data_4PZJ # _entry.id 4PZJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.287 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4PZJ RCSB RCSB085415 WWPDB D_1000085415 # _pdbx_database_related.db_name TargetTrack _pdbx_database_related.db_id MCSG-APC108738 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4PZJ _pdbx_database_status.recvd_initial_deposition_date 2014-03-31 _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.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Halavaty, A.S.' 1 'Filippova, E.V.' 2 'Minasov, G.' 3 'Kiryukhina, O.' 4 'Endres, M.' 5 'Shuvalova, L.' 6 'Joachimiak, A.' 7 'Anderson, W.F.' 8 'Midwest Center for Structural Genomics (MCSG)' 9 # _citation.id primary _citation.title '1.60 Angstrom resolution crystal structure of a transcriptional regulator of the LysR family from Eggerthella lenta DSM 2243' _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 'Halavaty, A.S.' 1 primary 'Filippova, E.V.' 2 primary 'Minasov, G.' 3 primary 'Kiryukhina, O.' 4 primary 'Endres, M.' 5 primary 'Shuvalova, L.' 6 primary 'Joachimiak, A.' 7 primary 'Anderson, W.F.' 8 # _cell.entry_id 4PZJ _cell.length_a 31.623 _cell.length_b 31.623 _cell.length_c 132.340 _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 4PZJ _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 'Transcriptional regulator, LysR family' 8179.068 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 3 water nat water 18.015 64 ? ? ? ? # _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 ;(MSE)LDFRVETFLTV(CME)RT(MSE)NYTRAAEELNITQPAVSQHIAHLERDYGVPLFAYRNKKLQLTDAGALLRDAL ST ; _entity_poly.pdbx_seq_one_letter_code_can MLDFRVETFLTVCRTMNYTRAAEELNITQPAVSQHIAHLERDYGVPLFAYRNKKLQLTDAGALLRDALST _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier MCSG-APC108738 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MSE n 1 2 LEU n 1 3 ASP n 1 4 PHE n 1 5 ARG n 1 6 VAL n 1 7 GLU n 1 8 THR n 1 9 PHE n 1 10 LEU n 1 11 THR n 1 12 VAL n 1 13 CME n 1 14 ARG n 1 15 THR n 1 16 MSE n 1 17 ASN n 1 18 TYR n 1 19 THR n 1 20 ARG n 1 21 ALA n 1 22 ALA n 1 23 GLU n 1 24 GLU n 1 25 LEU n 1 26 ASN n 1 27 ILE n 1 28 THR n 1 29 GLN n 1 30 PRO n 1 31 ALA n 1 32 VAL n 1 33 SER n 1 34 GLN n 1 35 HIS n 1 36 ILE n 1 37 ALA n 1 38 HIS n 1 39 LEU n 1 40 GLU n 1 41 ARG n 1 42 ASP n 1 43 TYR n 1 44 GLY n 1 45 VAL n 1 46 PRO n 1 47 LEU n 1 48 PHE n 1 49 ALA n 1 50 TYR n 1 51 ARG n 1 52 ASN n 1 53 LYS n 1 54 LYS n 1 55 LEU n 1 56 GLN n 1 57 LEU n 1 58 THR n 1 59 ASP n 1 60 ALA n 1 61 GLY n 1 62 ALA n 1 63 LEU n 1 64 LEU n 1 65 ARG n 1 66 ASP n 1 67 ALA n 1 68 LEU n 1 69 SER n 1 70 THR 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 Elen_0221 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'DSM 2243' _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 'Eggerthella lenta' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 479437 _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) 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 pMCSG68 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code C8WJY2_EGGLE _struct_ref.pdbx_db_accession C8WJY2 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code MLDFRVETFLTVCRTMNYTRAAEELNITQPAVSQHIAHLERDYGVPLFAYRNKKLQLTDAGALLRDALST _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 4PZJ _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 70 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession C8WJY2 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 70 _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 70 # 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 CME 'L-peptide linking' n 'S,S-(2-HYDROXYETHYL)THIOCYSTEINE' ? 'C5 H11 N O3 S2' 197.276 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 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 4PZJ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.02 _exptl_crystal.density_percent_sol 39.19 _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 295 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pdbx_details ;protein at 1.3 mg/mL in 10 mM Tris-HCl pH 8.3, 500 mM NaCl, 5 mM BME. crystallization: The Classics II Suite (A12 (#12): 100 mM Tris pH 8.5, 3 M NaCl), VAPOR DIFFUSION, SITTING DROP, temperature 295K. Cryo condition: 25% (final) sucrose. ; _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.details Mirror _diffrn_detector.type 'MARMOSAIC 300 mm CCD' _diffrn_detector.pdbx_collection_date 2014-03-20 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97875 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 21-ID-D' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 21-ID-D _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97875 # _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.limit_k_max ? _reflns.d_resolution_high 1.60 _reflns.observed_criterion_F_min ? _reflns.pdbx_netI_over_sigmaI 51.2 _reflns.observed_criterion_F_max ? _reflns.pdbx_Rmerge_I_obs 0.077 _reflns.limit_l_max ? _reflns.limit_k_min ? _reflns.entry_id 4PZJ _reflns.B_iso_Wilson_estimate 21.5 _reflns.percent_possible_obs 98.1 _reflns.pdbx_Rsym_value 0.077 _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F ? _reflns.limit_l_min ? _reflns.limit_h_min ? _reflns.R_free_details ? _reflns.number_all 9452 _reflns.d_resolution_low 30.00 _reflns.pdbx_redundancy 12.2 _reflns.number_obs 9452 _reflns.limit_h_max ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 1.60 _reflns_shell.d_res_low 1.63 _reflns_shell.percent_possible_all 85.7 _reflns_shell.Rmerge_I_obs 0.496 _reflns_shell.pdbx_Rsym_value 0.496 _reflns_shell.meanI_over_sigI_obs 3.42 _reflns_shell.pdbx_redundancy 7.7 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 377 _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.ls_percent_reflns_R_free 4.8 _refine.overall_SU_B 2.221 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_R_Free_selection_details RANDOM _refine.overall_FOM_free_R_set ? _refine.pdbx_data_cutoff_low_absF ? _refine.entry_id 4PZJ _refine.aniso_B[2][3] -0.00 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_ML 0.076 _refine.aniso_B[1][3] 0.00 _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.aniso_B[3][3] -4.39 _refine.solvent_model_param_ksol ? _refine.ls_number_restraints ? _refine.aniso_B[1][1] 2.19 _refine.pdbx_overall_ESU_R 0.099 _refine.ls_R_factor_obs 0.19072 _refine.occupancy_min ? _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_starting_model ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_method_to_determine_struct SAD _refine.occupancy_max ? _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.correlation_coeff_Fo_to_Fc 0.969 _refine.ls_number_reflns_R_free 452 _refine.correlation_coeff_Fo_to_Fc_free 0.951 _refine.pdbx_ls_sigma_F . _refine.ls_percent_reflns_obs 98.20 _refine.ls_R_factor_R_work 0.18955 _refine.overall_SU_R_free ? _refine.ls_d_res_high 1.60 _refine.pdbx_overall_ESU_R_Free 0.094 _refine.B_iso_min ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.B_iso_mean 30.482 _refine.pdbx_stereochem_target_val_spec_case ? _refine.ls_R_factor_all ? _refine.aniso_B[2][2] 2.19 _refine.B_iso_max ? _refine.pdbx_ls_sigma_I ? _refine.ls_d_res_low 28.55 _refine.pdbx_overall_phase_error ? _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.aniso_B[1][2] 0.00 _refine.ls_R_factor_R_free 0.21322 _refine.ls_R_factor_R_free_error ? _refine.ls_number_reflns_obs 8945 _refine.overall_FOM_work_R_set ? _refine.ls_number_parameters ? _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.ls_number_reflns_all 8945 _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.solvent_model_param_bsol ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 565 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 64 _refine_hist.number_atoms_total 630 _refine_hist.d_res_high 1.60 _refine_hist.d_res_low 28.55 # 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 r_bond_refined_d 0.015 0.019 ? 594 ? 'X-RAY DIFFRACTION' r_bond_other_d 0.001 0.020 ? 578 ? 'X-RAY DIFFRACTION' r_angle_refined_deg 2.141 1.993 ? 805 ? 'X-RAY DIFFRACTION' r_angle_other_deg 0.863 3.000 ? 1322 ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 3.439 5.000 ? 73 ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 27.563 22.857 ? 28 ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 10.521 15.000 ? 94 ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 17.259 15.000 ? 6 ? 'X-RAY DIFFRACTION' r_chiral_restr 0.098 0.200 ? 94 ? 'X-RAY DIFFRACTION' r_gen_planes_refined 0.008 0.020 ? 668 ? 'X-RAY DIFFRACTION' r_gen_planes_other 0.002 0.020 ? 142 ? 'X-RAY DIFFRACTION' # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.602 _refine_ls_shell.d_res_low 1.643 _refine_ls_shell.number_reflns_R_work 583 _refine_ls_shell.R_factor_R_work 0.307 _refine_ls_shell.percent_reflns_obs 90.29 _refine_ls_shell.R_factor_R_free 0.344 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 31 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 583 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 4PZJ _struct.title '1.60 Angstrom resolution crystal structure of a transcriptional regulator of the LysR family from Eggerthella lenta DSM 2243' _struct.pdbx_descriptor 'Transcriptional regulator, LysR family' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.pdbx_keywords TRANSCRIPTION _struct_keywords.text 'STRUCTURAL GENOMICS, PSI-BIOLOGY, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, Transcription' _struct_keywords.entry_id 4PZJ # 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 LEU A 2 ? MSE A 16 ? LEU A 2 MSE A 16 1 ? 15 HELX_P HELX_P2 2 ASN A 17 ? ASN A 26 ? ASN A 17 ASN A 26 1 ? 10 HELX_P HELX_P3 3 THR A 28 ? GLY A 44 ? THR A 28 GLY A 44 1 ? 17 HELX_P HELX_P4 4 THR A 58 ? SER A 69 ? THR A 58 SER A 69 1 ? 12 # _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 MSE 1 C ? ? ? 1_555 A LEU 2 N ? ? A MSE 1 A LEU 2 1_555 ? ? ? ? ? ? ? 1.326 ? covale2 covale ? ? A VAL 12 C ? ? ? 1_555 A CME 13 N A ? A VAL 12 A CME 13 1_555 ? ? ? ? ? ? ? 1.346 ? covale3 covale ? ? A VAL 12 C ? ? ? 1_555 A CME 13 N B ? A VAL 12 A CME 13 1_555 ? ? ? ? ? ? ? 1.302 ? covale4 covale ? ? A CME 13 C A ? ? 1_555 A ARG 14 N ? ? A CME 13 A ARG 14 1_555 ? ? ? ? ? ? ? 1.340 ? covale5 covale ? ? A CME 13 C B ? ? 1_555 A ARG 14 N ? ? A CME 13 A ARG 14 1_555 ? ? ? ? ? ? ? 1.308 ? covale6 covale ? ? A THR 15 C ? ? ? 1_555 A MSE 16 N ? ? A THR 15 A MSE 16 1_555 ? ? ? ? ? ? ? 1.332 ? covale7 covale ? ? A MSE 16 C ? ? ? 1_555 A ASN 17 N ? ? A MSE 16 A ASN 17 1_555 ? ? ? ? ? ? ? 1.328 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_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 PHE A 48 ? ARG A 51 ? PHE A 48 ARG A 51 A 2 LYS A 54 ? LEU A 57 ? LYS A 54 LEU A 57 # _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 ALA _pdbx_struct_sheet_hbond.range_1_label_asym_id A _pdbx_struct_sheet_hbond.range_1_label_seq_id 49 _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 ALA _pdbx_struct_sheet_hbond.range_1_auth_asym_id A _pdbx_struct_sheet_hbond.range_1_auth_seq_id 49 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id GLN _pdbx_struct_sheet_hbond.range_2_label_asym_id A _pdbx_struct_sheet_hbond.range_2_label_seq_id 56 _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 GLN _pdbx_struct_sheet_hbond.range_2_auth_asym_id A _pdbx_struct_sheet_hbond.range_2_auth_seq_id 56 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _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 2 _struct_site.details 'BINDING SITE FOR RESIDUE CL A 101' # 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 18 ? TYR A 18 . ? 1_555 ? 2 AC1 2 TYR A 50 ? TYR A 50 . ? 1_555 ? # _database_PDB_matrix.entry_id 4PZJ _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 4PZJ _atom_sites.fract_transf_matrix[1][1] 0.031623 _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] 0.031623 _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] 0.007556 _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 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 MSE 1 1 1 MSE MSE A . n A 1 2 LEU 2 2 2 LEU LEU A . n A 1 3 ASP 3 3 3 ASP ASP A . n A 1 4 PHE 4 4 4 PHE PHE A . n A 1 5 ARG 5 5 5 ARG ARG A . n A 1 6 VAL 6 6 6 VAL VAL A . n A 1 7 GLU 7 7 7 GLU GLU A . n A 1 8 THR 8 8 8 THR THR A . n A 1 9 PHE 9 9 9 PHE PHE A . n A 1 10 LEU 10 10 10 LEU LEU A . n A 1 11 THR 11 11 11 THR THR A . n A 1 12 VAL 12 12 12 VAL VAL A . n A 1 13 CME 13 13 13 CME CME A . n A 1 14 ARG 14 14 14 ARG ARG A . n A 1 15 THR 15 15 15 THR THR A . n A 1 16 MSE 16 16 16 MSE MSE A . n A 1 17 ASN 17 17 17 ASN ASN A . n A 1 18 TYR 18 18 18 TYR TYR A . n A 1 19 THR 19 19 19 THR THR A . n A 1 20 ARG 20 20 20 ARG ARG A . n A 1 21 ALA 21 21 21 ALA ALA A . n A 1 22 ALA 22 22 22 ALA ALA A . n A 1 23 GLU 23 23 23 GLU GLU A . n A 1 24 GLU 24 24 24 GLU GLU A . n A 1 25 LEU 25 25 25 LEU LEU A . n A 1 26 ASN 26 26 26 ASN ASN A . n A 1 27 ILE 27 27 27 ILE ILE A . n A 1 28 THR 28 28 28 THR THR A . n A 1 29 GLN 29 29 29 GLN GLN A . n A 1 30 PRO 30 30 30 PRO PRO A . n A 1 31 ALA 31 31 31 ALA ALA A . n A 1 32 VAL 32 32 32 VAL VAL A . n A 1 33 SER 33 33 33 SER SER A . n A 1 34 GLN 34 34 34 GLN GLN A . n A 1 35 HIS 35 35 35 HIS HIS A . n A 1 36 ILE 36 36 36 ILE ILE A . n A 1 37 ALA 37 37 37 ALA ALA A . n A 1 38 HIS 38 38 38 HIS HIS A . n A 1 39 LEU 39 39 39 LEU LEU A . n A 1 40 GLU 40 40 40 GLU GLU A . n A 1 41 ARG 41 41 41 ARG ARG A . n A 1 42 ASP 42 42 42 ASP ASP A . n A 1 43 TYR 43 43 43 TYR TYR A . n A 1 44 GLY 44 44 44 GLY GLY A . n A 1 45 VAL 45 45 45 VAL VAL A . n A 1 46 PRO 46 46 46 PRO PRO A . n A 1 47 LEU 47 47 47 LEU LEU A . n A 1 48 PHE 48 48 48 PHE PHE A . n A 1 49 ALA 49 49 49 ALA ALA A . n A 1 50 TYR 50 50 50 TYR TYR A . n A 1 51 ARG 51 51 51 ARG ARG A . n A 1 52 ASN 52 52 52 ASN ASN A . n A 1 53 LYS 53 53 53 LYS LYS A . n A 1 54 LYS 54 54 54 LYS LYS A . n A 1 55 LEU 55 55 55 LEU LEU A . n A 1 56 GLN 56 56 56 GLN GLN A . n A 1 57 LEU 57 57 57 LEU LEU A . n A 1 58 THR 58 58 58 THR THR A . n A 1 59 ASP 59 59 59 ASP ASP A . n A 1 60 ALA 60 60 60 ALA ALA A . n A 1 61 GLY 61 61 61 GLY GLY A . n A 1 62 ALA 62 62 62 ALA ALA A . n A 1 63 LEU 63 63 63 LEU LEU A . n A 1 64 LEU 64 64 64 LEU LEU A . n A 1 65 ARG 65 65 65 ARG ARG A . n A 1 66 ASP 66 66 66 ASP ASP A . n A 1 67 ALA 67 67 67 ALA ALA A . n A 1 68 LEU 68 68 68 LEU LEU A . n A 1 69 SER 69 69 69 SER SER A . n A 1 70 THR 70 70 70 THR THR A . n # _pdbx_SG_project.project_name PSI:Biology _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG _pdbx_SG_project.id 1 # 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 1 101 1 CL CL A . C 3 HOH 1 201 2 HOH HOH A . C 3 HOH 2 202 3 HOH HOH A . C 3 HOH 3 203 4 HOH HOH A . C 3 HOH 4 204 5 HOH HOH A . C 3 HOH 5 205 6 HOH HOH A . C 3 HOH 6 206 7 HOH HOH A . C 3 HOH 7 207 8 HOH HOH A . C 3 HOH 8 208 9 HOH HOH A . C 3 HOH 9 209 10 HOH HOH A . C 3 HOH 10 210 11 HOH HOH A . C 3 HOH 11 211 12 HOH HOH A . C 3 HOH 12 212 13 HOH HOH A . C 3 HOH 13 213 14 HOH HOH A . C 3 HOH 14 214 15 HOH HOH A . C 3 HOH 15 215 16 HOH HOH A . C 3 HOH 16 216 17 HOH HOH A . C 3 HOH 17 217 18 HOH HOH A . C 3 HOH 18 218 19 HOH HOH A . C 3 HOH 19 219 20 HOH HOH A . C 3 HOH 20 220 21 HOH HOH A . C 3 HOH 21 221 22 HOH HOH A . C 3 HOH 22 222 23 HOH HOH A . C 3 HOH 23 223 24 HOH HOH A . C 3 HOH 24 224 25 HOH HOH A . C 3 HOH 25 225 26 HOH HOH A . C 3 HOH 26 226 27 HOH HOH A . C 3 HOH 27 227 28 HOH HOH A . C 3 HOH 28 228 29 HOH HOH A . C 3 HOH 29 229 30 HOH HOH A . C 3 HOH 30 230 31 HOH HOH A . C 3 HOH 31 231 32 HOH HOH A . C 3 HOH 32 232 33 HOH HOH A . C 3 HOH 33 233 34 HOH HOH A . C 3 HOH 34 234 35 HOH HOH A . C 3 HOH 35 235 36 HOH HOH A . C 3 HOH 36 236 37 HOH HOH A . C 3 HOH 37 237 38 HOH HOH A . C 3 HOH 38 238 39 HOH HOH A . C 3 HOH 39 239 40 HOH HOH A . C 3 HOH 40 240 41 HOH HOH A . C 3 HOH 41 241 42 HOH HOH A . C 3 HOH 42 242 43 HOH HOH A . C 3 HOH 43 243 44 HOH HOH A . C 3 HOH 44 244 45 HOH HOH A . C 3 HOH 45 245 46 HOH HOH A . C 3 HOH 46 246 47 HOH HOH A . C 3 HOH 47 247 48 HOH HOH A . C 3 HOH 48 248 49 HOH HOH A . C 3 HOH 49 249 50 HOH HOH A . C 3 HOH 50 250 51 HOH HOH A . C 3 HOH 51 251 52 HOH HOH A . C 3 HOH 52 252 53 HOH HOH A . C 3 HOH 53 253 54 HOH HOH A . C 3 HOH 54 254 55 HOH HOH A . C 3 HOH 55 255 56 HOH HOH A . C 3 HOH 56 256 57 HOH HOH A . C 3 HOH 57 257 58 HOH HOH A . C 3 HOH 58 258 59 HOH HOH A . C 3 HOH 59 259 60 HOH HOH A . C 3 HOH 60 260 61 HOH HOH A . C 3 HOH 61 261 62 HOH HOH A . C 3 HOH 62 262 63 HOH HOH A . C 3 HOH 63 263 64 HOH HOH A . C 3 HOH 64 264 65 HOH HOH A . # 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 1 A MSE 1 ? MET SELENOMETHIONINE 2 A CME 13 A CME 13 ? CYS 'S,S-(2-HYDROXYETHYL)THIOCYSTEINE' 3 A MSE 16 A MSE 16 ? MET SELENOMETHIONINE # _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1570 ? 1 MORE -33 ? 1 'SSA (A^2)' 8160 ? # 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' 8_665 -y+1,-x+1,-z+1/2 0.0000000000 -1.0000000000 0.0000000000 31.6230000000 -1.0000000000 0.0000000000 0.0000000000 31.6230000000 0.0000000000 0.0000000000 -1.0000000000 66.1700000000 # _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 224 _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 2014-04-23 2 'Structure model' 1 1 2017-11-22 # _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 'Refinement description' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 2 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category software # _pdbx_audit_revision_item.ordinal 1 _pdbx_audit_revision_item.revision_ordinal 2 _pdbx_audit_revision_item.data_content_type 'Structure model' _pdbx_audit_revision_item.item '_software.name' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal Blu-Ice 'data collection' Max ? 1 HKL-3000 phasing . ? 2 REFMAC refinement 5.7.0029 ? 3 HKL-3000 'data reduction' . ? 4 HKL-3000 'data scaling' . ? 5 # _pdbx_entry_details.entry_id 4PZJ _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THE FOLLOWING FULL-LENGTH PROTEIN WAS CRYSTALLIZED, HOWEVER ONLY 70 RESIDUES WERE OBSERVED IN THE CRYSTAL. SEQRES REPRESENTS THE OBSERVED RESIDUES ONLY. MHHHHHHSSGVDLWSHPQFEKGTENLYFQSNAMLDFRVETFLTV(CME)RTMNYTRAAEEL NITQPAVSQHIAHLERDYGVPLFAYRNKKLQLTDAGALLRDALSTMAHDERLLRDRMRSSA TGARVELSLGMTLTAGEYLVAAPLADYLRRHPELHVAVRSGGTSELLALLNAGEIDCAFVE GFFDKNAYAWDVFRTERLVCVCAADHEFAARPVRVEDLFDERLIVREPGSGTRAVLEHALA AQNLTVDGFAQASVVESLDVIKILVEHDLGISFLYEAAVARELAAGTLRVIDLEGLAILHD IAFIRLKNSVFEREFQNLFADL ; _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 17 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -160.16 _pdbx_validate_torsion.psi 110.41 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 water HOH #