data_4J1A # _entry.id 4J1A # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4J1A RCSB RCSB077469 WWPDB D_1000077469 # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 4J1B _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4J1A _pdbx_database_status.recvd_initial_deposition_date 2013-02-01 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Vergara, A.' 1 'Merlino, A.' 2 # _citation.id primary _citation.title ;Interaction of Anticancer Ruthenium Compounds with Proteins: High-Resolution X-ray Structures and Raman Microscopy Studies of the Adduct between Hen Egg White Lysozyme and AziRu. ; _citation.journal_abbrev Inorg.Chem. _citation.journal_volume 52 _citation.page_first 4157 _citation.page_last 4159 _citation.year 2013 _citation.journal_id_ASTM INOCAJ _citation.country US _citation.journal_id_ISSN 0020-1669 _citation.journal_id_CSD 0009 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 23517183 _citation.pdbx_database_id_DOI 10.1021/ic4004142 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Vergara, A.' 1 primary ;D'Errico, G. ; 2 primary 'Montesarchio, D.' 3 primary 'Mangiapia, G.' 4 primary 'Paduano, L.' 5 primary 'Merlino, A.' 6 # _cell.entry_id 4J1A _cell.length_a 78.189 _cell.length_b 78.189 _cell.length_c 37.157 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 4J1A _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? # 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 nat 'Lysozyme C' 14331.160 1 3.2.1.17 ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 3 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 4 non-polymer syn 'RUTHENIUM ION' 101.070 1 ? ? ? ? 5 water nat water 18.015 145 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name '1,4-beta-N-acetylmuramidase C, Allergen Gal d IV' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL ; _entity_poly.pdbx_seq_one_letter_code_can ;KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL ; _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 LYS n 1 2 VAL n 1 3 PHE n 1 4 GLY n 1 5 ARG n 1 6 CYS n 1 7 GLU n 1 8 LEU n 1 9 ALA n 1 10 ALA n 1 11 ALA n 1 12 MET n 1 13 LYS n 1 14 ARG n 1 15 HIS n 1 16 GLY n 1 17 LEU n 1 18 ASP n 1 19 ASN n 1 20 TYR n 1 21 ARG n 1 22 GLY n 1 23 TYR n 1 24 SER n 1 25 LEU n 1 26 GLY n 1 27 ASN n 1 28 TRP n 1 29 VAL n 1 30 CYS n 1 31 ALA n 1 32 ALA n 1 33 LYS n 1 34 PHE n 1 35 GLU n 1 36 SER n 1 37 ASN n 1 38 PHE n 1 39 ASN n 1 40 THR n 1 41 GLN n 1 42 ALA n 1 43 THR n 1 44 ASN n 1 45 ARG n 1 46 ASN n 1 47 THR n 1 48 ASP n 1 49 GLY n 1 50 SER n 1 51 THR n 1 52 ASP n 1 53 TYR n 1 54 GLY n 1 55 ILE n 1 56 LEU n 1 57 GLN n 1 58 ILE n 1 59 ASN n 1 60 SER n 1 61 ARG n 1 62 TRP n 1 63 TRP n 1 64 CYS n 1 65 ASN n 1 66 ASP n 1 67 GLY n 1 68 ARG n 1 69 THR n 1 70 PRO n 1 71 GLY n 1 72 SER n 1 73 ARG n 1 74 ASN n 1 75 LEU n 1 76 CYS n 1 77 ASN n 1 78 ILE n 1 79 PRO n 1 80 CYS n 1 81 SER n 1 82 ALA n 1 83 LEU n 1 84 LEU n 1 85 SER n 1 86 SER n 1 87 ASP n 1 88 ILE n 1 89 THR n 1 90 ALA n 1 91 SER n 1 92 VAL n 1 93 ASN n 1 94 CYS n 1 95 ALA n 1 96 LYS n 1 97 LYS n 1 98 ILE n 1 99 VAL n 1 100 SER n 1 101 ASP n 1 102 GLY n 1 103 ASN n 1 104 GLY n 1 105 MET n 1 106 ASN n 1 107 ALA n 1 108 TRP n 1 109 VAL n 1 110 ALA n 1 111 TRP n 1 112 ARG n 1 113 ASN n 1 114 ARG n 1 115 CYS n 1 116 LYS n 1 117 GLY n 1 118 THR n 1 119 ASP n 1 120 VAL n 1 121 GLN n 1 122 ALA n 1 123 TRP n 1 124 ILE n 1 125 ARG n 1 126 GLY n 1 127 CYS n 1 128 ARG n 1 129 LEU n # _entity_src_nat.entity_id 1 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _entity_src_nat.pdbx_beg_seq_num ? _entity_src_nat.pdbx_end_seq_num ? _entity_src_nat.common_name bantam,chickens _entity_src_nat.pdbx_organism_scientific 'Gallus gallus' _entity_src_nat.pdbx_ncbi_taxonomy_id 9031 _entity_src_nat.genus ? _entity_src_nat.species ? _entity_src_nat.strain ? _entity_src_nat.tissue ? _entity_src_nat.tissue_fraction ? _entity_src_nat.pdbx_secretion ? _entity_src_nat.pdbx_fragment ? _entity_src_nat.pdbx_variant ? _entity_src_nat.pdbx_cell_line ? _entity_src_nat.pdbx_atcc ? _entity_src_nat.pdbx_cellular_location ? _entity_src_nat.pdbx_organ ? _entity_src_nat.pdbx_organelle ? _entity_src_nat.pdbx_cell ? _entity_src_nat.pdbx_plasmid_name ? _entity_src_nat.pdbx_plasmid_details ? _entity_src_nat.details ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code LYSC_CHICK _struct_ref.pdbx_db_accession P00698 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPC SALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL ; _struct_ref.pdbx_align_begin 19 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4J1A _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 129 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P00698 _struct_ref_seq.db_align_beg 19 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 147 _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 129 # 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 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 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 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 RU non-polymer . 'RUTHENIUM ION' ? 'Ru 3' 101.070 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 4J1A _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.98 _exptl_crystal.density_percent_sol 37.92 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _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 4.5 _exptl_crystal_grow.pdbx_details ;1.0-1.4 M NaCl, 0.050 M acetate. Crystals soaked in a saturated solution of AziRu containing 2.4 M NaCl in the same buffer. After a few hours, crystals changed their colour to yellow and then green. In a few days they turned to black., pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'RIGAKU SATURN 944' _diffrn_detector.pdbx_collection_date ? _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 ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type 'RIGAKU MICROMAX-007 HF' _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 # _reflns.entry_id 4J1A _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 50 _reflns.d_resolution_high 1.79 _reflns.number_obs 11171 _reflns.number_all ? _reflns.percent_possible_obs 98.2 _reflns.pdbx_Rmerge_I_obs 0.077 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate 18.2 _reflns.pdbx_redundancy 7.0 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _refine.entry_id 4J1A _refine.ls_number_reflns_obs 10801 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.0 _refine.pdbx_data_cutoff_high_absF 427581.20 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 30.84 _refine.ls_d_res_high 1.79 _refine.ls_percent_reflns_obs 95.1 _refine.ls_R_factor_obs 0.182 _refine.ls_R_factor_R_work 0.182 _refine.ls_R_factor_R_free 0.237 _refine.ls_R_factor_R_free_error 0.010 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.2 _refine.ls_number_reflns_R_free 560 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 21.7 _refine.aniso_B[1][1] 1.16 _refine.aniso_B[2][2] 1.16 _refine.aniso_B[3][3] -2.31 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.36 _refine.solvent_model_param_bsol 57.4121 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'BULK SOLVENT MODEL USED' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'FOURIER SYNTHESIS' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.ls_R_factor_all ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 4J1A _refine_analyze.Luzzati_coordinate_error_obs 0.17 _refine_analyze.Luzzati_sigma_a_obs -0.04 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.25 _refine_analyze.Luzzati_sigma_a_free 0.07 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_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 1001 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 145 _refine_hist.number_atoms_total 1151 _refine_hist.d_res_high 1.79 _refine_hist.d_res_low 30.84 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id c_bond_d 0.023 ? ? ? ? 'X-RAY DIFFRACTION' c_bond_d_na ? ? ? ? ? 'X-RAY DIFFRACTION' c_bond_d_prot ? ? ? ? ? 'X-RAY DIFFRACTION' c_angle_d ? ? ? ? ? 'X-RAY DIFFRACTION' c_angle_d_na ? ? ? ? ? 'X-RAY DIFFRACTION' c_angle_d_prot ? ? ? ? ? 'X-RAY DIFFRACTION' c_angle_deg 2.2 ? ? ? ? 'X-RAY DIFFRACTION' c_angle_deg_na ? ? ? ? ? 'X-RAY DIFFRACTION' c_angle_deg_prot ? ? ? ? ? 'X-RAY DIFFRACTION' c_dihedral_angle_d 23.0 ? ? ? ? 'X-RAY DIFFRACTION' c_dihedral_angle_d_na ? ? ? ? ? 'X-RAY DIFFRACTION' c_dihedral_angle_d_prot ? ? ? ? ? 'X-RAY DIFFRACTION' c_improper_angle_d 1.35 ? ? ? ? 'X-RAY DIFFRACTION' c_improper_angle_d_na ? ? ? ? ? 'X-RAY DIFFRACTION' c_improper_angle_d_prot ? ? ? ? ? 'X-RAY DIFFRACTION' c_mcbond_it 1.32 1.50 ? ? ? 'X-RAY DIFFRACTION' c_mcangle_it 1.83 2.00 ? ? ? 'X-RAY DIFFRACTION' c_scbond_it 2.78 2.00 ? ? ? 'X-RAY DIFFRACTION' c_scangle_it 2.95 2.50 ? ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 1.79 _refine_ls_shell.d_res_low 1.90 _refine_ls_shell.number_reflns_R_work 1562 _refine_ls_shell.R_factor_R_work 0.175 _refine_ls_shell.percent_reflns_obs 89.2 _refine_ls_shell.R_factor_R_free 0.232 _refine_ls_shell.R_factor_R_free_error 0.026 _refine_ls_shell.percent_reflns_R_free 4.8 _refine_ls_shell.number_reflns_R_free 79 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 4J1A _struct.title 'X-ray structure of the adduct between hen egg white lysozyme and AziRu (green crystal)' _struct.pdbx_descriptor 'Lysozyme C (E.C.3.2.1.17)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4J1A _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.text 'C-type lysozyme/alpha-lactalbumin family, HYDROLASE' # 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 ? F N N 2 ? G N N 5 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLY A 4 ? HIS A 15 ? GLY A 4 HIS A 15 1 ? 12 HELX_P HELX_P2 2 ASN A 19 ? TYR A 23 ? ASN A 19 TYR A 23 5 ? 5 HELX_P HELX_P3 3 SER A 24 ? ASN A 37 ? SER A 24 ASN A 37 1 ? 14 HELX_P HELX_P4 4 PRO A 79 ? SER A 85 ? PRO A 79 SER A 85 5 ? 7 HELX_P HELX_P5 5 ILE A 88 ? SER A 100 ? ILE A 88 SER A 100 1 ? 13 HELX_P HELX_P6 6 ASN A 103 ? ALA A 107 ? ASN A 103 ALA A 107 5 ? 5 HELX_P HELX_P7 7 TRP A 108 ? CYS A 115 ? TRP A 108 CYS A 115 1 ? 8 HELX_P HELX_P8 8 ASP A 119 ? ARG A 125 ? ASP A 119 ARG A 125 5 ? 7 # _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 disulf1 disulf ? ? A CYS 6 SG ? ? ? 1_555 A CYS 127 SG ? ? A CYS 6 A CYS 127 1_555 ? ? ? ? ? ? ? 2.011 ? disulf2 disulf ? ? A CYS 30 SG ? ? ? 1_555 A CYS 115 SG ? ? A CYS 30 A CYS 115 1_555 ? ? ? ? ? ? ? 2.060 ? disulf3 disulf ? ? A CYS 64 SG ? ? ? 1_555 A CYS 80 SG ? ? A CYS 64 A CYS 80 1_555 ? ? ? ? ? ? ? 2.061 ? disulf4 disulf ? ? A CYS 76 SG ? ? ? 1_555 A CYS 94 SG ? ? A CYS 76 A CYS 94 1_555 ? ? ? ? ? ? ? 2.047 ? metalc1 metalc ? ? A ARG 14 NH2 A ? ? 1_555 E RU . RU ? ? A ARG 14 A RU 204 1_555 ? ? ? ? ? ? ? 2.150 ? metalc2 metalc ? ? A SER 60 O ? ? ? 1_555 D NA . NA ? ? A SER 60 A NA 203 1_555 ? ? ? ? ? ? ? 2.336 ? metalc3 metalc ? ? D NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 203 A HOH 317 1_555 ? ? ? ? ? ? ? 2.425 ? metalc4 metalc ? ? A ARG 73 O A ? ? 1_555 D NA . NA ? ? A ARG 73 A NA 203 1_555 ? ? ? ? ? ? ? 2.437 ? metalc5 metalc ? ? A ARG 73 O B ? ? 1_555 D NA . NA ? ? A ARG 73 A NA 203 1_555 ? ? ? ? ? ? ? 2.446 ? metalc6 metalc ? ? D NA . NA ? ? ? 1_555 G HOH . O ? ? A NA 203 A HOH 322 1_555 ? ? ? ? ? ? ? 2.456 ? metalc7 metalc ? ? A ASP 87 OD2 B ? ? 1_555 E RU . RU ? ? A ASP 87 A RU 204 1_555 ? ? ? ? ? ? ? 2.501 ? metalc8 metalc ? ? E RU . RU ? ? ? 1_555 G HOH . O ? ? A RU 204 A HOH 303 1_555 ? ? ? ? ? ? ? 2.535 ? metalc9 metalc ? ? E RU . RU ? ? ? 1_555 G HOH . O ? ? A RU 204 A HOH 301 1_555 ? ? ? ? ? ? ? 2.542 ? metalc10 metalc ? ? A CYS 64 O ? ? ? 1_555 D NA . NA ? ? A CYS 64 A NA 203 1_555 ? ? ? ? ? ? ? 2.545 ? metalc11 metalc ? ? A SER 72 OG ? ? ? 1_555 D NA . NA ? ? A SER 72 A NA 203 1_555 ? ? ? ? ? ? ? 2.569 ? metalc12 metalc ? ? A HIS 15 NE2 ? ? ? 1_555 E RU . RU ? ? A HIS 15 A RU 204 1_555 ? ? ? ? ? ? ? 2.571 ? metalc13 metalc ? ? E RU . RU ? ? ? 1_555 G HOH . O ? ? A RU 204 A HOH 302 1_555 ? ? ? ? ? ? ? 2.699 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? metalc ? ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 THR A 43 ? ARG A 45 ? THR A 43 ARG A 45 A 2 THR A 51 ? TYR A 53 ? THR A 51 TYR A 53 A 3 ILE A 58 ? ASN A 59 ? ILE A 58 ASN A 59 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N ASN A 44 ? N ASN A 44 O ASP A 52 ? O ASP A 52 A 2 3 N TYR A 53 ? N TYR A 53 O ILE A 58 ? O ILE A 58 # 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 ? ? ? ? 2 'BINDING SITE FOR RESIDUE CL A 201' AC2 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE CL A 202' AC3 Software ? ? ? ? 6 'BINDING SITE FOR RESIDUE NA A 203' AC4 Software ? ? ? ? 7 'BINDING SITE FOR RESIDUE RU A 204' AC5 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE CL A 205' # 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 2 TYR A 23 ? TYR A 23 . ? 1_555 ? 2 AC1 2 ASN A 113 ? ASN A 113 . ? 4_445 ? 3 AC2 5 GLY A 67 ? GLY A 67 . ? 1_555 ? 4 AC2 5 ARG A 68 ? ARG A 68 . ? 1_555 ? 5 AC2 5 THR A 69 ? THR A 69 . ? 1_555 ? 6 AC2 5 HOH G . ? HOH A 317 . ? 1_555 ? 7 AC2 5 HOH G . ? HOH A 350 . ? 1_555 ? 8 AC3 6 SER A 60 ? SER A 60 . ? 1_555 ? 9 AC3 6 CYS A 64 ? CYS A 64 . ? 1_555 ? 10 AC3 6 SER A 72 ? SER A 72 . ? 1_555 ? 11 AC3 6 ARG A 73 ? ARG A 73 . ? 1_555 ? 12 AC3 6 HOH G . ? HOH A 317 . ? 1_555 ? 13 AC3 6 HOH G . ? HOH A 322 . ? 1_555 ? 14 AC4 7 ARG A 14 ? ARG A 14 . ? 1_555 ? 15 AC4 7 HIS A 15 ? HIS A 15 . ? 1_555 ? 16 AC4 7 ASP A 87 ? ASP A 87 . ? 1_555 ? 17 AC4 7 CL F . ? CL A 205 . ? 1_555 ? 18 AC4 7 HOH G . ? HOH A 301 . ? 1_555 ? 19 AC4 7 HOH G . ? HOH A 302 . ? 1_555 ? 20 AC4 7 HOH G . ? HOH A 303 . ? 1_555 ? 21 AC5 4 ASP A 87 ? ASP A 87 . ? 1_555 ? 22 AC5 4 ILE A 88 ? ILE A 88 . ? 1_555 ? 23 AC5 4 RU E . ? RU A 204 . ? 1_555 ? 24 AC5 4 HOH G . ? HOH A 303 . ? 1_555 ? # _database_PDB_matrix.entry_id 4J1A _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 4J1A _atom_sites.fract_transf_matrix[1][1] 0.012790 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.012790 _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] 0.026913 _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 CL N NA O RU 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 LYS 1 1 1 LYS LYS A . n A 1 2 VAL 2 2 2 VAL VAL A . n A 1 3 PHE 3 3 3 PHE PHE A . n A 1 4 GLY 4 4 4 GLY GLY A . n A 1 5 ARG 5 5 5 ARG ARG A . n A 1 6 CYS 6 6 6 CYS CYS A . n A 1 7 GLU 7 7 7 GLU GLU A . n A 1 8 LEU 8 8 8 LEU LEU A . n A 1 9 ALA 9 9 9 ALA ALA A . n A 1 10 ALA 10 10 10 ALA ALA A . n A 1 11 ALA 11 11 11 ALA ALA A . n A 1 12 MET 12 12 12 MET MET A . n A 1 13 LYS 13 13 13 LYS LYS A . n A 1 14 ARG 14 14 14 ARG ARG A . n A 1 15 HIS 15 15 15 HIS HIS A . n A 1 16 GLY 16 16 16 GLY GLY A . n A 1 17 LEU 17 17 17 LEU LEU A . n A 1 18 ASP 18 18 18 ASP ASP A . n A 1 19 ASN 19 19 19 ASN ASN A . n A 1 20 TYR 20 20 20 TYR TYR A . n A 1 21 ARG 21 21 21 ARG ARG A . n A 1 22 GLY 22 22 22 GLY GLY A . n A 1 23 TYR 23 23 23 TYR TYR A . n A 1 24 SER 24 24 24 SER SER A . n A 1 25 LEU 25 25 25 LEU LEU A . n A 1 26 GLY 26 26 26 GLY GLY A . n A 1 27 ASN 27 27 27 ASN ASN A . n A 1 28 TRP 28 28 28 TRP TRP A . n A 1 29 VAL 29 29 29 VAL VAL A . n A 1 30 CYS 30 30 30 CYS CYS A . n A 1 31 ALA 31 31 31 ALA ALA A . n A 1 32 ALA 32 32 32 ALA ALA A . n A 1 33 LYS 33 33 33 LYS LYS A . n A 1 34 PHE 34 34 34 PHE PHE A . n A 1 35 GLU 35 35 35 GLU GLU A . n A 1 36 SER 36 36 36 SER SER A . n A 1 37 ASN 37 37 37 ASN ASN A . n A 1 38 PHE 38 38 38 PHE PHE A . n A 1 39 ASN 39 39 39 ASN ASN A . n A 1 40 THR 40 40 40 THR THR A . n A 1 41 GLN 41 41 41 GLN GLN A . n A 1 42 ALA 42 42 42 ALA ALA A . n A 1 43 THR 43 43 43 THR THR A . n A 1 44 ASN 44 44 44 ASN ASN A . n A 1 45 ARG 45 45 45 ARG ARG A . n A 1 46 ASN 46 46 46 ASN ASN A . n A 1 47 THR 47 47 47 THR THR A . n A 1 48 ASP 48 48 48 ASP ASP A . n A 1 49 GLY 49 49 49 GLY GLY A . n A 1 50 SER 50 50 50 SER SER A . n A 1 51 THR 51 51 51 THR THR A . n A 1 52 ASP 52 52 52 ASP ASP A . n A 1 53 TYR 53 53 53 TYR TYR A . n A 1 54 GLY 54 54 54 GLY GLY A . n A 1 55 ILE 55 55 55 ILE ILE A . n A 1 56 LEU 56 56 56 LEU LEU A . n A 1 57 GLN 57 57 57 GLN GLN A . n A 1 58 ILE 58 58 58 ILE ILE A . n A 1 59 ASN 59 59 59 ASN ASN A . n A 1 60 SER 60 60 60 SER SER A . n A 1 61 ARG 61 61 61 ARG ARG A . n A 1 62 TRP 62 62 62 TRP TRP A . n A 1 63 TRP 63 63 63 TRP TRP A . n A 1 64 CYS 64 64 64 CYS CYS A . n A 1 65 ASN 65 65 65 ASN ASN A . n A 1 66 ASP 66 66 66 ASP ASP A . n A 1 67 GLY 67 67 67 GLY GLY A . n A 1 68 ARG 68 68 68 ARG ARG A . n A 1 69 THR 69 69 69 THR THR A . n A 1 70 PRO 70 70 70 PRO PRO A . n A 1 71 GLY 71 71 71 GLY GLY A . n A 1 72 SER 72 72 72 SER SER A . n A 1 73 ARG 73 73 73 ARG ARG A . n A 1 74 ASN 74 74 74 ASN ASN A . n A 1 75 LEU 75 75 75 LEU LEU A . n A 1 76 CYS 76 76 76 CYS CYS A . n A 1 77 ASN 77 77 77 ASN ASN A . n A 1 78 ILE 78 78 78 ILE ILE A . n A 1 79 PRO 79 79 79 PRO PRO A . n A 1 80 CYS 80 80 80 CYS CYS A . n A 1 81 SER 81 81 81 SER SER A . n A 1 82 ALA 82 82 82 ALA ALA A . n A 1 83 LEU 83 83 83 LEU LEU A . n A 1 84 LEU 84 84 84 LEU LEU A . n A 1 85 SER 85 85 85 SER SER A . n A 1 86 SER 86 86 86 SER SER A . n A 1 87 ASP 87 87 87 ASP ASP A . n A 1 88 ILE 88 88 88 ILE ILE A . n A 1 89 THR 89 89 89 THR THR A . n A 1 90 ALA 90 90 90 ALA ALA A . n A 1 91 SER 91 91 91 SER SER A . n A 1 92 VAL 92 92 92 VAL VAL A . n A 1 93 ASN 93 93 93 ASN ASN A . n A 1 94 CYS 94 94 94 CYS CYS A . n A 1 95 ALA 95 95 95 ALA ALA A . n A 1 96 LYS 96 96 96 LYS LYS A . n A 1 97 LYS 97 97 97 LYS LYS A . n A 1 98 ILE 98 98 98 ILE ILE A . n A 1 99 VAL 99 99 99 VAL VAL A . n A 1 100 SER 100 100 100 SER SER A . n A 1 101 ASP 101 101 101 ASP ASP A . n A 1 102 GLY 102 102 102 GLY GLY A . n A 1 103 ASN 103 103 103 ASN ASN A . n A 1 104 GLY 104 104 104 GLY GLY A . n A 1 105 MET 105 105 105 MET MET A . n A 1 106 ASN 106 106 106 ASN ASN A . n A 1 107 ALA 107 107 107 ALA ALA A . n A 1 108 TRP 108 108 108 TRP TRP A . n A 1 109 VAL 109 109 109 VAL VAL A . n A 1 110 ALA 110 110 110 ALA ALA A . n A 1 111 TRP 111 111 111 TRP TRP A . n A 1 112 ARG 112 112 112 ARG ARG A . n A 1 113 ASN 113 113 113 ASN ASN A . n A 1 114 ARG 114 114 114 ARG ARG A . n A 1 115 CYS 115 115 115 CYS CYS A . n A 1 116 LYS 116 116 116 LYS LYS A . n A 1 117 GLY 117 117 117 GLY GLY A . n A 1 118 THR 118 118 118 THR THR A . n A 1 119 ASP 119 119 119 ASP ASP A . n A 1 120 VAL 120 120 120 VAL VAL A . n A 1 121 GLN 121 121 121 GLN GLN A . n A 1 122 ALA 122 122 122 ALA ALA A . n A 1 123 TRP 123 123 123 TRP TRP A . n A 1 124 ILE 124 124 124 ILE ILE A . n A 1 125 ARG 125 125 125 ARG ARG A . n A 1 126 GLY 126 126 126 GLY GLY A . n A 1 127 CYS 127 127 127 CYS CYS A . n A 1 128 ARG 128 128 128 ARG ARG A . n A 1 129 LEU 129 129 129 LEU LEU 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 CL 1 201 1 CL CL A . C 2 CL 1 202 2 CL CL A . D 3 NA 1 203 10 NA NA A . E 4 RU 1 204 5000 RU 1J7 A . F 2 CL 1 205 5000 CL 1J7 A . G 5 HOH 1 301 5000 HOH 1J7 A . G 5 HOH 2 302 5000 HOH 1J7 A . G 5 HOH 3 303 5000 HOH 1J7 A . G 5 HOH 4 304 4 HOH HOH A . G 5 HOH 5 305 6 HOH HOH A . G 5 HOH 6 306 7 HOH HOH A . G 5 HOH 7 307 8 HOH HOH A . G 5 HOH 8 308 9 HOH HOH A . G 5 HOH 9 309 11 HOH HOH A . G 5 HOH 10 310 12 HOH HOH A . G 5 HOH 11 311 18 HOH HOH A . G 5 HOH 12 312 19 HOH HOH A . G 5 HOH 13 313 22 HOH HOH A . G 5 HOH 14 314 23 HOH HOH A . G 5 HOH 15 315 26 HOH HOH A . G 5 HOH 16 316 28 HOH HOH A . G 5 HOH 17 317 30 HOH HOH A . G 5 HOH 18 318 31 HOH HOH A . G 5 HOH 19 319 32 HOH HOH A . G 5 HOH 20 320 33 HOH HOH A . G 5 HOH 21 321 35 HOH HOH A . G 5 HOH 22 322 36 HOH HOH A . G 5 HOH 23 323 37 HOH HOH A . G 5 HOH 24 324 39 HOH HOH A . G 5 HOH 25 325 40 HOH HOH A . G 5 HOH 26 326 42 HOH HOH A . G 5 HOH 27 327 43 HOH HOH A . G 5 HOH 28 328 44 HOH HOH A . G 5 HOH 29 329 45 HOH HOH A . G 5 HOH 30 330 46 HOH HOH A . G 5 HOH 31 331 48 HOH HOH A . G 5 HOH 32 332 50 HOH HOH A . G 5 HOH 33 333 51 HOH HOH A . G 5 HOH 34 334 52 HOH HOH A . G 5 HOH 35 335 53 HOH HOH A . G 5 HOH 36 336 54 HOH HOH A . G 5 HOH 37 337 55 HOH HOH A . G 5 HOH 38 338 58 HOH HOH A . G 5 HOH 39 339 59 HOH HOH A . G 5 HOH 40 340 60 HOH HOH A . G 5 HOH 41 341 62 HOH HOH A . G 5 HOH 42 342 64 HOH HOH A . G 5 HOH 43 343 66 HOH HOH A . G 5 HOH 44 344 67 HOH HOH A . G 5 HOH 45 345 68 HOH HOH A . G 5 HOH 46 346 69 HOH HOH A . G 5 HOH 47 347 72 HOH HOH A . G 5 HOH 48 348 74 HOH HOH A . G 5 HOH 49 349 76 HOH HOH A . G 5 HOH 50 350 80 HOH HOH A . G 5 HOH 51 351 81 HOH HOH A . G 5 HOH 52 352 82 HOH HOH A . G 5 HOH 53 353 83 HOH HOH A . G 5 HOH 54 354 84 HOH HOH A . G 5 HOH 55 355 86 HOH HOH A . G 5 HOH 56 356 88 HOH HOH A . G 5 HOH 57 357 89 HOH HOH A . G 5 HOH 58 358 90 HOH HOH A . G 5 HOH 59 359 91 HOH HOH A . G 5 HOH 60 360 92 HOH HOH A . G 5 HOH 61 361 93 HOH HOH A . G 5 HOH 62 362 94 HOH HOH A . G 5 HOH 63 363 95 HOH HOH A . G 5 HOH 64 364 98 HOH HOH A . G 5 HOH 65 365 101 HOH HOH A . G 5 HOH 66 366 104 HOH HOH A . G 5 HOH 67 367 106 HOH HOH A . G 5 HOH 68 368 107 HOH HOH A . G 5 HOH 69 369 113 HOH HOH A . G 5 HOH 70 370 114 HOH HOH A . G 5 HOH 71 371 117 HOH HOH A . G 5 HOH 72 372 118 HOH HOH A . G 5 HOH 73 373 121 HOH HOH A . G 5 HOH 74 374 122 HOH HOH A . G 5 HOH 75 375 125 HOH HOH A . G 5 HOH 76 376 130 HOH HOH A . G 5 HOH 77 377 132 HOH HOH A . G 5 HOH 78 378 134 HOH HOH A . G 5 HOH 79 379 135 HOH HOH A . G 5 HOH 80 380 137 HOH HOH A . G 5 HOH 81 381 141 HOH HOH A . G 5 HOH 82 382 142 HOH HOH A . G 5 HOH 83 383 147 HOH HOH A . G 5 HOH 84 384 148 HOH HOH A . G 5 HOH 85 385 151 HOH HOH A . G 5 HOH 86 386 156 HOH HOH A . G 5 HOH 87 387 162 HOH HOH A . G 5 HOH 88 388 168 HOH HOH A . G 5 HOH 89 389 170 HOH HOH A . G 5 HOH 90 390 177 HOH HOH A . G 5 HOH 91 391 180 HOH HOH A . G 5 HOH 92 392 181 HOH HOH A . G 5 HOH 93 393 182 HOH HOH A . G 5 HOH 94 394 186 HOH HOH A . G 5 HOH 95 395 187 HOH HOH A . G 5 HOH 96 396 191 HOH HOH A . G 5 HOH 97 397 192 HOH HOH A . G 5 HOH 98 398 194 HOH HOH A . G 5 HOH 99 399 195 HOH HOH A . G 5 HOH 100 400 196 HOH HOH A . G 5 HOH 101 401 197 HOH HOH A . G 5 HOH 102 402 198 HOH HOH A . G 5 HOH 103 403 200 HOH HOH A . G 5 HOH 104 404 201 HOH HOH A . G 5 HOH 105 405 203 HOH HOH A . G 5 HOH 106 406 204 HOH HOH A . G 5 HOH 107 407 205 HOH HOH A . G 5 HOH 108 408 207 HOH HOH A . G 5 HOH 109 409 208 HOH HOH A . G 5 HOH 110 410 209 HOH HOH A . G 5 HOH 111 411 210 HOH HOH A . G 5 HOH 112 412 213 HOH HOH A . G 5 HOH 113 413 214 HOH HOH A . G 5 HOH 114 414 215 HOH HOH A . G 5 HOH 115 415 216 HOH HOH A . G 5 HOH 116 416 217 HOH HOH A . G 5 HOH 117 417 218 HOH HOH A . G 5 HOH 118 418 219 HOH HOH A . G 5 HOH 119 419 220 HOH HOH A . G 5 HOH 120 420 221 HOH HOH A . G 5 HOH 121 421 222 HOH HOH A . G 5 HOH 122 422 223 HOH HOH A . G 5 HOH 123 423 224 HOH HOH A . G 5 HOH 124 424 225 HOH HOH A . G 5 HOH 125 425 226 HOH HOH A . G 5 HOH 126 426 227 HOH HOH A . G 5 HOH 127 427 228 HOH HOH A . G 5 HOH 128 428 229 HOH HOH A . G 5 HOH 129 429 230 HOH HOH A . G 5 HOH 130 430 231 HOH HOH A . G 5 HOH 131 431 232 HOH HOH A . G 5 HOH 132 432 233 HOH HOH A . G 5 HOH 133 433 234 HOH HOH A . G 5 HOH 134 434 235 HOH HOH A . G 5 HOH 135 435 236 HOH HOH A . G 5 HOH 136 436 237 HOH HOH A . G 5 HOH 137 437 238 HOH HOH A . G 5 HOH 138 438 239 HOH HOH A . G 5 HOH 139 439 240 HOH HOH A . G 5 HOH 140 440 241 HOH HOH A . G 5 HOH 141 441 242 HOH HOH A . G 5 HOH 142 442 243 HOH HOH A . G 5 HOH 143 443 244 HOH HOH A . G 5 HOH 144 444 245 HOH HOH A . G 5 HOH 145 445 246 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _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 # _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 A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 328 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id G _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 NH2 A A ARG 14 ? A ARG 14 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 OD2 B A ASP 87 ? A ASP 87 ? 1_555 159.7 ? 2 NH2 A A ARG 14 ? A ARG 14 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 303 ? 1_555 99.9 ? 3 OD2 B A ASP 87 ? A ASP 87 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 303 ? 1_555 72.5 ? 4 NH2 A A ARG 14 ? A ARG 14 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 301 ? 1_555 85.4 ? 5 OD2 B A ASP 87 ? A ASP 87 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 301 ? 1_555 76.9 ? 6 O ? G HOH . ? A HOH 303 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 301 ? 1_555 95.8 ? 7 NH2 A A ARG 14 ? A ARG 14 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 NE2 ? A HIS 15 ? A HIS 15 ? 1_555 94.9 ? 8 OD2 B A ASP 87 ? A ASP 87 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 NE2 ? A HIS 15 ? A HIS 15 ? 1_555 97.2 ? 9 O ? G HOH . ? A HOH 303 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 NE2 ? A HIS 15 ? A HIS 15 ? 1_555 160.7 ? 10 O ? G HOH . ? A HOH 301 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 NE2 ? A HIS 15 ? A HIS 15 ? 1_555 97.7 ? 11 NH2 A A ARG 14 ? A ARG 14 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 302 ? 1_555 24.8 ? 12 OD2 B A ASP 87 ? A ASP 87 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 302 ? 1_555 161.3 ? 13 O ? G HOH . ? A HOH 303 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 302 ? 1_555 89.0 ? 14 O ? G HOH . ? A HOH 301 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 302 ? 1_555 108.7 ? 15 NE2 ? A HIS 15 ? A HIS 15 ? 1_555 RU ? E RU . ? A RU 204 ? 1_555 O ? G HOH . ? A HOH 302 ? 1_555 99.6 ? 16 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? G HOH . ? A HOH 317 ? 1_555 100.5 ? 17 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O A A ARG 73 ? A ARG 73 ? 1_555 94.0 ? 18 O ? G HOH . ? A HOH 317 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O A A ARG 73 ? A ARG 73 ? 1_555 165.4 ? 19 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O B A ARG 73 ? A ARG 73 ? 1_555 93.7 ? 20 O ? G HOH . ? A HOH 317 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O B A ARG 73 ? A ARG 73 ? 1_555 165.7 ? 21 O A A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O B A ARG 73 ? A ARG 73 ? 1_555 0.5 ? 22 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? G HOH . ? A HOH 322 ? 1_555 172.2 ? 23 O ? G HOH . ? A HOH 317 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? G HOH . ? A HOH 322 ? 1_555 79.2 ? 24 O A A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? G HOH . ? A HOH 322 ? 1_555 86.2 ? 25 O B A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? G HOH . ? A HOH 322 ? 1_555 86.6 ? 26 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? A CYS 64 ? A CYS 64 ? 1_555 88.6 ? 27 O ? G HOH . ? A HOH 317 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? A CYS 64 ? A CYS 64 ? 1_555 87.6 ? 28 O A A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? A CYS 64 ? A CYS 64 ? 1_555 94.2 ? 29 O B A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? A CYS 64 ? A CYS 64 ? 1_555 93.8 ? 30 O ? G HOH . ? A HOH 322 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 O ? A CYS 64 ? A CYS 64 ? 1_555 99.2 ? 31 O ? A SER 60 ? A SER 60 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 87.3 ? 32 O ? G HOH . ? A HOH 317 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 79.3 ? 33 O A A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 100.1 ? 34 O B A ARG 73 ? A ARG 73 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 100.5 ? 35 O ? G HOH . ? A HOH 322 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 85.0 ? 36 O ? A CYS 64 ? A CYS 64 ? 1_555 NA ? D NA . ? A NA 203 ? 1_555 OG ? A SER 72 ? A SER 72 ? 1_555 165.4 ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2013-04-03 2 'Structure model' 1 1 2013-05-08 # _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_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # _software.name CNS _software.classification refinement _software.version 1.3 _software.citation_id ? _software.pdbx_ordinal 1 # _pdbx_entry_details.entry_id 4J1A _pdbx_entry_details.nonpolymer_details ;HEN EGG WHITE LYSOZYME WAS CRYSTALLIZED WITH AN ORGANO-METALLIC RUTHENIUM(III) COMPOUND, CALLED AZIRU [SODIUM TRANS-(DIMETHYLSULFOXIDE)-PYRIDINE TETRACHLORO-RUTHENATE(III)]. AZIRU LOSES SOME OF ITS ORIGINAL LIGAND (DMSO, PYRIDINE, CL). JUST ONE CL REMAINS ATTACHED TO RU, WHICH IS BOUND TO HIS15 AND ASP87. THE OCTAHEDRAL COORDINATION SPHERE IS COMPLETED BY WATER MOLECULES. ; _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 OXT _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 LEU _pdbx_validate_symm_contact.auth_seq_id_1 129 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 OXT _pdbx_validate_symm_contact.auth_asym_id_2 A _pdbx_validate_symm_contact.auth_comp_id_2 LEU _pdbx_validate_symm_contact.auth_seq_id_2 129 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 7_554 _pdbx_validate_symm_contact.dist 2.11 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ASP _pdbx_validate_rmsd_angle.auth_seq_id_1 18 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CG _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ASP _pdbx_validate_rmsd_angle.auth_seq_id_2 18 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 OD2 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ASP _pdbx_validate_rmsd_angle.auth_seq_id_3 18 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 112.33 _pdbx_validate_rmsd_angle.angle_target_value 118.30 _pdbx_validate_rmsd_angle.angle_deviation -5.97 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.90 _pdbx_validate_rmsd_angle.linker_flag N # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 'SODIUM ION' NA 4 'RUTHENIUM ION' RU 5 water HOH #