data_2ZYC # _entry.id 2ZYC # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.351 _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 2ZYC pdb_00002zyc 10.2210/pdb2zyc/pdb RCSB RCSB028579 ? ? WWPDB D_1000028579 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2ZYC _pdbx_database_status.recvd_initial_deposition_date 2009-01-19 _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _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 'Ochiai, A.' 1 'Mikami, B.' 2 'Hashimoto, W.' 3 'Murata, K.' 4 # _citation.id primary _citation.title 'Crystal structure of the glycosidase family 73 peptidoglycan hydrolase FlgJ' _citation.journal_abbrev Biochem.Biophys.Res.Commun. _citation.journal_volume 381 _citation.page_first 16 _citation.page_last 21 _citation.year 2009 _citation.journal_id_ASTM BBRCA9 _citation.country US _citation.journal_id_ISSN 0006-291X _citation.journal_id_CSD 0146 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19351587 _citation.pdbx_database_id_DOI 10.1016/j.bbrc.2009.01.186 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Hashimoto, W.' 1 ? primary 'Ochiai, A.' 2 ? primary 'Momma, K.' 3 ? primary 'Itoh, T.' 4 ? primary 'Mikami, B.' 5 ? primary 'Maruyama, Y.' 6 ? primary 'Murata, K.' 7 ? # _cell.entry_id 2ZYC _cell.length_a 54.280 _cell.length_b 54.280 _cell.length_c 102.750 _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 2ZYC _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 man 'Peptidoglycan hydrolase FlgJ' 18727.799 1 3.2.1.- 'T152M, P153A' 'Residues 152-313' ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 3 water nat water 18.015 184 ? ? ? ? # _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 ;MAQAFVDATWPQAAKAAQSLGVPAHFLVAQAALETGWGKSQIRNKDGTPSYNLFNIKAGSNWTGKVVEARTVEYENGQRK VRVERFRAYDSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFARALQEGGYATDPSYADKLARVINGNALRQRLMASAASA RGLEHHHHHH ; _entity_poly.pdbx_seq_one_letter_code_can ;MAQAFVDATWPQAAKAAQSLGVPAHFLVAQAALETGWGKSQIRNKDGTPSYNLFNIKAGSNWTGKVVEARTVEYENGQRK VRVERFRAYDSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFARALQEGGYATDPSYADKLARVINGNALRQRLMASAASA RGLEHHHHHH ; _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 MET n 1 2 ALA n 1 3 GLN n 1 4 ALA n 1 5 PHE n 1 6 VAL n 1 7 ASP n 1 8 ALA n 1 9 THR n 1 10 TRP n 1 11 PRO n 1 12 GLN n 1 13 ALA n 1 14 ALA n 1 15 LYS n 1 16 ALA n 1 17 ALA n 1 18 GLN n 1 19 SER n 1 20 LEU n 1 21 GLY n 1 22 VAL n 1 23 PRO n 1 24 ALA n 1 25 HIS n 1 26 PHE n 1 27 LEU n 1 28 VAL n 1 29 ALA n 1 30 GLN n 1 31 ALA n 1 32 ALA n 1 33 LEU n 1 34 GLU n 1 35 THR n 1 36 GLY n 1 37 TRP n 1 38 GLY n 1 39 LYS n 1 40 SER n 1 41 GLN n 1 42 ILE n 1 43 ARG n 1 44 ASN n 1 45 LYS n 1 46 ASP n 1 47 GLY n 1 48 THR n 1 49 PRO n 1 50 SER n 1 51 TYR n 1 52 ASN n 1 53 LEU n 1 54 PHE n 1 55 ASN n 1 56 ILE n 1 57 LYS n 1 58 ALA n 1 59 GLY n 1 60 SER n 1 61 ASN n 1 62 TRP n 1 63 THR n 1 64 GLY n 1 65 LYS n 1 66 VAL n 1 67 VAL n 1 68 GLU n 1 69 ALA n 1 70 ARG n 1 71 THR n 1 72 VAL n 1 73 GLU n 1 74 TYR n 1 75 GLU n 1 76 ASN n 1 77 GLY n 1 78 GLN n 1 79 ARG n 1 80 LYS n 1 81 VAL n 1 82 ARG n 1 83 VAL n 1 84 GLU n 1 85 ARG n 1 86 PHE n 1 87 ARG n 1 88 ALA n 1 89 TYR n 1 90 ASP n 1 91 SER n 1 92 TYR n 1 93 GLU n 1 94 GLN n 1 95 ALA n 1 96 PHE n 1 97 GLN n 1 98 ASP n 1 99 TYR n 1 100 ALA n 1 101 ASP n 1 102 LEU n 1 103 VAL n 1 104 GLY n 1 105 ASN n 1 106 SER n 1 107 PRO n 1 108 ARG n 1 109 TYR n 1 110 ALA n 1 111 LYS n 1 112 VAL n 1 113 ALA n 1 114 GLY n 1 115 LYS n 1 116 THR n 1 117 ASP n 1 118 GLY n 1 119 HIS n 1 120 ALA n 1 121 PHE n 1 122 ALA n 1 123 ARG n 1 124 ALA n 1 125 LEU n 1 126 GLN n 1 127 GLU n 1 128 GLY n 1 129 GLY n 1 130 TYR n 1 131 ALA n 1 132 THR n 1 133 ASP n 1 134 PRO n 1 135 SER n 1 136 TYR n 1 137 ALA n 1 138 ASP n 1 139 LYS n 1 140 LEU n 1 141 ALA n 1 142 ARG n 1 143 VAL n 1 144 ILE n 1 145 ASN n 1 146 GLY n 1 147 ASN n 1 148 ALA n 1 149 LEU n 1 150 ARG n 1 151 GLN n 1 152 ARG n 1 153 LEU n 1 154 MET n 1 155 ALA n 1 156 SER n 1 157 ALA n 1 158 ALA n 1 159 SER n 1 160 ALA n 1 161 ARG n 1 162 GLY n 1 163 LEU n 1 164 GLU n 1 165 HIS n 1 166 HIS n 1 167 HIS n 1 168 HIS n 1 169 HIS n 1 170 HIS n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene flgJ _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Sphingomonas sp. A1' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 90322 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type PLASMID _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pET21d _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code B7XH69_9SPHN _struct_ref.pdbx_db_accession B7XH69 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;TPQAFVDATWPQAAKAAQSLGVPAHFLVAQAALETGWGKSQIRNKDGTPSYNLFNIKAGSNWTGKVVEARTVEYENGQRK VRVERFRAYDSYEQAFQDYADLVGNSPRYAKVAGKTDGHAFARALQEGGYATDPSYADKLARVINGNALRQRLMASAASA RG ; _struct_ref.pdbx_align_begin 152 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2ZYC _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 162 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession B7XH69 _struct_ref_seq.db_align_beg 152 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 313 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 152 _struct_ref_seq.pdbx_auth_seq_align_end 313 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 2ZYC MET A 1 ? UNP B7XH69 THR 152 'engineered mutation' 152 1 1 2ZYC ALA A 2 ? UNP B7XH69 PRO 153 'engineered mutation' 153 2 1 2ZYC LEU A 163 ? UNP B7XH69 ? ? 'expression tag' 314 3 1 2ZYC GLU A 164 ? UNP B7XH69 ? ? 'expression tag' 315 4 1 2ZYC HIS A 165 ? UNP B7XH69 ? ? 'expression tag' 316 5 1 2ZYC HIS A 166 ? UNP B7XH69 ? ? 'expression tag' 317 6 1 2ZYC HIS A 167 ? UNP B7XH69 ? ? 'expression tag' 318 7 1 2ZYC HIS A 168 ? UNP B7XH69 ? ? 'expression tag' 319 8 1 2ZYC HIS A 169 ? UNP B7XH69 ? ? 'expression tag' 320 9 1 2ZYC HIS A 170 ? UNP B7XH69 ? ? 'expression tag' 321 10 # 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 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 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 2ZYC _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 2 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.02 _exptl_crystal.density_percent_sol 39.13 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 293.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pdbx_details '1.0M Ammonium phosphate, 0.1M Tris-HCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K' _exptl_crystal_grow.pdbx_pH_range . # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 100 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 CCD 'RIGAKU JUPITER 210' 2008-05-20 mirror 2 CCD 'RIGAKU JUPITER 210' 2008-05-20 mirror # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.monochromator _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.pdbx_scattering_type 1 1 M 'Si 111 CHANNEL' 'SINGLE WAVELENGTH' x-ray 2 1 M 'Si 111 CHANNEL' 'SINGLE WAVELENGTH' x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 1.0000 1.0 2 1.0395 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list 1 SYNCHROTRON 'SPRING-8 BEAMLINE BL38B1' SPring-8 BL38B1 ? 1.0000 2 SYNCHROTRON 'SPRING-8 BEAMLINE BL38B1' SPring-8 BL38B1 ? 1.0395 # _reflns.entry_id 2ZYC _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 1.74 _reflns.d_resolution_low 30 _reflns.number_all ? _reflns.number_obs 16510 _reflns.percent_possible_obs 100.0 _reflns.pdbx_Rmerge_I_obs 0.055 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 14.6 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 10.8 _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_diffrn_id 1,2 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.74 _reflns_shell.d_res_low 1.80 _reflns_shell.percent_possible_all 99.9 _reflns_shell.Rmerge_I_obs 0.396 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.28 _reflns_shell.pdbx_redundancy 9.9 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 2ZYC _refine.ls_number_reflns_obs 15603 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 28.97 _refine.ls_d_res_high 1.74 _refine.ls_percent_reflns_obs 99.99 _refine.ls_R_factor_obs 0.201 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.19901 _refine.ls_R_factor_R_free 0.23777 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 832 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.948 _refine.correlation_coeff_Fo_to_Fc_free 0.927 _refine.B_iso_mean 20.107 _refine.aniso_B[1][1] -0.67 _refine.aniso_B[2][2] -0.67 _refine.aniso_B[3][3] 1.34 _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 MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.139 _refine.pdbx_overall_ESU_R_Free 0.130 _refine.overall_SU_ML 0.090 _refine.overall_SU_B 2.746 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1309 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 184 _refine_hist.number_atoms_total 1498 _refine_hist.d_res_high 1.74 _refine_hist.d_res_low 28.97 # 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 r_bond_refined_d 0.008 0.022 ? 1356 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.019 1.933 ? 1861 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 3.931 5.000 ? 189 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 32.651 23.676 ? 68 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 12.909 15.000 ? 220 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 20.573 15.000 ? 12 'X-RAY DIFFRACTION' ? r_chiral_restr 0.068 0.200 ? 194 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.003 0.020 ? 1092 'X-RAY DIFFRACTION' ? r_nbd_refined 0.195 0.200 ? 680 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.301 0.200 ? 942 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.133 0.200 ? 169 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.170 0.200 ? 58 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.118 0.200 ? 27 'X-RAY DIFFRACTION' ? r_mcbond_it 0.646 1.500 ? 867 'X-RAY DIFFRACTION' ? r_mcangle_it 1.065 2.000 ? 1353 'X-RAY DIFFRACTION' ? r_scbond_it 1.404 3.000 ? 563 'X-RAY DIFFRACTION' ? r_scangle_it 2.306 4.500 ? 497 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.740 _refine_ls_shell.d_res_low 1.785 _refine_ls_shell.number_reflns_R_work 1114 _refine_ls_shell.R_factor_R_work 0.247 _refine_ls_shell.percent_reflns_obs 99.92 _refine_ls_shell.R_factor_R_free 0.361 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 71 _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 2ZYC _struct.title 'Crystal structure of peptidoglycan hydrolase from Sphingomonas sp. A1' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2ZYC _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.text 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 3 ? # _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 ALA A 2 ? GLY A 21 ? ALA A 153 GLY A 172 1 ? 20 HELX_P HELX_P2 2 PRO A 23 ? GLY A 36 ? PRO A 174 GLY A 187 1 ? 14 HELX_P HELX_P3 3 SER A 91 ? SER A 106 ? SER A 242 SER A 257 1 ? 16 HELX_P HELX_P4 4 PRO A 107 ? ALA A 110 ? PRO A 258 ALA A 261 5 ? 4 HELX_P HELX_P5 5 ASP A 117 ? GLY A 128 ? ASP A 268 GLY A 279 1 ? 12 HELX_P HELX_P6 6 SER A 135 ? GLY A 146 ? SER A 286 GLY A 297 1 ? 12 HELX_P HELX_P7 7 GLY A 146 ? ALA A 157 ? GLY A 297 ALA A 308 1 ? 12 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 2 _struct_sheet.details ? # _struct_sheet_order.sheet_id A _struct_sheet_order.range_id_1 1 _struct_sheet_order.range_id_2 2 _struct_sheet_order.offset ? _struct_sheet_order.sense 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 LYS A 65 ? THR A 71 ? LYS A 216 THR A 222 A 2 ARG A 82 ? ALA A 88 ? ARG A 233 ALA A 239 # _pdbx_struct_sheet_hbond.sheet_id A _pdbx_struct_sheet_hbond.range_id_1 1 _pdbx_struct_sheet_hbond.range_id_2 2 _pdbx_struct_sheet_hbond.range_1_label_atom_id N _pdbx_struct_sheet_hbond.range_1_label_comp_id VAL _pdbx_struct_sheet_hbond.range_1_label_asym_id A _pdbx_struct_sheet_hbond.range_1_label_seq_id 67 _pdbx_struct_sheet_hbond.range_1_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_1_auth_atom_id N _pdbx_struct_sheet_hbond.range_1_auth_comp_id VAL _pdbx_struct_sheet_hbond.range_1_auth_asym_id A _pdbx_struct_sheet_hbond.range_1_auth_seq_id 218 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id PHE _pdbx_struct_sheet_hbond.range_2_label_asym_id A _pdbx_struct_sheet_hbond.range_2_label_seq_id 86 _pdbx_struct_sheet_hbond.range_2_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_2_auth_atom_id O _pdbx_struct_sheet_hbond.range_2_auth_comp_id PHE _pdbx_struct_sheet_hbond.range_2_auth_asym_id A _pdbx_struct_sheet_hbond.range_2_auth_seq_id 237 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id PO4 _struct_site.pdbx_auth_seq_id 401 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 6 _struct_site.details 'BINDING SITE FOR RESIDUE PO4 A 401' # 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 6 ALA A 2 ? ALA A 153 . ? 1_555 ? 2 AC1 6 GLN A 3 ? GLN A 154 . ? 1_555 ? 3 AC1 6 ARG A 152 ? ARG A 303 . ? 1_555 ? 4 AC1 6 HOH C . ? HOH A 522 . ? 1_555 ? 5 AC1 6 HOH C . ? HOH A 532 . ? 6_455 ? 6 AC1 6 HOH C . ? HOH A 576 . ? 6_455 ? # _database_PDB_matrix.entry_id 2ZYC _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 2ZYC _atom_sites.fract_transf_matrix[1][1] 0.018423 _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] 0.018423 _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] 0.009732 _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 P 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 MET 1 152 ? ? ? A . n A 1 2 ALA 2 153 153 ALA ALA A . n A 1 3 GLN 3 154 154 GLN GLN A . n A 1 4 ALA 4 155 155 ALA ALA A . n A 1 5 PHE 5 156 156 PHE PHE A . n A 1 6 VAL 6 157 157 VAL VAL A . n A 1 7 ASP 7 158 158 ASP ASP A . n A 1 8 ALA 8 159 159 ALA ALA A . n A 1 9 THR 9 160 160 THR THR A . n A 1 10 TRP 10 161 161 TRP TRP A . n A 1 11 PRO 11 162 162 PRO PRO A . n A 1 12 GLN 12 163 163 GLN GLN A . n A 1 13 ALA 13 164 164 ALA ALA A . n A 1 14 ALA 14 165 165 ALA ALA A . n A 1 15 LYS 15 166 166 LYS LYS A . n A 1 16 ALA 16 167 167 ALA ALA A . n A 1 17 ALA 17 168 168 ALA ALA A . n A 1 18 GLN 18 169 169 GLN GLN A . n A 1 19 SER 19 170 170 SER SER A . n A 1 20 LEU 20 171 171 LEU LEU A . n A 1 21 GLY 21 172 172 GLY GLY A . n A 1 22 VAL 22 173 173 VAL VAL A . n A 1 23 PRO 23 174 174 PRO PRO A . n A 1 24 ALA 24 175 175 ALA ALA A . n A 1 25 HIS 25 176 176 HIS HIS A . n A 1 26 PHE 26 177 177 PHE PHE A . n A 1 27 LEU 27 178 178 LEU LEU A . n A 1 28 VAL 28 179 179 VAL VAL A . n A 1 29 ALA 29 180 180 ALA ALA A . n A 1 30 GLN 30 181 181 GLN GLN A . n A 1 31 ALA 31 182 182 ALA ALA A . n A 1 32 ALA 32 183 183 ALA ALA A . n A 1 33 LEU 33 184 184 LEU LEU A . n A 1 34 GLU 34 185 185 GLU GLU A . n A 1 35 THR 35 186 186 THR THR A . n A 1 36 GLY 36 187 187 GLY GLY A . n A 1 37 TRP 37 188 188 TRP TRP A . n A 1 38 GLY 38 189 189 GLY GLY A . n A 1 39 LYS 39 190 190 LYS LYS A . n A 1 40 SER 40 191 191 SER SER A . n A 1 41 GLN 41 192 192 GLN GLN A . n A 1 42 ILE 42 193 193 ILE ILE A . n A 1 43 ARG 43 194 194 ARG ARG A . n A 1 44 ASN 44 195 195 ASN ASN A . n A 1 45 LYS 45 196 196 LYS LYS A . n A 1 46 ASP 46 197 197 ASP ASP A . n A 1 47 GLY 47 198 198 GLY GLY A . n A 1 48 THR 48 199 199 THR THR A . n A 1 49 PRO 49 200 200 PRO PRO A . n A 1 50 SER 50 201 201 SER SER A . n A 1 51 TYR 51 202 202 TYR TYR A . n A 1 52 ASN 52 203 203 ASN ASN A . n A 1 53 LEU 53 204 204 LEU LEU A . n A 1 54 PHE 54 205 205 PHE PHE A . n A 1 55 ASN 55 206 206 ASN ASN A . n A 1 56 ILE 56 207 207 ILE ILE A . n A 1 57 LYS 57 208 208 LYS LYS A . n A 1 58 ALA 58 209 209 ALA ALA A . n A 1 59 GLY 59 210 210 GLY GLY A . n A 1 60 SER 60 211 211 SER SER A . n A 1 61 ASN 61 212 212 ASN ASN A . n A 1 62 TRP 62 213 213 TRP TRP A . n A 1 63 THR 63 214 214 THR THR A . n A 1 64 GLY 64 215 215 GLY GLY A . n A 1 65 LYS 65 216 216 LYS LYS A . n A 1 66 VAL 66 217 217 VAL VAL A . n A 1 67 VAL 67 218 218 VAL VAL A . n A 1 68 GLU 68 219 219 GLU GLU A . n A 1 69 ALA 69 220 220 ALA ALA A . n A 1 70 ARG 70 221 221 ARG ARG A . n A 1 71 THR 71 222 222 THR THR A . n A 1 72 VAL 72 223 223 VAL VAL A . n A 1 73 GLU 73 224 ? ? ? A . n A 1 74 TYR 74 225 ? ? ? A . n A 1 75 GLU 75 226 ? ? ? A . n A 1 76 ASN 76 227 ? ? ? A . n A 1 77 GLY 77 228 ? ? ? A . n A 1 78 GLN 78 229 ? ? ? A . n A 1 79 ARG 79 230 ? ? ? A . n A 1 80 LYS 80 231 231 LYS LYS A . n A 1 81 VAL 81 232 232 VAL VAL A . n A 1 82 ARG 82 233 233 ARG ARG A . n A 1 83 VAL 83 234 234 VAL VAL A . n A 1 84 GLU 84 235 235 GLU GLU A . n A 1 85 ARG 85 236 236 ARG ARG A . n A 1 86 PHE 86 237 237 PHE PHE A . n A 1 87 ARG 87 238 238 ARG ARG A . n A 1 88 ALA 88 239 239 ALA ALA A . n A 1 89 TYR 89 240 240 TYR TYR A . n A 1 90 ASP 90 241 241 ASP ASP A . n A 1 91 SER 91 242 242 SER SER A . n A 1 92 TYR 92 243 243 TYR TYR A . n A 1 93 GLU 93 244 244 GLU GLU A . n A 1 94 GLN 94 245 245 GLN GLN A . n A 1 95 ALA 95 246 246 ALA ALA A . n A 1 96 PHE 96 247 247 PHE PHE A . n A 1 97 GLN 97 248 248 GLN GLN A . n A 1 98 ASP 98 249 249 ASP ASP A . n A 1 99 TYR 99 250 250 TYR TYR A . n A 1 100 ALA 100 251 251 ALA ALA A . n A 1 101 ASP 101 252 252 ASP ASP A . n A 1 102 LEU 102 253 253 LEU LEU A . n A 1 103 VAL 103 254 254 VAL VAL A . n A 1 104 GLY 104 255 255 GLY GLY A . n A 1 105 ASN 105 256 256 ASN ASN A . n A 1 106 SER 106 257 257 SER SER A . n A 1 107 PRO 107 258 258 PRO PRO A . n A 1 108 ARG 108 259 259 ARG ARG A . n A 1 109 TYR 109 260 260 TYR TYR A . n A 1 110 ALA 110 261 261 ALA ALA A . n A 1 111 LYS 111 262 262 LYS LYS A . n A 1 112 VAL 112 263 263 VAL VAL A . n A 1 113 ALA 113 264 264 ALA ALA A . n A 1 114 GLY 114 265 265 GLY GLY A . n A 1 115 LYS 115 266 266 LYS LYS A . n A 1 116 THR 116 267 267 THR THR A . n A 1 117 ASP 117 268 268 ASP ASP A . n A 1 118 GLY 118 269 269 GLY GLY A . n A 1 119 HIS 119 270 270 HIS HIS A . n A 1 120 ALA 120 271 271 ALA ALA A . n A 1 121 PHE 121 272 272 PHE PHE A . n A 1 122 ALA 122 273 273 ALA ALA A . n A 1 123 ARG 123 274 274 ARG ARG A . n A 1 124 ALA 124 275 275 ALA ALA A . n A 1 125 LEU 125 276 276 LEU LEU A . n A 1 126 GLN 126 277 277 GLN GLN A . n A 1 127 GLU 127 278 278 GLU GLU A . n A 1 128 GLY 128 279 279 GLY GLY A . n A 1 129 GLY 129 280 280 GLY GLY A . n A 1 130 TYR 130 281 281 TYR TYR A . n A 1 131 ALA 131 282 282 ALA ALA A . n A 1 132 THR 132 283 283 THR THR A . n A 1 133 ASP 133 284 284 ASP ASP A . n A 1 134 PRO 134 285 285 PRO PRO A . n A 1 135 SER 135 286 286 SER SER A . n A 1 136 TYR 136 287 287 TYR TYR A . n A 1 137 ALA 137 288 288 ALA ALA A . n A 1 138 ASP 138 289 289 ASP ASP A . n A 1 139 LYS 139 290 290 LYS LYS A . n A 1 140 LEU 140 291 291 LEU LEU A . n A 1 141 ALA 141 292 292 ALA ALA A . n A 1 142 ARG 142 293 293 ARG ARG A . n A 1 143 VAL 143 294 294 VAL VAL A . n A 1 144 ILE 144 295 295 ILE ILE A . n A 1 145 ASN 145 296 296 ASN ASN A . n A 1 146 GLY 146 297 297 GLY GLY A . n A 1 147 ASN 147 298 298 ASN ASN A . n A 1 148 ALA 148 299 299 ALA ALA A . n A 1 149 LEU 149 300 300 LEU LEU A . n A 1 150 ARG 150 301 301 ARG ARG A . n A 1 151 GLN 151 302 302 GLN GLN A . n A 1 152 ARG 152 303 303 ARG ARG A . n A 1 153 LEU 153 304 304 LEU LEU A . n A 1 154 MET 154 305 305 MET MET A . n A 1 155 ALA 155 306 306 ALA ALA A . n A 1 156 SER 156 307 307 SER SER A . n A 1 157 ALA 157 308 308 ALA ALA A . n A 1 158 ALA 158 309 309 ALA ALA A . n A 1 159 SER 159 310 310 SER SER A . n A 1 160 ALA 160 311 311 ALA ALA A . n A 1 161 ARG 161 312 312 ARG ARG A . n A 1 162 GLY 162 313 313 GLY GLY A . n A 1 163 LEU 163 314 314 LEU LEU A . n A 1 164 GLU 164 315 315 GLU GLU A . n A 1 165 HIS 165 316 ? ? ? A . n A 1 166 HIS 166 317 ? ? ? A . n A 1 167 HIS 167 318 ? ? ? A . n A 1 168 HIS 168 319 ? ? ? A . n A 1 169 HIS 169 320 ? ? ? A . n A 1 170 HIS 170 321 ? ? ? 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 PO4 1 401 401 PO4 PO4 A . C 3 HOH 1 501 501 HOH HOH A . C 3 HOH 2 502 502 HOH HOH A . C 3 HOH 3 503 503 HOH HOH A . C 3 HOH 4 504 504 HOH HOH A . C 3 HOH 5 505 505 HOH HOH A . C 3 HOH 6 506 506 HOH HOH A . C 3 HOH 7 507 507 HOH HOH A . C 3 HOH 8 508 508 HOH HOH A . C 3 HOH 9 509 509 HOH HOH A . C 3 HOH 10 510 510 HOH HOH A . C 3 HOH 11 511 511 HOH HOH A . C 3 HOH 12 512 512 HOH HOH A . C 3 HOH 13 513 513 HOH HOH A . C 3 HOH 14 514 514 HOH HOH A . C 3 HOH 15 515 515 HOH HOH A . C 3 HOH 16 516 516 HOH HOH A . C 3 HOH 17 517 517 HOH HOH A . C 3 HOH 18 518 518 HOH HOH A . C 3 HOH 19 519 519 HOH HOH A . C 3 HOH 20 520 520 HOH HOH A . C 3 HOH 21 521 521 HOH HOH A . C 3 HOH 22 522 522 HOH HOH A . C 3 HOH 23 523 523 HOH HOH A . C 3 HOH 24 524 524 HOH HOH A . C 3 HOH 25 525 525 HOH HOH A . C 3 HOH 26 526 526 HOH HOH A . C 3 HOH 27 527 527 HOH HOH A . C 3 HOH 28 528 528 HOH HOH A . C 3 HOH 29 529 529 HOH HOH A . C 3 HOH 30 530 530 HOH HOH A . C 3 HOH 31 531 531 HOH HOH A . C 3 HOH 32 532 532 HOH HOH A . C 3 HOH 33 533 533 HOH HOH A . C 3 HOH 34 534 534 HOH HOH A . C 3 HOH 35 535 535 HOH HOH A . C 3 HOH 36 536 536 HOH HOH A . C 3 HOH 37 537 537 HOH HOH A . C 3 HOH 38 538 538 HOH HOH A . C 3 HOH 39 539 539 HOH HOH A . C 3 HOH 40 540 540 HOH HOH A . C 3 HOH 41 541 541 HOH HOH A . C 3 HOH 42 542 542 HOH HOH A . C 3 HOH 43 543 543 HOH HOH A . C 3 HOH 44 544 544 HOH HOH A . C 3 HOH 45 545 545 HOH HOH A . C 3 HOH 46 546 546 HOH HOH A . C 3 HOH 47 547 547 HOH HOH A . C 3 HOH 48 548 548 HOH HOH A . C 3 HOH 49 549 549 HOH HOH A . C 3 HOH 50 550 550 HOH HOH A . C 3 HOH 51 551 551 HOH HOH A . C 3 HOH 52 552 552 HOH HOH A . C 3 HOH 53 553 553 HOH HOH A . C 3 HOH 54 554 554 HOH HOH A . C 3 HOH 55 555 555 HOH HOH A . C 3 HOH 56 556 556 HOH HOH A . C 3 HOH 57 557 557 HOH HOH A . C 3 HOH 58 558 558 HOH HOH A . C 3 HOH 59 559 559 HOH HOH A . C 3 HOH 60 560 560 HOH HOH A . C 3 HOH 61 561 561 HOH HOH A . C 3 HOH 62 562 562 HOH HOH A . C 3 HOH 63 563 563 HOH HOH A . C 3 HOH 64 564 564 HOH HOH A . C 3 HOH 65 565 565 HOH HOH A . C 3 HOH 66 566 566 HOH HOH A . C 3 HOH 67 567 567 HOH HOH A . C 3 HOH 68 568 568 HOH HOH A . C 3 HOH 69 569 569 HOH HOH A . C 3 HOH 70 570 570 HOH HOH A . C 3 HOH 71 571 571 HOH HOH A . C 3 HOH 72 572 572 HOH HOH A . C 3 HOH 73 573 573 HOH HOH A . C 3 HOH 74 574 574 HOH HOH A . C 3 HOH 75 575 575 HOH HOH A . C 3 HOH 76 576 576 HOH HOH A . C 3 HOH 77 577 577 HOH HOH A . C 3 HOH 78 578 578 HOH HOH A . C 3 HOH 79 579 579 HOH HOH A . C 3 HOH 80 580 580 HOH HOH A . C 3 HOH 81 581 581 HOH HOH A . C 3 HOH 82 582 582 HOH HOH A . C 3 HOH 83 583 583 HOH HOH A . C 3 HOH 84 584 584 HOH HOH A . C 3 HOH 85 585 585 HOH HOH A . C 3 HOH 86 586 586 HOH HOH A . C 3 HOH 87 587 587 HOH HOH A . C 3 HOH 88 588 588 HOH HOH A . C 3 HOH 89 589 589 HOH HOH A . C 3 HOH 90 590 590 HOH HOH A . C 3 HOH 91 591 591 HOH HOH A . C 3 HOH 92 592 592 HOH HOH A . C 3 HOH 93 593 593 HOH HOH A . C 3 HOH 94 594 594 HOH HOH A . C 3 HOH 95 595 595 HOH HOH A . C 3 HOH 96 596 596 HOH HOH A . C 3 HOH 97 597 597 HOH HOH A . C 3 HOH 98 598 598 HOH HOH A . C 3 HOH 99 599 599 HOH HOH A . C 3 HOH 100 600 600 HOH HOH A . C 3 HOH 101 601 601 HOH HOH A . C 3 HOH 102 602 602 HOH HOH A . C 3 HOH 103 603 603 HOH HOH A . C 3 HOH 104 604 604 HOH HOH A . C 3 HOH 105 605 605 HOH HOH A . C 3 HOH 106 606 606 HOH HOH A . C 3 HOH 107 607 607 HOH HOH A . C 3 HOH 108 608 608 HOH HOH A . C 3 HOH 109 609 609 HOH HOH A . C 3 HOH 110 610 610 HOH HOH A . C 3 HOH 111 611 611 HOH HOH A . C 3 HOH 112 612 612 HOH HOH A . C 3 HOH 113 613 613 HOH HOH A . C 3 HOH 114 614 614 HOH HOH A . C 3 HOH 115 615 615 HOH HOH A . C 3 HOH 116 616 616 HOH HOH A . C 3 HOH 117 617 617 HOH HOH A . C 3 HOH 118 618 618 HOH HOH A . C 3 HOH 119 619 619 HOH HOH A . C 3 HOH 120 620 620 HOH HOH A . C 3 HOH 121 621 621 HOH HOH A . C 3 HOH 122 622 622 HOH HOH A . C 3 HOH 123 623 623 HOH HOH A . C 3 HOH 124 624 624 HOH HOH A . C 3 HOH 125 625 625 HOH HOH A . C 3 HOH 126 626 626 HOH HOH A . C 3 HOH 127 627 627 HOH HOH A . C 3 HOH 128 628 628 HOH HOH A . C 3 HOH 129 629 629 HOH HOH A . C 3 HOH 130 630 630 HOH HOH A . C 3 HOH 131 631 631 HOH HOH A . C 3 HOH 132 632 632 HOH HOH A . C 3 HOH 133 633 633 HOH HOH A . C 3 HOH 134 634 634 HOH HOH A . C 3 HOH 135 635 635 HOH HOH A . C 3 HOH 136 636 636 HOH HOH A . C 3 HOH 137 637 637 HOH HOH A . C 3 HOH 138 638 638 HOH HOH A . C 3 HOH 139 639 639 HOH HOH A . C 3 HOH 140 640 640 HOH HOH A . C 3 HOH 141 641 641 HOH HOH A . C 3 HOH 142 642 642 HOH HOH A . C 3 HOH 143 643 643 HOH HOH A . C 3 HOH 144 644 644 HOH HOH A . C 3 HOH 145 645 645 HOH HOH A . C 3 HOH 146 646 646 HOH HOH A . C 3 HOH 147 647 647 HOH HOH A . C 3 HOH 148 648 648 HOH HOH A . C 3 HOH 149 649 649 HOH HOH A . C 3 HOH 150 650 650 HOH HOH A . C 3 HOH 151 651 651 HOH HOH A . C 3 HOH 152 652 652 HOH HOH A . C 3 HOH 153 653 653 HOH HOH A . C 3 HOH 154 654 654 HOH HOH A . C 3 HOH 155 655 655 HOH HOH A . C 3 HOH 156 656 656 HOH HOH A . C 3 HOH 157 657 657 HOH HOH A . C 3 HOH 158 658 658 HOH HOH A . C 3 HOH 159 659 659 HOH HOH A . C 3 HOH 160 660 660 HOH HOH A . C 3 HOH 161 661 661 HOH HOH A . C 3 HOH 162 662 662 HOH HOH A . C 3 HOH 163 663 663 HOH HOH A . C 3 HOH 164 664 664 HOH HOH A . C 3 HOH 165 665 665 HOH HOH A . C 3 HOH 166 666 666 HOH HOH A . C 3 HOH 167 667 667 HOH HOH A . C 3 HOH 168 668 668 HOH HOH A . C 3 HOH 169 669 669 HOH HOH A . C 3 HOH 170 670 670 HOH HOH A . C 3 HOH 171 671 671 HOH HOH A . C 3 HOH 172 672 672 HOH HOH A . C 3 HOH 173 673 673 HOH HOH A . C 3 HOH 174 674 674 HOH HOH A . C 3 HOH 175 675 675 HOH HOH A . C 3 HOH 176 676 676 HOH HOH A . C 3 HOH 177 677 677 HOH HOH A . C 3 HOH 178 678 678 HOH HOH A . C 3 HOH 179 679 679 HOH HOH A . C 3 HOH 180 680 680 HOH HOH A . C 3 HOH 181 681 681 HOH HOH A . C 3 HOH 182 682 682 HOH HOH A . C 3 HOH 183 683 683 HOH HOH A . C 3 HOH 184 684 684 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 # _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 504 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _pdbx_struct_special_symmetry.label_comp_id HOH _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 2009-02-03 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2021-11-10 # _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' 'Database references' 3 3 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' database_2 2 3 'Structure model' struct_ref_seq_dif 3 3 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_struct_ref_seq_dif.details' 4 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 HKL-2000 'data collection' . ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 SHELXDE phasing . ? 5 # 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 MET 152 ? A MET 1 2 1 Y 1 A GLU 224 ? A GLU 73 3 1 Y 1 A TYR 225 ? A TYR 74 4 1 Y 1 A GLU 226 ? A GLU 75 5 1 Y 1 A ASN 227 ? A ASN 76 6 1 Y 1 A GLY 228 ? A GLY 77 7 1 Y 1 A GLN 229 ? A GLN 78 8 1 Y 1 A ARG 230 ? A ARG 79 9 1 Y 1 A HIS 316 ? A HIS 165 10 1 Y 1 A HIS 317 ? A HIS 166 11 1 Y 1 A HIS 318 ? A HIS 167 12 1 Y 1 A HIS 319 ? A HIS 168 13 1 Y 1 A HIS 320 ? A HIS 169 14 1 Y 1 A HIS 321 ? A HIS 170 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH #