data_4H4A # _entry.id 4H4A # _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 4H4A RCSB RCSB075000 WWPDB D_1000075000 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4H4A _pdbx_database_status.recvd_initial_deposition_date 2012-09-17 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Voigt, F.' 1 'Schulz, E.C.' 2 'Barabas, O.' 3 # _citation.id primary _citation.title 'Crystal structure of the primary piRNA biogenesis factor Zucchini reveals similarity to the bacterial PLD endonuclease Nuc.' _citation.journal_abbrev Rna _citation.journal_volume 18 _citation.page_first 2128 _citation.page_last 2134 _citation.year 2012 _citation.journal_id_ASTM RNARFU _citation.country UK _citation.journal_id_ISSN 1355-8382 _citation.journal_id_CSD 2122 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 23086923 _citation.pdbx_database_id_DOI 10.1261/rna.034967.112 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Voigt, F.' 1 primary 'Reuter, M.' 2 primary 'Kasaruho, A.' 3 primary 'Schulz, E.C.' 4 primary 'Pillai, R.S.' 5 primary 'Barabas, O.' 6 # _cell.entry_id 4H4A _cell.length_a 35.640 _cell.length_b 51.280 _cell.length_c 40.970 _cell.angle_alpha 90.00 _cell.angle_beta 107.63 _cell.angle_gamma 90.00 _cell.Z_PDB 2 _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 4H4A _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _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 'Mitochondrial cardiolipin hydrolase' 19338.666 1 3.1.4.- ? 'C-terminal fragment (UNP residues 89-253)' ? 2 water nat water 18.015 40 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Mitochondrial phospholipase homolog, MitoPLD, Protein zucchini' # _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 ;GP(MSE)GSLRNVAKIVEQIDRAVYSIDLAIYTFTSLFLADSIKRALQRGVIIRIISDGE(MSE)VYSKGSQIS(MSE)L AQLGVPVRVPITTNL(MSE)HNKFCIIDGFERVEEIRLLRKLKF(MSE)RPCYSIVISGSVNWTALGLGGNWENCIITAD DKLTATFQAEFQR(MSE)WRAFAKTEGSQIQLK ; _entity_poly.pdbx_seq_one_letter_code_can ;GPMGSLRNVAKIVEQIDRAVYSIDLAIYTFTSLFLADSIKRALQRGVIIRIISDGEMVYSKGSQISMLAQLGVPVRVPIT TNLMHNKFCIIDGFERVEEIRLLRKLKFMRPCYSIVISGSVNWTALGLGGNWENCIITADDKLTATFQAEFQRMWRAFAK TEGSQIQLK ; _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 GLY n 1 2 PRO n 1 3 MSE n 1 4 GLY n 1 5 SER n 1 6 LEU n 1 7 ARG n 1 8 ASN n 1 9 VAL n 1 10 ALA n 1 11 LYS n 1 12 ILE n 1 13 VAL n 1 14 GLU n 1 15 GLN n 1 16 ILE n 1 17 ASP n 1 18 ARG n 1 19 ALA n 1 20 VAL n 1 21 TYR n 1 22 SER n 1 23 ILE n 1 24 ASP n 1 25 LEU n 1 26 ALA n 1 27 ILE n 1 28 TYR n 1 29 THR n 1 30 PHE n 1 31 THR n 1 32 SER n 1 33 LEU n 1 34 PHE n 1 35 LEU n 1 36 ALA n 1 37 ASP n 1 38 SER n 1 39 ILE n 1 40 LYS n 1 41 ARG n 1 42 ALA n 1 43 LEU n 1 44 GLN n 1 45 ARG n 1 46 GLY n 1 47 VAL n 1 48 ILE n 1 49 ILE n 1 50 ARG n 1 51 ILE n 1 52 ILE n 1 53 SER n 1 54 ASP n 1 55 GLY n 1 56 GLU n 1 57 MSE n 1 58 VAL n 1 59 TYR n 1 60 SER n 1 61 LYS n 1 62 GLY n 1 63 SER n 1 64 GLN n 1 65 ILE n 1 66 SER n 1 67 MSE n 1 68 LEU n 1 69 ALA n 1 70 GLN n 1 71 LEU n 1 72 GLY n 1 73 VAL n 1 74 PRO n 1 75 VAL n 1 76 ARG n 1 77 VAL n 1 78 PRO n 1 79 ILE n 1 80 THR n 1 81 THR n 1 82 ASN n 1 83 LEU n 1 84 MSE n 1 85 HIS n 1 86 ASN n 1 87 LYS n 1 88 PHE n 1 89 CYS n 1 90 ILE n 1 91 ILE n 1 92 ASP n 1 93 GLY n 1 94 PHE n 1 95 GLU n 1 96 ARG n 1 97 VAL n 1 98 GLU n 1 99 GLU n 1 100 ILE n 1 101 ARG n 1 102 LEU n 1 103 LEU n 1 104 ARG n 1 105 LYS n 1 106 LEU n 1 107 LYS n 1 108 PHE n 1 109 MSE n 1 110 ARG n 1 111 PRO n 1 112 CYS n 1 113 TYR n 1 114 SER n 1 115 ILE n 1 116 VAL n 1 117 ILE n 1 118 SER n 1 119 GLY n 1 120 SER n 1 121 VAL n 1 122 ASN n 1 123 TRP n 1 124 THR n 1 125 ALA n 1 126 LEU n 1 127 GLY n 1 128 LEU n 1 129 GLY n 1 130 GLY n 1 131 ASN n 1 132 TRP n 1 133 GLU n 1 134 ASN n 1 135 CYS n 1 136 ILE n 1 137 ILE n 1 138 THR n 1 139 ALA n 1 140 ASP n 1 141 ASP n 1 142 LYS n 1 143 LEU n 1 144 THR n 1 145 ALA n 1 146 THR n 1 147 PHE n 1 148 GLN n 1 149 ALA n 1 150 GLU n 1 151 PHE n 1 152 GLN n 1 153 ARG n 1 154 MSE n 1 155 TRP n 1 156 ARG n 1 157 ALA n 1 158 PHE n 1 159 ALA n 1 160 LYS n 1 161 THR n 1 162 GLU n 1 163 GLY n 1 164 SER n 1 165 GLN n 1 166 ILE n 1 167 GLN n 1 168 LEU n 1 169 LYS 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 'Fruit fly' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'zuc, CG12314' _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 'Drosophila melanogaster' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 7227 _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 pETM22 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code ZUC_DROME _struct_ref.pdbx_db_accession Q9VKD7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SLRNVAKIVEQIDRAVYSIDLAIYTFTSLFLADSIKRALQRGVIIRIISDGEMVYSKGSQISMLAQLGVPVRVPITTNLM HNKFCIIDGFERVEEIRLLRKLKFMRPCYSIVISGSVNWTALGLGGNWENCIITADDKLTATFQAEFQRMWRAFAKTEGS QIQLK ; _struct_ref.pdbx_align_begin 89 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4H4A _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 5 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 169 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9VKD7 _struct_ref_seq.db_align_beg 89 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 253 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 89 _struct_ref_seq.pdbx_auth_seq_align_end 253 # 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 4H4A GLY A 1 ? UNP Q9VKD7 ? ? 'CLONING ARTIFACT' 85 1 1 4H4A PRO A 2 ? UNP Q9VKD7 ? ? 'CLONING ARTIFACT' 86 2 1 4H4A MSE A 3 ? UNP Q9VKD7 ? ? 'CLONING ARTIFACT' 87 3 1 4H4A GLY A 4 ? UNP Q9VKD7 ? ? 'CLONING ARTIFACT' 88 4 # 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 4H4A _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.85 _exptl_crystal.density_percent_sol 33.33 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.0 _exptl_crystal_grow.pdbx_details '15% PEG 3350, 0.1M Bis-Tris, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K' _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 PIXEL _diffrn_detector.type 'PSI PILATUS 6M' _diffrn_detector.pdbx_collection_date 2012-03-03 _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 'mirrors + Bartels monochromator' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97942 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X06DA' _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X06DA _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97942 # _reflns.entry_id 4H4A _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 40.0 _reflns.d_resolution_high 2.2 _reflns.number_obs 14007 _reflns.number_all 14007 _reflns.percent_possible_obs 99.6 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.072 _reflns.pdbx_netI_over_sigmaI 11.42 _reflns.B_iso_Wilson_estimate 43.6 _reflns.pdbx_redundancy 3.5 _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 2.20 _reflns_shell.d_res_low 2.26 _reflns_shell.percent_possible_all 99.6 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 0.544 _reflns_shell.meanI_over_sigI_obs 2.3 _reflns_shell.pdbx_redundancy 3.2 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1045 _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 4H4A _refine.ls_number_reflns_obs 14002 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.99 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 33.966 _refine.ls_d_res_high 2.200 _refine.ls_percent_reflns_obs 99.73 _refine.ls_R_factor_obs 0.2221 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2185 _refine.ls_R_factor_R_free 0.2554 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.88 _refine.ls_number_reflns_R_free 1383 _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] -2.2469 _refine.aniso_B[2][2] -4.3781 _refine.aniso_B[3][3] 6.6251 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -2.1739 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.387 _refine.solvent_model_param_bsol 64.377 _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 ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _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 0.29 _refine.pdbx_overall_phase_error 25.99 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_analyze.entry_id 4H4A _refine_analyze.Luzzati_coordinate_error_obs 0.303 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1143 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 40 _refine_hist.number_atoms_total 1183 _refine_hist.d_res_high 2.200 _refine_hist.d_res_low 33.966 # 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 f_bond_d 0.003 ? ? 1159 ? 'X-RAY DIFFRACTION' f_angle_d 0.667 ? ? 1570 ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 12.613 ? ? 404 ? 'X-RAY DIFFRACTION' f_chiral_restr 0.046 ? ? 187 ? 'X-RAY DIFFRACTION' f_plane_restr 0.002 ? ? 198 ? '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 . 2.2002 2.2788 1265 0.2836 100.00 0.3208 . . 135 . . . . 'X-RAY DIFFRACTION' . 2.2788 2.3700 1282 0.2488 100.00 0.3132 . . 141 . . . . 'X-RAY DIFFRACTION' . 2.3700 2.4778 1206 0.2415 100.00 0.3035 . . 150 . . . . 'X-RAY DIFFRACTION' . 2.4778 2.6084 1304 0.2392 100.00 0.3223 . . 132 . . . . 'X-RAY DIFFRACTION' . 2.6084 2.7718 1254 0.2531 100.00 0.2910 . . 131 . . . . 'X-RAY DIFFRACTION' . 2.7718 2.9857 1307 0.2217 100.00 0.2459 . . 117 . . . . 'X-RAY DIFFRACTION' . 2.9857 3.2859 1244 0.1996 100.00 0.2607 . . 143 . . . . 'X-RAY DIFFRACTION' . 3.2859 3.7609 1222 0.1854 100.00 0.2359 . . 169 . . . . 'X-RAY DIFFRACTION' . 3.7609 4.7362 1276 0.1856 99.00 0.1999 . . 121 . . . . 'X-RAY DIFFRACTION' . 4.7362 33.9703 1259 0.2401 100.00 0.2573 . . 144 . . . . 'X-RAY DIFFRACTION' # _struct.entry_id 4H4A _struct.title 'Crystal structure of the C-terminal domain of Drosophila melanogaster Zucchini' _struct.pdbx_descriptor 'Mitochondrial cardiolipin hydrolase (E.C.3.1.4.-)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4H4A _struct_keywords.pdbx_keywords HYDROLASE _struct_keywords.text 'phospholipase D fold, HKD motif, nuclease/phospholipid hydrolase, nucleic acid/phospholipid, 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 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLY A 1 ? ALA A 19 ? GLY A 85 ALA A 103 1 ? 19 HELX_P HELX_P2 2 SER A 32 ? ARG A 45 ? SER A 116 ARG A 129 1 ? 14 HELX_P HELX_P3 3 ASP A 54 ? VAL A 58 ? ASP A 138 VAL A 142 5 ? 5 HELX_P HELX_P4 4 GLN A 64 ? GLN A 70 ? GLN A 148 GLN A 154 1 ? 7 HELX_P HELX_P5 5 GLY A 93 ? LYS A 105 ? GLY A 177 LYS A 189 1 ? 13 HELX_P HELX_P6 6 ASP A 140 ? ALA A 157 ? ASP A 224 ALA A 241 1 ? 18 # _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 PRO 2 C ? ? ? 1_555 A MSE 3 N ? ? A PRO 86 A MSE 87 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale ? ? A MSE 3 C ? ? ? 1_555 A GLY 4 N ? ? A MSE 87 A GLY 88 1_555 ? ? ? ? ? ? ? 1.331 ? covale3 covale ? ? A GLU 56 C ? ? ? 1_555 A MSE 57 N ? ? A GLU 140 A MSE 141 1_555 ? ? ? ? ? ? ? 1.328 ? covale4 covale ? ? A MSE 57 C ? ? ? 1_555 A VAL 58 N ? ? A MSE 141 A VAL 142 1_555 ? ? ? ? ? ? ? 1.329 ? covale5 covale ? ? A SER 66 C ? ? ? 1_555 A MSE 67 N ? ? A SER 150 A MSE 151 1_555 ? ? ? ? ? ? ? 1.330 ? covale6 covale ? ? A MSE 67 C ? ? ? 1_555 A LEU 68 N ? ? A MSE 151 A LEU 152 1_555 ? ? ? ? ? ? ? 1.330 ? covale7 covale ? ? A LEU 83 C ? ? ? 1_555 A MSE 84 N ? ? A LEU 167 A MSE 168 1_555 ? ? ? ? ? ? ? 1.327 ? covale8 covale ? ? A MSE 84 C ? ? ? 1_555 A HIS 85 N ? ? A MSE 168 A HIS 169 1_555 ? ? ? ? ? ? ? 1.331 ? covale9 covale ? ? A ARG 153 C ? ? ? 1_555 A MSE 154 N ? ? A ARG 237 A MSE 238 1_555 ? ? ? ? ? ? ? 1.332 ? covale10 covale ? ? A MSE 154 C ? ? ? 1_555 A TRP 155 N ? ? A MSE 238 A TRP 239 1_555 ? ? ? ? ? ? ? 1.330 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id ILE _struct_mon_prot_cis.label_seq_id 79 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id ILE _struct_mon_prot_cis.auth_seq_id 163 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 THR _struct_mon_prot_cis.pdbx_label_seq_id_2 80 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 THR _struct_mon_prot_cis.pdbx_auth_seq_id_2 164 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 0.40 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 7 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? parallel A 5 6 ? parallel A 6 7 ? 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 ILE A 136 ? THR A 138 ? ILE A 220 THR A 222 A 2 ILE A 115 ? GLY A 119 ? ILE A 199 GLY A 203 A 3 LYS A 87 ? ILE A 91 ? LYS A 171 ILE A 175 A 4 SER A 22 ? ALA A 26 ? SER A 106 ALA A 110 A 5 ILE A 48 ? ILE A 52 ? ILE A 132 ILE A 136 A 6 VAL A 75 ? VAL A 77 ? VAL A 159 VAL A 161 A 7 ILE A 166 ? GLN A 167 ? ILE A 250 GLN A 251 # 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 THR A 138 ? O THR A 222 N VAL A 116 ? N VAL A 200 A 2 3 O ILE A 115 ? O ILE A 199 N ILE A 91 ? N ILE A 175 A 3 4 O ILE A 90 ? O ILE A 174 N ASP A 24 ? N ASP A 108 A 4 5 N LEU A 25 ? N LEU A 109 O ILE A 52 ? O ILE A 136 A 5 6 N ILE A 51 ? N ILE A 135 O ARG A 76 ? O ARG A 160 A 6 7 N VAL A 77 ? N VAL A 161 O ILE A 166 ? O ILE A 250 # _database_PDB_matrix.entry_id 4H4A _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 4H4A _atom_sites.fract_transf_matrix[1][1] 0.028058 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.008916 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.019501 _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] 0.025611 _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 GLY 1 85 85 GLY GLY A . n A 1 2 PRO 2 86 86 PRO PRO A . n A 1 3 MSE 3 87 87 MSE MSE A . n A 1 4 GLY 4 88 88 GLY GLY A . n A 1 5 SER 5 89 89 SER SER A . n A 1 6 LEU 6 90 90 LEU LEU A . n A 1 7 ARG 7 91 91 ARG ARG A . n A 1 8 ASN 8 92 92 ASN ASN A . n A 1 9 VAL 9 93 93 VAL VAL A . n A 1 10 ALA 10 94 94 ALA ALA A . n A 1 11 LYS 11 95 95 LYS LYS A . n A 1 12 ILE 12 96 96 ILE ILE A . n A 1 13 VAL 13 97 97 VAL VAL A . n A 1 14 GLU 14 98 98 GLU GLU A . n A 1 15 GLN 15 99 99 GLN GLN A . n A 1 16 ILE 16 100 100 ILE ILE A . n A 1 17 ASP 17 101 101 ASP ASP A . n A 1 18 ARG 18 102 102 ARG ARG A . n A 1 19 ALA 19 103 103 ALA ALA A . n A 1 20 VAL 20 104 104 VAL VAL A . n A 1 21 TYR 21 105 105 TYR TYR A . n A 1 22 SER 22 106 106 SER SER A . n A 1 23 ILE 23 107 107 ILE ILE A . n A 1 24 ASP 24 108 108 ASP ASP A . n A 1 25 LEU 25 109 109 LEU LEU A . n A 1 26 ALA 26 110 110 ALA ALA A . n A 1 27 ILE 27 111 111 ILE ILE A . n A 1 28 TYR 28 112 112 TYR TYR A . n A 1 29 THR 29 113 113 THR THR A . n A 1 30 PHE 30 114 114 PHE PHE A . n A 1 31 THR 31 115 115 THR THR A . n A 1 32 SER 32 116 116 SER SER A . n A 1 33 LEU 33 117 117 LEU LEU A . n A 1 34 PHE 34 118 118 PHE PHE A . n A 1 35 LEU 35 119 119 LEU LEU A . n A 1 36 ALA 36 120 120 ALA ALA A . n A 1 37 ASP 37 121 121 ASP ASP A . n A 1 38 SER 38 122 122 SER SER A . n A 1 39 ILE 39 123 123 ILE ILE A . n A 1 40 LYS 40 124 124 LYS LYS A . n A 1 41 ARG 41 125 125 ARG ARG A . n A 1 42 ALA 42 126 126 ALA ALA A . n A 1 43 LEU 43 127 127 LEU LEU A . n A 1 44 GLN 44 128 128 GLN GLN A . n A 1 45 ARG 45 129 129 ARG ARG A . n A 1 46 GLY 46 130 130 GLY GLY A . n A 1 47 VAL 47 131 131 VAL VAL A . n A 1 48 ILE 48 132 132 ILE ILE A . n A 1 49 ILE 49 133 133 ILE ILE A . n A 1 50 ARG 50 134 134 ARG ARG A . n A 1 51 ILE 51 135 135 ILE ILE A . n A 1 52 ILE 52 136 136 ILE ILE A . n A 1 53 SER 53 137 137 SER SER A . n A 1 54 ASP 54 138 138 ASP ASP A . n A 1 55 GLY 55 139 139 GLY GLY A . n A 1 56 GLU 56 140 140 GLU GLU A . n A 1 57 MSE 57 141 141 MSE MSE A . n A 1 58 VAL 58 142 142 VAL VAL A . n A 1 59 TYR 59 143 143 TYR TYR A . n A 1 60 SER 60 144 144 SER SER A . n A 1 61 LYS 61 145 145 LYS LYS A . n A 1 62 GLY 62 146 146 GLY GLY A . n A 1 63 SER 63 147 147 SER SER A . n A 1 64 GLN 64 148 148 GLN GLN A . n A 1 65 ILE 65 149 149 ILE ILE A . n A 1 66 SER 66 150 150 SER SER A . n A 1 67 MSE 67 151 151 MSE MSE A . n A 1 68 LEU 68 152 152 LEU LEU A . n A 1 69 ALA 69 153 153 ALA ALA A . n A 1 70 GLN 70 154 154 GLN GLN A . n A 1 71 LEU 71 155 155 LEU LEU A . n A 1 72 GLY 72 156 156 GLY GLY A . n A 1 73 VAL 73 157 157 VAL VAL A . n A 1 74 PRO 74 158 158 PRO PRO A . n A 1 75 VAL 75 159 159 VAL VAL A . n A 1 76 ARG 76 160 160 ARG ARG A . n A 1 77 VAL 77 161 161 VAL VAL A . n A 1 78 PRO 78 162 162 PRO PRO A . n A 1 79 ILE 79 163 163 ILE ILE A . n A 1 80 THR 80 164 164 THR THR A . n A 1 81 THR 81 165 ? ? ? A . n A 1 82 ASN 82 166 ? ? ? A . n A 1 83 LEU 83 167 167 LEU LEU A . n A 1 84 MSE 84 168 168 MSE MSE A . n A 1 85 HIS 85 169 169 HIS HIS A . n A 1 86 ASN 86 170 170 ASN ASN A . n A 1 87 LYS 87 171 171 LYS LYS A . n A 1 88 PHE 88 172 172 PHE PHE A . n A 1 89 CYS 89 173 173 CYS CYS A . n A 1 90 ILE 90 174 174 ILE ILE A . n A 1 91 ILE 91 175 175 ILE ILE A . n A 1 92 ASP 92 176 176 ASP ASP A . n A 1 93 GLY 93 177 177 GLY GLY A . n A 1 94 PHE 94 178 178 PHE PHE A . n A 1 95 GLU 95 179 179 GLU GLU A . n A 1 96 ARG 96 180 180 ARG ARG A . n A 1 97 VAL 97 181 181 VAL VAL A . n A 1 98 GLU 98 182 182 GLU GLU A . n A 1 99 GLU 99 183 183 GLU GLU A . n A 1 100 ILE 100 184 184 ILE ILE A . n A 1 101 ARG 101 185 185 ARG ARG A . n A 1 102 LEU 102 186 186 LEU LEU A . n A 1 103 LEU 103 187 187 LEU LEU A . n A 1 104 ARG 104 188 188 ARG ARG A . n A 1 105 LYS 105 189 189 LYS LYS A . n A 1 106 LEU 106 190 ? ? ? A . n A 1 107 LYS 107 191 ? ? ? A . n A 1 108 PHE 108 192 ? ? ? A . n A 1 109 MSE 109 193 ? ? ? A . n A 1 110 ARG 110 194 194 ARG ARG A . n A 1 111 PRO 111 195 195 PRO PRO A . n A 1 112 CYS 112 196 196 CYS CYS A . n A 1 113 TYR 113 197 197 TYR TYR A . n A 1 114 SER 114 198 198 SER SER A . n A 1 115 ILE 115 199 199 ILE ILE A . n A 1 116 VAL 116 200 200 VAL VAL A . n A 1 117 ILE 117 201 201 ILE ILE A . n A 1 118 SER 118 202 202 SER SER A . n A 1 119 GLY 119 203 203 GLY GLY A . n A 1 120 SER 120 204 204 SER SER A . n A 1 121 VAL 121 205 205 VAL VAL A . n A 1 122 ASN 122 206 206 ASN ASN A . n A 1 123 TRP 123 207 207 TRP TRP A . n A 1 124 THR 124 208 208 THR THR A . n A 1 125 ALA 125 209 ? ? ? A . n A 1 126 LEU 126 210 ? ? ? A . n A 1 127 GLY 127 211 ? ? ? A . n A 1 128 LEU 128 212 ? ? ? A . n A 1 129 GLY 129 213 ? ? ? A . n A 1 130 GLY 130 214 214 GLY GLY A . n A 1 131 ASN 131 215 215 ASN ASN A . n A 1 132 TRP 132 216 216 TRP TRP A . n A 1 133 GLU 133 217 217 GLU GLU A . n A 1 134 ASN 134 218 218 ASN ASN A . n A 1 135 CYS 135 219 219 CYS CYS A . n A 1 136 ILE 136 220 220 ILE ILE A . n A 1 137 ILE 137 221 221 ILE ILE A . n A 1 138 THR 138 222 222 THR THR A . n A 1 139 ALA 139 223 223 ALA ALA A . n A 1 140 ASP 140 224 224 ASP ASP A . n A 1 141 ASP 141 225 225 ASP ASP A . n A 1 142 LYS 142 226 226 LYS LYS A . n A 1 143 LEU 143 227 227 LEU LEU A . n A 1 144 THR 144 228 228 THR THR A . n A 1 145 ALA 145 229 229 ALA ALA A . n A 1 146 THR 146 230 230 THR THR A . n A 1 147 PHE 147 231 231 PHE PHE A . n A 1 148 GLN 148 232 232 GLN GLN A . n A 1 149 ALA 149 233 233 ALA ALA A . n A 1 150 GLU 150 234 234 GLU GLU A . n A 1 151 PHE 151 235 235 PHE PHE A . n A 1 152 GLN 152 236 236 GLN GLN A . n A 1 153 ARG 153 237 237 ARG ARG A . n A 1 154 MSE 154 238 238 MSE MSE A . n A 1 155 TRP 155 239 239 TRP TRP A . n A 1 156 ARG 156 240 240 ARG ARG A . n A 1 157 ALA 157 241 241 ALA ALA A . n A 1 158 PHE 158 242 ? ? ? A . n A 1 159 ALA 159 243 ? ? ? A . n A 1 160 LYS 160 244 ? ? ? A . n A 1 161 THR 161 245 ? ? ? A . n A 1 162 GLU 162 246 ? ? ? A . n A 1 163 GLY 163 247 ? ? ? A . n A 1 164 SER 164 248 ? ? ? A . n A 1 165 GLN 165 249 249 GLN GLN A . n A 1 166 ILE 166 250 250 ILE ILE A . n A 1 167 GLN 167 251 251 GLN GLN A . n A 1 168 LEU 168 252 252 LEU LEU A . n A 1 169 LYS 169 253 253 LYS LYS 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 HOH 1 301 1 HOH HOH A . B 2 HOH 2 302 2 HOH HOH A . B 2 HOH 3 303 3 HOH HOH A . B 2 HOH 4 304 4 HOH HOH A . B 2 HOH 5 305 5 HOH HOH A . B 2 HOH 6 306 6 HOH HOH A . B 2 HOH 7 307 7 HOH HOH A . B 2 HOH 8 308 8 HOH HOH A . B 2 HOH 9 309 9 HOH HOH A . B 2 HOH 10 310 10 HOH HOH A . B 2 HOH 11 311 11 HOH HOH A . B 2 HOH 12 312 12 HOH HOH A . B 2 HOH 13 313 13 HOH HOH A . B 2 HOH 14 314 14 HOH HOH A . B 2 HOH 15 315 15 HOH HOH A . B 2 HOH 16 316 16 HOH HOH A . B 2 HOH 17 317 17 HOH HOH A . B 2 HOH 18 318 18 HOH HOH A . B 2 HOH 19 319 19 HOH HOH A . B 2 HOH 20 320 21 HOH HOH A . B 2 HOH 21 321 22 HOH HOH A . B 2 HOH 22 322 23 HOH HOH A . B 2 HOH 23 323 24 HOH HOH A . B 2 HOH 24 324 25 HOH HOH A . B 2 HOH 25 325 27 HOH HOH A . B 2 HOH 26 326 28 HOH HOH A . B 2 HOH 27 327 30 HOH HOH A . B 2 HOH 28 328 31 HOH HOH A . B 2 HOH 29 329 32 HOH HOH A . B 2 HOH 30 330 33 HOH HOH A . B 2 HOH 31 331 34 HOH HOH A . B 2 HOH 32 332 36 HOH HOH A . B 2 HOH 33 333 37 HOH HOH A . B 2 HOH 34 334 38 HOH HOH A . B 2 HOH 35 335 39 HOH HOH A . B 2 HOH 36 336 40 HOH HOH A . B 2 HOH 37 337 41 HOH HOH A . B 2 HOH 38 338 42 HOH HOH A . B 2 HOH 39 339 43 HOH HOH A . B 2 HOH 40 340 44 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 3 A MSE 87 ? MET SELENOMETHIONINE 2 A MSE 57 A MSE 141 ? MET SELENOMETHIONINE 3 A MSE 67 A MSE 151 ? MET SELENOMETHIONINE 4 A MSE 84 A MSE 168 ? MET SELENOMETHIONINE 5 A MSE 154 A MSE 238 ? 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 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 # _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 # 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 2012-11-07 2 'Structure model' 1 1 2012-12-19 3 'Structure model' 1 2 2017-11-15 # _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' 'Database references' 2 3 'Structure model' 'Refinement description' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 3 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category software # 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' '_software.classification' 2 3 'Structure model' '_software.name' 3 3 'Structure model' '_software.version' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 27.3336 _pdbx_refine_tls.origin_y 38.5147 _pdbx_refine_tls.origin_z 6.8911 _pdbx_refine_tls.T[1][1] 0.1287 _pdbx_refine_tls.T[2][2] 0.1598 _pdbx_refine_tls.T[3][3] 0.1545 _pdbx_refine_tls.T[1][2] 0.0220 _pdbx_refine_tls.T[1][3] -0.0341 _pdbx_refine_tls.T[2][3] -0.0184 _pdbx_refine_tls.L[1][1] 3.3029 _pdbx_refine_tls.L[2][2] 2.6351 _pdbx_refine_tls.L[3][3] 2.8222 _pdbx_refine_tls.L[1][2] 0.0868 _pdbx_refine_tls.L[1][3] 0.0798 _pdbx_refine_tls.L[2][3] -0.4002 _pdbx_refine_tls.S[1][1] -0.0719 _pdbx_refine_tls.S[1][2] -0.3303 _pdbx_refine_tls.S[1][3] 0.2330 _pdbx_refine_tls.S[2][1] 0.0819 _pdbx_refine_tls.S[2][2] 0.1048 _pdbx_refine_tls.S[2][3] 0.1419 _pdbx_refine_tls.S[3][1] -0.2075 _pdbx_refine_tls.S[3][2] -0.1198 _pdbx_refine_tls.S[3][3] -0.0526 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id ? _pdbx_refine_tls_group.beg_auth_seq_id ? _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id ? _pdbx_refine_tls_group.end_auth_seq_id ? _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.selection_details all # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal Auto-Rickshaw phasing . ? 1 SHELX 'model building' . ? 2 PHENIX refinement '(phenix.refine: 1.7.3_928)' ? 3 XDS 'data reduction' . ? 4 XSCALE 'data scaling' . ? 5 SHELX phasing . ? 6 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ILE _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 163 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi 60.44 _pdbx_validate_torsion.psi 90.17 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A MSE 87 ? CG ? A MSE 3 CG 2 1 Y 1 A MSE 87 ? SE ? A MSE 3 SE 3 1 Y 1 A MSE 87 ? CE ? A MSE 3 CE 4 1 Y 1 A ARG 91 ? CG ? A ARG 7 CG 5 1 Y 1 A ARG 91 ? CD ? A ARG 7 CD 6 1 Y 1 A ARG 91 ? NE ? A ARG 7 NE 7 1 Y 1 A ARG 91 ? CZ ? A ARG 7 CZ 8 1 Y 1 A ARG 91 ? NH1 ? A ARG 7 NH1 9 1 Y 1 A ARG 91 ? NH2 ? A ARG 7 NH2 10 1 Y 1 A LYS 124 ? CG ? A LYS 40 CG 11 1 Y 1 A LYS 124 ? CD ? A LYS 40 CD 12 1 Y 1 A LYS 124 ? CE ? A LYS 40 CE 13 1 Y 1 A LYS 124 ? NZ ? A LYS 40 NZ 14 1 Y 1 A LYS 145 ? CG ? A LYS 61 CG 15 1 Y 1 A LYS 145 ? CD ? A LYS 61 CD 16 1 Y 1 A LYS 145 ? CE ? A LYS 61 CE 17 1 Y 1 A LYS 145 ? NZ ? A LYS 61 NZ 18 1 Y 1 A GLN 154 ? CG ? A GLN 70 CG 19 1 Y 1 A GLN 154 ? CD ? A GLN 70 CD 20 1 Y 1 A GLN 154 ? OE1 ? A GLN 70 OE1 21 1 Y 1 A GLN 154 ? NE2 ? A GLN 70 NE2 22 1 Y 1 A ILE 163 ? CG1 ? A ILE 79 CG1 23 1 Y 1 A ILE 163 ? CG2 ? A ILE 79 CG2 24 1 Y 1 A ILE 163 ? CD1 ? A ILE 79 CD1 25 1 Y 1 A THR 164 ? OG1 ? A THR 80 OG1 26 1 Y 1 A THR 164 ? CG2 ? A THR 80 CG2 27 1 Y 1 A LEU 167 ? CG ? A LEU 83 CG 28 1 Y 1 A LEU 167 ? CD1 ? A LEU 83 CD1 29 1 Y 1 A LEU 167 ? CD2 ? A LEU 83 CD2 30 1 Y 1 A ARG 188 ? CG ? A ARG 104 CG 31 1 Y 1 A ARG 188 ? CD ? A ARG 104 CD 32 1 Y 1 A ARG 188 ? NE ? A ARG 104 NE 33 1 Y 1 A ARG 188 ? CZ ? A ARG 104 CZ 34 1 Y 1 A ARG 188 ? NH1 ? A ARG 104 NH1 35 1 Y 1 A ARG 188 ? NH2 ? A ARG 104 NH2 36 1 Y 1 A LYS 189 ? CG ? A LYS 105 CG 37 1 Y 1 A LYS 189 ? CD ? A LYS 105 CD 38 1 Y 1 A LYS 189 ? CE ? A LYS 105 CE 39 1 Y 1 A LYS 189 ? NZ ? A LYS 105 NZ 40 1 Y 1 A ARG 194 ? CG ? A ARG 110 CG 41 1 Y 1 A ARG 194 ? CD ? A ARG 110 CD 42 1 Y 1 A ARG 194 ? NE ? A ARG 110 NE 43 1 Y 1 A ARG 194 ? CZ ? A ARG 110 CZ 44 1 Y 1 A ARG 194 ? NH1 ? A ARG 110 NH1 45 1 Y 1 A ARG 194 ? NH2 ? A ARG 110 NH2 46 1 Y 1 A THR 208 ? OG1 ? A THR 124 OG1 47 1 Y 1 A THR 208 ? CG2 ? A THR 124 CG2 48 1 Y 1 A LYS 226 ? CG ? A LYS 142 CG 49 1 Y 1 A LYS 226 ? CD ? A LYS 142 CD 50 1 Y 1 A LYS 226 ? CE ? A LYS 142 CE 51 1 Y 1 A LYS 226 ? NZ ? A LYS 142 NZ 52 1 Y 1 A ARG 240 ? CG ? A ARG 156 CG 53 1 Y 1 A ARG 240 ? CD ? A ARG 156 CD 54 1 Y 1 A ARG 240 ? NE ? A ARG 156 NE 55 1 Y 1 A ARG 240 ? CZ ? A ARG 156 CZ 56 1 Y 1 A ARG 240 ? NH1 ? A ARG 156 NH1 57 1 Y 1 A ARG 240 ? NH2 ? A ARG 156 NH2 58 1 Y 1 A LYS 253 ? CG ? A LYS 169 CG 59 1 Y 1 A LYS 253 ? CD ? A LYS 169 CD 60 1 Y 1 A LYS 253 ? CE ? A LYS 169 CE 61 1 Y 1 A LYS 253 ? NZ ? A LYS 169 NZ # 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 THR 165 ? A THR 81 2 1 Y 1 A ASN 166 ? A ASN 82 3 1 Y 1 A LEU 190 ? A LEU 106 4 1 Y 1 A LYS 191 ? A LYS 107 5 1 Y 1 A PHE 192 ? A PHE 108 6 1 Y 1 A MSE 193 ? A MSE 109 7 1 Y 1 A ALA 209 ? A ALA 125 8 1 Y 1 A LEU 210 ? A LEU 126 9 1 Y 1 A GLY 211 ? A GLY 127 10 1 Y 1 A LEU 212 ? A LEU 128 11 1 Y 1 A GLY 213 ? A GLY 129 12 1 Y 1 A PHE 242 ? A PHE 158 13 1 Y 1 A ALA 243 ? A ALA 159 14 1 Y 1 A LYS 244 ? A LYS 160 15 1 Y 1 A THR 245 ? A THR 161 16 1 Y 1 A GLU 246 ? A GLU 162 17 1 Y 1 A GLY 247 ? A GLY 163 18 1 Y 1 A SER 248 ? A SER 164 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #