.504 1.706 2.621 2.258 3.888 19.320 3.398 2.368 2.828 11.387 -6.613
19.831 1 AA_DC2DG3:DC8DG9_AA A 2 ? A 9 ? A 3 ? A 8 ?
1 A DG 3 1_555 A DC 8 8_554 A DG 4 1_555 A DC 7 8_554 -0.113 0.821 5.253 -2.286 51.339 15.634 -5.279 -0.151 2.372 74.143 3.302
53.561 2 AA_DG3DG4:DC7DC8_AA A 3 ? A 8 ? A 4 ? A 7 ?
1 A DG 4 1_555 A DC 7 8_554 A DC 5 1_555 A DG 6 8_554 -0.916 0.134 3.235 -3.634 -2.635 38.170 0.533 0.939 3.289 -4.013 5.533
38.423 3 AA_DG4DC5:DG6DC7_AA A 4 ? A 7 ? A 5 ? A 6 ?
1 A DC 5 1_555 A DG 6 8_554 A DG 6 1_555 A DC 5 8_554 0.000 0.726 3.296 0.000 21.067 28.288 -2.232 0.000 3.095 37.269 0.000
35.142 4 AA_DC5DG6:DC5DG6_AA A 5 ? A 6 ? A 6 ? A 5 ?
1 A DG 6 1_555 A DC 5 8_554 A DC 7 1_555 A DG 4 8_554 0.916 0.134 3.235 3.634 -2.635 38.170 0.533 -0.939 3.289 -4.013 -5.533
38.423 5 AA_DG6DC7:DG4DC5_AA A 6 ? A 5 ? A 7 ? A 4 ?
1 A DC 7 1_555 A DG 4 8_554 A DC 8 1_555 A DG 3 8_554 0.113 0.821 5.253 2.286 51.339 15.634 -5.279 0.151 2.372 74.143 -3.302
53.561 6 AA_DC7DC8:DG3DG4_AA A 7 ? A 4 ? A 8 ? A 3 ?
1 A DC 8 1_555 A DG 3 8_554 A DG 9 1_555 A DC 2 8_554 0.504 1.706 2.621 -2.258 3.888 19.320 3.398 -2.368 2.828 11.387 6.613
19.831 7 AA_DC8DG9:DC2DG3_AA A 8 ? A 3 ? A 9 ? A 2 ?
#
_atom_sites.entry_id 4E8S
_atom_sites.fract_transf_matrix[1][1] 0.023585
_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] 0.023585
_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] 0.025208
_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
CL
N
O
P
RU
#
loop_