data_5XJW
#
_entry.id 5XJW
#
_audit_conform.dict_name mmcif_pdbx.dic
_audit_conform.dict_version 5.380
_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 5XJW pdb_00005xjw 10.2210/pdb5xjw/pdb
WWPDB D_1300003664 ? ?
#
_pdbx_database_PDB_obs_spr.id SPRSDE
_pdbx_database_PDB_obs_spr.date 2018-05-16
_pdbx_database_PDB_obs_spr.pdb_id 5XJW
_pdbx_database_PDB_obs_spr.replace_pdb_id 5ES0
_pdbx_database_PDB_obs_spr.details ?
#
_pdbx_database_related.db_name PDB
_pdbx_database_related.details .
_pdbx_database_related.db_id 5XEW
_pdbx_database_related.content_type unspecified
#
_pdbx_database_status.status_code REL
_pdbx_database_status.status_code_sf REL
_pdbx_database_status.status_code_mr ?
_pdbx_database_status.entry_id 5XJW
_pdbx_database_status.recvd_initial_deposition_date 2017-05-04
_pdbx_database_status.SG_entry N
_pdbx_database_status.deposit_site PDBJ
_pdbx_database_status.process_site PDBJ
_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_
_audit_author.name
_audit_author.pdbx_ordinal
_audit_author.identifier_ORCID
'Tseng, W.H.' 1 ?
'Wu, P.C.' 2 ?
'Satange, R.B.' 3 ?
'Hou, M.H.' 4 ?
#
_citation.abstract ?
_citation.abstract_id_CAS ?
_citation.book_id_ISBN ?
_citation.book_publisher ?
_citation.book_publisher_city ?
_citation.book_title ?
_citation.coordinate_linkage ?
_citation.country ?
_citation.database_id_Medline ?
_citation.details ?
_citation.id primary
_citation.journal_abbrev 'To be published'
_citation.journal_id_ASTM ?
_citation.journal_id_CSD 0353
_citation.journal_id_ISSN ?
_citation.journal_full ?
_citation.journal_issue ?
_citation.journal_volume ?
_citation.language ?
_citation.page_first ?
_citation.page_last ?
_citation.title 'Crystal Structure of the [Co2+-(Chromomycin A3)2]-CCG repeats Complex'
_citation.year ?
_citation.database_id_CSD ?
_citation.pdbx_database_id_DOI ?
_citation.pdbx_database_id_PubMed ?
_citation.unpublished_flag ?
#
loop_
_citation_author.citation_id
_citation_author.name
_citation_author.ordinal
_citation_author.identifier_ORCID
primary 'Tseng, W.H.' 1 ?
primary 'Wu, P.C.' 2 ?
primary 'Satange, R.B.' 3 ?
primary 'Hou, M.H.' 4 ?
#
_cell.angle_alpha 90.000
_cell.angle_alpha_esd ?
_cell.angle_beta 90.000
_cell.angle_beta_esd ?
_cell.angle_gamma 120.000
_cell.angle_gamma_esd ?
_cell.entry_id 5XJW
_cell.details ?
_cell.formula_units_Z ?
_cell.length_a 48.309
_cell.length_a_esd ?
_cell.length_b 48.309
_cell.length_b_esd ?
_cell.length_c 83.636
_cell.length_c_esd ?
_cell.volume ?
_cell.volume_esd ?
_cell.Z_PDB 12
_cell.reciprocal_angle_alpha ?
_cell.reciprocal_angle_beta ?
_cell.reciprocal_angle_gamma ?
_cell.reciprocal_angle_alpha_esd ?
_cell.reciprocal_angle_beta_esd ?
_cell.reciprocal_angle_gamma_esd ?
_cell.reciprocal_length_a ?
_cell.reciprocal_length_b ?
_cell.reciprocal_length_c ?
_cell.reciprocal_length_a_esd ?
_cell.reciprocal_length_b_esd ?
_cell.reciprocal_length_c_esd ?
_cell.pdbx_unique_axis ?
#
_symmetry.entry_id 5XJW
_symmetry.cell_setting ?
_symmetry.Int_Tables_number 153
_symmetry.space_group_name_Hall ?
_symmetry.space_group_name_H-M 'P 32 1 2'
_symmetry.pdbx_full_space_group_name_H-M ?
#
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
;DNA (5'-D(*TP*TP*CP*GP*CP*CP*GP*CP*CP*GP*AP*A)-3')
;
3912.550 2 ? ? ? ?
2 branched man '3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose-(1-3)-beta-D-Olivopyranose-(1-3)-beta-D-Olivopyranose' 464.504 2
? ? ? ?
3 branched man '2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose-(1-3)-4-O-acetyl-2,6-dideoxy-beta-D-galactopyranose' 334.363 2
? ? ? ?
4 non-polymer syn
'(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' 420.410
2 ? ? ? ?
5 non-polymer syn 'COBALT (II) ION' 58.933 3 ? ? ? ?
6 water nat water 18.015 50 ? ? ? ?
#
_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)(DT)(DC)(DC)(DG)(DC)(DC)(DG)(DC)(DC)(DG)(DA)(DA)'
_entity_poly.pdbx_seq_one_letter_code_can TTCCGCCGCCGAA
_entity_poly.pdbx_strand_id A,B
_entity_poly.pdbx_target_identifier ?
#
loop_
_entity_poly_seq.entity_id
_entity_poly_seq.num
_entity_poly_seq.mon_id
_entity_poly_seq.hetero
1 1 DT n
1 2 DT n
1 3 DC n
1 4 DC n
1 5 DG n
1 6 DC n
1 7 DC n
1 8 DG n
1 9 DC n
1 10 DC n
1 11 DG n
1 12 DA n
1 13 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 1
_pdbx_entity_src_syn.pdbx_end_seq_num 13
_pdbx_entity_src_syn.organism_scientific 'synthetic construct'
_pdbx_entity_src_syn.organism_common_name ?
_pdbx_entity_src_syn.ncbi_taxonomy_id 32630
_pdbx_entity_src_syn.details ?
#
_struct_ref.id 1
_struct_ref.db_name PDB
_struct_ref.db_code 5XJW
_struct_ref.pdbx_db_accession 5XJW
_struct_ref.pdbx_db_isoform ?
_struct_ref.entity_id 1
_struct_ref.pdbx_seq_one_letter_code ?
_struct_ref.pdbx_align_begin 1
#
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 5XJW A 1 ? 13 ? 5XJW 1 ? 13 ? 1 13
2 1 5XJW B 1 ? 13 ? 5XJW 14 ? 26 ? 14 26
#
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
1GL 'D-saccharide, alpha linking' . 2,6-dideoxy-4-O-methyl-alpha-D-galactopyranose
;4-O-METHYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 2-deoxy-4-O-methyl-alpha-D-fucopyranose; 2,6-dideoxy-4-O-methyl-alpha-D-galactose; 2,6-dideoxy-4-O-methyl-D-galactose; 2,6-dideoxy-4-O-methyl-galactose
;
'C7 H14 O4' 162.184
2GL 'D-saccharide, beta linking' . 4-O-acetyl-2,6-dideoxy-beta-D-galactopyranose
;4-O-ACETYL-2,6-DIDEOXY-ALPHA-D-GALACTO-HEXOPYRANOSE; 4-O-acetyl-2,6-dideoxy-beta-D-galactose; 4-O-acetyl-2,6-dideoxy-D-galactose; 4-O-acetyl-2,6-dideoxy-galactose
;
'C8 H14 O5' 190.194
CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933
CPH non-polymer .
'(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' None
'C21 H24 O9' 420.410
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
DDA 'D-saccharide, beta linking' . beta-D-Olivopyranose
;beta-D-Olivose; 2,6-dideoxy-beta-D-arabino-hexopyranose; 2,6-dideoxy-beta-D-glucopyranose; 2,6-dideoxy-beta-D-mannopyranose; 2-deoxy-beta-D-quinovopyranose; 2-deoxy-beta-D-rhamnoopyranose; D-Olivose; Olivose; 2,6-DIDEOXY-BETA-D-GLUCOSE; 2,6-DIDEOXY-BETA-D-MANNOSE
;
'C6 H12 O4' 148.157
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
ERI 'L-saccharide, alpha linking' n 3-C-methyl-4-O-acetyl-alpha-L-Olivopyranose
;4-O-ACETYL-2,6-DIDEOXY-3-C-METHYL-BETA-L-ARABINO-HEXOPYRANOSE; 3-C-methyl-4-O-acetyl-alpha-L-Olivose; 3-C-methyl-4-O-acetyl-L-Olivose; 3-C-methyl-4-O-acetyl-Olivose
;
'C9 H16 O5' 204.220
HOH non-polymer . WATER ? 'H2 O' 18.015
#
_exptl.absorpt_coefficient_mu ?
_exptl.absorpt_correction_T_max ?
_exptl.absorpt_correction_T_min ?
_exptl.absorpt_correction_type ?
_exptl.absorpt_process_details ?
_exptl.entry_id 5XJW
_exptl.crystals_number 1
_exptl.details ?
_exptl.method 'X-RAY DIFFRACTION'
_exptl.method_details ?
#
_exptl_crystal.colour ?
_exptl_crystal.density_diffrn ?
_exptl_crystal.density_Matthews 3.89
_exptl_crystal.density_method ?
_exptl_crystal.density_percent_sol 68.36
_exptl_crystal.description ?
_exptl_crystal.F_000 ?
_exptl_crystal.id 1
_exptl_crystal.preparation ?
_exptl_crystal.size_max ?
_exptl_crystal.size_mid ?
_exptl_crystal.size_min ?
_exptl_crystal.size_rad ?
_exptl_crystal.colour_lustre ?
_exptl_crystal.colour_modifier ?
_exptl_crystal.colour_primary ?
_exptl_crystal.density_meas ?
_exptl_crystal.density_meas_esd ?
_exptl_crystal.density_meas_gt ?
_exptl_crystal.density_meas_lt ?
_exptl_crystal.density_meas_temp ?
_exptl_crystal.density_meas_temp_esd ?
_exptl_crystal.density_meas_temp_gt ?
_exptl_crystal.density_meas_temp_lt ?
_exptl_crystal.pdbx_crystal_image_url ?
_exptl_crystal.pdbx_crystal_image_format ?
_exptl_crystal.pdbx_mosaicity ?
_exptl_crystal.pdbx_mosaicity_esd ?
#
_exptl_crystal_grow.apparatus ?
_exptl_crystal_grow.atmosphere ?
_exptl_crystal_grow.crystal_id 1
_exptl_crystal_grow.details ?
_exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP'
_exptl_crystal_grow.method_ref ?
_exptl_crystal_grow.pH 6.0
_exptl_crystal_grow.pressure ?
_exptl_crystal_grow.pressure_esd ?
_exptl_crystal_grow.seeding ?
_exptl_crystal_grow.seeding_ref ?
_exptl_crystal_grow.temp 277
_exptl_crystal_grow.temp_details ?
_exptl_crystal_grow.temp_esd ?
_exptl_crystal_grow.time ?
_exptl_crystal_grow.pdbx_details
'1.0 mM ssDNA, 2.0 mM Chromomycin A3, 4mM CoCl2.6H2O, 50 mM Sodium Cacodylate, 5 mM Spermine, 3% MPD'
_exptl_crystal_grow.pdbx_pH_range ?
#
_diffrn.ambient_environment ?
_diffrn.ambient_temp 100
_diffrn.ambient_temp_details ?
_diffrn.ambient_temp_esd ?
_diffrn.crystal_id 1
_diffrn.crystal_support ?
_diffrn.crystal_treatment ?
_diffrn.details ?
_diffrn.id 1
_diffrn.ambient_pressure ?
_diffrn.ambient_pressure_esd ?
_diffrn.ambient_pressure_gt ?
_diffrn.ambient_pressure_lt ?
_diffrn.ambient_temp_gt ?
_diffrn.ambient_temp_lt ?
#
_diffrn_detector.details ?
_diffrn_detector.detector CCD
_diffrn_detector.diffrn_id 1
_diffrn_detector.type 'ADSC QUANTUM 315r'
_diffrn_detector.area_resol_mean ?
_diffrn_detector.dtime ?
_diffrn_detector.pdbx_frames_total ?
_diffrn_detector.pdbx_collection_time_total ?
_diffrn_detector.pdbx_collection_date 2012-09-18
#
_diffrn_radiation.collimation ?
_diffrn_radiation.diffrn_id 1
_diffrn_radiation.filter_edge ?
_diffrn_radiation.inhomogeneity ?
_diffrn_radiation.monochromator ?
_diffrn_radiation.polarisn_norm ?
_diffrn_radiation.polarisn_ratio ?
_diffrn_radiation.probe ?
_diffrn_radiation.type ?
_diffrn_radiation.xray_symbol ?
_diffrn_radiation.wavelength_id 1
_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
_diffrn_radiation.pdbx_wavelength_list ?
_diffrn_radiation.pdbx_wavelength ?
_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
_diffrn_radiation.pdbx_analyzer ?
_diffrn_radiation.pdbx_scattering_type x-ray
#
_diffrn_radiation_wavelength.id 1
_diffrn_radiation_wavelength.wavelength 1.56418
_diffrn_radiation_wavelength.wt 1.0
#
_diffrn_source.current ?
_diffrn_source.details ?
_diffrn_source.diffrn_id 1
_diffrn_source.power ?
_diffrn_source.size ?
_diffrn_source.source SYNCHROTRON
_diffrn_source.target ?
_diffrn_source.type 'NSRRC BEAMLINE BL13B1'
_diffrn_source.voltage ?
_diffrn_source.take-off_angle ?
_diffrn_source.pdbx_wavelength_list 1.56418
_diffrn_source.pdbx_wavelength ?
_diffrn_source.pdbx_synchrotron_beamline BL13B1
_diffrn_source.pdbx_synchrotron_site NSRRC
#
_reflns.B_iso_Wilson_estimate 47.680
_reflns.entry_id 5XJW
_reflns.data_reduction_details ?
_reflns.data_reduction_method ?
_reflns.d_resolution_high 2.0970
_reflns.d_resolution_low 30.000
_reflns.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.number_all ?
_reflns.number_obs 12596
_reflns.observed_criterion ?
_reflns.observed_criterion_F_max ?
_reflns.observed_criterion_F_min ?
_reflns.observed_criterion_I_max ?
_reflns.observed_criterion_I_min ?
_reflns.observed_criterion_sigma_F ?
_reflns.observed_criterion_sigma_I ?
_reflns.percent_possible_obs 99.600
_reflns.R_free_details ?
_reflns.Rmerge_F_all ?
_reflns.Rmerge_F_obs ?
_reflns.Friedel_coverage ?
_reflns.number_gt ?
_reflns.threshold_expression ?
_reflns.pdbx_redundancy 6.100
_reflns.pdbx_Rmerge_I_obs 0.055
_reflns.pdbx_Rmerge_I_all ?
_reflns.pdbx_Rsym_value ?
_reflns.pdbx_netI_over_av_sigmaI ?
_reflns.pdbx_netI_over_sigmaI 24.800
_reflns.pdbx_res_netI_over_av_sigmaI_2 ?
_reflns.pdbx_res_netI_over_sigmaI_2 ?
_reflns.pdbx_chi_squared 1.887
_reflns.pdbx_scaling_rejects ?
_reflns.pdbx_d_res_high_opt ?
_reflns.pdbx_d_res_low_opt ?
_reflns.pdbx_d_res_opt_method ?
_reflns.phase_calculation_details ?
_reflns.pdbx_Rrim_I_all ?
_reflns.pdbx_Rpim_I_all ?
_reflns.pdbx_d_opt ?
_reflns.pdbx_number_measured_all ?
_reflns.pdbx_diffrn_id 1
_reflns.pdbx_ordinal 1
_reflns.pdbx_CC_half ?
_reflns.pdbx_R_split ?
#
loop_
_reflns_shell.d_res_high
_reflns_shell.d_res_low
_reflns_shell.meanI_over_sigI_all
_reflns_shell.meanI_over_sigI_obs
_reflns_shell.number_measured_all
_reflns_shell.number_measured_obs
_reflns_shell.number_possible
_reflns_shell.number_unique_all
_reflns_shell.number_unique_obs
_reflns_shell.percent_possible_all
_reflns_shell.percent_possible_obs
_reflns_shell.Rmerge_F_all
_reflns_shell.Rmerge_F_obs
_reflns_shell.Rmerge_I_all
_reflns_shell.Rmerge_I_obs
_reflns_shell.meanI_over_sigI_gt
_reflns_shell.meanI_over_uI_all
_reflns_shell.meanI_over_uI_gt
_reflns_shell.number_measured_gt
_reflns_shell.number_unique_gt
_reflns_shell.percent_possible_gt
_reflns_shell.Rmerge_F_gt
_reflns_shell.Rmerge_I_gt
_reflns_shell.pdbx_redundancy
_reflns_shell.pdbx_Rsym_value
_reflns_shell.pdbx_chi_squared
_reflns_shell.pdbx_netI_over_sigmaI_all
_reflns_shell.pdbx_netI_over_sigmaI_obs
_reflns_shell.pdbx_Rrim_I_all
_reflns_shell.pdbx_Rpim_I_all
_reflns_shell.pdbx_rejects
_reflns_shell.pdbx_ordinal
_reflns_shell.pdbx_diffrn_id
_reflns_shell.pdbx_CC_half
_reflns_shell.pdbx_R_split
2.100 2.180 ? ? ? ? ? ? ? 97.800 ? ? ? ? 0.267 ? ? ? ? ? ? ? ? 4.200 ? 0.961 ? ? ? ? ? 1 1 ? ?
2.180 2.260 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.249 ? ? ? ? ? ? ? ? 5.800 ? 1.063 ? ? ? ? ? 2 1 ? ?
2.260 2.370 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.185 ? ? ? ? ? ? ? ? 6.400 ? 1.234 ? ? ? ? ? 3 1 ? ?
2.370 2.490 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.137 ? ? ? ? ? ? ? ? 6.400 ? 1.217 ? ? ? ? ? 4 1 ? ?
2.490 2.650 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.121 ? ? ? ? ? ? ? ? 6.500 ? 1.289 ? ? ? ? ? 5 1 ? ?
2.650 2.850 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.101 ? ? ? ? ? ? ? ? 6.500 ? 1.792 ? ? ? ? ? 6 1 ? ?
2.850 3.140 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.069 ? ? ? ? ? ? ? ? 6.400 ? 1.955 ? ? ? ? ? 7 1 ? ?
3.140 3.590 ? ? ? ? ? ? ? 100.000 ? ? ? ? 0.054 ? ? ? ? ? ? ? ? 6.100 ? 2.121 ? ? ? ? ? 8 1 ? ?
3.590 4.520 ? ? ? ? ? ? ? 99.700 ? ? ? ? 0.047 ? ? ? ? ? ? ? ? 6.200 ? 2.346 ? ? ? ? ? 9 1 ? ?
4.520 30.000 ? ? ? ? ? ? ? 98.100 ? ? ? ? 0.048 ? ? ? ? ? ? ? ? 6.000 ? 4.416 ? ? ? ? ? 10 1 ? ?
#
_refine.aniso_B[1][1] ?
_refine.aniso_B[1][2] ?
_refine.aniso_B[1][3] ?
_refine.aniso_B[2][2] ?
_refine.aniso_B[2][3] ?
_refine.aniso_B[3][3] ?
_refine.B_iso_max 123.080
_refine.B_iso_mean 55.6101
_refine.B_iso_min 30.930
_refine.correlation_coeff_Fo_to_Fc ?
_refine.correlation_coeff_Fo_to_Fc_free ?
_refine.details
;The force field of Chro unit used in the refinement of CoII(Chro)2-DNA complex structure was generated using the atomic resolution crystal structure of NiII(Chro)2.
;
_refine.diff_density_max ?
_refine.diff_density_max_esd ?
_refine.diff_density_min ?
_refine.diff_density_min_esd ?
_refine.diff_density_rms ?
_refine.diff_density_rms_esd ?
_refine.entry_id 5XJW
_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine.ls_abs_structure_details ?
_refine.ls_abs_structure_Flack ?
_refine.ls_abs_structure_Flack_esd ?
_refine.ls_abs_structure_Rogers ?
_refine.ls_abs_structure_Rogers_esd ?
_refine.ls_d_res_high 2.0970
_refine.ls_d_res_low 29.5760
_refine.ls_extinction_coef ?
_refine.ls_extinction_coef_esd ?
_refine.ls_extinction_expression ?
_refine.ls_extinction_method ?
_refine.ls_goodness_of_fit_all ?
_refine.ls_goodness_of_fit_all_esd ?
_refine.ls_goodness_of_fit_obs ?
_refine.ls_goodness_of_fit_obs_esd ?
_refine.ls_hydrogen_treatment ?
_refine.ls_matrix_type ?
_refine.ls_number_constraints ?
_refine.ls_number_parameters ?
_refine.ls_number_reflns_all ?
_refine.ls_number_reflns_obs 12596
_refine.ls_number_reflns_R_free 1230
_refine.ls_number_reflns_R_work ?
_refine.ls_number_restraints ?
_refine.ls_percent_reflns_obs 98.4500
_refine.ls_percent_reflns_R_free 9.7700
_refine.ls_R_factor_all ?
_refine.ls_R_factor_obs 0.2275
_refine.ls_R_factor_R_free 0.2457
_refine.ls_R_factor_R_free_error ?
_refine.ls_R_factor_R_free_error_details ?
_refine.ls_R_factor_R_work 0.2253
_refine.ls_R_Fsqd_factor_obs ?
_refine.ls_R_I_factor_obs ?
_refine.ls_redundancy_reflns_all ?
_refine.ls_redundancy_reflns_obs ?
_refine.ls_restrained_S_all ?
_refine.ls_restrained_S_obs ?
_refine.ls_shift_over_esd_max ?
_refine.ls_shift_over_esd_mean ?
_refine.ls_structure_factor_coef ?
_refine.ls_weighting_details ?
_refine.ls_weighting_scheme ?
_refine.ls_wR_factor_all ?
_refine.ls_wR_factor_obs ?
_refine.ls_wR_factor_R_free ?
_refine.ls_wR_factor_R_work ?
_refine.occupancy_max ?
_refine.occupancy_min ?
_refine.solvent_model_details ?
_refine.solvent_model_param_bsol ?
_refine.solvent_model_param_ksol ?
_refine.ls_R_factor_gt ?
_refine.ls_goodness_of_fit_gt ?
_refine.ls_goodness_of_fit_ref ?
_refine.ls_shift_over_su_max ?
_refine.ls_shift_over_su_max_lt ?
_refine.ls_shift_over_su_mean ?
_refine.ls_shift_over_su_mean_lt ?
_refine.pdbx_ls_sigma_I ?
_refine.pdbx_ls_sigma_F 1.360
_refine.pdbx_ls_sigma_Fsqd ?
_refine.pdbx_data_cutoff_high_absF ?
_refine.pdbx_data_cutoff_high_rms_absF ?
_refine.pdbx_data_cutoff_low_absF ?
_refine.pdbx_isotropic_thermal_model ?
_refine.pdbx_ls_cross_valid_method THROUGHOUT
_refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT'
_refine.pdbx_starting_model 5XEW
_refine.pdbx_stereochemistry_target_values ?
_refine.pdbx_R_Free_selection_details ?
_refine.pdbx_stereochem_target_val_spec_case ?
_refine.pdbx_overall_ESU_R ?
_refine.pdbx_overall_ESU_R_Free ?
_refine.pdbx_solvent_vdw_probe_radii 1.1100
_refine.pdbx_solvent_ion_probe_radii ?
_refine.pdbx_solvent_shrinkage_radii 0.9000
_refine.pdbx_real_space_R ?
_refine.pdbx_density_correlation ?
_refine.pdbx_pd_number_of_powder_patterns ?
_refine.pdbx_pd_number_of_points ?
_refine.pdbx_pd_meas_number_of_points ?
_refine.pdbx_pd_proc_ls_prof_R_factor ?
_refine.pdbx_pd_proc_ls_prof_wR_factor ?
_refine.pdbx_pd_Marquardt_correlation_coeff ?
_refine.pdbx_pd_Fsqrd_R_factor ?
_refine.pdbx_pd_ls_matrix_band_width ?
_refine.pdbx_overall_phase_error 31.0700
_refine.pdbx_overall_SU_R_free_Cruickshank_DPI ?
_refine.pdbx_overall_SU_R_free_Blow_DPI ?
_refine.pdbx_overall_SU_R_Blow_DPI ?
_refine.pdbx_TLS_residual_ADP_flag ?
_refine.pdbx_diffrn_id 1
_refine.overall_SU_B ?
_refine.overall_SU_ML 0.2500
_refine.overall_SU_R_Cruickshank_DPI ?
_refine.overall_SU_R_free ?
_refine.overall_FOM_free_R_set ?
_refine.overall_FOM_work_R_set ?
_refine.pdbx_average_fsc_overall ?
_refine.pdbx_average_fsc_work ?
_refine.pdbx_average_fsc_free ?
#
_refine_hist.cycle_id final
_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
_refine_hist.d_res_high 2.0970
_refine_hist.d_res_low 29.5760
_refine_hist.pdbx_number_atoms_ligand 169
_refine_hist.number_atoms_solvent 50
_refine_hist.number_atoms_total 699
_refine_hist.pdbx_number_residues_total 24
_refine_hist.pdbx_B_iso_mean_ligand 43.95
_refine_hist.pdbx_B_iso_mean_solvent 57.27
_refine_hist.pdbx_number_atoms_protein 0
_refine_hist.pdbx_number_atoms_nucleic_acid 480
#
loop_
_refine_ls_restr.pdbx_refine_id
_refine_ls_restr.criterion
_refine_ls_restr.dev_ideal
_refine_ls_restr.dev_ideal_target
_refine_ls_restr.number
_refine_ls_restr.rejects
_refine_ls_restr.type
_refine_ls_restr.weight
_refine_ls_restr.pdbx_restraint_function
'X-RAY DIFFRACTION' ? 0.004 ? 714 ? f_bond_d ? ?
'X-RAY DIFFRACTION' ? 0.764 ? 1056 ? f_angle_d ? ?
'X-RAY DIFFRACTION' ? 0.039 ? 136 ? f_chiral_restr ? ?
'X-RAY DIFFRACTION' ? 0.004 ? 30 ? f_plane_restr ? ?
'X-RAY DIFFRACTION' ? 28.767 ? 316 ? f_dihedral_angle_d ? ?
#
loop_
_refine_ls_shell.pdbx_refine_id
_refine_ls_shell.d_res_high
_refine_ls_shell.d_res_low
_refine_ls_shell.number_reflns_all
_refine_ls_shell.number_reflns_obs
_refine_ls_shell.number_reflns_R_free
_refine_ls_shell.number_reflns_R_work
_refine_ls_shell.percent_reflns_obs
_refine_ls_shell.percent_reflns_R_free
_refine_ls_shell.R_factor_all
_refine_ls_shell.R_factor_obs
_refine_ls_shell.R_factor_R_free
_refine_ls_shell.R_factor_R_free_error
_refine_ls_shell.R_factor_R_work
_refine_ls_shell.redundancy_reflns_all
_refine_ls_shell.redundancy_reflns_obs
_refine_ls_shell.wR_factor_all
_refine_ls_shell.wR_factor_obs
_refine_ls_shell.wR_factor_R_free
_refine_ls_shell.wR_factor_R_work
_refine_ls_shell.pdbx_total_number_of_bins_used
_refine_ls_shell.pdbx_phase_error
_refine_ls_shell.pdbx_fsc_work
_refine_ls_shell.pdbx_fsc_free
'X-RAY DIFFRACTION' 2.0967 2.1806 1278 . 123 1155 92.0000 . . . 0.3429 0.0000 0.2800 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 2.1806 2.2798 1457 . 145 1312 99.0000 . . . 0.3864 0.0000 0.2878 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 2.2798 2.4000 1386 . 140 1246 100.0000 . . . 0.3077 0.0000 0.3005 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 2.4000 2.5503 1403 . 132 1271 99.0000 . . . 0.2934 0.0000 0.2897 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 2.5503 2.7470 1426 . 140 1286 100.0000 . . . 0.3933 0.0000 0.2963 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 2.7470 3.0232 1429 . 132 1297 100.0000 . . . 0.2815 0.0000 0.3165 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 3.0232 3.4601 1415 . 140 1275 99.0000 . . . 0.2217 0.0000 0.2029 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 3.4601 4.3572 1394 . 134 1260 99.0000 . . . 0.2396 0.0000 0.2024 . . . . . . 9 . . .
'X-RAY DIFFRACTION' 4.3572 29.5794 1408 . 144 1264 98.0000 . . . 0.1946 0.0000 0.1866 . . . . . . 9 . . .
#
_struct.entry_id 5XJW
_struct.title 'Crystal Structure of the [Co2+-(Chromomycin A3)2]-CCG repeats Complex'
_struct.pdbx_model_details ?
_struct.pdbx_formula_weight ?
_struct.pdbx_formula_weight_method ?
_struct.pdbx_model_type_details ?
_struct.pdbx_CASP_flag N
#
_struct_keywords.entry_id 5XJW
_struct_keywords.text
;Nucleotide Flipping-out, CCG trinucleotide repeats, Chromomycin A3, Metalloantibiotics, Minor Groove Binding drug, DNA-ANTIBIOTIC complex
;
_struct_keywords.pdbx_keywords DNA/ANTIBIOTIC
#
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 3 ?
E N N 3 ?
F N N 2 ?
G N N 4 ?
H N N 5 ?
I N N 5 ?
J N N 4 ?
K N N 5 ?
L N N 6 ?
M N N 6 ?
#
loop_
_struct_conn.id
_struct_conn.conn_type_id
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_PDB_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.details
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
_struct_conn.pdbx_role
covale1 covale one ? G CPH . C6 ? ? ? 1_555 D 2GL . O1 ? ? A CPH 106 D 2GL 1 1_555 ? ? ? ? ? ? ? 1.371 ? ?
covale2 covale one ? G CPH . C2 ? ? ? 1_555 F DDA . O1 ? ? A CPH 106 F DDA 1 1_555 ? ? ? ? ? ? ? 1.378 ? ?
covale3 covale one ? J CPH . C2 ? ? ? 1_555 C DDA . O1 ? ? B CPH 103 C DDA 1 1_555 ? ? ? ? ? ? ? 1.373 ? ?
covale4 covale one ? J CPH . C6 ? ? ? 1_555 E 2GL . O1 ? ? B CPH 103 E 2GL 1 1_555 ? ? ? ? ? ? ? 1.380 ? ?
covale5 covale both ? C DDA . O3 ? ? ? 1_555 C DDA . C1 ? ? C DDA 1 C DDA 2 1_555 ? ? ? ? ? ? ? 1.431 sing ?
covale6 covale both ? C DDA . O3 ? ? ? 1_555 C ERI . C1 ? ? C DDA 2 C ERI 3 1_555 ? ? ? ? ? ? ? 1.429 sing ?
covale7 covale both ? D 2GL . O3 ? ? ? 1_555 D 1GL . C1 ? ? D 2GL 1 D 1GL 2 1_555 ? ? ? ? ? ? ? 1.434 sing ?
covale8 covale both ? E 2GL . O3 ? ? ? 1_555 E 1GL . C1 ? ? E 2GL 1 E 1GL 2 1_555 ? ? ? ? ? ? ? 1.432 sing ?
covale9 covale both ? F DDA . O3 ? ? ? 1_555 F DDA . C1 ? ? F DDA 1 F DDA 2 1_555 ? ? ? ? ? ? ? 1.432 sing ?
covale10 covale both ? F DDA . O3 ? ? ? 1_555 F ERI . C1 ? ? F DDA 2 F ERI 3 1_555 ? ? ? ? ? ? ? 1.430 sing ?
metalc1 metalc ? ? A DG 8 N7 ? ? ? 1_555 I CO . CO ? ? A DG 8 A CO 108 1_555 ? ? ? ? ? ? ? 2.224 ? ?
metalc2 metalc ? ? G CPH . O1 ? ? ? 1_555 H CO . CO ? ? A CPH 106 A CO 107 1_555 ? ? ? ? ? ? ? 1.937 ? ?
metalc3 metalc ? ? G CPH . O9 ? ? ? 1_555 H CO . CO ? ? A CPH 106 A CO 107 1_555 ? ? ? ? ? ? ? 1.907 ? ?
metalc4 metalc ? ? H CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 107 A HOH 206 1_555 ? ? ? ? ? ? ? 2.164 ? ?
metalc5 metalc ? ? H CO . CO ? ? ? 1_555 J CPH . O1 ? ? A CO 107 B CPH 103 1_555 ? ? ? ? ? ? ? 1.907 ? ?
metalc6 metalc ? ? H CO . CO ? ? ? 1_555 J CPH . O9 ? ? A CO 107 B CPH 103 1_555 ? ? ? ? ? ? ? 1.945 ? ?
metalc7 metalc ? ? H CO . CO ? ? ? 1_555 M HOH . O ? ? A CO 107 B HOH 203 1_555 ? ? ? ? ? ? ? 2.186 ? ?
metalc8 metalc ? ? I CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 108 A HOH 202 1_555 ? ? ? ? ? ? ? 2.007 ? ?
metalc9 metalc ? ? I CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 108 A HOH 204 1_555 ? ? ? ? ? ? ? 2.006 ? ?
metalc10 metalc ? ? I CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 108 A HOH 207 1_555 ? ? ? ? ? ? ? 2.231 ? ?
metalc11 metalc ? ? I CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 108 A HOH 213 1_555 ? ? ? ? ? ? ? 1.882 ? ?
metalc12 metalc ? ? I CO . CO ? ? ? 1_555 L HOH . O ? ? A CO 108 A HOH 218 1_555 ? ? ? ? ? ? ? 2.426 ? ?
metalc13 metalc ? ? B DG 8 N7 ? ? ? 1_555 K CO . CO ? ? B DG 21 B CO 107 1_555 ? ? ? ? ? ? ? 2.272 ? ?
metalc14 metalc ? ? K CO . CO ? ? ? 1_555 M HOH . O ? ? B CO 107 B HOH 202 1_555 ? ? ? ? ? ? ? 2.180 ? ?
metalc15 metalc ? ? K CO . CO ? ? ? 1_555 M HOH . O ? ? B CO 107 B HOH 204 1_555 ? ? ? ? ? ? ? 2.003 ? ?
metalc16 metalc ? ? K CO . CO ? ? ? 1_555 M HOH . O ? ? B CO 107 B HOH 208 1_555 ? ? ? ? ? ? ? 2.006 ? ?
metalc17 metalc ? ? K CO . CO ? ? ? 1_555 M HOH . O ? ? B CO 107 B HOH 213 1_555 ? ? ? ? ? ? ? 1.891 ? ?
metalc18 metalc ? ? K CO . CO ? ? ? 1_555 M HOH . O ? ? B CO 107 B HOH 222 1_555 ? ? ? ? ? ? ? 2.356 ? ?
hydrog1 hydrog ? ? A DT 1 N3 ? ? ? 1_555 B DA 13 N7 ? ? A DT 1 B DA 26 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ?
hydrog2 hydrog ? ? A DT 1 O4 ? ? ? 1_555 B DA 13 N6 ? ? A DT 1 B DA 26 1_555 ? ? ? ? ? ? HOOGSTEEN ? ? ?
hydrog3 hydrog ? ? A DT 2 N3 ? ? ? 1_555 B DA 12 N1 ? ? A DT 2 B DA 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog4 hydrog ? ? A DT 2 O4 ? ? ? 1_555 B DA 12 N6 ? ? A DT 2 B DA 25 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog5 hydrog ? ? A DC 4 N3 ? ? ? 1_555 B DG 11 N1 ? ? A DC 4 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog6 hydrog ? ? A DC 4 N4 ? ? ? 1_555 B DG 11 O6 ? ? A DC 4 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog7 hydrog ? ? A DC 4 O2 ? ? ? 1_555 B DG 11 N2 ? ? A DC 4 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog8 hydrog ? ? A DG 5 N1 ? ? ? 1_555 B DC 10 N3 ? ? A DG 5 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog9 hydrog ? ? A DG 5 N2 ? ? ? 1_555 B DC 10 O2 ? ? A DG 5 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog10 hydrog ? ? A DG 5 O6 ? ? ? 1_555 B DC 10 N4 ? ? A DG 5 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog11 hydrog ? ? A DG 8 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 8 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog12 hydrog ? ? A DG 8 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 8 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog13 hydrog ? ? A DG 8 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 8 B DC 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog14 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 8 N1 ? ? A DC 9 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog15 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 8 O6 ? ? A DC 9 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog16 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 8 N2 ? ? A DC 9 B DG 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog17 hydrog ? ? A DC 10 N3 ? ? ? 1_555 B DG 5 N1 ? ? A DC 10 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog18 hydrog ? ? A DC 10 N4 ? ? ? 1_555 B DG 5 O6 ? ? A DC 10 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog19 hydrog ? ? A DC 10 O2 ? ? ? 1_555 B DG 5 N2 ? ? A DC 10 B DG 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog20 hydrog ? ? A DG 11 N1 ? ? ? 1_555 B DC 4 N3 ? ? A DG 11 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog21 hydrog ? ? A DG 11 N2 ? ? ? 1_555 B DC 4 O2 ? ? A DG 11 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog22 hydrog ? ? A DG 11 O6 ? ? ? 1_555 B DC 4 N4 ? ? A DG 11 B DC 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog23 hydrog ? ? A DA 12 N1 ? ? ? 1_555 B DT 2 N3 ? ? A DA 12 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog24 hydrog ? ? A DA 12 N6 ? ? ? 1_555 B DT 2 O4 ? ? A DA 12 B DT 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ?
hydrog25 hydrog ? ? A DA 13 N7 ? ? ? 1_555 B DT 1 N3 ? ? A DA 13 B DT 14 1_555 ? ? ? ? ? ? 'DA-DT PAIR' ? ? ?
#
loop_
_struct_conn_type.id
_struct_conn_type.criteria
_struct_conn_type.reference
covale ? ?
metalc ? ?
hydrog ? ?
#
_atom_sites.entry_id 5XJW
_atom_sites.fract_transf_matrix[1][1] 0.020700
_atom_sites.fract_transf_matrix[1][2] 0.011951
_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] 0.023902
_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] 0.011957
_atom_sites.fract_transf_vector[1] 0.000000
_atom_sites.fract_transf_vector[2] 0.000000
_atom_sites.fract_transf_vector[3] 0.000000
#
loop_
_atom_type.symbol
C
CO
N
O
P
#
loop_
_pdbx_poly_seq_scheme.asym_id
_pdbx_poly_seq_scheme.entity_id
_pdbx_poly_seq_scheme.seq_id
_pdbx_poly_seq_scheme.mon_id
_pdbx_poly_seq_scheme.ndb_seq_num
_pdbx_poly_seq_scheme.pdb_seq_num
_pdbx_poly_seq_scheme.auth_seq_num
_pdbx_poly_seq_scheme.pdb_mon_id
_pdbx_poly_seq_scheme.auth_mon_id
_pdbx_poly_seq_scheme.pdb_strand_id
_pdbx_poly_seq_scheme.pdb_ins_code
_pdbx_poly_seq_scheme.hetero
A 1 1 DT 1 1 1 DT T A . n
A 1 2 DT 2 2 2 DT T A . n
A 1 3 DC 3 3 ? ? ? A . n
A 1 4 DC 4 4 4 DC C A . n
A 1 5 DG 5 5 5 DG G A . n
A 1 6 DC 6 6 6 DC C A . n
A 1 7 DC 7 7 7 DC C A . n
A 1 8 DG 8 8 8 DG G A . n
A 1 9 DC 9 9 9 DC C A . n
A 1 10 DC 10 10 10 DC C A . n
A 1 11 DG 11 11 11 DG G A . n
A 1 12 DA 12 12 12 DA A A . n
A 1 13 DA 13 13 13 DA A A . n
B 1 1 DT 1 14 14 DT T B . n
B 1 2 DT 2 15 15 DT T B . n
B 1 3 DC 3 16 ? ? ? B . n
B 1 4 DC 4 17 17 DC C B . n
B 1 5 DG 5 18 18 DG G B . n
B 1 6 DC 6 19 19 DC C B . n
B 1 7 DC 7 20 20 DC C B . n
B 1 8 DG 8 21 21 DG G B . n
B 1 9 DC 9 22 22 DC C B . n
B 1 10 DC 10 23 23 DC C B . n
B 1 11 DG 11 24 24 DG G B . n
B 1 12 DA 12 25 25 DA A B . n
B 1 13 DA 13 26 26 DA A 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
G 4 CPH 1 106 62 CPH CPH A .
H 5 CO 1 107 600 CO CO A .
I 5 CO 1 108 601 CO CO A .
J 4 CPH 1 103 56 CPH CPH B .
K 5 CO 1 107 602 CO CO B .
L 6 HOH 1 201 116 HOH HOH A .
L 6 HOH 2 202 103 HOH HOH A .
L 6 HOH 3 203 241 HOH HOH A .
L 6 HOH 4 204 105 HOH HOH A .
L 6 HOH 5 205 219 HOH HOH A .
L 6 HOH 6 206 100 HOH HOH A .
L 6 HOH 7 207 104 HOH HOH A .
L 6 HOH 8 208 156 HOH HOH A .
L 6 HOH 9 209 112 HOH HOH A .
L 6 HOH 10 210 186 HOH HOH A .
L 6 HOH 11 211 115 HOH HOH A .
L 6 HOH 12 212 170 HOH HOH A .
L 6 HOH 13 213 102 HOH HOH A .
L 6 HOH 14 214 125 HOH HOH A .
L 6 HOH 15 215 204 HOH HOH A .
L 6 HOH 16 216 157 HOH HOH A .
L 6 HOH 17 217 175 HOH HOH A .
L 6 HOH 18 218 106 HOH HOH A .
L 6 HOH 19 219 163 HOH HOH A .
L 6 HOH 20 220 178 HOH HOH A .
L 6 HOH 21 221 215 HOH HOH A .
L 6 HOH 22 222 184 HOH HOH A .
L 6 HOH 23 223 220 HOH HOH A .
L 6 HOH 24 224 195 HOH HOH A .
L 6 HOH 25 225 192 HOH HOH A .
L 6 HOH 26 226 203 HOH HOH A .
M 6 HOH 1 201 113 HOH HOH B .
M 6 HOH 2 202 109 HOH HOH B .
M 6 HOH 3 203 101 HOH HOH B .
M 6 HOH 4 204 110 HOH HOH B .
M 6 HOH 5 205 180 HOH HOH B .
M 6 HOH 6 206 134 HOH HOH B .
M 6 HOH 7 207 127 HOH HOH B .
M 6 HOH 8 208 108 HOH HOH B .
M 6 HOH 9 209 126 HOH HOH B .
M 6 HOH 10 210 114 HOH HOH B .
M 6 HOH 11 211 171 HOH HOH B .
M 6 HOH 12 212 193 HOH HOH B .
M 6 HOH 13 213 107 HOH HOH B .
M 6 HOH 14 214 189 HOH HOH B .
M 6 HOH 15 215 158 HOH HOH B .
M 6 HOH 16 216 145 HOH HOH B .
M 6 HOH 17 217 121 HOH HOH B .
M 6 HOH 18 218 153 HOH HOH B .
M 6 HOH 19 219 133 HOH HOH B .
M 6 HOH 20 220 185 HOH HOH B .
M 6 HOH 21 221 140 HOH HOH B .
M 6 HOH 22 222 111 HOH HOH B .
M 6 HOH 23 223 194 HOH HOH B .
M 6 HOH 24 224 237 HOH HOH B .
#
_pdbx_molecule_features.prd_id PRD_001136
_pdbx_molecule_features.name 'Chromomycin A3, Monomer'
_pdbx_molecule_features.type Oligosaccharide
_pdbx_molecule_features.class Antibiotic
_pdbx_molecule_features.details ?
#
loop_
_pdbx_molecule.instance_id
_pdbx_molecule.prd_id
_pdbx_molecule.asym_id
1 PRD_001136 C
1 PRD_001136 D
1 PRD_001136 G
2 PRD_001136 E
2 PRD_001136 F
2 PRD_001136 J
#
_pdbx_struct_assembly.id 1
_pdbx_struct_assembly.details author_defined_assembly
_pdbx_struct_assembly.method_details ?
_pdbx_struct_assembly.oligomeric_details dimeric
_pdbx_struct_assembly.oligomeric_count 2
#
_pdbx_struct_assembly_gen.assembly_id 1
_pdbx_struct_assembly_gen.oper_expression 1
_pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M
#
_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
#
_pdbx_struct_special_symmetry.id 1
_pdbx_struct_special_symmetry.PDB_model_num 1
_pdbx_struct_special_symmetry.auth_asym_id B
_pdbx_struct_special_symmetry.auth_comp_id HOH
_pdbx_struct_special_symmetry.auth_seq_id 221
_pdbx_struct_special_symmetry.PDB_ins_code ?
_pdbx_struct_special_symmetry.label_asym_id M
_pdbx_struct_special_symmetry.label_comp_id HOH
_pdbx_struct_special_symmetry.label_seq_id .
#
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 8 ? A DG 8 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 202 ? 1_555 93.3 ?
2 N7 ? A DG 8 ? A DG 8 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 204 ? 1_555 90.4 ?
3 O ? L HOH . ? A HOH 202 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 204 ? 1_555 91.8 ?
4 N7 ? A DG 8 ? A DG 8 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 207 ? 1_555 90.7 ?
5 O ? L HOH . ? A HOH 202 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 207 ? 1_555 103.1 ?
6 O ? L HOH . ? A HOH 204 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 207 ? 1_555 164.9 ?
7 N7 ? A DG 8 ? A DG 8 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 213 ? 1_555 84.8 ?
8 O ? L HOH . ? A HOH 202 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 213 ? 1_555 178.1 ?
9 O ? L HOH . ? A HOH 204 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 213 ? 1_555 88.5 ?
10 O ? L HOH . ? A HOH 207 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 213 ? 1_555 76.6 ?
11 N7 ? A DG 8 ? A DG 8 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 157.7 ?
12 O ? L HOH . ? A HOH 202 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 106.7 ?
13 O ? L HOH . ? A HOH 204 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 98.5 ?
14 O ? L HOH . ? A HOH 207 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 75.5 ?
15 O ? L HOH . ? A HOH 213 ? 1_555 CO ? I CO . ? A CO 108 ? 1_555 O ? L HOH . ? A HOH 218 ? 1_555 75.1 ?
16 O1 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O9 ? G CPH . ? A CPH 106 ? 1_555 83.6 ?
17 O1 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? L HOH . ? A HOH 206 ? 1_555 90.4 ?
18 O9 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? L HOH . ? A HOH 206 ? 1_555 100.9 ?
19 O1 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O1 ? J CPH . ? B CPH 103 ? 1_555 85.1 ?
20 O9 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O1 ? J CPH . ? B CPH 103 ? 1_555 98.7 ?
21 O ? L HOH . ? A HOH 206 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O1 ? J CPH . ? B CPH 103 ? 1_555 159.3 ?
22 O1 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O9 ? J CPH . ? B CPH 103 ? 1_555 97.6 ?
23 O9 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O9 ? J CPH . ? B CPH 103 ? 1_555 177.6 ?
24 O ? L HOH . ? A HOH 206 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O9 ? J CPH . ? B CPH 103 ? 1_555 77.0 ?
25 O1 ? J CPH . ? B CPH 103 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O9 ? J CPH . ? B CPH 103 ? 1_555 83.5 ?
26 O1 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 161.1 ?
27 O9 ? G CPH . ? A CPH 106 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 78.5 ?
28 O ? L HOH . ? A HOH 206 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 98.9 ?
29 O1 ? J CPH . ? B CPH 103 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 91.6 ?
30 O9 ? J CPH . ? B CPH 103 ? 1_555 CO ? H CO . ? A CO 107 ? 1_555 O ? M HOH . ? B HOH 203 ? 1_555 100.5 ?
31 N7 ? B DG 8 ? B DG 21 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 202 ? 1_555 89.5 ?
32 N7 ? B DG 8 ? B DG 21 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 204 ? 1_555 91.7 ?
33 O ? M HOH . ? B HOH 202 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 204 ? 1_555 164.5 ?
34 N7 ? B DG 8 ? B DG 21 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 208 ? 1_555 93.7 ?
35 O ? M HOH . ? B HOH 202 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 208 ? 1_555 111.6 ?
36 O ? M HOH . ? B HOH 204 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 208 ? 1_555 83.8 ?
37 N7 ? B DG 8 ? B DG 21 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 86.8 ?
38 O ? M HOH . ? B HOH 202 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 66.0 ?
39 O ? M HOH . ? B HOH 204 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 98.6 ?
40 O ? M HOH . ? B HOH 208 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 213 ? 1_555 177.5 ?
41 N7 ? B DG 8 ? B DG 21 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 222 ? 1_555 166.2 ?
42 O ? M HOH . ? B HOH 202 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 222 ? 1_555 78.6 ?
43 O ? M HOH . ? B HOH 204 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 222 ? 1_555 98.0 ?
44 O ? M HOH . ? B HOH 208 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 222 ? 1_555 97.1 ?
45 O ? M HOH . ? B HOH 213 ? 1_555 CO ? K CO . ? B CO 107 ? 1_555 O ? M HOH . ? B HOH 222 ? 1_555 82.1 ?
#
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 2018-05-16
2 'Structure model' 2 0 2018-06-06
3 'Structure model' 2 1 2018-09-12
4 'Structure model' 2 2 2018-10-03
5 'Structure model' 3 0 2020-07-29
6 'Structure model' 3 1 2023-11-22
#
loop_
_pdbx_audit_revision_details.ordinal
_pdbx_audit_revision_details.revision_ordinal
_pdbx_audit_revision_details.data_content_type
_pdbx_audit_revision_details.provider
_pdbx_audit_revision_details.type
_pdbx_audit_revision_details.description
_pdbx_audit_revision_details.details
1 1 'Structure model' repository 'Initial release' ? ?
2 5 'Structure model' repository Remediation 'Carbohydrate remediation' ?
#
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' Advisory
2 2 'Structure model' 'Atomic model'
3 2 'Structure model' 'Data collection'
4 2 'Structure model' 'Derived calculations'
5 2 'Structure model' 'Non-polymer description'
6 2 'Structure model' 'Structure summary'
7 3 'Structure model' 'Data collection'
8 3 'Structure model' 'Structure summary'
9 4 'Structure model' 'Data collection'
10 4 'Structure model' 'Structure summary'
11 5 'Structure model' Advisory
12 5 'Structure model' 'Atomic model'
13 5 'Structure model' 'Data collection'
14 5 'Structure model' 'Derived calculations'
15 5 'Structure model' 'Structure summary'
16 6 'Structure model' 'Data collection'
17 6 'Structure model' 'Database references'
18 6 'Structure model' 'Derived calculations'
19 6 'Structure model' 'Refinement description'
20 6 'Structure model' 'Structure summary'
#
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 2 'Structure model' atom_site
2 2 'Structure model' chem_comp
3 2 'Structure model' entity
4 2 'Structure model' pdbx_entity_nonpoly
5 2 'Structure model' pdbx_molecule
6 2 'Structure model' pdbx_molecule_features
7 2 'Structure model' pdbx_nonpoly_scheme
8 2 'Structure model' pdbx_validate_close_contact
9 2 'Structure model' struct_conn
10 3 'Structure model' pdbx_molecule
11 4 'Structure model' pdbx_molecule
12 5 'Structure model' atom_site
13 5 'Structure model' chem_comp
14 5 'Structure model' entity
15 5 'Structure model' pdbx_branch_scheme
16 5 'Structure model' pdbx_chem_comp_identifier
17 5 'Structure model' pdbx_entity_branch
18 5 'Structure model' pdbx_entity_branch_descriptor
19 5 'Structure model' pdbx_entity_branch_link
20 5 'Structure model' pdbx_entity_branch_list
21 5 'Structure model' pdbx_entity_nonpoly
22 5 'Structure model' pdbx_molecule
23 5 'Structure model' pdbx_nonpoly_scheme
24 5 'Structure model' pdbx_struct_assembly_gen
25 5 'Structure model' pdbx_struct_conn_angle
26 5 'Structure model' pdbx_struct_special_symmetry
27 5 'Structure model' pdbx_validate_close_contact
28 5 'Structure model' struct_asym
29 5 'Structure model' struct_conn
30 5 'Structure model' struct_conn_type
31 6 'Structure model' chem_comp
32 6 'Structure model' chem_comp_atom
33 6 'Structure model' chem_comp_bond
34 6 'Structure model' database_2
35 6 'Structure model' pdbx_initial_refinement_model
36 6 'Structure model' struct_conn
#
loop_
_pdbx_audit_revision_item.ordinal
_pdbx_audit_revision_item.revision_ordinal
_pdbx_audit_revision_item.data_content_type
_pdbx_audit_revision_item.item
1 2 'Structure model' '_atom_site.B_iso_or_equiv'
2 2 'Structure model' '_atom_site.Cartn_x'
3 2 'Structure model' '_atom_site.Cartn_y'
4 2 'Structure model' '_atom_site.Cartn_z'
5 2 'Structure model' '_atom_site.auth_atom_id'
6 2 'Structure model' '_atom_site.auth_comp_id'
7 2 'Structure model' '_atom_site.label_atom_id'
8 2 'Structure model' '_atom_site.label_comp_id'
9 2 'Structure model' '_atom_site.type_symbol'
10 2 'Structure model' '_chem_comp.formula'
11 2 'Structure model' '_chem_comp.formula_weight'
12 2 'Structure model' '_chem_comp.id'
13 2 'Structure model' '_chem_comp.mon_nstd_flag'
14 2 'Structure model' '_chem_comp.name'
15 2 'Structure model' '_chem_comp.pdbx_synonyms'
16 2 'Structure model' '_chem_comp.type'
17 2 'Structure model' '_entity.formula_weight'
18 2 'Structure model' '_entity.pdbx_description'
19 2 'Structure model' '_pdbx_entity_nonpoly.comp_id'
20 2 'Structure model' '_pdbx_entity_nonpoly.name'
21 2 'Structure model' '_pdbx_molecule.prd_id'
22 2 'Structure model' '_pdbx_molecule_features.class'
23 2 'Structure model' '_pdbx_molecule_features.name'
24 2 'Structure model' '_pdbx_molecule_features.prd_id'
25 2 'Structure model' '_pdbx_molecule_features.type'
26 2 'Structure model' '_pdbx_nonpoly_scheme.mon_id'
27 2 'Structure model' '_pdbx_nonpoly_scheme.pdb_mon_id'
28 2 'Structure model' '_pdbx_validate_close_contact.auth_atom_id_1'
29 2 'Structure model' '_pdbx_validate_close_contact.auth_atom_id_2'
30 2 'Structure model' '_pdbx_validate_close_contact.auth_comp_id_1'
31 2 'Structure model' '_pdbx_validate_close_contact.auth_comp_id_2'
32 2 'Structure model' '_struct_conn.pdbx_dist_value'
33 2 'Structure model' '_struct_conn.ptnr1_auth_comp_id'
34 2 'Structure model' '_struct_conn.ptnr1_label_atom_id'
35 2 'Structure model' '_struct_conn.ptnr1_label_comp_id'
36 2 'Structure model' '_struct_conn.ptnr2_auth_asym_id'
37 2 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
38 2 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
39 2 'Structure model' '_struct_conn.ptnr2_label_asym_id'
40 2 'Structure model' '_struct_conn.ptnr2_label_atom_id'
41 2 'Structure model' '_struct_conn.ptnr2_label_comp_id'
42 5 'Structure model' '_atom_site.B_iso_or_equiv'
43 5 'Structure model' '_atom_site.Cartn_x'
44 5 'Structure model' '_atom_site.Cartn_y'
45 5 'Structure model' '_atom_site.Cartn_z'
46 5 'Structure model' '_atom_site.auth_asym_id'
47 5 'Structure model' '_atom_site.auth_atom_id'
48 5 'Structure model' '_atom_site.auth_comp_id'
49 5 'Structure model' '_atom_site.auth_seq_id'
50 5 'Structure model' '_atom_site.label_asym_id'
51 5 'Structure model' '_atom_site.label_atom_id'
52 5 'Structure model' '_atom_site.label_comp_id'
53 5 'Structure model' '_atom_site.label_entity_id'
54 5 'Structure model' '_atom_site.type_symbol'
55 5 'Structure model' '_chem_comp.mon_nstd_flag'
56 5 'Structure model' '_chem_comp.name'
57 5 'Structure model' '_chem_comp.type'
58 5 'Structure model' '_pdbx_struct_assembly_gen.asym_id_list'
59 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id'
60 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id'
61 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id'
62 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id'
63 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id'
64 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id'
65 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id'
66 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_auth_asym_id'
67 5 'Structure model' '_pdbx_struct_conn_angle.ptnr2_label_asym_id'
68 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id'
69 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id'
70 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id'
71 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id'
72 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id'
73 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id'
74 5 'Structure model' '_pdbx_struct_conn_angle.value'
75 5 'Structure model' '_pdbx_struct_special_symmetry.label_asym_id'
76 5 'Structure model' '_struct_conn.conn_type_id'
77 5 'Structure model' '_struct_conn.id'
78 5 'Structure model' '_struct_conn.pdbx_dist_value'
79 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
80 5 'Structure model' '_struct_conn.pdbx_value_order'
81 5 'Structure model' '_struct_conn.ptnr1_auth_asym_id'
82 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id'
83 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id'
84 5 'Structure model' '_struct_conn.ptnr1_label_asym_id'
85 5 'Structure model' '_struct_conn.ptnr1_label_atom_id'
86 5 'Structure model' '_struct_conn.ptnr1_label_comp_id'
87 5 'Structure model' '_struct_conn.ptnr1_label_seq_id'
88 5 'Structure model' '_struct_conn.ptnr2_auth_asym_id'
89 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id'
90 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id'
91 5 'Structure model' '_struct_conn.ptnr2_label_asym_id'
92 5 'Structure model' '_struct_conn.ptnr2_label_atom_id'
93 5 'Structure model' '_struct_conn.ptnr2_label_comp_id'
94 5 'Structure model' '_struct_conn_type.id'
95 6 'Structure model' '_chem_comp.pdbx_synonyms'
96 6 'Structure model' '_database_2.pdbx_DOI'
97 6 'Structure model' '_database_2.pdbx_database_accession'
98 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag'
#
loop_
_software.citation_id
_software.classification
_software.compiler_name
_software.compiler_version
_software.contact_author
_software.contact_author_email
_software.date
_software.description
_software.dependencies
_software.hardware
_software.language
_software.location
_software.mods
_software.name
_software.os
_software.os_version
_software.type
_software.version
_software.pdbx_ordinal
? 'data collection' ? ? ? ? ? ? ? ? ? ? ? Blu-Ice ? ? ? . 1
? 'data processing' ? ? ? ? ? ? ? ? ? ? ? HKL-2000 ? ? ? . 2
? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? SCALEPACK ? ? ? . 3
? 'model building' ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.10.1-2155 4
? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? 1.10.1-2155 5
#
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 O1 C DDA 1 ? ? C3 B CPH 103 ? ? 2.10
2 1 O1 F DDA 1 ? ? C3 A CPH 106 ? ? 2.15
#
_pdbx_distant_solvent_atoms.id 1
_pdbx_distant_solvent_atoms.PDB_model_num 1
_pdbx_distant_solvent_atoms.auth_atom_id O
_pdbx_distant_solvent_atoms.label_alt_id ?
_pdbx_distant_solvent_atoms.auth_asym_id A
_pdbx_distant_solvent_atoms.auth_comp_id HOH
_pdbx_distant_solvent_atoms.auth_seq_id 226
_pdbx_distant_solvent_atoms.PDB_ins_code ?
_pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 6.69
_pdbx_distant_solvent_atoms.neighbor_ligand_distance .
#
loop_
_pdbx_unobs_or_zero_occ_residues.id
_pdbx_unobs_or_zero_occ_residues.PDB_model_num
_pdbx_unobs_or_zero_occ_residues.polymer_flag
_pdbx_unobs_or_zero_occ_residues.occupancy_flag
_pdbx_unobs_or_zero_occ_residues.auth_asym_id
_pdbx_unobs_or_zero_occ_residues.auth_comp_id
_pdbx_unobs_or_zero_occ_residues.auth_seq_id
_pdbx_unobs_or_zero_occ_residues.PDB_ins_code
_pdbx_unobs_or_zero_occ_residues.label_asym_id
_pdbx_unobs_or_zero_occ_residues.label_comp_id
_pdbx_unobs_or_zero_occ_residues.label_seq_id
1 1 Y 1 A DC 3 ? A DC 3
2 1 Y 1 B DC 16 ? B DC 3
#
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
1GL O1 O N N 1
1GL C1 C N S 2
1GL C2 C N N 3
1GL C3 C N R 4
1GL O3 O N N 5
1GL C4 C N R 6
1GL O4 O N N 7
1GL CME C N N 8
1GL C5 C N R 9
1GL O5 O N N 10
1GL C6 C N N 11
1GL HO1 H N N 12
1GL H1 H N N 13
1GL H2 H N N 14
1GL H22 H N N 15
1GL H3 H N N 16
1GL HO3 H N N 17
1GL H4 H N N 18
1GL HM41 H N N 19
1GL HM42 H N N 20
1GL HM43 H N N 21
1GL H5 H N N 22
1GL H61 H N N 23
1GL H62 H N N 24
1GL H63 H N N 25
2GL O5 O N N 26
2GL C1 C N R 27
2GL C2 C N N 28
2GL C3 C N R 29
2GL O3 O N N 30
2GL C4 C N R 31
2GL O4 O N N 32
2GL CME C N N 33
2GL CO4 C N N 34
2GL OC4 O N N 35
2GL C5 C N R 36
2GL O1 O N N 37
2GL C6 C N N 38
2GL HO1 H N N 39
2GL H1 H N N 40
2GL H2 H N N 41
2GL H22 H N N 42
2GL H3 H N N 43
2GL HO3 H N N 44
2GL H4 H N N 45
2GL HM41 H N N 46
2GL HM42 H N N 47
2GL HM43 H N N 48
2GL H5 H N N 49
2GL H61 H N N 50
2GL H62 H N N 51
2GL H63 H N N 52
CO CO CO N N 53
CPH C1 C N N 54
CPH O1 O N N 55
CPH C2 C N S 56
CPH C3 C N R 57
CPH C4 C N N 58
CPH C5 C Y N 59
CPH C6 C Y N 60
CPH C7 C Y N 61
CPH C8 C Y N 62
CPH O8 O N N 63
CPH C9 C Y N 64
CPH O9 O N N 65
CPH "C1'" C N S 66
CPH "O1'" O N N 67
CPH C10 C Y N 68
CPH "C2'" C N N 69
CPH "O2'" O N N 70
CPH "C3'" C N S 71
CPH "O3'" O N N 72
CPH "C4'" C N R 73
CPH "O4'" O N N 74
CPH C4A C Y N 75
CPH "C5'" C N N 76
CPH C5A C Y N 77
CPH C8A C Y N 78
CPH C9A C Y N 79
CPH CC7 C N N 80
CPH O6 O N N 81
CPH O2 O N N 82
CPH CME C N N 83
CPH H2 H N N 84
CPH H3 H N N 85
CPH H4 H N N 86
CPH H4A H N N 87
CPH H5 H N N 88
CPH HO8 H N N 89
CPH HO9 H N N 90
CPH "H1'" H N N 91
CPH H10 H N N 92
CPH "H3'" H N N 93
CPH "HO3'" H N N 94
CPH "H4'" H N N 95
CPH "HO4'" H N N 96
CPH "H5'" H N N 97
CPH "H5'A" H N N 98
CPH "H5'B" H N N 99
CPH HC7 H N N 100
CPH HC7A H N N 101
CPH HC7B H N N 102
CPH HO6 H N N 103
CPH HO2 H N N 104
CPH HME H N N 105
CPH HMEA H N N 106
CPH HMEB H N N 107
DA OP3 O N N 108
DA P P N N 109
DA OP1 O N N 110
DA OP2 O N N 111
DA "O5'" O N N 112
DA "C5'" C N N 113
DA "C4'" C N R 114
DA "O4'" O N N 115
DA "C3'" C N S 116
DA "O3'" O N N 117
DA "C2'" C N N 118
DA "C1'" C N R 119
DA N9 N Y N 120
DA C8 C Y N 121
DA N7 N Y N 122
DA C5 C Y N 123
DA C6 C Y N 124
DA N6 N N N 125
DA N1 N Y N 126
DA C2 C Y N 127
DA N3 N Y N 128
DA C4 C Y N 129
DA HOP3 H N N 130
DA HOP2 H N N 131
DA "H5'" H N N 132
DA "H5''" H N N 133
DA "H4'" H N N 134
DA "H3'" H N N 135
DA "HO3'" H N N 136
DA "H2'" H N N 137
DA "H2''" H N N 138
DA "H1'" H N N 139
DA H8 H N N 140
DA H61 H N N 141
DA H62 H N N 142
DA H2 H N N 143
DC OP3 O N N 144
DC P P N N 145
DC OP1 O N N 146
DC OP2 O N N 147
DC "O5'" O N N 148
DC "C5'" C N N 149
DC "C4'" C N R 150
DC "O4'" O N N 151
DC "C3'" C N S 152
DC "O3'" O N N 153
DC "C2'" C N N 154
DC "C1'" C N R 155
DC N1 N N N 156
DC C2 C N N 157
DC O2 O N N 158
DC N3 N N N 159
DC C4 C N N 160
DC N4 N N N 161
DC C5 C N N 162
DC C6 C N N 163
DC HOP3 H N N 164
DC HOP2 H N N 165
DC "H5'" H N N 166
DC "H5''" H N N 167
DC "H4'" H N N 168
DC "H3'" H N N 169
DC "HO3'" H N N 170
DC "H2'" H N N 171
DC "H2''" H N N 172
DC "H1'" H N N 173
DC H41 H N N 174
DC H42 H N N 175
DC H5 H N N 176
DC H6 H N N 177
DDA C1 C N R 178
DDA C2 C N N 179
DDA C3 C N R 180
DDA C4 C N S 181
DDA C5 C N R 182
DDA C6 C N N 183
DDA O5 O N N 184
DDA O1 O N N 185
DDA O3 O N N 186
DDA O4 O N N 187
DDA H1 H N N 188
DDA H21 H N N 189
DDA H22 H N N 190
DDA H3 H N N 191
DDA H4 H N N 192
DDA H5 H N N 193
DDA H61 H N N 194
DDA H62 H N N 195
DDA H63 H N N 196
DDA HO1 H N N 197
DDA HO3 H N N 198
DDA HO4 H N N 199
DG OP3 O N N 200
DG P P N N 201
DG OP1 O N N 202
DG OP2 O N N 203
DG "O5'" O N N 204
DG "C5'" C N N 205
DG "C4'" C N R 206
DG "O4'" O N N 207
DG "C3'" C N S 208
DG "O3'" O N N 209
DG "C2'" C N N 210
DG "C1'" C N R 211
DG N9 N Y N 212
DG C8 C Y N 213
DG N7 N Y N 214
DG C5 C Y N 215
DG C6 C N N 216
DG O6 O N N 217
DG N1 N N N 218
DG C2 C N N 219
DG N2 N N N 220
DG N3 N N N 221
DG C4 C Y N 222
DG HOP3 H N N 223
DG HOP2 H N N 224
DG "H5'" H N N 225
DG "H5''" H N N 226
DG "H4'" H N N 227
DG "H3'" H N N 228
DG "HO3'" H N N 229
DG "H2'" H N N 230
DG "H2''" H N N 231
DG "H1'" H N N 232
DG H8 H N N 233
DG H1 H N N 234
DG H21 H N N 235
DG H22 H N N 236
DT OP3 O N N 237
DT P P N N 238
DT OP1 O N N 239
DT OP2 O N N 240
DT "O5'" O N N 241
DT "C5'" C N N 242
DT "C4'" C N R 243
DT "O4'" O N N 244
DT "C3'" C N S 245
DT "O3'" O N N 246
DT "C2'" C N N 247
DT "C1'" C N R 248
DT N1 N N N 249
DT C2 C N N 250
DT O2 O N N 251
DT N3 N N N 252
DT C4 C N N 253
DT O4 O N N 254
DT C5 C N N 255
DT C7 C N N 256
DT C6 C N N 257
DT HOP3 H N N 258
DT HOP2 H N N 259
DT "H5'" H N N 260
DT "H5''" H N N 261
DT "H4'" H N N 262
DT "H3'" H N N 263
DT "HO3'" H N N 264
DT "H2'" H N N 265
DT "H2''" H N N 266
DT "H1'" H N N 267
DT H3 H N N 268
DT H71 H N N 269
DT H72 H N N 270
DT H73 H N N 271
DT H6 H N N 272
ERI O1 O N N 273
ERI C1 C N R 274
ERI C2 C N N 275
ERI C3 C N S 276
ERI O3 O N N 277
ERI CC3 C N N 278
ERI C4 C N S 279
ERI O4 O N N 280
ERI CME C N N 281
ERI CO4 C N N 282
ERI OC4 O N N 283
ERI C5 C N S 284
ERI O5 O N N 285
ERI C6 C N N 286
ERI HO1 H N N 287
ERI H1 H N N 288
ERI H21 H N N 289
ERI H22 H N N 290
ERI HO3 H N N 291
ERI H31 H N N 292
ERI H32 H N N 293
ERI H33 H N N 294
ERI H4 H N N 295
ERI H41 H N N 296
ERI H42 H N N 297
ERI H43 H N N 298
ERI H5 H N N 299
ERI H61 H N N 300
ERI H62 H N N 301
ERI H63 H N N 302
HOH O O N N 303
HOH H1 H N N 304
HOH H2 H N N 305
#
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
1GL O1 C1 sing N N 1
1GL O1 HO1 sing N N 2
1GL C1 C2 sing N N 3
1GL C1 O5 sing N N 4
1GL C1 H1 sing N N 5
1GL C2 C3 sing N N 6
1GL C2 H2 sing N N 7
1GL C2 H22 sing N N 8
1GL C3 O3 sing N N 9
1GL C3 C4 sing N N 10
1GL C3 H3 sing N N 11
1GL O3 HO3 sing N N 12
1GL C4 O4 sing N N 13
1GL C4 C5 sing N N 14
1GL C4 H4 sing N N 15
1GL O4 CME sing N N 16
1GL CME HM41 sing N N 17
1GL CME HM42 sing N N 18
1GL CME HM43 sing N N 19
1GL C5 O5 sing N N 20
1GL C5 C6 sing N N 21
1GL C5 H5 sing N N 22
1GL C6 H61 sing N N 23
1GL C6 H62 sing N N 24
1GL C6 H63 sing N N 25
2GL O5 C1 sing N N 26
2GL O1 HO1 sing N N 27
2GL C1 C2 sing N N 28
2GL C1 O1 sing N N 29
2GL C1 H1 sing N N 30
2GL C2 C3 sing N N 31
2GL C2 H2 sing N N 32
2GL C2 H22 sing N N 33
2GL C3 O3 sing N N 34
2GL C3 C4 sing N N 35
2GL C3 H3 sing N N 36
2GL O3 HO3 sing N N 37
2GL C4 O4 sing N N 38
2GL C4 C5 sing N N 39
2GL C4 H4 sing N N 40
2GL O4 CO4 sing N N 41
2GL CME CO4 sing N N 42
2GL CME HM41 sing N N 43
2GL CME HM42 sing N N 44
2GL CME HM43 sing N N 45
2GL CO4 OC4 doub N N 46
2GL C5 O5 sing N N 47
2GL C5 C6 sing N N 48
2GL C5 H5 sing N N 49
2GL C6 H61 sing N N 50
2GL C6 H62 sing N N 51
2GL C6 H63 sing N N 52
CPH O1 C1 doub N N 53
CPH C9A C1 sing N N 54
CPH C1 C2 sing N N 55
CPH C2 O2 sing N N 56
CPH C2 C3 sing N N 57
CPH C2 H2 sing N N 58
CPH C3 C4 sing N N 59
CPH C3 "C1'" sing N N 60
CPH C3 H3 sing N N 61
CPH C4A C4 sing N N 62
CPH C4 H4 sing N N 63
CPH C4 H4A sing N N 64
CPH C6 C5 doub Y N 65
CPH C5 C5A sing Y N 66
CPH C5 H5 sing N N 67
CPH C7 C6 sing Y N 68
CPH O6 C6 sing N N 69
CPH CC7 C7 sing N N 70
CPH C7 C8 doub Y N 71
CPH O8 C8 sing N N 72
CPH C8 C8A sing Y N 73
CPH O8 HO8 sing N N 74
CPH O9 C9 sing N N 75
CPH C8A C9 doub Y N 76
CPH C9 C9A sing Y N 77
CPH O9 HO9 sing N N 78
CPH "C2'" "C1'" sing N N 79
CPH "C1'" "O1'" sing N N 80
CPH "C1'" "H1'" sing N N 81
CPH "O1'" CME sing N N 82
CPH C5A C10 doub Y N 83
CPH C10 C4A sing Y N 84
CPH C10 H10 sing N N 85
CPH "O2'" "C2'" doub N N 86
CPH "C2'" "C3'" sing N N 87
CPH "O3'" "C3'" sing N N 88
CPH "C3'" "C4'" sing N N 89
CPH "C3'" "H3'" sing N N 90
CPH "O3'" "HO3'" sing N N 91
CPH "O4'" "C4'" sing N N 92
CPH "C4'" "C5'" sing N N 93
CPH "C4'" "H4'" sing N N 94
CPH "O4'" "HO4'" sing N N 95
CPH C9A C4A doub Y N 96
CPH "C5'" "H5'" sing N N 97
CPH "C5'" "H5'A" sing N N 98
CPH "C5'" "H5'B" sing N N 99
CPH C8A C5A sing Y N 100
CPH CC7 HC7 sing N N 101
CPH CC7 HC7A sing N N 102
CPH CC7 HC7B sing N N 103
CPH O6 HO6 sing N N 104
CPH O2 HO2 sing N N 105
CPH CME HME sing N N 106
CPH CME HMEA sing N N 107
CPH CME HMEB sing N N 108
DA OP3 P sing N N 109
DA OP3 HOP3 sing N N 110
DA P OP1 doub N N 111
DA P OP2 sing N N 112
DA P "O5'" sing N N 113
DA OP2 HOP2 sing N N 114
DA "O5'" "C5'" sing N N 115
DA "C5'" "C4'" sing N N 116
DA "C5'" "H5'" sing N N 117
DA "C5'" "H5''" sing N N 118
DA "C4'" "O4'" sing N N 119
DA "C4'" "C3'" sing N N 120
DA "C4'" "H4'" sing N N 121
DA "O4'" "C1'" sing N N 122
DA "C3'" "O3'" sing N N 123
DA "C3'" "C2'" sing N N 124
DA "C3'" "H3'" sing N N 125
DA "O3'" "HO3'" sing N N 126
DA "C2'" "C1'" sing N N 127
DA "C2'" "H2'" sing N N 128
DA "C2'" "H2''" sing N N 129
DA "C1'" N9 sing N N 130
DA "C1'" "H1'" sing N N 131
DA N9 C8 sing Y N 132
DA N9 C4 sing Y N 133
DA C8 N7 doub Y N 134
DA C8 H8 sing N N 135
DA N7 C5 sing Y N 136
DA C5 C6 sing Y N 137
DA C5 C4 doub Y N 138
DA C6 N6 sing N N 139
DA C6 N1 doub Y N 140
DA N6 H61 sing N N 141
DA N6 H62 sing N N 142
DA N1 C2 sing Y N 143
DA C2 N3 doub Y N 144
DA C2 H2 sing N N 145
DA N3 C4 sing Y N 146
DC OP3 P sing N N 147
DC OP3 HOP3 sing N N 148
DC P OP1 doub N N 149
DC P OP2 sing N N 150
DC P "O5'" sing N N 151
DC OP2 HOP2 sing N N 152
DC "O5'" "C5'" sing N N 153
DC "C5'" "C4'" sing N N 154
DC "C5'" "H5'" sing N N 155
DC "C5'" "H5''" sing N N 156
DC "C4'" "O4'" sing N N 157
DC "C4'" "C3'" sing N N 158
DC "C4'" "H4'" sing N N 159
DC "O4'" "C1'" sing N N 160
DC "C3'" "O3'" sing N N 161
DC "C3'" "C2'" sing N N 162
DC "C3'" "H3'" sing N N 163
DC "O3'" "HO3'" sing N N 164
DC "C2'" "C1'" sing N N 165
DC "C2'" "H2'" sing N N 166
DC "C2'" "H2''" sing N N 167
DC "C1'" N1 sing N N 168
DC "C1'" "H1'" sing N N 169
DC N1 C2 sing N N 170
DC N1 C6 sing N N 171
DC C2 O2 doub N N 172
DC C2 N3 sing N N 173
DC N3 C4 doub N N 174
DC C4 N4 sing N N 175
DC C4 C5 sing N N 176
DC N4 H41 sing N N 177
DC N4 H42 sing N N 178
DC C5 C6 doub N N 179
DC C5 H5 sing N N 180
DC C6 H6 sing N N 181
DDA C1 C2 sing N N 182
DDA C1 O5 sing N N 183
DDA C1 O1 sing N N 184
DDA C1 H1 sing N N 185
DDA C2 C3 sing N N 186
DDA C2 H21 sing N N 187
DDA C2 H22 sing N N 188
DDA C3 C4 sing N N 189
DDA C3 O3 sing N N 190
DDA C3 H3 sing N N 191
DDA C4 C5 sing N N 192
DDA C4 O4 sing N N 193
DDA C4 H4 sing N N 194
DDA C5 C6 sing N N 195
DDA C5 O5 sing N N 196
DDA C5 H5 sing N N 197
DDA C6 H61 sing N N 198
DDA C6 H62 sing N N 199
DDA C6 H63 sing N N 200
DDA O1 HO1 sing N N 201
DDA O3 HO3 sing N N 202
DDA O4 HO4 sing N N 203
DG OP3 P sing N N 204
DG OP3 HOP3 sing N N 205
DG P OP1 doub N N 206
DG P OP2 sing N N 207
DG P "O5'" sing N N 208
DG OP2 HOP2 sing N N 209
DG "O5'" "C5'" sing N N 210
DG "C5'" "C4'" sing N N 211
DG "C5'" "H5'" sing N N 212
DG "C5'" "H5''" sing N N 213
DG "C4'" "O4'" sing N N 214
DG "C4'" "C3'" sing N N 215
DG "C4'" "H4'" sing N N 216
DG "O4'" "C1'" sing N N 217
DG "C3'" "O3'" sing N N 218
DG "C3'" "C2'" sing N N 219
DG "C3'" "H3'" sing N N 220
DG "O3'" "HO3'" sing N N 221
DG "C2'" "C1'" sing N N 222
DG "C2'" "H2'" sing N N 223
DG "C2'" "H2''" sing N N 224
DG "C1'" N9 sing N N 225
DG "C1'" "H1'" sing N N 226
DG N9 C8 sing Y N 227
DG N9 C4 sing Y N 228
DG C8 N7 doub Y N 229
DG C8 H8 sing N N 230
DG N7 C5 sing Y N 231
DG C5 C6 sing N N 232
DG C5 C4 doub Y N 233
DG C6 O6 doub N N 234
DG C6 N1 sing N N 235
DG N1 C2 sing N N 236
DG N1 H1 sing N N 237
DG C2 N2 sing N N 238
DG C2 N3 doub N N 239
DG N2 H21 sing N N 240
DG N2 H22 sing N N 241
DG N3 C4 sing N N 242
DT OP3 P sing N N 243
DT OP3 HOP3 sing N N 244
DT P OP1 doub N N 245
DT P OP2 sing N N 246
DT P "O5'" sing N N 247
DT OP2 HOP2 sing N N 248
DT "O5'" "C5'" sing N N 249
DT "C5'" "C4'" sing N N 250
DT "C5'" "H5'" sing N N 251
DT "C5'" "H5''" sing N N 252
DT "C4'" "O4'" sing N N 253
DT "C4'" "C3'" sing N N 254
DT "C4'" "H4'" sing N N 255
DT "O4'" "C1'" sing N N 256
DT "C3'" "O3'" sing N N 257
DT "C3'" "C2'" sing N N 258
DT "C3'" "H3'" sing N N 259
DT "O3'" "HO3'" sing N N 260
DT "C2'" "C1'" sing N N 261
DT "C2'" "H2'" sing N N 262
DT "C2'" "H2''" sing N N 263
DT "C1'" N1 sing N N 264
DT "C1'" "H1'" sing N N 265
DT N1 C2 sing N N 266
DT N1 C6 sing N N 267
DT C2 O2 doub N N 268
DT C2 N3 sing N N 269
DT N3 C4 sing N N 270
DT N3 H3 sing N N 271
DT C4 O4 doub N N 272
DT C4 C5 sing N N 273
DT C5 C7 sing N N 274
DT C5 C6 doub N N 275
DT C7 H71 sing N N 276
DT C7 H72 sing N N 277
DT C7 H73 sing N N 278
DT C6 H6 sing N N 279
ERI O1 C1 sing N N 280
ERI O1 HO1 sing N N 281
ERI C1 C2 sing N N 282
ERI C1 O5 sing N N 283
ERI C1 H1 sing N N 284
ERI C2 C3 sing N N 285
ERI C2 H21 sing N N 286
ERI C2 H22 sing N N 287
ERI C3 O3 sing N N 288
ERI C3 CC3 sing N N 289
ERI C3 C4 sing N N 290
ERI O3 HO3 sing N N 291
ERI CC3 H31 sing N N 292
ERI CC3 H32 sing N N 293
ERI CC3 H33 sing N N 294
ERI C4 O4 sing N N 295
ERI C4 C5 sing N N 296
ERI C4 H4 sing N N 297
ERI O4 CO4 sing N N 298
ERI CME CO4 sing N N 299
ERI CME H41 sing N N 300
ERI CME H42 sing N N 301
ERI CME H43 sing N N 302
ERI CO4 OC4 doub N N 303
ERI C5 O5 sing N N 304
ERI C5 C6 sing N N 305
ERI C5 H5 sing N N 306
ERI C6 H61 sing N N 307
ERI C6 H62 sing N N 308
ERI C6 H63 sing N N 309
HOH O H1 sing N N 310
HOH O H2 sing N N 311
#
loop_
_ndb_struct_conf_na.entry_id
_ndb_struct_conf_na.feature
5XJW 'double helix'
5XJW 'a-form double helix'
5XJW '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 DT 1 1_555 B DA 13 1_555 -1.770 3.538 0.595 -17.742 13.694 -79.982 1 A_DT1:DA26_B A 1 ? B 26 ? 23 3
1 A DT 2 1_555 B DA 12 1_555 -0.983 0.107 -0.063 0.832 -6.029 -6.684 2 A_DT2:DA25_B A 2 ? B 25 ? 20 1
1 A DC 4 1_555 B DG 11 1_555 -0.077 -0.179 -0.049 9.232 -18.757 -1.315 3 A_DC4:DG24_B A 4 ? B 24 ? 19 1
1 A DG 5 1_555 B DC 10 1_555 0.084 -0.178 -0.171 2.144 -11.589 -1.548 4 A_DG5:DC23_B A 5 ? B 23 ? 19 1
1 A DG 8 1_555 B DC 9 1_555 -0.255 -0.146 0.188 1.030 -10.026 0.572 5 A_DG8:DC22_B A 8 ? B 22 ? 19 1
1 A DC 9 1_555 B DG 8 1_555 0.262 -0.167 0.244 -1.789 -7.019 0.653 6 A_DC9:DG21_B A 9 ? B 21 ? 19 1
1 A DC 10 1_555 B DG 5 1_555 0.010 -0.177 -0.026 -1.091 -12.986 -0.764 7 A_DC10:DG18_B A 10 ? B 18 ? 19 1
1 A DG 11 1_555 B DC 4 1_555 0.033 -0.006 0.029 -6.898 -19.797 2.988 8 A_DG11:DC17_B A 11 ? B 17 ? 19 1
1 A DA 12 1_555 B DT 2 1_555 0.882 -0.173 -0.257 -5.654 -4.558 -5.340 9 A_DA12:DT15_B A 12 ? B 15 ? 20 1
1 A DA 13 1_555 B DT 1 1_555 1.889 -3.479 0.268 6.978 -5.229 81.647 10 A_DA13:DT14_B A 13 ? B 14 ? ? ?
#
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 DT 1 1_555 B DA 13 1_555 A DT 2 1_555 B DA 12 1_555 -0.715 2.900 3.187 1.102 -1.237 -12.889 -11.408 -1.907 3.497 5.479
4.883 -12.994 1 AA_DT1DT2:DA25DA26_BB A 1 ? B 26 ? A 2 ? B 25 ?
1 A DT 2 1_555 B DA 12 1_555 A DC 4 1_555 B DG 11 1_555 0.283 0.401 3.167 2.274 -3.151 39.032 0.961 -0.159 3.138 -4.701
-3.393 39.218 2 AA_DT2DC4:DG24DA25_BB A 2 ? B 25 ? A 4 ? B 24 ?
1 A DC 4 1_555 B DG 11 1_555 A DG 5 1_555 B DC 10 1_555 0.683 0.126 3.619 1.976 8.096 38.232 -0.899 -0.755 3.600 12.184
-2.975 39.097 3 AA_DC4DG5:DC23DG24_BB A 4 ? B 24 ? A 5 ? B 23 ?
1 A DG 5 1_555 B DC 10 1_555 A DG 8 1_555 B DC 9 1_555 2.104 -1.989 3.259 -2.801 10.851 18.967 -8.534 -6.369 1.577 29.796
7.690 22.004 4 AA_DG5DG8:DC22DC23_BB A 5 ? B 23 ? A 8 ? B 22 ?
1 A DG 8 1_555 B DC 9 1_555 A DC 9 1_555 B DG 8 1_555 -0.089 -2.304 3.368 -0.962 -3.399 35.217 -3.258 -0.003 3.568 -5.601
1.586 35.388 5 AA_DG8DC9:DG21DC22_BB A 8 ? B 22 ? A 9 ? B 21 ?
1 A DC 9 1_555 B DG 8 1_555 A DC 10 1_555 B DG 5 1_555 -1.948 -2.028 3.228 2.806 8.941 19.035 -8.520 6.239 1.799 25.157
-7.895 21.197 6 AA_DC9DC10:DG18DG21_BB A 9 ? B 21 ? A 10 ? B 18 ?
1 A DC 10 1_555 B DG 5 1_555 A DG 11 1_555 B DC 4 1_555 -0.638 0.200 3.602 -0.765 6.304 37.526 -0.581 0.872 3.600 9.714
1.179 38.040 7 AA_DC10DG11:DC17DG18_BB A 10 ? B 18 ? A 11 ? B 17 ?
1 A DG 11 1_555 B DC 4 1_555 A DA 12 1_555 B DT 2 1_555 -0.406 0.413 3.362 1.401 -3.438 38.053 1.073 0.800 3.298 -5.257
-2.142 38.227 8 AA_DG11DA12:DT15DC17_BB A 11 ? B 17 ? A 12 ? B 15 ?
1 A DA 12 1_555 B DT 2 1_555 A DA 13 1_555 B DT 1 1_555 2.932 -3.449 0.780 -175.611 15.573 123.890 -1.724 -1.460 -0.828 7.806
88.022 178.260 9 AA_DA12DA13:DT14DT15_BB A 12 ? B 15 ? A 13 ? B 14 ?
#
loop_
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_mon_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.hetero
C 2 DDA 1 C DDA 1 C CDR 57 n
C 2 DDA 2 C DDA 2 C CDR 58 n
C 2 ERI 3 C ERI 3 C ERI 59 n
D 3 2GL 1 D 2GL 1 C ARI 61 n
D 3 1GL 2 D 1GL 2 C 1GL 60 n
E 3 2GL 1 E 2GL 1 C ARI 55 n
E 3 1GL 2 E 1GL 2 C 1GL 54 n
F 2 DDA 1 F DDA 1 C CDR 63 n
F 2 DDA 2 F DDA 2 C CDR 64 n
F 2 ERI 3 F ERI 3 C ERI 65 n
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
1GL 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 a-D-2-deoxy-Fucp4OMe
DDA 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DOlib
DDA 'COMMON NAME' GMML 1.0 b-D-Olivopyranose
DDA 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-2,6-deoxy-Glcp
DDA 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 Oli
#
loop_
_pdbx_entity_branch.entity_id
_pdbx_entity_branch.type
2 oligosaccharide
3 oligosaccharide
#
loop_
_pdbx_entity_branch_descriptor.ordinal
_pdbx_entity_branch_descriptor.entity_id
_pdbx_entity_branch_descriptor.descriptor
_pdbx_entity_branch_descriptor.type
_pdbx_entity_branch_descriptor.program
_pdbx_entity_branch_descriptor.program_version
1 2 'WURCS=2.0/2,3,2/[ad122m-1b_1-5][ad611m-1a_1-5_3*C_4*OCC/3=O]/1-1-2/a3-b1_b3-c1' WURCS PDB2Glycan 1.1.0
2 2 '[][b-D-2,6-deoxy-Glcp]{[(3+1)][b-D-2,6-deoxy-Glcp]{[(3+1)][a-L-2,6-deoxy-Glcp4Ac]{}}}' LINUCS PDB-CARE ?
3 3 'WURCS=2.0/2,2,1/[ad112m-1b_1-5_4*OCC/3=O][ad112m-1a_1-5_4*OC]/1-2/a3-b1' WURCS PDB2Glycan 1.1.0
4 3 '[][b-D-2-deoxy-Fucp4Ac]{[(3+1)][a-D-2-deoxy-Fucp4Me]{}}' LINUCS PDB-CARE ?
#
loop_
_pdbx_entity_branch_link.link_id
_pdbx_entity_branch_link.entity_id
_pdbx_entity_branch_link.entity_branch_list_num_1
_pdbx_entity_branch_link.comp_id_1
_pdbx_entity_branch_link.atom_id_1
_pdbx_entity_branch_link.leaving_atom_id_1
_pdbx_entity_branch_link.entity_branch_list_num_2
_pdbx_entity_branch_link.comp_id_2
_pdbx_entity_branch_link.atom_id_2
_pdbx_entity_branch_link.leaving_atom_id_2
_pdbx_entity_branch_link.value_order
_pdbx_entity_branch_link.details
1 2 2 DDA C1 O1 1 DDA O3 HO3 sing ?
2 2 3 ERI C1 O1 2 DDA O3 HO3 sing ?
3 3 2 1GL C1 O1 1 2GL O3 HO3 sing ?
#
loop_
_pdbx_entity_branch_list.entity_id
_pdbx_entity_branch_list.comp_id
_pdbx_entity_branch_list.num
_pdbx_entity_branch_list.hetero
2 DDA 1 n
2 DDA 2 n
2 ERI 3 n
3 2GL 1 n
3 1GL 2 n
#
loop_
_pdbx_entity_nonpoly.entity_id
_pdbx_entity_nonpoly.name
_pdbx_entity_nonpoly.comp_id
4 '(1S)-5-deoxy-1-O-methyl-1-C-[(2R,3S)-3,5,7,10-tetrahydroxy-6-methyl-4-oxo-1,2,3,4-tetrahydroanthracen-2-yl]-D-xylulose' CPH
5 'COBALT (II) ION' CO
6 water HOH
#
_pdbx_initial_refinement_model.id 1
_pdbx_initial_refinement_model.entity_id_list ?
_pdbx_initial_refinement_model.type 'experimental model'
_pdbx_initial_refinement_model.source_name PDB
_pdbx_initial_refinement_model.accession_code 5XEW
_pdbx_initial_refinement_model.details ?
#
_pdbx_struct_assembly_auth_evidence.id 1
_pdbx_struct_assembly_auth_evidence.assembly_id 1
_pdbx_struct_assembly_auth_evidence.experimental_support none
_pdbx_struct_assembly_auth_evidence.details ?
#