data_3HYQ # _entry.id 3HYQ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3HYQ RCSB RCSB053746 WWPDB D_1000053746 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id IDP01970 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3HYQ _pdbx_database_status.recvd_initial_deposition_date 2009-06-22 _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 Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Kim, Y.' 1 'Zhou, M.' 2 'Peterson, S.' 3 'Anderson, W.F.' 4 'Joachimiak, A.' 5 'Center for Structural Genomics of Infectious Diseases (CSGID)' 6 # _citation.id primary _citation.title 'Crystal Structure of Isopentenyl-Diphosphate delta-Isomerase from Salmonella entericase' _citation.journal_abbrev 'To be Published' _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 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Kim, Y.' 1 primary 'Zhou, M.' 2 primary 'Peterson, S.' 3 primary 'Anderson, W.F.' 4 primary 'Joachimiak, A.' 5 # _cell.entry_id 3HYQ _cell.length_a 81.443 _cell.length_b 64.152 _cell.length_c 35.187 _cell.angle_alpha 90.00 _cell.angle_beta 101.36 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 3HYQ _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _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 'Isopentenyl-diphosphate Delta-isomerase' 21262.264 1 5.3.3.2 ? ? ? 2 water nat water 18.015 227 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'IPP isomerase, Isopentenyl pyrophosphate isomerase, IPP:DMAPP isomerase' # _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 ;SNA(MSE)TEEHVVLLDEQDKPSGTLEKYAAHTLNTPLHLAFSCWLFNEDGQLLVTRRSLSKKAWPGVWTNSVCGHPQQG ETTEEAIIRRCRFELGVEITDLTPVYPHFSYRATDPNGIVENEVCPVFAARATSVLQVNSEEV(MSE)DYQWSEFKSVWK SLLATPWAFSPW(MSE)V(MSE)QASDEQARERLLNYCQR ; _entity_poly.pdbx_seq_one_letter_code_can ;SNAMTEEHVVLLDEQDKPSGTLEKYAAHTLNTPLHLAFSCWLFNEDGQLLVTRRSLSKKAWPGVWTNSVCGHPQQGETTE EAIIRRCRFELGVEITDLTPVYPHFSYRATDPNGIVENEVCPVFAARATSVLQVNSEEVMDYQWSEFKSVWKSLLATPWA FSPWMVMQASDEQARERLLNYCQR ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier IDP01970 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 ALA n 1 4 MSE n 1 5 THR n 1 6 GLU n 1 7 GLU n 1 8 HIS n 1 9 VAL n 1 10 VAL n 1 11 LEU n 1 12 LEU n 1 13 ASP n 1 14 GLU n 1 15 GLN n 1 16 ASP n 1 17 LYS n 1 18 PRO n 1 19 SER n 1 20 GLY n 1 21 THR n 1 22 LEU n 1 23 GLU n 1 24 LYS n 1 25 TYR n 1 26 ALA n 1 27 ALA n 1 28 HIS n 1 29 THR n 1 30 LEU n 1 31 ASN n 1 32 THR n 1 33 PRO n 1 34 LEU n 1 35 HIS n 1 36 LEU n 1 37 ALA n 1 38 PHE n 1 39 SER n 1 40 CYS n 1 41 TRP n 1 42 LEU n 1 43 PHE n 1 44 ASN n 1 45 GLU n 1 46 ASP n 1 47 GLY n 1 48 GLN n 1 49 LEU n 1 50 LEU n 1 51 VAL n 1 52 THR n 1 53 ARG n 1 54 ARG n 1 55 SER n 1 56 LEU n 1 57 SER n 1 58 LYS n 1 59 LYS n 1 60 ALA n 1 61 TRP n 1 62 PRO n 1 63 GLY n 1 64 VAL n 1 65 TRP n 1 66 THR n 1 67 ASN n 1 68 SER n 1 69 VAL n 1 70 CYS n 1 71 GLY n 1 72 HIS n 1 73 PRO n 1 74 GLN n 1 75 GLN n 1 76 GLY n 1 77 GLU n 1 78 THR n 1 79 THR n 1 80 GLU n 1 81 GLU n 1 82 ALA n 1 83 ILE n 1 84 ILE n 1 85 ARG n 1 86 ARG n 1 87 CYS n 1 88 ARG n 1 89 PHE n 1 90 GLU n 1 91 LEU n 1 92 GLY n 1 93 VAL n 1 94 GLU n 1 95 ILE n 1 96 THR n 1 97 ASP n 1 98 LEU n 1 99 THR n 1 100 PRO n 1 101 VAL n 1 102 TYR n 1 103 PRO n 1 104 HIS n 1 105 PHE n 1 106 SER n 1 107 TYR n 1 108 ARG n 1 109 ALA n 1 110 THR n 1 111 ASP n 1 112 PRO n 1 113 ASN n 1 114 GLY n 1 115 ILE n 1 116 VAL n 1 117 GLU n 1 118 ASN n 1 119 GLU n 1 120 VAL n 1 121 CYS n 1 122 PRO n 1 123 VAL n 1 124 PHE n 1 125 ALA n 1 126 ALA n 1 127 ARG n 1 128 ALA n 1 129 THR n 1 130 SER n 1 131 VAL n 1 132 LEU n 1 133 GLN n 1 134 VAL n 1 135 ASN n 1 136 SER n 1 137 GLU n 1 138 GLU n 1 139 VAL n 1 140 MSE n 1 141 ASP n 1 142 TYR n 1 143 GLN n 1 144 TRP n 1 145 SER n 1 146 GLU n 1 147 PHE n 1 148 LYS n 1 149 SER n 1 150 VAL n 1 151 TRP n 1 152 LYS n 1 153 SER n 1 154 LEU n 1 155 LEU n 1 156 ALA n 1 157 THR n 1 158 PRO n 1 159 TRP n 1 160 ALA n 1 161 PHE n 1 162 SER n 1 163 PRO n 1 164 TRP n 1 165 MSE n 1 166 VAL n 1 167 MSE n 1 168 GLN n 1 169 ALA n 1 170 SER n 1 171 ASP n 1 172 GLU n 1 173 GLN n 1 174 ALA n 1 175 ARG n 1 176 GLU n 1 177 ARG n 1 178 LEU n 1 179 LEU n 1 180 ASN n 1 181 TYR n 1 182 CYS n 1 183 GLN n 1 184 ARG 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 idi _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain LT2 _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 'Salmonella enterica subsp. enterica serovar Typhimurium' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 99287 _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 562 _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 magic' _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 pMCSG7 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code IDI_SALTY _struct_ref.pdbx_db_accession Q8ZM82 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MTEEHVVLLDEQDKPSGTLEKYAAHTLNTPLHLAFSCWLFNEDGQLLVTRRSLSKKAWPGVWTNSVCGHPQQGETTEEAI IRRCRFELGVEITDLTPVYPHFSYRATDPNGIVENEVCPVFAARATSVLQVNSEEVMDYQWSEFKSVWKSLLATPWAFSP WMVMQASDEQARERLLNYCQR ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3HYQ _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 184 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8ZM82 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 181 _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 181 # 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 3HYQ SER A 1 ? UNP Q8ZM82 ? ? 'EXPRESSION TAG' -2 1 1 3HYQ ASN A 2 ? UNP Q8ZM82 ? ? 'EXPRESSION TAG' -1 2 1 3HYQ ALA A 3 ? UNP Q8ZM82 ? ? 'EXPRESSION TAG' 0 3 # 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 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 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 3HYQ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.12 _exptl_crystal.density_percent_sol 41.96 _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 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_details '0.4 M ammonium dihydrogen phosphate, chymotripsyn (1:100), VAPOR DIFFUSION, SITTING DROP, temperature 289K' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 210r' _diffrn_detector.pdbx_collection_date 2009-05-31 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'double crystal monochromator' _diffrn_radiation.pdbx_diffrn_protocol SAD _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9792 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-BM' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-BM _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9792 # _reflns.entry_id 3HYQ _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F 0.0 _reflns.d_resolution_low 50 _reflns.d_resolution_high 1.53 _reflns.number_obs 26450 _reflns.number_all 26450 _reflns.percent_possible_obs 98.1 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.062 _reflns.pdbx_netI_over_sigmaI 19.0 _reflns.B_iso_Wilson_estimate 21.74 _reflns.pdbx_redundancy 3.9 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.53 _reflns_shell.d_res_low 1.56 _reflns_shell.percent_possible_all 78 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.308 _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.pdbx_redundancy 2.0 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1015 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3HYQ _refine.ls_number_reflns_obs 26437 _refine.ls_number_reflns_all 26437 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 25.005 _refine.ls_d_res_high 1.525 _refine.ls_percent_reflns_obs 97.68 _refine.ls_R_factor_obs 0.164 _refine.ls_R_factor_all 0.164 _refine.ls_R_factor_R_work 0.163 _refine.ls_R_factor_R_free 0.187 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.03 _refine.ls_number_reflns_R_free 1329 _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 ? _refine.aniso_B[1][1] 2.7750 _refine.aniso_B[2][2] -4.3546 _refine.aniso_B[3][3] 1.5796 _refine.aniso_B[1][2] -0.0 _refine.aniso_B[1][3] 1.2287 _refine.aniso_B[2][3] -0.0 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.362 _refine.solvent_model_param_bsol 59.683 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values MLHL _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 0.09 _refine.overall_SU_B ? _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_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 1228 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 227 _refine_hist.number_atoms_total 1455 _refine_hist.d_res_high 1.525 _refine_hist.d_res_low 25.005 # 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 f_bond_d 0.018 ? ? ? 'X-RAY DIFFRACTION' ? f_angle_deg 1.536 ? ? ? 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 17.83 ? ? ? 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _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 . 1.5249 1.5859 2295 0.2275 82.00 0.2541 . . 125 . . 2420 . 'X-RAY DIFFRACTION' . 1.5859 1.6581 2827 0.2003 99.00 0.2246 . . 139 . . 2966 . 'X-RAY DIFFRACTION' . 1.6581 1.7455 2835 0.1720 100.00 0.1997 . . 149 . . 2984 . 'X-RAY DIFFRACTION' . 1.7455 1.8548 2886 0.1681 100.00 0.1960 . . 141 . . 3027 . 'X-RAY DIFFRACTION' . 1.8548 1.9980 2832 0.1654 100.00 0.2065 . . 147 . . 2979 . 'X-RAY DIFFRACTION' . 1.9980 2.1989 2849 0.1596 100.00 0.2115 . . 156 . . 3005 . 'X-RAY DIFFRACTION' . 2.1989 2.5169 2863 0.1616 100.00 0.1785 . . 150 . . 3013 . 'X-RAY DIFFRACTION' . 2.5169 3.1700 2868 0.1516 100.00 0.1655 . . 153 . . 3021 . 'X-RAY DIFFRACTION' . 3.1700 25.0086 2853 0.1545 99.00 0.1785 . . 169 . . 3022 . 'X-RAY DIFFRACTION' # _struct.entry_id 3HYQ _struct.title 'Crystal Structure of Isopentenyl-Diphosphate delta-Isomerase from Salmonella entericase' _struct.pdbx_descriptor 'Isopentenyl-diphosphate Delta-isomerase (E.C.5.3.3.2)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3HYQ _struct_keywords.pdbx_keywords ISOMERASE _struct_keywords.text ;alpha-beta structure, Isomerase, Isoprene biosynthesis, Magnesium, Manganese, Metal-binding, Structural Genomics, Center for Structural Genomics of Infectious Diseases, CSGID ; # 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 ? # _struct_biol.id 1 _struct_biol.details monomer # 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 THR A 78 ? GLY A 92 ? THR A 75 GLY A 89 1 ? 15 HELX_P HELX_P2 2 GLU A 146 ? THR A 157 ? GLU A 143 THR A 154 1 ? 12 HELX_P HELX_P3 3 PRO A 158 ? PHE A 161 ? PRO A 155 PHE A 158 5 ? 4 HELX_P HELX_P4 4 SER A 162 ? SER A 170 ? SER A 159 SER A 167 1 ? 9 HELX_P HELX_P5 5 ASP A 171 ? ASN A 180 ? ASP A 168 ASN A 177 1 ? 10 # _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 covale1 covale ? ? A VAL 139 C ? ? ? 1_555 A MSE 140 N ? ? A VAL 136 A MSE 137 1_555 ? ? ? ? ? ? ? 1.333 ? covale2 covale ? ? A MSE 140 C ? ? ? 1_555 A ASP 141 N ? ? A MSE 137 A ASP 138 1_555 ? ? ? ? ? ? ? 1.341 ? covale3 covale ? ? A TRP 164 C ? ? ? 1_555 A MSE 165 N ? ? A TRP 161 A MSE 162 1_555 ? ? ? ? ? ? ? 1.333 ? covale4 covale ? ? A MSE 165 C ? ? ? 1_555 A VAL 166 N ? ? A MSE 162 A VAL 163 1_555 ? ? ? ? ? ? ? 1.330 ? covale5 covale ? ? A VAL 166 C ? ? ? 1_555 A MSE 167 N A ? A VAL 163 A MSE 164 1_555 ? ? ? ? ? ? ? 1.331 ? covale6 covale ? ? A VAL 166 C ? ? ? 1_555 A MSE 167 N B ? A VAL 163 A MSE 164 1_555 ? ? ? ? ? ? ? 1.324 ? covale7 covale ? ? A VAL 166 C ? ? ? 1_555 A MSE 167 N C ? A VAL 163 A MSE 164 1_555 ? ? ? ? ? ? ? 1.324 ? covale8 covale ? ? A MSE 167 C A ? ? 1_555 A GLN 168 N ? ? A MSE 164 A GLN 165 1_555 ? ? ? ? ? ? ? 1.323 ? covale9 covale ? ? A MSE 167 C B ? ? 1_555 A GLN 168 N ? ? A MSE 164 A GLN 165 1_555 ? ? ? ? ? ? ? 1.328 ? covale10 covale ? ? A MSE 167 C C ? ? 1_555 A GLN 168 N ? ? A MSE 164 A GLN 165 1_555 ? ? ? ? ? ? ? 1.328 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 3 ? C ? 2 ? # 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 ? parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel C 1 2 ? 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 VAL A 69 ? GLY A 71 ? VAL A 66 GLY A 68 A 2 PHE A 38 ? PHE A 43 ? PHE A 35 PHE A 40 A 3 VAL A 123 ? ALA A 128 ? VAL A 120 ALA A 125 A 4 ILE A 95 ? TYR A 102 ? ILE A 92 TYR A 99 B 1 TRP A 65 ? THR A 66 ? TRP A 62 THR A 63 B 2 LEU A 49 ? ARG A 54 ? LEU A 46 ARG A 51 B 3 VAL A 139 ? SER A 145 ? VAL A 136 SER A 142 C 1 SER A 106 ? THR A 110 ? SER A 103 THR A 107 C 2 VAL A 116 ? VAL A 120 ? VAL A 113 VAL A 117 # 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 O VAL A 69 ? O VAL A 66 N CYS A 40 ? N CYS A 37 A 2 3 N PHE A 43 ? N PHE A 40 O ALA A 126 ? O ALA A 123 A 3 4 O VAL A 123 ? O VAL A 120 N VAL A 101 ? N VAL A 98 B 1 2 O THR A 66 ? O THR A 63 N THR A 52 ? N THR A 49 B 2 3 N VAL A 51 ? N VAL A 48 O GLN A 143 ? O GLN A 140 C 1 2 N ALA A 109 ? N ALA A 106 O GLU A 117 ? O GLU A 114 # _database_PDB_matrix.entry_id 3HYQ _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 3HYQ _atom_sites.fract_transf_matrix[1][1] 0.012279 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002467 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.015588 _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] 0.028987 _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 SE # 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 SER 1 -2 ? ? ? A . n A 1 2 ASN 2 -1 ? ? ? A . n A 1 3 ALA 3 0 ? ? ? A . n A 1 4 MSE 4 1 ? ? ? A . n A 1 5 THR 5 2 ? ? ? A . n A 1 6 GLU 6 3 ? ? ? A . n A 1 7 GLU 7 4 ? ? ? A . n A 1 8 HIS 8 5 ? ? ? A . n A 1 9 VAL 9 6 ? ? ? A . n A 1 10 VAL 10 7 ? ? ? A . n A 1 11 LEU 11 8 ? ? ? A . n A 1 12 LEU 12 9 ? ? ? A . n A 1 13 ASP 13 10 ? ? ? A . n A 1 14 GLU 14 11 ? ? ? A . n A 1 15 GLN 15 12 ? ? ? A . n A 1 16 ASP 16 13 ? ? ? A . n A 1 17 LYS 17 14 ? ? ? A . n A 1 18 PRO 18 15 ? ? ? A . n A 1 19 SER 19 16 ? ? ? A . n A 1 20 GLY 20 17 ? ? ? A . n A 1 21 THR 21 18 ? ? ? A . n A 1 22 LEU 22 19 ? ? ? A . n A 1 23 GLU 23 20 ? ? ? A . n A 1 24 LYS 24 21 ? ? ? A . n A 1 25 TYR 25 22 ? ? ? A . n A 1 26 ALA 26 23 ? ? ? A . n A 1 27 ALA 27 24 ? ? ? A . n A 1 28 HIS 28 25 ? ? ? A . n A 1 29 THR 29 26 ? ? ? A . n A 1 30 LEU 30 27 ? ? ? A . n A 1 31 ASN 31 28 ? ? ? A . n A 1 32 THR 32 29 ? ? ? A . n A 1 33 PRO 33 30 ? ? ? A . n A 1 34 LEU 34 31 31 LEU LEU A . n A 1 35 HIS 35 32 32 HIS HIS A . n A 1 36 LEU 36 33 33 LEU LEU A . n A 1 37 ALA 37 34 34 ALA ALA A . n A 1 38 PHE 38 35 35 PHE PHE A . n A 1 39 SER 39 36 36 SER SER A . n A 1 40 CYS 40 37 37 CYS CYS A . n A 1 41 TRP 41 38 38 TRP TRP A . n A 1 42 LEU 42 39 39 LEU LEU A . n A 1 43 PHE 43 40 40 PHE PHE A . n A 1 44 ASN 44 41 41 ASN ASN A . n A 1 45 GLU 45 42 42 GLU GLU A . n A 1 46 ASP 46 43 43 ASP ASP A . n A 1 47 GLY 47 44 44 GLY GLY A . n A 1 48 GLN 48 45 45 GLN GLN A . n A 1 49 LEU 49 46 46 LEU LEU A . n A 1 50 LEU 50 47 47 LEU LEU A . n A 1 51 VAL 51 48 48 VAL VAL A . n A 1 52 THR 52 49 49 THR THR A . n A 1 53 ARG 53 50 50 ARG ARG A . n A 1 54 ARG 54 51 51 ARG ARG A . n A 1 55 SER 55 52 52 SER SER A . n A 1 56 LEU 56 53 53 LEU LEU A . n A 1 57 SER 57 54 54 SER SER A . n A 1 58 LYS 58 55 55 LYS LYS A . n A 1 59 LYS 59 56 56 LYS LYS A . n A 1 60 ALA 60 57 57 ALA ALA A . n A 1 61 TRP 61 58 58 TRP TRP A . n A 1 62 PRO 62 59 59 PRO PRO A . n A 1 63 GLY 63 60 60 GLY GLY A . n A 1 64 VAL 64 61 61 VAL VAL A . n A 1 65 TRP 65 62 62 TRP TRP A . n A 1 66 THR 66 63 63 THR THR A . n A 1 67 ASN 67 64 64 ASN ASN A . n A 1 68 SER 68 65 65 SER SER A . n A 1 69 VAL 69 66 66 VAL VAL A . n A 1 70 CYS 70 67 67 CYS CYS A . n A 1 71 GLY 71 68 68 GLY GLY A . n A 1 72 HIS 72 69 69 HIS HIS A . n A 1 73 PRO 73 70 70 PRO PRO A . n A 1 74 GLN 74 71 71 GLN GLN A . n A 1 75 GLN 75 72 72 GLN GLN A . n A 1 76 GLY 76 73 73 GLY GLY A . n A 1 77 GLU 77 74 74 GLU GLU A . n A 1 78 THR 78 75 75 THR THR A . n A 1 79 THR 79 76 76 THR THR A . n A 1 80 GLU 80 77 77 GLU GLU A . n A 1 81 GLU 81 78 78 GLU GLU A . n A 1 82 ALA 82 79 79 ALA ALA A . n A 1 83 ILE 83 80 80 ILE ILE A . n A 1 84 ILE 84 81 81 ILE ILE A . n A 1 85 ARG 85 82 82 ARG ARG A . n A 1 86 ARG 86 83 83 ARG ARG A . n A 1 87 CYS 87 84 84 CYS CYS A . n A 1 88 ARG 88 85 85 ARG ARG A . n A 1 89 PHE 89 86 86 PHE PHE A . n A 1 90 GLU 90 87 87 GLU GLU A . n A 1 91 LEU 91 88 88 LEU LEU A . n A 1 92 GLY 92 89 89 GLY GLY A . n A 1 93 VAL 93 90 90 VAL VAL A . n A 1 94 GLU 94 91 91 GLU GLU A . n A 1 95 ILE 95 92 92 ILE ILE A . n A 1 96 THR 96 93 93 THR THR A . n A 1 97 ASP 97 94 94 ASP ASP A . n A 1 98 LEU 98 95 95 LEU LEU A . n A 1 99 THR 99 96 96 THR THR A . n A 1 100 PRO 100 97 97 PRO PRO A . n A 1 101 VAL 101 98 98 VAL VAL A . n A 1 102 TYR 102 99 99 TYR TYR A . n A 1 103 PRO 103 100 100 PRO PRO A . n A 1 104 HIS 104 101 101 HIS HIS A . n A 1 105 PHE 105 102 102 PHE PHE A . n A 1 106 SER 106 103 103 SER SER A . n A 1 107 TYR 107 104 104 TYR TYR A . n A 1 108 ARG 108 105 105 ARG ARG A . n A 1 109 ALA 109 106 106 ALA ALA A . n A 1 110 THR 110 107 107 THR THR A . n A 1 111 ASP 111 108 108 ASP ASP A . n A 1 112 PRO 112 109 109 PRO PRO A . n A 1 113 ASN 113 110 110 ASN ASN A . n A 1 114 GLY 114 111 111 GLY GLY A . n A 1 115 ILE 115 112 112 ILE ILE A . n A 1 116 VAL 116 113 113 VAL VAL A . n A 1 117 GLU 117 114 114 GLU GLU A . n A 1 118 ASN 118 115 115 ASN ASN A . n A 1 119 GLU 119 116 116 GLU GLU A . n A 1 120 VAL 120 117 117 VAL VAL A . n A 1 121 CYS 121 118 118 CYS CYS A . n A 1 122 PRO 122 119 119 PRO PRO A . n A 1 123 VAL 123 120 120 VAL VAL A . n A 1 124 PHE 124 121 121 PHE PHE A . n A 1 125 ALA 125 122 122 ALA ALA A . n A 1 126 ALA 126 123 123 ALA ALA A . n A 1 127 ARG 127 124 124 ARG ARG A . n A 1 128 ALA 128 125 125 ALA ALA A . n A 1 129 THR 129 126 126 THR THR A . n A 1 130 SER 130 127 127 SER SER A . n A 1 131 VAL 131 128 128 VAL VAL A . n A 1 132 LEU 132 129 129 LEU LEU A . n A 1 133 GLN 133 130 130 GLN GLN A . n A 1 134 VAL 134 131 131 VAL VAL A . n A 1 135 ASN 135 132 132 ASN ASN A . n A 1 136 SER 136 133 133 SER SER A . n A 1 137 GLU 137 134 134 GLU GLU A . n A 1 138 GLU 138 135 135 GLU GLU A . n A 1 139 VAL 139 136 136 VAL VAL A . n A 1 140 MSE 140 137 137 MSE MSE A . n A 1 141 ASP 141 138 138 ASP ASP A . n A 1 142 TYR 142 139 139 TYR TYR A . n A 1 143 GLN 143 140 140 GLN GLN A . n A 1 144 TRP 144 141 141 TRP TRP A . n A 1 145 SER 145 142 142 SER SER A . n A 1 146 GLU 146 143 143 GLU GLU A . n A 1 147 PHE 147 144 144 PHE PHE A . n A 1 148 LYS 148 145 145 LYS LYS A . n A 1 149 SER 149 146 146 SER SER A . n A 1 150 VAL 150 147 147 VAL VAL A . n A 1 151 TRP 151 148 148 TRP TRP A . n A 1 152 LYS 152 149 149 LYS LYS A . n A 1 153 SER 153 150 150 SER SER A . n A 1 154 LEU 154 151 151 LEU LEU A . n A 1 155 LEU 155 152 152 LEU LEU A . n A 1 156 ALA 156 153 153 ALA ALA A . n A 1 157 THR 157 154 154 THR THR A . n A 1 158 PRO 158 155 155 PRO PRO A . n A 1 159 TRP 159 156 156 TRP TRP A . n A 1 160 ALA 160 157 157 ALA ALA A . n A 1 161 PHE 161 158 158 PHE PHE A . n A 1 162 SER 162 159 159 SER SER A . n A 1 163 PRO 163 160 160 PRO PRO A . n A 1 164 TRP 164 161 161 TRP TRP A . n A 1 165 MSE 165 162 162 MSE MSE A . n A 1 166 VAL 166 163 163 VAL VAL A . n A 1 167 MSE 167 164 164 MSE MSE A . n A 1 168 GLN 168 165 165 GLN GLN A . n A 1 169 ALA 169 166 166 ALA ALA A . n A 1 170 SER 170 167 167 SER SER A . n A 1 171 ASP 171 168 168 ASP ASP A . n A 1 172 GLU 172 169 169 GLU GLU A . n A 1 173 GLN 173 170 170 GLN GLN A . n A 1 174 ALA 174 171 171 ALA ALA A . n A 1 175 ARG 175 172 172 ARG ARG A . n A 1 176 GLU 176 173 173 GLU GLU A . n A 1 177 ARG 177 174 174 ARG ARG A . n A 1 178 LEU 178 175 175 LEU LEU A . n A 1 179 LEU 179 176 176 LEU LEU A . n A 1 180 ASN 180 177 177 ASN ASN A . n A 1 181 TYR 181 178 178 TYR TYR A . n A 1 182 CYS 182 179 179 CYS CYS A . n A 1 183 GLN 183 180 180 GLN GLN A . n A 1 184 ARG 184 181 181 ARG ARG A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name ? _pdbx_SG_project.full_name_of_center 'Center for Structural Genomics of Infectious Diseases' _pdbx_SG_project.initial_of_center CSGID # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 140 A MSE 137 ? MET SELENOMETHIONINE 2 A MSE 165 A MSE 162 ? MET SELENOMETHIONINE 3 A MSE 167 A MSE 164 ? MET SELENOMETHIONINE # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? monomeric 1 2 software_defined_assembly PISA dimeric 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B 2 1,2 A,B # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 2 'ABSA (A^2)' 1460 ? 2 MORE -12 ? 2 'SSA (A^2)' 15410 ? # 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_655 -x+1,y,-z -1.0000000000 0.0000000000 0.0000000000 81.4430000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 332 ? B HOH . 2 1 A HOH 408 ? B HOH . # 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 2009-06-30 2 'Structure model' 1 1 2011-07-13 # _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 ? # 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' 'Source and taxonomy' 2 2 'Structure model' 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SBC-Collect 'data collection' . ? 1 HKL-3000 'data collection' . ? 2 HKL-3000 phasing . ? 3 SHELXD phasing . ? 4 MLPHARE phasing . ? 5 DM 'model building' . ? 6 RESOLVE 'model building' . ? 7 Coot 'model building' . ? 8 PHENIX refinement 1.4_58 ? 9 HKL-3000 'data reduction' . ? 10 HKL-3000 'data scaling' . ? 11 DM phasing . ? 12 RESOLVE phasing . ? 13 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 C _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 ARG _pdbx_validate_rmsd_bond.auth_seq_id_1 181 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 OXT _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 ARG _pdbx_validate_rmsd_bond.auth_seq_id_2 181 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.596 _pdbx_validate_rmsd_bond.bond_target_value 1.229 _pdbx_validate_rmsd_bond.bond_deviation 0.367 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.019 _pdbx_validate_rmsd_bond.linker_flag N # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 NE _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ARG _pdbx_validate_rmsd_angle.auth_seq_id_1 172 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CZ _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ARG _pdbx_validate_rmsd_angle.auth_seq_id_2 172 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 NH1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ARG _pdbx_validate_rmsd_angle.auth_seq_id_3 172 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 124.04 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 3.74 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.50 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id TYR _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 99 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -157.94 _pdbx_validate_torsion.psi 74.01 # 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 SER -2 ? A SER 1 2 1 Y 1 A ASN -1 ? A ASN 2 3 1 Y 1 A ALA 0 ? A ALA 3 4 1 Y 1 A MSE 1 ? A MSE 4 5 1 Y 1 A THR 2 ? A THR 5 6 1 Y 1 A GLU 3 ? A GLU 6 7 1 Y 1 A GLU 4 ? A GLU 7 8 1 Y 1 A HIS 5 ? A HIS 8 9 1 Y 1 A VAL 6 ? A VAL 9 10 1 Y 1 A VAL 7 ? A VAL 10 11 1 Y 1 A LEU 8 ? A LEU 11 12 1 Y 1 A LEU 9 ? A LEU 12 13 1 Y 1 A ASP 10 ? A ASP 13 14 1 Y 1 A GLU 11 ? A GLU 14 15 1 Y 1 A GLN 12 ? A GLN 15 16 1 Y 1 A ASP 13 ? A ASP 16 17 1 Y 1 A LYS 14 ? A LYS 17 18 1 Y 1 A PRO 15 ? A PRO 18 19 1 Y 1 A SER 16 ? A SER 19 20 1 Y 1 A GLY 17 ? A GLY 20 21 1 Y 1 A THR 18 ? A THR 21 22 1 Y 1 A LEU 19 ? A LEU 22 23 1 Y 1 A GLU 20 ? A GLU 23 24 1 Y 1 A LYS 21 ? A LYS 24 25 1 Y 1 A TYR 22 ? A TYR 25 26 1 Y 1 A ALA 23 ? A ALA 26 27 1 Y 1 A ALA 24 ? A ALA 27 28 1 Y 1 A HIS 25 ? A HIS 28 29 1 Y 1 A THR 26 ? A THR 29 30 1 Y 1 A LEU 27 ? A LEU 30 31 1 Y 1 A ASN 28 ? A ASN 31 32 1 Y 1 A THR 29 ? A THR 32 33 1 Y 1 A PRO 30 ? A PRO 33 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # 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 HOH 1 182 182 HOH HOH A . B 2 HOH 2 183 183 HOH HOH A . B 2 HOH 3 184 184 HOH HOH A . B 2 HOH 4 185 185 HOH HOH A . B 2 HOH 5 186 186 HOH HOH A . B 2 HOH 6 187 187 HOH HOH A . B 2 HOH 7 188 188 HOH HOH A . B 2 HOH 8 189 189 HOH HOH A . B 2 HOH 9 190 190 HOH HOH A . B 2 HOH 10 191 191 HOH HOH A . B 2 HOH 11 192 192 HOH HOH A . B 2 HOH 12 193 193 HOH HOH A . B 2 HOH 13 194 194 HOH HOH A . B 2 HOH 14 195 195 HOH HOH A . B 2 HOH 15 196 196 HOH HOH A . B 2 HOH 16 197 197 HOH HOH A . B 2 HOH 17 198 198 HOH HOH A . B 2 HOH 18 199 199 HOH HOH A . B 2 HOH 19 200 200 HOH HOH A . B 2 HOH 20 201 201 HOH HOH A . B 2 HOH 21 202 202 HOH HOH A . B 2 HOH 22 203 203 HOH HOH A . B 2 HOH 23 204 204 HOH HOH A . B 2 HOH 24 205 205 HOH HOH A . B 2 HOH 25 206 206 HOH HOH A . B 2 HOH 26 207 207 HOH HOH A . B 2 HOH 27 208 208 HOH HOH A . B 2 HOH 28 209 209 HOH HOH A . B 2 HOH 29 210 210 HOH HOH A . B 2 HOH 30 211 211 HOH HOH A . B 2 HOH 31 212 212 HOH HOH A . B 2 HOH 32 213 213 HOH HOH A . B 2 HOH 33 214 214 HOH HOH A . B 2 HOH 34 215 215 HOH HOH A . B 2 HOH 35 216 216 HOH HOH A . B 2 HOH 36 217 217 HOH HOH A . B 2 HOH 37 218 218 HOH HOH A . B 2 HOH 38 219 219 HOH HOH A . B 2 HOH 39 220 220 HOH HOH A . B 2 HOH 40 221 221 HOH HOH A . B 2 HOH 41 222 222 HOH HOH A . B 2 HOH 42 223 223 HOH HOH A . B 2 HOH 43 224 224 HOH HOH A . B 2 HOH 44 225 225 HOH HOH A . B 2 HOH 45 226 226 HOH HOH A . B 2 HOH 46 227 227 HOH HOH A . B 2 HOH 47 228 1 HOH HOH A . B 2 HOH 48 229 2 HOH HOH A . B 2 HOH 49 230 3 HOH HOH A . B 2 HOH 50 231 4 HOH HOH A . B 2 HOH 51 232 5 HOH HOH A . B 2 HOH 52 233 6 HOH HOH A . B 2 HOH 53 234 7 HOH HOH A . B 2 HOH 54 235 8 HOH HOH A . B 2 HOH 55 236 9 HOH HOH A . B 2 HOH 56 237 10 HOH HOH A . B 2 HOH 57 238 11 HOH HOH A . B 2 HOH 58 239 12 HOH HOH A . B 2 HOH 59 240 13 HOH HOH A . B 2 HOH 60 241 14 HOH HOH A . B 2 HOH 61 242 15 HOH HOH A . B 2 HOH 62 243 16 HOH HOH A . B 2 HOH 63 244 17 HOH HOH A . B 2 HOH 64 245 18 HOH HOH A . B 2 HOH 65 246 19 HOH HOH A . B 2 HOH 66 247 20 HOH HOH A . B 2 HOH 67 248 21 HOH HOH A . B 2 HOH 68 249 22 HOH HOH A . B 2 HOH 69 250 23 HOH HOH A . B 2 HOH 70 251 24 HOH HOH A . B 2 HOH 71 252 25 HOH HOH A . B 2 HOH 72 253 26 HOH HOH A . B 2 HOH 73 254 27 HOH HOH A . B 2 HOH 74 255 28 HOH HOH A . B 2 HOH 75 256 29 HOH HOH A . B 2 HOH 76 257 30 HOH HOH A . B 2 HOH 77 258 31 HOH HOH A . B 2 HOH 78 259 32 HOH HOH A . B 2 HOH 79 260 33 HOH HOH A . B 2 HOH 80 261 34 HOH HOH A . B 2 HOH 81 262 35 HOH HOH A . B 2 HOH 82 263 36 HOH HOH A . B 2 HOH 83 264 37 HOH HOH A . B 2 HOH 84 265 38 HOH HOH A . B 2 HOH 85 266 39 HOH HOH A . B 2 HOH 86 267 40 HOH HOH A . B 2 HOH 87 268 41 HOH HOH A . B 2 HOH 88 269 42 HOH HOH A . B 2 HOH 89 270 43 HOH HOH A . B 2 HOH 90 271 44 HOH HOH A . B 2 HOH 91 272 45 HOH HOH A . B 2 HOH 92 273 46 HOH HOH A . B 2 HOH 93 274 47 HOH HOH A . B 2 HOH 94 275 48 HOH HOH A . B 2 HOH 95 276 49 HOH HOH A . B 2 HOH 96 277 50 HOH HOH A . B 2 HOH 97 278 51 HOH HOH A . B 2 HOH 98 279 52 HOH HOH A . B 2 HOH 99 280 53 HOH HOH A . B 2 HOH 100 281 54 HOH HOH A . B 2 HOH 101 282 55 HOH HOH A . B 2 HOH 102 283 56 HOH HOH A . B 2 HOH 103 284 57 HOH HOH A . B 2 HOH 104 285 58 HOH HOH A . B 2 HOH 105 286 59 HOH HOH A . B 2 HOH 106 287 60 HOH HOH A . B 2 HOH 107 288 61 HOH HOH A . B 2 HOH 108 289 62 HOH HOH A . B 2 HOH 109 290 63 HOH HOH A . B 2 HOH 110 291 64 HOH HOH A . B 2 HOH 111 292 65 HOH HOH A . B 2 HOH 112 293 66 HOH HOH A . B 2 HOH 113 294 67 HOH HOH A . B 2 HOH 114 295 68 HOH HOH A . B 2 HOH 115 296 69 HOH HOH A . B 2 HOH 116 297 70 HOH HOH A . B 2 HOH 117 298 71 HOH HOH A . B 2 HOH 118 299 72 HOH HOH A . B 2 HOH 119 300 73 HOH HOH A . B 2 HOH 120 301 74 HOH HOH A . B 2 HOH 121 302 75 HOH HOH A . B 2 HOH 122 303 76 HOH HOH A . B 2 HOH 123 304 77 HOH HOH A . B 2 HOH 124 305 78 HOH HOH A . B 2 HOH 125 306 79 HOH HOH A . B 2 HOH 126 307 80 HOH HOH A . B 2 HOH 127 308 81 HOH HOH A . B 2 HOH 128 309 82 HOH HOH A . B 2 HOH 129 310 83 HOH HOH A . B 2 HOH 130 311 84 HOH HOH A . B 2 HOH 131 312 85 HOH HOH A . B 2 HOH 132 313 86 HOH HOH A . B 2 HOH 133 314 87 HOH HOH A . B 2 HOH 134 315 88 HOH HOH A . B 2 HOH 135 316 89 HOH HOH A . B 2 HOH 136 317 90 HOH HOH A . B 2 HOH 137 318 91 HOH HOH A . B 2 HOH 138 319 92 HOH HOH A . B 2 HOH 139 320 93 HOH HOH A . B 2 HOH 140 321 94 HOH HOH A . B 2 HOH 141 322 95 HOH HOH A . B 2 HOH 142 323 96 HOH HOH A . B 2 HOH 143 324 97 HOH HOH A . B 2 HOH 144 325 98 HOH HOH A . B 2 HOH 145 326 99 HOH HOH A . B 2 HOH 146 327 100 HOH HOH A . B 2 HOH 147 328 101 HOH HOH A . B 2 HOH 148 329 102 HOH HOH A . B 2 HOH 149 330 103 HOH HOH A . B 2 HOH 150 331 104 HOH HOH A . B 2 HOH 151 332 105 HOH HOH A . B 2 HOH 152 333 106 HOH HOH A . B 2 HOH 153 334 107 HOH HOH A . B 2 HOH 154 335 108 HOH HOH A . B 2 HOH 155 336 109 HOH HOH A . B 2 HOH 156 337 110 HOH HOH A . B 2 HOH 157 338 111 HOH HOH A . B 2 HOH 158 339 112 HOH HOH A . B 2 HOH 159 340 113 HOH HOH A . B 2 HOH 160 341 114 HOH HOH A . B 2 HOH 161 342 115 HOH HOH A . B 2 HOH 162 343 116 HOH HOH A . B 2 HOH 163 344 117 HOH HOH A . B 2 HOH 164 345 118 HOH HOH A . B 2 HOH 165 346 119 HOH HOH A . B 2 HOH 166 347 120 HOH HOH A . B 2 HOH 167 348 121 HOH HOH A . B 2 HOH 168 349 122 HOH HOH A . B 2 HOH 169 350 123 HOH HOH A . B 2 HOH 170 351 124 HOH HOH A . B 2 HOH 171 352 125 HOH HOH A . B 2 HOH 172 353 126 HOH HOH A . B 2 HOH 173 354 127 HOH HOH A . B 2 HOH 174 355 128 HOH HOH A . B 2 HOH 175 356 129 HOH HOH A . B 2 HOH 176 357 130 HOH HOH A . B 2 HOH 177 358 131 HOH HOH A . B 2 HOH 178 359 132 HOH HOH A . B 2 HOH 179 360 133 HOH HOH A . B 2 HOH 180 361 134 HOH HOH A . B 2 HOH 181 362 135 HOH HOH A . B 2 HOH 182 363 136 HOH HOH A . B 2 HOH 183 364 137 HOH HOH A . B 2 HOH 184 365 138 HOH HOH A . B 2 HOH 185 366 139 HOH HOH A . B 2 HOH 186 367 140 HOH HOH A . B 2 HOH 187 368 141 HOH HOH A . B 2 HOH 188 369 142 HOH HOH A . B 2 HOH 189 370 143 HOH HOH A . B 2 HOH 190 371 144 HOH HOH A . B 2 HOH 191 372 145 HOH HOH A . B 2 HOH 192 373 146 HOH HOH A . B 2 HOH 193 374 147 HOH HOH A . B 2 HOH 194 375 148 HOH HOH A . B 2 HOH 195 376 149 HOH HOH A . B 2 HOH 196 377 150 HOH HOH A . B 2 HOH 197 378 151 HOH HOH A . B 2 HOH 198 379 152 HOH HOH A . B 2 HOH 199 380 153 HOH HOH A . B 2 HOH 200 381 154 HOH HOH A . B 2 HOH 201 382 155 HOH HOH A . B 2 HOH 202 383 156 HOH HOH A . B 2 HOH 203 384 157 HOH HOH A . B 2 HOH 204 385 158 HOH HOH A . B 2 HOH 205 386 159 HOH HOH A . B 2 HOH 206 387 160 HOH HOH A . B 2 HOH 207 388 161 HOH HOH A . B 2 HOH 208 389 162 HOH HOH A . B 2 HOH 209 390 163 HOH HOH A . B 2 HOH 210 391 164 HOH HOH A . B 2 HOH 211 392 165 HOH HOH A . B 2 HOH 212 393 166 HOH HOH A . B 2 HOH 213 394 167 HOH HOH A . B 2 HOH 214 395 168 HOH HOH A . B 2 HOH 215 396 169 HOH HOH A . B 2 HOH 216 397 170 HOH HOH A . B 2 HOH 217 398 171 HOH HOH A . B 2 HOH 218 399 172 HOH HOH A . B 2 HOH 219 400 173 HOH HOH A . B 2 HOH 220 401 174 HOH HOH A . B 2 HOH 221 402 175 HOH HOH A . B 2 HOH 222 403 176 HOH HOH A . B 2 HOH 223 404 177 HOH HOH A . B 2 HOH 224 405 178 HOH HOH A . B 2 HOH 225 406 179 HOH HOH A . B 2 HOH 226 407 180 HOH HOH A . B 2 HOH 227 408 181 HOH HOH A . #