data_3LV9 # _entry.id 3LV9 # _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 3LV9 RCSB RCSB057773 WWPDB D_1000057773 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id apc62621.1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3LV9 _pdbx_database_status.recvd_initial_deposition_date 2010-02-19 _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 ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Nocek, B.' 1 'Tesar, C.' 2 'Cobb, G.' 3 'Joachimiak, A.' 4 'Midwest Center for Structural Genomics (MCSG)' 5 # _citation.id primary _citation.title 'Crystal structure of CBS domain of a putative transporter from Clostridium difficile 630' _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 'Nocek, B.' 1 primary 'Tesar, C.' 2 primary 'Cobb, G.' 3 primary 'Joachimiak, A.' 4 primary MCSG 5 # _cell.entry_id 3LV9 _cell.length_a 43.641 _cell.length_b 43.641 _cell.length_c 127.763 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 6 _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 3LV9 _symmetry.space_group_name_H-M 'P 32 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _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 'Putative transporter' 17315.418 1 ? ? ? ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 3 water nat water 18.015 13 ? ? ? ? # _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 ;SNAGLIDESEQRLVDNIFEFEEKKIREI(MSE)VPRTD(MSE)VCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGF VHIRDLYNQKINENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ ; _entity_poly.pdbx_seq_one_letter_code_can ;SNAGLIDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGFVHIRDLYN QKINENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier apc62621.1 # 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 GLY n 1 5 LEU n 1 6 ILE n 1 7 ASP n 1 8 GLU n 1 9 SER n 1 10 GLU n 1 11 GLN n 1 12 ARG n 1 13 LEU n 1 14 VAL n 1 15 ASP n 1 16 ASN n 1 17 ILE n 1 18 PHE n 1 19 GLU n 1 20 PHE n 1 21 GLU n 1 22 GLU n 1 23 LYS n 1 24 LYS n 1 25 ILE n 1 26 ARG n 1 27 GLU n 1 28 ILE n 1 29 MSE n 1 30 VAL n 1 31 PRO n 1 32 ARG n 1 33 THR n 1 34 ASP n 1 35 MSE n 1 36 VAL n 1 37 CYS n 1 38 ILE n 1 39 TYR n 1 40 GLU n 1 41 SER n 1 42 ASP n 1 43 SER n 1 44 GLU n 1 45 GLU n 1 46 LYS n 1 47 ILE n 1 48 LEU n 1 49 ALA n 1 50 ILE n 1 51 LEU n 1 52 LYS n 1 53 GLU n 1 54 GLU n 1 55 GLY n 1 56 VAL n 1 57 THR n 1 58 ARG n 1 59 TYR n 1 60 PRO n 1 61 VAL n 1 62 CYS n 1 63 ARG n 1 64 LYS n 1 65 ASN n 1 66 LYS n 1 67 ASP n 1 68 ASP n 1 69 ILE n 1 70 LEU n 1 71 GLY n 1 72 PHE n 1 73 VAL n 1 74 HIS n 1 75 ILE n 1 76 ARG n 1 77 ASP n 1 78 LEU n 1 79 TYR n 1 80 ASN n 1 81 GLN n 1 82 LYS n 1 83 ILE n 1 84 ASN n 1 85 GLU n 1 86 ASN n 1 87 LYS n 1 88 ILE n 1 89 GLU n 1 90 LEU n 1 91 GLU n 1 92 GLU n 1 93 ILE n 1 94 LEU n 1 95 ARG n 1 96 ASP n 1 97 ILE n 1 98 ILE n 1 99 TYR n 1 100 ILE n 1 101 SER n 1 102 GLU n 1 103 ASN n 1 104 LEU n 1 105 THR n 1 106 ILE n 1 107 ASP n 1 108 LYS n 1 109 ALA n 1 110 LEU n 1 111 GLU n 1 112 ARG n 1 113 ILE n 1 114 ARG n 1 115 LYS n 1 116 GLU n 1 117 LYS n 1 118 LEU n 1 119 GLN n 1 120 LEU n 1 121 ALA n 1 122 ILE n 1 123 VAL n 1 124 VAL n 1 125 ASP n 1 126 GLU n 1 127 TYR n 1 128 GLY n 1 129 GLY n 1 130 THR n 1 131 SER n 1 132 GLY n 1 133 VAL n 1 134 VAL n 1 135 THR n 1 136 ILE n 1 137 GLU n 1 138 ASP n 1 139 ILE n 1 140 LEU n 1 141 GLU n 1 142 GLU n 1 143 ILE n 1 144 VAL n 1 145 GLY n 1 146 GLU n 1 147 ILE n 1 148 GLN 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 ? _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 'Clostridium difficile 630' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 272563 _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 BL23-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 pMCSG19 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q183U2_CLOD6 _struct_ref.pdbx_db_accession Q183U2 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;GLIDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEEKILAILKEEGVTRYPVCRKNKDDILGFVHIRDLYNQKI NENKIELEEILRDIIYISENLTIDKALERIRKEKLQLAIVVDEYGGTSGVVTIEDILEEIVGEIQ ; _struct_ref.pdbx_align_begin 196 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3LV9 _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 148 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q183U2 _struct_ref_seq.db_align_beg 196 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 340 _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 145 # 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 3LV9 SER A 1 ? UNP Q183U2 ? ? 'expression tag' -2 1 1 3LV9 ASN A 2 ? UNP Q183U2 ? ? 'expression tag' -1 2 1 3LV9 ALA A 3 ? UNP Q183U2 ? ? '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 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 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 3LV9 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.03 _exptl_crystal.density_percent_sol 39.36 _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 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.2 _exptl_crystal_grow.pdbx_details ;0.2 M sodium Chloride 0.1M Na/K phosphate 50% PEG200, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 291K ; _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 315r' _diffrn_detector.pdbx_collection_date 2009-02-28 _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' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9794 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9794 # _reflns.entry_id 3LV9 _reflns.observed_criterion_sigma_I 2 _reflns.observed_criterion_sigma_F 2 _reflns.d_resolution_low 40 _reflns.d_resolution_high 2.30 _reflns.number_obs 6532 _reflns.number_all 6540 _reflns.percent_possible_obs 98.7 _reflns.pdbx_Rmerge_I_obs 0.086 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 20 _reflns.B_iso_Wilson_estimate 68.3 _reflns.pdbx_redundancy 6.7 _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 2.30 _reflns_shell.d_res_low 2.34 _reflns_shell.percent_possible_all 99.4 _reflns_shell.Rmerge_I_obs 0.355 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 6.3 _reflns_shell.pdbx_redundancy 6.4 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 320 _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 3LV9 _refine.ls_number_reflns_obs 5641 _refine.ls_number_reflns_all 5912 _refine.pdbx_ls_sigma_I 2 _refine.pdbx_ls_sigma_F 2 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 40.00 _refine.ls_d_res_high 2.40 _refine.ls_percent_reflns_obs 99.09 _refine.ls_R_factor_obs 0.20423 _refine.ls_R_factor_all 0.21 _refine.ls_R_factor_R_work 0.20136 _refine.ls_R_factor_R_free 0.26241 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.6 _refine.ls_number_reflns_R_free 271 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.957 _refine.correlation_coeff_Fo_to_Fc_free 0.927 _refine.B_iso_mean 28.370 _refine.aniso_B[1][1] -0.61 _refine.aniso_B[2][2] -0.61 _refine.aniso_B[3][3] 0.91 _refine.aniso_B[1][2] -0.30 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.440 _refine.pdbx_overall_ESU_R_Free 0.280 _refine.overall_SU_ML 0.214 _refine.overall_SU_B 20.364 _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_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _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 1037 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 13 _refine_hist.number_atoms_total 1055 _refine_hist.d_res_high 2.40 _refine_hist.d_res_low 40.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.019 0.022 ? 1073 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 732 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.638 1.994 ? 1451 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.958 3.000 ? 1795 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.243 5.000 ? 133 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 31.053 24.808 ? 52 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 17.721 15.000 ? 211 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 24.169 15.000 ? 9 'X-RAY DIFFRACTION' ? r_chiral_restr 0.091 0.200 ? 172 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.020 ? 1174 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 203 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.760 1.500 ? 654 'X-RAY DIFFRACTION' ? r_mcbond_other 0.158 1.500 ? 266 'X-RAY DIFFRACTION' ? r_mcangle_it 1.521 2.000 ? 1067 'X-RAY DIFFRACTION' ? r_scbond_it 2.456 3.000 ? 419 'X-RAY DIFFRACTION' ? r_scangle_it 4.099 4.500 ? 383 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.401 _refine_ls_shell.d_res_low 2.463 _refine_ls_shell.number_reflns_R_work 404 _refine_ls_shell.R_factor_R_work 0.174 _refine_ls_shell.percent_reflns_obs 98.83 _refine_ls_shell.R_factor_R_free 0.163 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 19 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3LV9 _struct.title 'Crystal structure of CBS domain of a putative transporter from Clostridium difficile 630' _struct.pdbx_descriptor 'Putative transporter' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3LV9 _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' _struct_keywords.text ;CBS domain, PSI, MCSG, Structural Genomics, Protein Structure Initiative, Midwest Center for Structural Genomics, Cell membrane, Membrane, Transmembrane, MEMBRANE PROTEIN ; # 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 'authors state that the biological assembly is likely 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 PHE A 18 ? GLU A 22 ? PHE A 15 GLU A 19 5 ? 5 HELX_P HELX_P2 2 LYS A 24 ? ILE A 28 ? LYS A 21 ILE A 25 5 ? 5 HELX_P HELX_P3 3 SER A 43 ? GLU A 54 ? SER A 40 GLU A 51 1 ? 12 HELX_P HELX_P4 4 ILE A 75 ? ASN A 86 ? ILE A 72 ASN A 83 1 ? 12 HELX_P HELX_P5 5 GLU A 89 ? ILE A 93 ? GLU A 86 ILE A 90 5 ? 5 HELX_P HELX_P6 6 THR A 105 ? LYS A 117 ? THR A 102 LYS A 114 1 ? 13 HELX_P HELX_P7 7 ILE A 136 ? GLU A 146 ? ILE A 133 GLU A 143 1 ? 11 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf1 disulf ? ? A CYS 37 SG ? ? ? 1_555 A CYS 62 SG ? ? A CYS 34 A CYS 59 1_555 ? ? ? ? ? ? ? 1.651 ? covale1 covale ? ? A ILE 28 C ? ? ? 1_555 A MSE 29 N ? ? A ILE 25 A MSE 26 1_555 ? ? ? ? ? ? ? 1.340 ? covale2 covale ? ? A MSE 29 C ? ? ? 1_555 A VAL 30 N ? ? A MSE 26 A VAL 27 1_555 ? ? ? ? ? ? ? 1.321 ? covale3 covale ? ? A ASP 34 C ? ? ? 1_555 A MSE 35 N ? ? A ASP 31 A MSE 32 1_555 ? ? ? ? ? ? ? 1.315 ? covale4 covale ? ? A MSE 35 C ? ? ? 1_555 A VAL 36 N ? ? A MSE 32 A VAL 33 1_555 ? ? ? ? ? ? ? 1.311 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 3 ? # 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 ? parallel B 1 2 ? parallel B 2 3 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 VAL A 30 ? PRO A 31 ? VAL A 27 PRO A 28 A 2 THR A 130 ? THR A 135 ? THR A 127 THR A 132 A 3 LEU A 120 ? VAL A 124 ? LEU A 117 VAL A 121 A 4 ILE A 98 ? SER A 101 ? ILE A 95 SER A 98 B 1 ILE A 38 ? TYR A 39 ? ILE A 35 TYR A 36 B 2 ARG A 58 ? CYS A 62 ? ARG A 55 CYS A 59 B 3 ILE A 69 ? HIS A 74 ? ILE A 66 HIS A 71 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N VAL A 30 ? N VAL A 27 O VAL A 133 ? O VAL A 130 A 2 3 O VAL A 134 ? O VAL A 131 N ALA A 121 ? N ALA A 118 A 3 4 O VAL A 124 ? O VAL A 121 N ILE A 100 ? N ILE A 97 B 1 2 N ILE A 38 ? N ILE A 35 O PRO A 60 ? O PRO A 57 B 2 3 N TYR A 59 ? N TYR A 56 O VAL A 73 ? O VAL A 70 # _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 3 _struct_site.details 'BINDING SITE FOR RESIDUE PO4 A 401' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 3 TYR A 39 ? TYR A 36 . ? 1_555 ? 2 AC1 3 LYS A 66 ? LYS A 63 . ? 1_555 ? 3 AC1 3 LYS A 87 ? LYS A 84 . ? 4_655 ? # _database_PDB_matrix.entry_id 3LV9 _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 3LV9 _atom_sites.fract_transf_matrix[1][1] 0.022914 _atom_sites.fract_transf_matrix[1][2] 0.013230 _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] 0.026459 _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] 0.007827 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O P S 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 GLY 4 1 ? ? ? A . n A 1 5 LEU 5 2 ? ? ? A . n A 1 6 ILE 6 3 ? ? ? A . n A 1 7 ASP 7 4 ? ? ? A . n A 1 8 GLU 8 5 ? ? ? A . n A 1 9 SER 9 6 ? ? ? A . n A 1 10 GLU 10 7 ? ? ? A . n A 1 11 GLN 11 8 ? ? ? A . n A 1 12 ARG 12 9 ? ? ? A . n A 1 13 LEU 13 10 ? ? ? A . n A 1 14 VAL 14 11 ? ? ? A . n A 1 15 ASP 15 12 ? ? ? A . n A 1 16 ASN 16 13 ? ? ? A . n A 1 17 ILE 17 14 ? ? ? A . n A 1 18 PHE 18 15 15 PHE PHE A . n A 1 19 GLU 19 16 16 GLU GLU A . n A 1 20 PHE 20 17 17 PHE PHE A . n A 1 21 GLU 21 18 18 GLU GLU A . n A 1 22 GLU 22 19 19 GLU GLU A . n A 1 23 LYS 23 20 20 LYS LYS A . n A 1 24 LYS 24 21 21 LYS LYS A . n A 1 25 ILE 25 22 22 ILE ILE A . n A 1 26 ARG 26 23 23 ARG ARG A . n A 1 27 GLU 27 24 24 GLU GLU A . n A 1 28 ILE 28 25 25 ILE ILE A . n A 1 29 MSE 29 26 26 MSE MSE A . n A 1 30 VAL 30 27 27 VAL VAL A . n A 1 31 PRO 31 28 28 PRO PRO A . n A 1 32 ARG 32 29 29 ARG ARG A . n A 1 33 THR 33 30 30 THR THR A . n A 1 34 ASP 34 31 31 ASP ASP A . n A 1 35 MSE 35 32 32 MSE MSE A . n A 1 36 VAL 36 33 33 VAL VAL A . n A 1 37 CYS 37 34 34 CYS CYS A . n A 1 38 ILE 38 35 35 ILE ILE A . n A 1 39 TYR 39 36 36 TYR TYR A . n A 1 40 GLU 40 37 37 GLU GLU A . n A 1 41 SER 41 38 38 SER SER A . n A 1 42 ASP 42 39 39 ASP ASP A . n A 1 43 SER 43 40 40 SER SER A . n A 1 44 GLU 44 41 41 GLU GLU A . n A 1 45 GLU 45 42 42 GLU GLU A . n A 1 46 LYS 46 43 43 LYS LYS A . n A 1 47 ILE 47 44 44 ILE ILE A . n A 1 48 LEU 48 45 45 LEU LEU A . n A 1 49 ALA 49 46 46 ALA ALA A . n A 1 50 ILE 50 47 47 ILE ILE A . n A 1 51 LEU 51 48 48 LEU LEU A . n A 1 52 LYS 52 49 49 LYS LYS A . n A 1 53 GLU 53 50 50 GLU GLU A . n A 1 54 GLU 54 51 51 GLU GLU A . n A 1 55 GLY 55 52 52 GLY GLY A . n A 1 56 VAL 56 53 53 VAL VAL A . n A 1 57 THR 57 54 54 THR THR A . n A 1 58 ARG 58 55 55 ARG ARG A . n A 1 59 TYR 59 56 56 TYR TYR A . n A 1 60 PRO 60 57 57 PRO PRO A . n A 1 61 VAL 61 58 58 VAL VAL A . n A 1 62 CYS 62 59 59 CYS CYS A . n A 1 63 ARG 63 60 60 ARG ARG A . n A 1 64 LYS 64 61 61 LYS LYS A . n A 1 65 ASN 65 62 62 ASN ASN A . n A 1 66 LYS 66 63 63 LYS LYS A . n A 1 67 ASP 67 64 64 ASP ASP A . n A 1 68 ASP 68 65 65 ASP ASP A . n A 1 69 ILE 69 66 66 ILE ILE A . n A 1 70 LEU 70 67 67 LEU LEU A . n A 1 71 GLY 71 68 68 GLY GLY A . n A 1 72 PHE 72 69 69 PHE PHE A . n A 1 73 VAL 73 70 70 VAL VAL A . n A 1 74 HIS 74 71 71 HIS HIS A . n A 1 75 ILE 75 72 72 ILE ILE A . n A 1 76 ARG 76 73 73 ARG ARG A . n A 1 77 ASP 77 74 74 ASP ASP A . n A 1 78 LEU 78 75 75 LEU LEU A . n A 1 79 TYR 79 76 76 TYR TYR A . n A 1 80 ASN 80 77 77 ASN ASN A . n A 1 81 GLN 81 78 78 GLN GLN A . n A 1 82 LYS 82 79 79 LYS LYS A . n A 1 83 ILE 83 80 80 ILE ILE A . n A 1 84 ASN 84 81 81 ASN ASN A . n A 1 85 GLU 85 82 82 GLU GLU A . n A 1 86 ASN 86 83 83 ASN ASN A . n A 1 87 LYS 87 84 84 LYS LYS A . n A 1 88 ILE 88 85 85 ILE ILE A . n A 1 89 GLU 89 86 86 GLU GLU A . n A 1 90 LEU 90 87 87 LEU LEU A . n A 1 91 GLU 91 88 88 GLU GLU A . n A 1 92 GLU 92 89 89 GLU GLU A . n A 1 93 ILE 93 90 90 ILE ILE A . n A 1 94 LEU 94 91 91 LEU LEU A . n A 1 95 ARG 95 92 92 ARG ARG A . n A 1 96 ASP 96 93 93 ASP ASP A . n A 1 97 ILE 97 94 94 ILE ILE A . n A 1 98 ILE 98 95 95 ILE ILE A . n A 1 99 TYR 99 96 96 TYR TYR A . n A 1 100 ILE 100 97 97 ILE ILE A . n A 1 101 SER 101 98 98 SER SER A . n A 1 102 GLU 102 99 99 GLU GLU A . n A 1 103 ASN 103 100 100 ASN ASN A . n A 1 104 LEU 104 101 101 LEU LEU A . n A 1 105 THR 105 102 102 THR THR A . n A 1 106 ILE 106 103 103 ILE ILE A . n A 1 107 ASP 107 104 104 ASP ASP A . n A 1 108 LYS 108 105 105 LYS LYS A . n A 1 109 ALA 109 106 106 ALA ALA A . n A 1 110 LEU 110 107 107 LEU LEU A . n A 1 111 GLU 111 108 108 GLU GLU A . n A 1 112 ARG 112 109 109 ARG ARG A . n A 1 113 ILE 113 110 110 ILE ILE A . n A 1 114 ARG 114 111 111 ARG ARG A . n A 1 115 LYS 115 112 112 LYS LYS A . n A 1 116 GLU 116 113 113 GLU GLU A . n A 1 117 LYS 117 114 114 LYS LYS A . n A 1 118 LEU 118 115 115 LEU LEU A . n A 1 119 GLN 119 116 116 GLN GLN A . n A 1 120 LEU 120 117 117 LEU LEU A . n A 1 121 ALA 121 118 118 ALA ALA A . n A 1 122 ILE 122 119 119 ILE ILE A . n A 1 123 VAL 123 120 120 VAL VAL A . n A 1 124 VAL 124 121 121 VAL VAL A . n A 1 125 ASP 125 122 122 ASP ASP A . n A 1 126 GLU 126 123 123 GLU GLU A . n A 1 127 TYR 127 124 124 TYR TYR A . n A 1 128 GLY 128 125 125 GLY GLY A . n A 1 129 GLY 129 126 126 GLY GLY A . n A 1 130 THR 130 127 127 THR THR A . n A 1 131 SER 131 128 128 SER SER A . n A 1 132 GLY 132 129 129 GLY GLY A . n A 1 133 VAL 133 130 130 VAL VAL A . n A 1 134 VAL 134 131 131 VAL VAL A . n A 1 135 THR 135 132 132 THR THR A . n A 1 136 ILE 136 133 133 ILE ILE A . n A 1 137 GLU 137 134 134 GLU GLU A . n A 1 138 ASP 138 135 135 ASP ASP A . n A 1 139 ILE 139 136 136 ILE ILE A . n A 1 140 LEU 140 137 137 LEU LEU A . n A 1 141 GLU 141 138 138 GLU GLU A . n A 1 142 GLU 142 139 139 GLU GLU A . n A 1 143 ILE 143 140 140 ILE ILE A . n A 1 144 VAL 144 141 141 VAL VAL A . n A 1 145 GLY 145 142 142 GLY GLY A . n A 1 146 GLU 146 143 143 GLU GLU A . n A 1 147 ILE 147 144 144 ILE ILE A . n A 1 148 GLN 148 145 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 PO4 1 401 401 PO4 PO4 A . C 3 HOH 1 146 9 HOH HOH A . C 3 HOH 2 147 13 HOH HOH A . C 3 HOH 3 148 17 HOH HOH A . C 3 HOH 4 149 18 HOH HOH A . C 3 HOH 5 150 19 HOH HOH A . C 3 HOH 6 151 20 HOH HOH A . C 3 HOH 7 152 22 HOH HOH A . C 3 HOH 8 153 23 HOH HOH A . C 3 HOH 9 154 24 HOH HOH A . C 3 HOH 10 155 25 HOH HOH A . C 3 HOH 11 156 26 HOH HOH A . C 3 HOH 12 157 27 HOH HOH A . C 3 HOH 13 158 28 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 29 A MSE 26 ? MET SELENOMETHIONINE 2 A MSE 35 A MSE 32 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details 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)' 2100 ? 1 MORE -19 ? 1 'SSA (A^2)' 13710 ? # 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' 5_555 x-y,-y,-z+1/3 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 42.5876666667 # 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 2010-03-09 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-08 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # 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' Advisory 2 2 'Structure model' 'Version format compliance' 3 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_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 17.4083 25.5280 17.5677 0.9796 0.0411 0.3731 -0.0951 -0.0797 -0.0925 15.0256 -0.2825 23.9723 3.7797 8.6241 -3.4302 -0.1438 0.1510 1.6426 0.6917 -0.1572 0.2916 -0.6003 0.1059 0.3010 'X-RAY DIFFRACTION' 2 ? refined 22.4143 11.4414 7.9966 0.2672 0.1797 0.1990 0.0021 -0.0042 0.0156 2.4412 2.4174 1.1211 1.0360 -0.5482 0.2222 0.0120 -0.0025 0.0772 0.0210 -0.0023 -0.0209 -0.0517 0.1687 -0.0097 'X-RAY DIFFRACTION' 3 ? refined 18.8967 -9.1610 4.6204 0.1997 0.1842 0.1788 -0.0217 0.0263 -0.0071 2.9029 4.9273 5.2309 1.8770 -0.7884 0.3372 -0.0201 0.0819 -0.0473 -0.0600 0.0182 -0.0590 0.1221 0.1069 0.0019 'X-RAY DIFFRACTION' 4 ? refined 20.0929 -4.5939 14.9650 0.2768 0.1957 0.1882 -0.0909 -0.0285 -0.0208 10.6110 11.8643 6.7402 -7.6873 1.7184 1.3860 -0.1924 -0.4169 0.7633 0.7242 0.4652 -0.8327 0.0109 0.5577 -0.2728 'X-RAY DIFFRACTION' 5 ? refined 14.0661 -0.5807 3.4532 0.1726 0.2071 0.2255 -0.0008 0.0166 -0.0249 0.0202 4.6307 3.5001 0.5819 0.3228 -1.1624 0.0012 0.0257 0.0248 0.0728 0.0255 0.2017 -0.0918 -0.0366 -0.0267 'X-RAY DIFFRACTION' 6 ? refined 10.2920 -12.6972 14.6789 0.2840 0.2535 0.1293 0.0018 0.0468 0.0266 4.1633 8.7668 9.0727 -1.4969 3.4132 4.6343 0.0047 0.2966 0.1521 0.7023 0.0660 0.0610 0.0673 -0.3196 -0.0708 'X-RAY DIFFRACTION' 7 ? refined 7.1727 -9.9825 7.1188 0.2408 0.1647 0.3075 -0.0077 0.0525 -0.0127 1.6806 13.1266 0.6883 -0.4416 0.9306 -2.1878 0.2217 0.0099 0.0687 -0.3397 -0.0089 0.6159 0.1429 0.0232 -0.2128 'X-RAY DIFFRACTION' 8 ? refined 11.5879 16.9223 9.7222 0.2476 0.1298 0.2412 0.0481 0.0270 0.0062 3.4053 2.1050 4.0548 -1.3530 -0.4578 2.2245 -0.0095 -0.0223 0.1795 0.0997 0.1218 -0.0129 -0.2584 -0.1259 -0.1122 'X-RAY DIFFRACTION' 9 ? refined 5.2040 11.7304 12.9697 0.4211 0.3640 0.2183 0.0213 0.0781 0.0659 4.3137 9.7807 -4.2703 5.6523 1.1056 2.8104 -0.5724 0.6517 0.2855 0.1245 0.4504 0.6072 0.3164 -0.0040 0.1220 'X-RAY DIFFRACTION' 10 ? refined 16.0006 11.3740 5.9267 0.1817 0.1883 0.2206 0.0018 -0.0139 -0.0103 1.9404 1.2900 9.1371 -0.5337 -2.7601 0.2686 0.1831 -0.0166 0.1008 0.0736 0.0394 0.1496 -0.2492 0.0228 -0.2225 'X-RAY DIFFRACTION' 11 ? refined 16.9125 16.0916 22.5002 0.3227 0.2329 0.2461 0.0208 0.0613 0.0082 4.0972 5.8401 6.0729 -4.6602 -1.0387 3.5093 -0.2790 -0.2354 0.1820 0.1099 0.4260 -0.4531 -0.0840 0.6267 -0.1469 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _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 'X-RAY DIFFRACTION' 1 1 A 15 ? ? A 21 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 22 ? ? A 32 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 33 ? ? A 46 ? ? ? ? 'X-RAY DIFFRACTION' 4 4 A 47 ? ? A 55 ? ? ? ? 'X-RAY DIFFRACTION' 5 5 A 56 ? ? A 72 ? ? ? ? 'X-RAY DIFFRACTION' 6 6 A 73 ? ? A 81 ? ? ? ? 'X-RAY DIFFRACTION' 7 7 A 82 ? ? A 93 ? ? ? ? 'X-RAY DIFFRACTION' 8 8 A 94 ? ? A 108 ? ? ? ? 'X-RAY DIFFRACTION' 9 9 A 109 ? ? A 116 ? ? ? ? 'X-RAY DIFFRACTION' 10 10 A 117 ? ? A 134 ? ? ? ? 'X-RAY DIFFRACTION' 11 11 A 135 ? ? A 144 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SBC-Collect 'data collection' . ? 1 HKL-3000 phasing . ? 2 DM 'model building' . ? 3 SHELX 'model building' . ? 4 MLPHARE phasing . ? 5 Coot 'model building' . ? 6 ARP/wARP 'model building' . ? 7 REFMAC refinement 5.5.0102 ? 8 HKL-3000 'data reduction' . ? 9 HKL-3000 'data scaling' . ? 10 DM phasing . ? 11 SHELX phasing . ? 12 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 CB _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 CYS _pdbx_validate_rmsd_bond.auth_seq_id_1 59 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 SG _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 CYS _pdbx_validate_rmsd_bond.auth_seq_id_2 59 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.696 _pdbx_validate_rmsd_bond.bond_target_value 1.812 _pdbx_validate_rmsd_bond.bond_deviation -0.116 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.016 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 LYS A 61 ? ? 74.94 -60.13 2 1 ASP A 65 ? ? -112.84 76.77 # 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 GLU 16 ? CG ? A GLU 19 CG 2 1 Y 1 A GLU 16 ? CD ? A GLU 19 CD 3 1 Y 1 A GLU 16 ? OE1 ? A GLU 19 OE1 4 1 Y 1 A GLU 16 ? OE2 ? A GLU 19 OE2 5 1 Y 1 A LYS 21 ? CG ? A LYS 24 CG 6 1 Y 1 A LYS 21 ? CD ? A LYS 24 CD 7 1 Y 1 A LYS 21 ? CE ? A LYS 24 CE 8 1 Y 1 A LYS 21 ? NZ ? A LYS 24 NZ 9 1 Y 1 A GLU 86 ? CG ? A GLU 89 CG 10 1 Y 1 A GLU 86 ? CD ? A GLU 89 CD 11 1 Y 1 A GLU 86 ? OE1 ? A GLU 89 OE1 12 1 Y 1 A GLU 86 ? OE2 ? A GLU 89 OE2 13 1 Y 1 A ARG 111 ? CG ? A ARG 114 CG 14 1 Y 1 A ARG 111 ? CD ? A ARG 114 CD 15 1 Y 1 A ARG 111 ? NE ? A ARG 114 NE 16 1 Y 1 A ARG 111 ? CZ ? A ARG 114 CZ 17 1 Y 1 A ARG 111 ? NH1 ? A ARG 114 NH1 18 1 Y 1 A ARG 111 ? NH2 ? A ARG 114 NH2 19 1 Y 1 A LYS 112 ? CG ? A LYS 115 CG 20 1 Y 1 A LYS 112 ? CD ? A LYS 115 CD 21 1 Y 1 A LYS 112 ? CE ? A LYS 115 CE 22 1 Y 1 A LYS 112 ? NZ ? A LYS 115 NZ 23 1 Y 1 A LYS 114 ? CG ? A LYS 117 CG 24 1 Y 1 A LYS 114 ? CD ? A LYS 117 CD 25 1 Y 1 A LYS 114 ? CE ? A LYS 117 CE 26 1 Y 1 A LYS 114 ? NZ ? A LYS 117 NZ 27 1 Y 1 A GLU 143 ? CG ? A GLU 146 CG 28 1 Y 1 A GLU 143 ? CD ? A GLU 146 CD 29 1 Y 1 A GLU 143 ? OE1 ? A GLU 146 OE1 30 1 Y 1 A GLU 143 ? OE2 ? A GLU 146 OE2 # 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 GLY 1 ? A GLY 4 5 1 Y 1 A LEU 2 ? A LEU 5 6 1 Y 1 A ILE 3 ? A ILE 6 7 1 Y 1 A ASP 4 ? A ASP 7 8 1 Y 1 A GLU 5 ? A GLU 8 9 1 Y 1 A SER 6 ? A SER 9 10 1 Y 1 A GLU 7 ? A GLU 10 11 1 Y 1 A GLN 8 ? A GLN 11 12 1 Y 1 A ARG 9 ? A ARG 12 13 1 Y 1 A LEU 10 ? A LEU 13 14 1 Y 1 A VAL 11 ? A VAL 14 15 1 Y 1 A ASP 12 ? A ASP 15 16 1 Y 1 A ASN 13 ? A ASN 16 17 1 Y 1 A ILE 14 ? A ILE 17 18 1 Y 1 A GLN 145 ? A GLN 148 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH #