data_1KYC # _entry.id 1KYC # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.376 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 1KYC pdb_00001kyc 10.2210/pdb1kyc/pdb RCSB RCSB015463 ? ? WWPDB D_1000015463 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1HQJ _pdbx_database_related.details ;CRYSTAL STRUCTURE OF A DE NOVO DESIGNED TRIMERIC COILED- COIL PEPTIDE ; _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1KYC _pdbx_database_status.recvd_initial_deposition_date 2002-02-04 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry . _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Burkhard, P.' 1 'Ivaninskii, S.' 2 'Lustig, A.' 3 # loop_ _citation.id _citation.title _citation.journal_abbrev _citation.journal_volume _citation.page_first _citation.page_last _citation.year _citation.journal_id_ASTM _citation.country _citation.journal_id_ISSN _citation.journal_id_CSD _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Improving coiled-coil stability by optimizing ionic interactions.' J.Mol.Biol. 318 901 910 2002 JMOBAK UK 0022-2836 0070 ? 12054832 '10.1016/S0022-2836(02)00114-6' 1 ;Design of a Minimal Protein Oligomerization Domain by a Structural Approach ; 'Protein Sci.' 9 2294 2301 2000 PRCIEI US 0961-8368 0795 ? ? ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Burkhard, P.' 1 ? primary 'Ivaninskii, S.' 2 ? primary 'Lustig, A.' 3 ? 1 'Burkhard, P.' 4 ? 1 'Meier, M.' 5 ? 1 'Lustig, A.' 6 ? # _cell.entry_id 1KYC _cell.length_a 33.386 _cell.length_b 33.386 _cell.length_c 65.691 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KYC _symmetry.space_group_name_H-M 'H 3 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 # 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 SIN-GLU-GLU-LEU-ARG-ARG-ARG-ILE-GLU-GLU-LEU-GLU-ARG-ARG-ILE-ARG-NH2 2057.386 1 ? ? ? ? 2 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 3 non-polymer syn 'SUCCINIC ACID' 118.088 1 ? ? ? ? 4 water nat water 18.015 23 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'EELRRRIEELERRIR(NH2)' _entity_poly.pdbx_seq_one_letter_code_can EELRRRIEELERRIRX _entity_poly.pdbx_strand_id A _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 GLU n 1 2 GLU n 1 3 LEU n 1 4 ARG n 1 5 ARG n 1 6 ARG n 1 7 ILE n 1 8 GLU n 1 9 GLU n 1 10 LEU n 1 11 GLU n 1 12 ARG n 1 13 ARG n 1 14 ILE n 1 15 ARG n 1 16 NH2 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 16 _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 'This peptide was chemically synthesized.' # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 1KYC _struct_ref.pdbx_db_accession 1KYC _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1KYC _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 16 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 1KYC _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 16 _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 16 # 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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 SIN non-polymer . 'SUCCINIC ACID' ? 'C4 H6 O4' 118.088 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 # _exptl.entry_id 1KYC _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.71 _exptl_crystal.density_percent_sol 28.17 _exptl_crystal.description ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pdbx_details 'ammonium sulfate, HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 2001-01-05 _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 GRAPHITE _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'ELLIOTT GX-21' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 # _reflns.entry_id 1KYC _reflns.observed_criterion_sigma_I -3 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 30.000 _reflns.d_resolution_high 1.450 _reflns.number_obs 2574 _reflns.number_all ? _reflns.percent_possible_obs 96.2 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.5400000 _reflns.pdbx_netI_over_sigmaI 20.0 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 10 _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_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.45 _reflns_shell.d_res_low 1.5 _reflns_shell.percent_possible_all 72.1 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.1310000 _reflns_shell.meanI_over_sigI_obs 7.0 _reflns_shell.pdbx_redundancy 2.3 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 1KYC _refine.ls_number_reflns_obs 2574 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_d_res_low 30.00 _refine.ls_d_res_high 1.45 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs ? _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1660000 _refine.ls_R_factor_R_free 0.2170000 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.000 _refine.ls_number_reflns_R_free ? _refine.ls_number_parameters 1680 _refine.ls_number_restraints 2133 _refine.occupancy_min ? _refine.occupancy_max ? _refine.B_iso_mean ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details ? _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model 'PDB ENTRY 1HQJ' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 1KYC _refine_analyze.Luzzati_coordinate_error_obs ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues 1 _refine_analyze.occupancy_sum_hydrogen 1384.00 _refine_analyze.occupancy_sum_non_hydrogen 1815.00 _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 138 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 17 _refine_hist.number_atoms_solvent 23 _refine_hist.number_atoms_total 178 _refine_hist.d_res_high 1.45 _refine_hist.d_res_low 30.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function s_bond_d 0.007 ? ? ? 'X-RAY DIFFRACTION' ? s_angle_d 1.4 ? ? ? 'X-RAY DIFFRACTION' ? # _pdbx_refine.entry_id 1KYC _pdbx_refine.R_factor_all_no_cutoff 0.1700000 _pdbx_refine.R_factor_obs_no_cutoff ? _pdbx_refine.free_R_factor_no_cutoff 0.2230000 _pdbx_refine.free_R_val_test_set_size_perc_no_cutoff 5.000 _pdbx_refine.free_R_val_test_set_ct_no_cutoff ? _pdbx_refine.R_factor_all_4sig_cutoff 0.1660000 _pdbx_refine.R_factor_obs_4sig_cutoff ? _pdbx_refine.free_R_factor_4sig_cutoff 0.2180000 _pdbx_refine.free_R_val_test_set_size_perc_4sig_cutoff ? _pdbx_refine.free_R_val_test_set_ct_4sig_cutoff 5 _pdbx_refine.number_reflns_obs_4sig_cutoff 3493 _pdbx_refine.number_reflns_obs_no_cutoff ? _pdbx_refine.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine.free_R_error_no_cutoff ? # _struct.entry_id 1KYC _struct.title 'CRYSTAL STRUCTURE OF A DE NOVO DESIGNED TRIMERIC COILED-COIL PEPTIDE STABLIZED BY IONIC INTERACTIONS' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1KYC _struct_keywords.pdbx_keywords 'DE NOVO PROTEIN' _struct_keywords.text 'COILED COIL, DE NOVO DESIGN, ALPHA-HELIX, TRIMER, DE NOVO PROTEIN' # 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 2 ? D N N 3 ? E N N 4 ? # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id GLU _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 1 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id ARG _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 15 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id GLU _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 1 _struct_conf.end_auth_comp_id ARG _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 15 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 15 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? D SIN . C1 ? ? ? 1_555 A GLU 1 N ? ? A SIN 0 A GLU 1 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale2 covale both ? A ARG 15 C ? ? ? 1_555 A NH2 16 N ? ? A ARG 15 A NH2 16 1_555 ? ? ? ? ? ? ? 1.254 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 SO4 101 ? 8 'BINDING SITE FOR RESIDUE SO4 A 101' AC2 Software A SO4 102 ? 8 'BINDING SITE FOR RESIDUE SO4 A 102' AC3 Software A SIN 0 ? 10 'BINDING SITE FOR RESIDUE SIN A 0' # 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 ARG A 13 ? ARG A 13 . ? 3_675 ? 2 AC1 8 ARG A 13 ? ARG A 13 . ? 16_555 ? 3 AC1 8 ARG A 15 ? ARG A 15 . ? 17_675 ? 4 AC1 8 ARG A 15 ? ARG A 15 . ? 1_555 ? 5 AC1 8 HOH E . ? HOH A 106 . ? 12_665 ? 6 AC1 8 HOH E . ? HOH A 106 . ? 8_665 ? 7 AC1 8 HOH E . ? HOH A 119 . ? 17_675 ? 8 AC1 8 HOH E . ? HOH A 119 . ? 1_555 ? 9 AC2 8 ARG A 5 ? ARG A 5 . ? 1_555 ? 10 AC2 8 ARG A 5 ? ARG A 5 . ? 11_565 ? 11 AC2 8 ARG A 6 ? ARG A 6 . ? 1_555 ? 12 AC2 8 ARG A 6 ? ARG A 6 . ? 11_565 ? 13 AC2 8 HOH E . ? HOH A 107 . ? 12_655 ? 14 AC2 8 HOH E . ? HOH A 107 . ? 2_765 ? 15 AC2 8 HOH E . ? HOH A 121 . ? 11_565 ? 16 AC2 8 HOH E . ? HOH A 121 . ? 1_555 ? 17 AC3 10 GLU A 1 ? GLU A 1 . ? 1_555 ? 18 AC3 10 GLU A 2 ? GLU A 2 . ? 1_555 ? 19 AC3 10 LEU A 3 ? LEU A 3 . ? 1_555 ? 20 AC3 10 LEU A 3 ? LEU A 3 . ? 3_675 ? 21 AC3 10 ARG A 4 ? ARG A 4 . ? 1_555 ? 22 AC3 10 HOH E . ? HOH A 109 . ? 1_555 ? 23 AC3 10 HOH E . ? HOH A 113 . ? 1_555 ? 24 AC3 10 HOH E . ? HOH A 114 . ? 1_555 ? 25 AC3 10 HOH E . ? HOH A 117 . ? 2_765 ? 26 AC3 10 HOH E . ? HOH A 123 . ? 1_555 ? # _database_PDB_matrix.entry_id 1KYC _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 1KYC _atom_sites.fract_transf_matrix[1][1] 0.029953 _atom_sites.fract_transf_matrix[1][2] 0.017293 _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] 0.034586 _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] 0.015223 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S # 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 GLU 1 1 1 GLU GLU A . n A 1 2 GLU 2 2 2 GLU GLU A . n A 1 3 LEU 3 3 3 LEU LEU A . n A 1 4 ARG 4 4 4 ARG ARG A . n A 1 5 ARG 5 5 5 ARG ARG A . n A 1 6 ARG 6 6 6 ARG ARG A . n A 1 7 ILE 7 7 7 ILE ILE A . n A 1 8 GLU 8 8 8 GLU GLU A . n A 1 9 GLU 9 9 9 GLU GLU A . n A 1 10 LEU 10 10 10 LEU LEU A . n A 1 11 GLU 11 11 11 GLU GLU A . n A 1 12 ARG 12 12 12 ARG ARG A . n A 1 13 ARG 13 13 13 ARG ARG A . n A 1 14 ILE 14 14 14 ILE ILE A . n A 1 15 ARG 15 15 15 ARG ARG A . n A 1 16 NH2 16 16 16 NH2 NH2 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 SO4 1 101 101 SO4 SO4 A . C 2 SO4 1 102 102 SO4 SO4 A . D 3 SIN 1 0 0 SIN SIN A . E 4 HOH 1 103 1 HOH HOH A . E 4 HOH 2 104 2 HOH HOH A . E 4 HOH 3 105 3 HOH HOH A . E 4 HOH 4 106 4 HOH HOH A . E 4 HOH 5 107 5 HOH HOH A . E 4 HOH 6 108 6 HOH HOH A . E 4 HOH 7 109 7 HOH HOH A . E 4 HOH 8 110 8 HOH HOH A . E 4 HOH 9 111 9 HOH HOH A . E 4 HOH 10 112 10 HOH HOH A . E 4 HOH 11 113 11 HOH HOH A . E 4 HOH 12 114 12 HOH HOH A . E 4 HOH 13 115 13 HOH HOH A . E 4 HOH 14 116 14 HOH HOH A . E 4 HOH 15 117 15 HOH HOH A . E 4 HOH 16 118 16 HOH HOH A . E 4 HOH 17 119 17 HOH HOH A . E 4 HOH 18 120 18 HOH HOH A . E 4 HOH 19 121 19 HOH HOH A . E 4 HOH 20 122 20 HOH HOH A . E 4 HOH 21 123 21 HOH HOH A . E 4 HOH 22 124 22 HOH HOH A . E 4 HOH 23 125 24 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _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' 2_765 -y+2,x-y+1,z -0.5000000000 -0.8660254038 0.0000000000 50.0790000000 0.8660254038 -0.5000000000 0.0000000000 28.9131241307 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5000000000 0.8660254038 0.0000000000 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 57.8262482615 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # _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 SO4 _pdbx_struct_special_symmetry.auth_seq_id 101 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id B _pdbx_struct_special_symmetry.label_comp_id SO4 _pdbx_struct_special_symmetry.label_seq_id . # 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 2002-08-07 2 'Structure model' 1 1 2008-04-28 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2020-06-24 5 'Structure model' 1 4 2023-08-16 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Database references' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Source and taxonomy' 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Database references' 8 5 'Structure model' 'Derived calculations' 9 5 'Structure model' 'Refinement description' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' pdbx_entity_src_syn 2 4 'Structure model' struct_conn 3 4 'Structure model' struct_ref 4 4 'Structure model' struct_ref_seq 5 5 'Structure model' chem_comp_atom 6 5 'Structure model' chem_comp_bond 7 5 'Structure model' database_2 8 5 'Structure model' pdbx_initial_refinement_model 9 5 'Structure model' struct_conn 10 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' '_pdbx_entity_src_syn.ncbi_taxonomy_id' 2 4 'Structure model' '_pdbx_entity_src_syn.organism_scientific' 3 4 'Structure model' '_pdbx_entity_src_syn.pdbx_beg_seq_num' 4 4 'Structure model' '_pdbx_entity_src_syn.pdbx_end_seq_num' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 5 'Structure model' '_database_2.pdbx_DOI' 7 5 'Structure model' '_database_2.pdbx_database_accession' 8 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 9 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 10 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 11 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 12 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 13 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 14 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 15 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 16 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 17 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 18 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 19 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 20 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 21 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 22 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal AMoRE phasing . ? 1 REFMAC refinement . ? 2 DENZO 'data reduction' . ? 3 SCALEPACK 'data scaling' . ? 4 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A ARG 5 ? CD ? A ARG 5 CD 2 1 Y 1 A ARG 5 ? NE ? A ARG 5 NE 3 1 Y 1 A ARG 5 ? CZ ? A ARG 5 CZ 4 1 Y 1 A ARG 5 ? NH1 ? A ARG 5 NH1 5 1 Y 1 A ARG 5 ? NH2 ? A ARG 5 NH2 # 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 ARG N N N N 1 ARG CA C N S 2 ARG C C N N 3 ARG O O N N 4 ARG CB C N N 5 ARG CG C N N 6 ARG CD C N N 7 ARG NE N N N 8 ARG CZ C N N 9 ARG NH1 N N N 10 ARG NH2 N N N 11 ARG OXT O N N 12 ARG H H N N 13 ARG H2 H N N 14 ARG HA H N N 15 ARG HB2 H N N 16 ARG HB3 H N N 17 ARG HG2 H N N 18 ARG HG3 H N N 19 ARG HD2 H N N 20 ARG HD3 H N N 21 ARG HE H N N 22 ARG HH11 H N N 23 ARG HH12 H N N 24 ARG HH21 H N N 25 ARG HH22 H N N 26 ARG HXT H N N 27 GLU N N N N 28 GLU CA C N S 29 GLU C C N N 30 GLU O O N N 31 GLU CB C N N 32 GLU CG C N N 33 GLU CD C N N 34 GLU OE1 O N N 35 GLU OE2 O N N 36 GLU OXT O N N 37 GLU H H N N 38 GLU H2 H N N 39 GLU HA H N N 40 GLU HB2 H N N 41 GLU HB3 H N N 42 GLU HG2 H N N 43 GLU HG3 H N N 44 GLU HE2 H N N 45 GLU HXT H N N 46 HOH O O N N 47 HOH H1 H N N 48 HOH H2 H N N 49 ILE N N N N 50 ILE CA C N S 51 ILE C C N N 52 ILE O O N N 53 ILE CB C N S 54 ILE CG1 C N N 55 ILE CG2 C N N 56 ILE CD1 C N N 57 ILE OXT O N N 58 ILE H H N N 59 ILE H2 H N N 60 ILE HA H N N 61 ILE HB H N N 62 ILE HG12 H N N 63 ILE HG13 H N N 64 ILE HG21 H N N 65 ILE HG22 H N N 66 ILE HG23 H N N 67 ILE HD11 H N N 68 ILE HD12 H N N 69 ILE HD13 H N N 70 ILE HXT H N N 71 LEU N N N N 72 LEU CA C N S 73 LEU C C N N 74 LEU O O N N 75 LEU CB C N N 76 LEU CG C N N 77 LEU CD1 C N N 78 LEU CD2 C N N 79 LEU OXT O N N 80 LEU H H N N 81 LEU H2 H N N 82 LEU HA H N N 83 LEU HB2 H N N 84 LEU HB3 H N N 85 LEU HG H N N 86 LEU HD11 H N N 87 LEU HD12 H N N 88 LEU HD13 H N N 89 LEU HD21 H N N 90 LEU HD22 H N N 91 LEU HD23 H N N 92 LEU HXT H N N 93 NH2 N N N N 94 NH2 HN1 H N N 95 NH2 HN2 H N N 96 SIN C1 C N N 97 SIN O1 O N N 98 SIN O2 O N N 99 SIN C2 C N N 100 SIN C3 C N N 101 SIN C4 C N N 102 SIN O3 O N N 103 SIN O4 O N N 104 SIN HO2 H N N 105 SIN H21 H N N 106 SIN H22 H N N 107 SIN H31 H N N 108 SIN H32 H N N 109 SIN HO4 H N N 110 SO4 S S N N 111 SO4 O1 O N N 112 SO4 O2 O N N 113 SO4 O3 O N N 114 SO4 O4 O N N 115 # 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 ARG N CA sing N N 1 ARG N H sing N N 2 ARG N H2 sing N N 3 ARG CA C sing N N 4 ARG CA CB sing N N 5 ARG CA HA sing N N 6 ARG C O doub N N 7 ARG C OXT sing N N 8 ARG CB CG sing N N 9 ARG CB HB2 sing N N 10 ARG CB HB3 sing N N 11 ARG CG CD sing N N 12 ARG CG HG2 sing N N 13 ARG CG HG3 sing N N 14 ARG CD NE sing N N 15 ARG CD HD2 sing N N 16 ARG CD HD3 sing N N 17 ARG NE CZ sing N N 18 ARG NE HE sing N N 19 ARG CZ NH1 sing N N 20 ARG CZ NH2 doub N N 21 ARG NH1 HH11 sing N N 22 ARG NH1 HH12 sing N N 23 ARG NH2 HH21 sing N N 24 ARG NH2 HH22 sing N N 25 ARG OXT HXT sing N N 26 GLU N CA sing N N 27 GLU N H sing N N 28 GLU N H2 sing N N 29 GLU CA C sing N N 30 GLU CA CB sing N N 31 GLU CA HA sing N N 32 GLU C O doub N N 33 GLU C OXT sing N N 34 GLU CB CG sing N N 35 GLU CB HB2 sing N N 36 GLU CB HB3 sing N N 37 GLU CG CD sing N N 38 GLU CG HG2 sing N N 39 GLU CG HG3 sing N N 40 GLU CD OE1 doub N N 41 GLU CD OE2 sing N N 42 GLU OE2 HE2 sing N N 43 GLU OXT HXT sing N N 44 HOH O H1 sing N N 45 HOH O H2 sing N N 46 ILE N CA sing N N 47 ILE N H sing N N 48 ILE N H2 sing N N 49 ILE CA C sing N N 50 ILE CA CB sing N N 51 ILE CA HA sing N N 52 ILE C O doub N N 53 ILE C OXT sing N N 54 ILE CB CG1 sing N N 55 ILE CB CG2 sing N N 56 ILE CB HB sing N N 57 ILE CG1 CD1 sing N N 58 ILE CG1 HG12 sing N N 59 ILE CG1 HG13 sing N N 60 ILE CG2 HG21 sing N N 61 ILE CG2 HG22 sing N N 62 ILE CG2 HG23 sing N N 63 ILE CD1 HD11 sing N N 64 ILE CD1 HD12 sing N N 65 ILE CD1 HD13 sing N N 66 ILE OXT HXT sing N N 67 LEU N CA sing N N 68 LEU N H sing N N 69 LEU N H2 sing N N 70 LEU CA C sing N N 71 LEU CA CB sing N N 72 LEU CA HA sing N N 73 LEU C O doub N N 74 LEU C OXT sing N N 75 LEU CB CG sing N N 76 LEU CB HB2 sing N N 77 LEU CB HB3 sing N N 78 LEU CG CD1 sing N N 79 LEU CG CD2 sing N N 80 LEU CG HG sing N N 81 LEU CD1 HD11 sing N N 82 LEU CD1 HD12 sing N N 83 LEU CD1 HD13 sing N N 84 LEU CD2 HD21 sing N N 85 LEU CD2 HD22 sing N N 86 LEU CD2 HD23 sing N N 87 LEU OXT HXT sing N N 88 NH2 N HN1 sing N N 89 NH2 N HN2 sing N N 90 SIN C1 O1 doub N N 91 SIN C1 O2 sing N N 92 SIN C1 C2 sing N N 93 SIN O2 HO2 sing N N 94 SIN C2 C3 sing N N 95 SIN C2 H21 sing N N 96 SIN C2 H22 sing N N 97 SIN C3 C4 sing N N 98 SIN C3 H31 sing N N 99 SIN C3 H32 sing N N 100 SIN C4 O3 doub N N 101 SIN C4 O4 sing N N 102 SIN O4 HO4 sing N N 103 SO4 S O1 doub N N 104 SO4 S O2 doub N N 105 SO4 S O3 sing N N 106 SO4 S O4 sing N N 107 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SULFATE ION' SO4 3 'SUCCINIC ACID' SIN 4 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 1HQJ _pdbx_initial_refinement_model.details 'PDB ENTRY 1HQJ' #