data_3KXR # _entry.id 3KXR # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.357 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 3KXR pdb_00003kxr 10.2210/pdb3kxr/pdb RCSB RCSB056579 ? ? WWPDB D_1000056579 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id APC65312.2 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3KXR _pdbx_database_status.recvd_initial_deposition_date 2009-12-03 _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.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Fratczak, Z.' 1 ? 'Zimmerman, M.D.' 2 ? 'Chruszcz, M.' 3 ? 'Cymborowski, M.' 4 ? 'Kagan, O.' 5 ? 'Savchenko, A.' 6 ? 'Edwards, A.' 7 ? 'Joachimiak, A.' 8 ? 'Minor, W.' 9 0000-0001-7075-7090 'Midwest Center for Structural Genomics (MCSG)' 10 ? # _citation.id primary _citation.title 'Structure of the cystathionine beta-synthase pair domain of the putative Mg2+ transporter SO5017 from Shewanella oneidensis MR-1.' _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 _citation_author.identifier_ORCID primary 'Fratczak, Z.' 1 ? primary 'Zimmerman, M.D.' 2 ? primary 'Chruszcz, M.' 3 ? primary 'Cymborowski, M.' 4 ? primary 'Kagan, O.' 5 ? primary 'Savchenko, A.' 6 ? primary 'Edwards, A.' 7 ? primary 'Joachimiak, A.' 8 ? primary 'Minor, W.' 9 0000-0001-7075-7090 # _cell.entry_id 3KXR _cell.length_a 103.596 _cell.length_b 103.596 _cell.length_c 134.302 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 18 _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 3KXR _symmetry.space_group_name_H-M 'H 3 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _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 'Magnesium transporter, putative' 23752.709 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 2 ? ? ? ? 3 water nat water 18.015 30 ? ? ? ? # _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)PDNEVDLLFAQLSPEDLIEWSDYLPESFTDRALAQ(MSE)GERQRQRFELYDQYSENEIGRYTDHQ(MSE)LVLS DKATVAQAQRFFRRIELDCNDNLFIVDEADKYLGTVRRYDIFKHEPHEPLISLLSEDSRALTANTTLLDAAEAIEHSREI ELPVIDDAGELIGRVTLRAATALVREHYEAQL(MSE)ATAG(MSE)DESDDLFAPILKGAQRRAV ; _entity_poly.pdbx_seq_one_letter_code_can ;MPDNEVDLLFAQLSPEDLIEWSDYLPESFTDRALAQMGERQRQRFELYDQYSENEIGRYTDHQMLVLSDKATVAQAQRFF RRIELDCNDNLFIVDEADKYLGTVRRYDIFKHEPHEPLISLLSEDSRALTANTTLLDAAEAIEHSREIELPVIDDAGELI GRVTLRAATALVREHYEAQLMATAGMDESDDLFAPILKGAQRRAV ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier APC65312.2 # 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 PRO n 1 3 ASP n 1 4 ASN n 1 5 GLU n 1 6 VAL n 1 7 ASP n 1 8 LEU n 1 9 LEU n 1 10 PHE n 1 11 ALA n 1 12 GLN n 1 13 LEU n 1 14 SER n 1 15 PRO n 1 16 GLU n 1 17 ASP n 1 18 LEU n 1 19 ILE n 1 20 GLU n 1 21 TRP n 1 22 SER n 1 23 ASP n 1 24 TYR n 1 25 LEU n 1 26 PRO n 1 27 GLU n 1 28 SER n 1 29 PHE n 1 30 THR n 1 31 ASP n 1 32 ARG n 1 33 ALA n 1 34 LEU n 1 35 ALA n 1 36 GLN n 1 37 MSE n 1 38 GLY n 1 39 GLU n 1 40 ARG n 1 41 GLN n 1 42 ARG n 1 43 GLN n 1 44 ARG n 1 45 PHE n 1 46 GLU n 1 47 LEU n 1 48 TYR n 1 49 ASP n 1 50 GLN n 1 51 TYR n 1 52 SER n 1 53 GLU n 1 54 ASN n 1 55 GLU n 1 56 ILE n 1 57 GLY n 1 58 ARG n 1 59 TYR n 1 60 THR n 1 61 ASP n 1 62 HIS n 1 63 GLN n 1 64 MSE n 1 65 LEU n 1 66 VAL n 1 67 LEU n 1 68 SER n 1 69 ASP n 1 70 LYS n 1 71 ALA n 1 72 THR n 1 73 VAL n 1 74 ALA n 1 75 GLN n 1 76 ALA n 1 77 GLN n 1 78 ARG n 1 79 PHE n 1 80 PHE n 1 81 ARG n 1 82 ARG n 1 83 ILE n 1 84 GLU n 1 85 LEU n 1 86 ASP n 1 87 CYS n 1 88 ASN n 1 89 ASP n 1 90 ASN n 1 91 LEU n 1 92 PHE n 1 93 ILE n 1 94 VAL n 1 95 ASP n 1 96 GLU n 1 97 ALA n 1 98 ASP n 1 99 LYS n 1 100 TYR n 1 101 LEU n 1 102 GLY n 1 103 THR n 1 104 VAL n 1 105 ARG n 1 106 ARG n 1 107 TYR n 1 108 ASP n 1 109 ILE n 1 110 PHE n 1 111 LYS n 1 112 HIS n 1 113 GLU n 1 114 PRO n 1 115 HIS n 1 116 GLU n 1 117 PRO n 1 118 LEU n 1 119 ILE n 1 120 SER n 1 121 LEU n 1 122 LEU n 1 123 SER n 1 124 GLU n 1 125 ASP n 1 126 SER n 1 127 ARG n 1 128 ALA n 1 129 LEU n 1 130 THR n 1 131 ALA n 1 132 ASN n 1 133 THR n 1 134 THR n 1 135 LEU n 1 136 LEU n 1 137 ASP n 1 138 ALA n 1 139 ALA n 1 140 GLU n 1 141 ALA n 1 142 ILE n 1 143 GLU n 1 144 HIS n 1 145 SER n 1 146 ARG n 1 147 GLU n 1 148 ILE n 1 149 GLU n 1 150 LEU n 1 151 PRO n 1 152 VAL n 1 153 ILE n 1 154 ASP n 1 155 ASP n 1 156 ALA n 1 157 GLY n 1 158 GLU n 1 159 LEU n 1 160 ILE n 1 161 GLY n 1 162 ARG n 1 163 VAL n 1 164 THR n 1 165 LEU n 1 166 ARG n 1 167 ALA n 1 168 ALA n 1 169 THR n 1 170 ALA n 1 171 LEU n 1 172 VAL n 1 173 ARG n 1 174 GLU n 1 175 HIS n 1 176 TYR n 1 177 GLU n 1 178 ALA n 1 179 GLN n 1 180 LEU n 1 181 MSE n 1 182 ALA n 1 183 THR n 1 184 ALA n 1 185 GLY n 1 186 MSE n 1 187 ASP n 1 188 GLU n 1 189 SER n 1 190 ASP n 1 191 ASP n 1 192 LEU n 1 193 PHE n 1 194 ALA n 1 195 PRO n 1 196 ILE n 1 197 LEU n 1 198 LYS n 1 199 GLY n 1 200 ALA n 1 201 GLN n 1 202 ARG n 1 203 ARG n 1 204 ALA n 1 205 VAL 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 SO_1565 _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 'Shewanella oneidensis MR-1' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 211586 _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 BL21(DE3)' _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-CodonPlus(DE3)-RIPL' _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 'p15Tv lic' _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q8EGN5_SHEON _struct_ref.pdbx_db_accession Q8EGN5 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MPDNEVDLLFAQLSPEDLIEWSDYLPESFTDRALAQMGERQRQRFELYDQYSENEIGRYTDHQMLVLSDKATVAQAQRFF RRIELDCNDNLFIVDEADKYLGTVRRYDIFKHEPHEPLISLLSEDSRALTANTTLLDAAEAIEHSREIELPVIDDAGELI GRVTLRAATALVREHYEAQLMATAGMDESDDLFAPILKGAQRRAV ; _struct_ref.pdbx_align_begin 90 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3KXR _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 205 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8EGN5 _struct_ref_seq.db_align_beg 90 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 294 _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 205 # 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 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 3KXR _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.92 _exptl_crystal.density_percent_sol 57.87 _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 295 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 8.2 _exptl_crystal_grow.pdbx_details 'PEG3350 25%,di-Na-Tartrate 0.2M,Tris0.1M pH8.2, VAPOR DIFFUSION, HANGING DROP, temperature 295K' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100.0 _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 2009-10-16 _diffrn_detector.details MIRROR # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'SI-111 CHANNEL' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9791 _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 0.9791 _diffrn_source.pdbx_wavelength_list 0.9791 # _reflns.entry_id 3KXR _reflns.observed_criterion_sigma_I -3.000 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 50.000 _reflns.d_resolution_high 2.400 _reflns.number_obs 10867 _reflns.number_all 10867 _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.09300 _reflns.pdbx_Rsym_value 0.09300 _reflns.pdbx_netI_over_sigmaI 57.0710 _reflns.B_iso_Wilson_estimate 61.8 _reflns.pdbx_redundancy 18.500 _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 2.40 _reflns_shell.d_res_low 2.44 _reflns_shell.percent_possible_all 98.2 _reflns_shell.Rmerge_I_obs 0.87800 _reflns_shell.pdbx_Rsym_value 0.87800 _reflns_shell.meanI_over_sigI_obs 3.600 _reflns_shell.pdbx_redundancy 18.30 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 537 _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 3KXR _refine.ls_number_reflns_obs 10835 _refine.ls_number_reflns_all 10835 _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 50.00 _refine.ls_d_res_high 2.41 _refine.ls_percent_reflns_obs 99.590 _refine.ls_R_factor_obs 0.191 _refine.ls_R_factor_all 0.191 _refine.ls_R_factor_R_work 0.190 _refine.ls_R_factor_R_free 0.228 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.800 _refine.ls_number_reflns_R_free 517 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.960 _refine.correlation_coeff_Fo_to_Fc_free 0.947 _refine.B_iso_mean 37.37 _refine.aniso_B[1][1] -1.86000 _refine.aniso_B[2][2] -1.86000 _refine.aniso_B[3][3] 2.80000 _refine.aniso_B[1][2] -0.93000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.253 _refine.pdbx_overall_ESU_R_Free 0.206 _refine.overall_SU_ML 0.159 _refine.overall_SU_B 15.798 _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 1364 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 30 _refine_hist.number_atoms_total 1396 _refine_hist.d_res_high 2.41 _refine_hist.d_res_low 50.00 # 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 0.017 0.022 ? 1388 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 926 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.453 1.963 ? 1882 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.906 3.000 ? 2251 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5.789 5.000 ? 170 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 33.858 24.384 ? 73 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 16.647 15.000 ? 238 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 21.580 15.000 ? 11 'X-RAY DIFFRACTION' ? r_chiral_restr 0.080 0.200 ? 214 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.005 0.020 ? 1559 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 283 '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 0.695 1.500 ? 854 'X-RAY DIFFRACTION' ? r_mcbond_other 0.127 1.500 ? 341 'X-RAY DIFFRACTION' ? r_mcangle_it 1.414 2.000 ? 1372 'X-RAY DIFFRACTION' ? r_scbond_it 2.603 3.000 ? 534 'X-RAY DIFFRACTION' ? r_scangle_it 4.147 4.500 ? 510 '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 2.41 _refine_ls_shell.d_res_low 2.48 _refine_ls_shell.number_reflns_R_work 722 _refine_ls_shell.R_factor_R_work 0.2690 _refine_ls_shell.percent_reflns_obs 98.19 _refine_ls_shell.R_factor_R_free 0.3410 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 36 _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 3KXR _struct.title 'Structure of the cystathionine beta-synthase pair domain of the putative Mg2+ transporter SO5017 from Shewanella oneidensis MR-1.' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3KXR _struct_keywords.pdbx_keywords 'TRANSPORT PROTEIN' _struct_keywords.text ;cystathionine beta-synthase, Mg2+ transporter, Structural Genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, TRANSPORT 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 2 ? D N N 3 ? # _struct_biol.id 1 # 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 9 ? LEU A 13 ? LEU A 9 LEU A 13 5 ? 5 HELX_P HELX_P2 2 SER A 14 ? TRP A 21 ? SER A 14 TRP A 21 1 ? 8 HELX_P HELX_P3 3 PRO A 26 ? MSE A 37 ? PRO A 26 MSE A 37 1 ? 12 HELX_P HELX_P4 4 GLY A 38 ? TYR A 51 ? GLY A 38 TYR A 51 1 ? 14 HELX_P HELX_P5 5 GLU A 55 ? THR A 60 ? GLU A 55 THR A 60 5 ? 6 HELX_P HELX_P6 6 THR A 72 ? ILE A 83 ? THR A 72 ILE A 83 1 ? 12 HELX_P HELX_P7 7 ARG A 106 ? PHE A 110 ? ARG A 106 PHE A 110 1 ? 5 HELX_P HELX_P8 8 PRO A 117 ? LEU A 122 ? PRO A 117 LEU A 122 5 ? 6 HELX_P HELX_P9 9 THR A 134 ? HIS A 144 ? THR A 134 HIS A 144 1 ? 11 HELX_P HELX_P10 10 LEU A 165 ? GLU A 177 ? LEU A 165 GLU A 177 1 ? 13 # _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 _struct_conn.pdbx_role covale1 covale both ? A MSE 37 C ? ? ? 1_555 A GLY 38 N ? ? A MSE 37 A GLY 38 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale2 covale both ? A MSE 64 C ? ? ? 1_555 A LEU 65 N ? ? A MSE 64 A LEU 65 1_555 ? ? ? ? ? ? ? 1.315 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 3 ? 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 ? parallel A 2 3 ? anti-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 66 ? SER A 68 ? VAL A 66 SER A 68 A 2 ASN A 90 ? VAL A 94 ? ASN A 90 VAL A 94 A 3 TYR A 100 ? ARG A 105 ? TYR A 100 ARG A 105 B 1 LEU A 129 ? THR A 130 ? LEU A 129 THR A 130 B 2 GLU A 149 ? ILE A 153 ? GLU A 149 ILE A 153 B 3 LEU A 159 ? THR A 164 ? LEU A 159 THR A 164 # 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 LEU A 67 ? N LEU A 67 O PHE A 92 ? O PHE A 92 A 2 3 N ILE A 93 ? N ILE A 93 O LEU A 101 ? O LEU A 101 B 1 2 N LEU A 129 ? N LEU A 129 O PRO A 151 ? O PRO A 151 B 2 3 N VAL A 152 ? N VAL A 152 O GLY A 161 ? O GLY A 161 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _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 _struct_site.details AC1 Software A CL 206 ? 1 'BINDING SITE FOR RESIDUE CL A 206' AC2 Software A CL 207 ? 3 'BINDING SITE FOR RESIDUE CL A 207' # 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 1 ARG A 78 ? ARG A 78 . ? 1_555 ? 2 AC2 3 TRP A 21 ? TRP A 21 . ? 3_555 ? 3 AC2 3 GLN A 75 ? GLN A 75 . ? 1_555 ? 4 AC2 3 ARG A 78 ? ARG A 78 . ? 1_555 ? # _database_PDB_matrix.entry_id 3KXR _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 3KXR _atom_sites.fract_transf_matrix[1][1] 0.009650 _atom_sites.fract_transf_matrix[1][2] 0.005570 _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] 0.011150 _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] 0.007450 _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 ? ? ? A . n A 1 2 PRO 2 2 ? ? ? A . n A 1 3 ASP 3 3 ? ? ? A . n A 1 4 ASN 4 4 ? ? ? A . n A 1 5 GLU 5 5 ? ? ? A . n A 1 6 VAL 6 6 ? ? ? A . n A 1 7 ASP 7 7 7 ASP ASP A . n A 1 8 LEU 8 8 8 LEU LEU A . n A 1 9 LEU 9 9 9 LEU LEU A . n A 1 10 PHE 10 10 10 PHE PHE A . n A 1 11 ALA 11 11 11 ALA ALA A . n A 1 12 GLN 12 12 12 GLN GLN A . n A 1 13 LEU 13 13 13 LEU LEU A . n A 1 14 SER 14 14 14 SER SER A . n A 1 15 PRO 15 15 15 PRO PRO A . n A 1 16 GLU 16 16 16 GLU GLU A . n A 1 17 ASP 17 17 17 ASP ASP A . n A 1 18 LEU 18 18 18 LEU LEU A . n A 1 19 ILE 19 19 19 ILE ILE A . n A 1 20 GLU 20 20 20 GLU GLU A . n A 1 21 TRP 21 21 21 TRP TRP A . n A 1 22 SER 22 22 22 SER SER A . n A 1 23 ASP 23 23 23 ASP ASP A . n A 1 24 TYR 24 24 24 TYR TYR A . n A 1 25 LEU 25 25 25 LEU LEU A . n A 1 26 PRO 26 26 26 PRO PRO A . n A 1 27 GLU 27 27 27 GLU GLU A . n A 1 28 SER 28 28 28 SER SER A . n A 1 29 PHE 29 29 29 PHE PHE A . n A 1 30 THR 30 30 30 THR THR A . n A 1 31 ASP 31 31 31 ASP ASP A . n A 1 32 ARG 32 32 32 ARG ARG A . n A 1 33 ALA 33 33 33 ALA ALA A . n A 1 34 LEU 34 34 34 LEU LEU A . n A 1 35 ALA 35 35 35 ALA ALA A . n A 1 36 GLN 36 36 36 GLN GLN A . n A 1 37 MSE 37 37 37 MSE MSE A . n A 1 38 GLY 38 38 38 GLY GLY A . n A 1 39 GLU 39 39 39 GLU GLU A . n A 1 40 ARG 40 40 40 ARG ARG A . n A 1 41 GLN 41 41 41 GLN GLN A . n A 1 42 ARG 42 42 42 ARG ARG A . n A 1 43 GLN 43 43 43 GLN GLN A . n A 1 44 ARG 44 44 44 ARG ARG A . n A 1 45 PHE 45 45 45 PHE PHE A . n A 1 46 GLU 46 46 46 GLU GLU A . n A 1 47 LEU 47 47 47 LEU LEU A . n A 1 48 TYR 48 48 48 TYR TYR A . n A 1 49 ASP 49 49 49 ASP ASP A . n A 1 50 GLN 50 50 50 GLN GLN A . n A 1 51 TYR 51 51 51 TYR TYR A . n A 1 52 SER 52 52 52 SER SER A . n A 1 53 GLU 53 53 53 GLU GLU A . n A 1 54 ASN 54 54 54 ASN ASN A . n A 1 55 GLU 55 55 55 GLU GLU A . n A 1 56 ILE 56 56 56 ILE ILE A . n A 1 57 GLY 57 57 57 GLY GLY A . n A 1 58 ARG 58 58 58 ARG ARG A . n A 1 59 TYR 59 59 59 TYR TYR A . n A 1 60 THR 60 60 60 THR THR A . n A 1 61 ASP 61 61 61 ASP ASP A . n A 1 62 HIS 62 62 62 HIS HIS A . n A 1 63 GLN 63 63 63 GLN GLN A . n A 1 64 MSE 64 64 64 MSE MSE A . n A 1 65 LEU 65 65 65 LEU LEU A . n A 1 66 VAL 66 66 66 VAL VAL A . n A 1 67 LEU 67 67 67 LEU LEU A . n A 1 68 SER 68 68 68 SER SER A . n A 1 69 ASP 69 69 69 ASP ASP A . n A 1 70 LYS 70 70 70 LYS LYS A . n A 1 71 ALA 71 71 71 ALA ALA A . n A 1 72 THR 72 72 72 THR THR A . n A 1 73 VAL 73 73 73 VAL VAL A . n A 1 74 ALA 74 74 74 ALA ALA A . n A 1 75 GLN 75 75 75 GLN GLN A . n A 1 76 ALA 76 76 76 ALA ALA A . n A 1 77 GLN 77 77 77 GLN GLN A . n A 1 78 ARG 78 78 78 ARG ARG A . n A 1 79 PHE 79 79 79 PHE PHE A . n A 1 80 PHE 80 80 80 PHE PHE A . n A 1 81 ARG 81 81 81 ARG ARG A . n A 1 82 ARG 82 82 82 ARG ARG A . n A 1 83 ILE 83 83 83 ILE ILE A . n A 1 84 GLU 84 84 84 GLU GLU A . n A 1 85 LEU 85 85 85 LEU LEU A . n A 1 86 ASP 86 86 86 ASP ASP A . n A 1 87 CYS 87 87 87 CYS CYS A . n A 1 88 ASN 88 88 88 ASN ASN A . n A 1 89 ASP 89 89 89 ASP ASP A . n A 1 90 ASN 90 90 90 ASN ASN A . n A 1 91 LEU 91 91 91 LEU LEU A . n A 1 92 PHE 92 92 92 PHE PHE A . n A 1 93 ILE 93 93 93 ILE ILE A . n A 1 94 VAL 94 94 94 VAL VAL A . n A 1 95 ASP 95 95 95 ASP ASP A . n A 1 96 GLU 96 96 96 GLU GLU A . n A 1 97 ALA 97 97 97 ALA ALA A . n A 1 98 ASP 98 98 98 ASP ASP A . n A 1 99 LYS 99 99 99 LYS LYS A . n A 1 100 TYR 100 100 100 TYR TYR A . n A 1 101 LEU 101 101 101 LEU LEU A . n A 1 102 GLY 102 102 102 GLY GLY A . n A 1 103 THR 103 103 103 THR THR A . n A 1 104 VAL 104 104 104 VAL VAL A . n A 1 105 ARG 105 105 105 ARG ARG A . n A 1 106 ARG 106 106 106 ARG ARG A . n A 1 107 TYR 107 107 107 TYR TYR A . n A 1 108 ASP 108 108 108 ASP ASP A . n A 1 109 ILE 109 109 109 ILE ILE A . n A 1 110 PHE 110 110 110 PHE PHE A . n A 1 111 LYS 111 111 111 LYS LYS A . n A 1 112 HIS 112 112 112 HIS HIS A . n A 1 113 GLU 113 113 113 GLU GLU A . n A 1 114 PRO 114 114 114 PRO PRO A . n A 1 115 HIS 115 115 115 HIS HIS A . n A 1 116 GLU 116 116 116 GLU GLU A . n A 1 117 PRO 117 117 117 PRO PRO A . n A 1 118 LEU 118 118 118 LEU LEU A . n A 1 119 ILE 119 119 119 ILE ILE A . n A 1 120 SER 120 120 120 SER SER A . n A 1 121 LEU 121 121 121 LEU LEU A . n A 1 122 LEU 122 122 122 LEU LEU A . n A 1 123 SER 123 123 123 SER SER A . n A 1 124 GLU 124 124 124 GLU GLU A . n A 1 125 ASP 125 125 125 ASP ASP A . n A 1 126 SER 126 126 126 SER SER A . n A 1 127 ARG 127 127 127 ARG ARG A . n A 1 128 ALA 128 128 128 ALA ALA A . n A 1 129 LEU 129 129 129 LEU LEU A . n A 1 130 THR 130 130 130 THR THR A . n A 1 131 ALA 131 131 131 ALA ALA A . n A 1 132 ASN 132 132 132 ASN ASN A . n A 1 133 THR 133 133 133 THR THR A . n A 1 134 THR 134 134 134 THR THR A . n A 1 135 LEU 135 135 135 LEU LEU A . n A 1 136 LEU 136 136 136 LEU LEU A . n A 1 137 ASP 137 137 137 ASP ASP A . n A 1 138 ALA 138 138 138 ALA ALA A . n A 1 139 ALA 139 139 139 ALA ALA A . n A 1 140 GLU 140 140 140 GLU GLU A . n A 1 141 ALA 141 141 141 ALA ALA A . n A 1 142 ILE 142 142 142 ILE ILE A . n A 1 143 GLU 143 143 143 GLU GLU A . n A 1 144 HIS 144 144 144 HIS HIS A . n A 1 145 SER 145 145 145 SER SER A . n A 1 146 ARG 146 146 146 ARG ARG A . n A 1 147 GLU 147 147 147 GLU GLU A . n A 1 148 ILE 148 148 148 ILE ILE A . n A 1 149 GLU 149 149 149 GLU GLU A . n A 1 150 LEU 150 150 150 LEU LEU A . n A 1 151 PRO 151 151 151 PRO PRO A . n A 1 152 VAL 152 152 152 VAL VAL A . n A 1 153 ILE 153 153 153 ILE ILE A . n A 1 154 ASP 154 154 154 ASP ASP A . n A 1 155 ASP 155 155 155 ASP ASP A . n A 1 156 ALA 156 156 156 ALA ALA A . n A 1 157 GLY 157 157 157 GLY GLY A . n A 1 158 GLU 158 158 158 GLU GLU A . n A 1 159 LEU 159 159 159 LEU LEU A . n A 1 160 ILE 160 160 160 ILE ILE A . n A 1 161 GLY 161 161 161 GLY GLY A . n A 1 162 ARG 162 162 162 ARG ARG A . n A 1 163 VAL 163 163 163 VAL VAL A . n A 1 164 THR 164 164 164 THR THR A . n A 1 165 LEU 165 165 165 LEU LEU A . n A 1 166 ARG 166 166 166 ARG ARG A . n A 1 167 ALA 167 167 167 ALA ALA A . n A 1 168 ALA 168 168 168 ALA ALA A . n A 1 169 THR 169 169 169 THR THR A . n A 1 170 ALA 170 170 170 ALA ALA A . n A 1 171 LEU 171 171 171 LEU LEU A . n A 1 172 VAL 172 172 172 VAL VAL A . n A 1 173 ARG 173 173 173 ARG ARG A . n A 1 174 GLU 174 174 174 GLU GLU A . n A 1 175 HIS 175 175 175 HIS HIS A . n A 1 176 TYR 176 176 176 TYR TYR A . n A 1 177 GLU 177 177 177 GLU GLU A . n A 1 178 ALA 178 178 ? ? ? A . n A 1 179 GLN 179 179 ? ? ? A . n A 1 180 LEU 180 180 ? ? ? A . n A 1 181 MSE 181 181 ? ? ? A . n A 1 182 ALA 182 182 ? ? ? A . n A 1 183 THR 183 183 ? ? ? A . n A 1 184 ALA 184 184 ? ? ? A . n A 1 185 GLY 185 185 ? ? ? A . n A 1 186 MSE 186 186 ? ? ? A . n A 1 187 ASP 187 187 ? ? ? A . n A 1 188 GLU 188 188 ? ? ? A . n A 1 189 SER 189 189 ? ? ? A . n A 1 190 ASP 190 190 ? ? ? A . n A 1 191 ASP 191 191 ? ? ? A . n A 1 192 LEU 192 192 ? ? ? A . n A 1 193 PHE 193 193 ? ? ? A . n A 1 194 ALA 194 194 ? ? ? A . n A 1 195 PRO 195 195 ? ? ? A . n A 1 196 ILE 196 196 ? ? ? A . n A 1 197 LEU 197 197 ? ? ? A . n A 1 198 LYS 198 198 ? ? ? A . n A 1 199 GLY 199 199 ? ? ? A . n A 1 200 ALA 200 200 ? ? ? A . n A 1 201 GLN 201 201 ? ? ? A . n A 1 202 ARG 202 202 ? ? ? A . n A 1 203 ARG 203 203 ? ? ? A . n A 1 204 ALA 204 204 ? ? ? A . n A 1 205 VAL 205 205 ? ? ? 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 CL 1 206 1 CL CL A . C 2 CL 1 207 1 CL CL A . D 3 HOH 1 208 2 HOH HOH A . D 3 HOH 2 209 3 HOH HOH A . D 3 HOH 3 210 5 HOH HOH A . D 3 HOH 4 211 6 HOH HOH A . D 3 HOH 5 212 10 HOH HOH A . D 3 HOH 6 213 11 HOH HOH A . D 3 HOH 7 214 12 HOH HOH A . D 3 HOH 8 215 13 HOH HOH A . D 3 HOH 9 216 14 HOH HOH A . D 3 HOH 10 217 15 HOH HOH A . D 3 HOH 11 218 16 HOH HOH A . D 3 HOH 12 219 18 HOH HOH A . D 3 HOH 13 220 20 HOH HOH A . D 3 HOH 14 221 21 HOH HOH A . D 3 HOH 15 222 22 HOH HOH A . D 3 HOH 16 223 29 HOH HOH A . D 3 HOH 17 224 30 HOH HOH A . D 3 HOH 18 225 31 HOH HOH A . D 3 HOH 19 226 32 HOH HOH A . D 3 HOH 20 227 34 HOH HOH A . D 3 HOH 21 228 35 HOH HOH A . D 3 HOH 22 229 38 HOH HOH A . D 3 HOH 23 230 46 HOH HOH A . D 3 HOH 24 231 47 HOH HOH A . D 3 HOH 25 232 52 HOH HOH A . D 3 HOH 26 233 53 HOH HOH A . D 3 HOH 27 234 57 HOH HOH A . D 3 HOH 28 235 58 HOH HOH A . D 3 HOH 29 236 1 HOH HOH A . D 3 HOH 30 237 2 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 37 A MSE 37 ? MET SELENOMETHIONINE 2 A MSE 64 A MSE 64 ? 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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # 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)' 6130 ? 1 MORE -79 ? 1 'SSA (A^2)' 24430 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5000000000 -0.8660254038 0.0000000000 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5000000000 0.8660254038 0.0000000000 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 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 2009-12-15 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2022-04-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' Advisory 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' audit_author 2 3 'Structure model' citation_author 3 3 'Structure model' database_2 4 3 'Structure model' struct_conn 5 3 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_audit_author.identifier_ORCID' 2 3 'Structure model' '_citation_author.identifier_ORCID' 3 3 'Structure model' '_database_2.pdbx_DOI' 4 3 'Structure model' '_database_2.pdbx_database_accession' 5 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 7 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 8 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # 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 -2.5133 14.6918 35.6545 0.0624 0.1239 0.1778 0.0215 0.0273 -0.0794 6.7321 1.7970 0.7723 -0.8743 1.8538 0.0422 0.0687 0.0031 -0.4893 -0.1602 0.0519 0.1087 0.0340 0.0781 -0.1206 'X-RAY DIFFRACTION' 2 ? refined 27.0446 7.6532 34.6479 0.0542 0.0955 0.0323 0.0164 -0.0069 -0.0262 3.2752 1.9356 1.3782 -1.2651 0.4730 0.1916 0.1167 0.0626 0.1573 -0.0628 -0.0698 0.0338 0.1180 0.1366 -0.0468 'X-RAY DIFFRACTION' 3 ? refined 20.9081 21.6665 32.9689 0.0426 0.0679 0.1911 0.0224 0.0017 -0.0622 3.2395 3.4853 5.6192 0.1389 0.1813 0.5564 0.0257 -0.1975 0.5638 -0.0680 0.0535 0.0699 -0.3401 0.1240 -0.0792 # 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 7 ? ? A 51 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 52 ? ? A 124 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 125 ? ? A 177 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-3000 'data collection' . ? 1 HKL-3000 phasing . ? 2 MLPHARE phasing . ? 3 DM 'model building' . ? 4 SHELXD phasing . ? 5 ARP/wARP 'model building' . ? 6 CCP4 'model building' . ? 7 REFMAC refinement 5.5.0072 ? 8 Coot 'model building' . ? 9 HKL-3000 'data reduction' . ? 10 HKL-2000 'data scaling' . ? 11 DM phasing . ? 12 CCP4 phasing . ? 13 # 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 ASP A 89 ? ? -146.94 22.91 2 1 HIS A 144 ? ? -95.43 55.24 # 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 ASP 7 ? CG ? A ASP 7 CG 2 1 Y 1 A ASP 7 ? OD1 ? A ASP 7 OD1 3 1 Y 1 A ASP 7 ? OD2 ? A ASP 7 OD2 4 1 Y 1 A GLU 27 ? CD ? A GLU 27 CD 5 1 Y 1 A GLU 27 ? OE1 ? A GLU 27 OE1 6 1 Y 1 A GLU 27 ? OE2 ? A GLU 27 OE2 7 1 Y 1 A ARG 40 ? NE ? A ARG 40 NE 8 1 Y 1 A ARG 40 ? CZ ? A ARG 40 CZ 9 1 Y 1 A ARG 40 ? NH1 ? A ARG 40 NH1 10 1 Y 1 A ARG 40 ? NH2 ? A ARG 40 NH2 11 1 Y 1 A ARG 81 ? NE ? A ARG 81 NE 12 1 Y 1 A ARG 81 ? CZ ? A ARG 81 CZ 13 1 Y 1 A ARG 81 ? NH1 ? A ARG 81 NH1 14 1 Y 1 A ARG 81 ? NH2 ? A ARG 81 NH2 15 1 Y 1 A GLU 124 ? CD ? A GLU 124 CD 16 1 Y 1 A GLU 124 ? OE1 ? A GLU 124 OE1 17 1 Y 1 A GLU 124 ? OE2 ? A GLU 124 OE2 18 1 Y 1 A ARG 127 ? NE ? A ARG 127 NE 19 1 Y 1 A ARG 127 ? CZ ? A ARG 127 CZ 20 1 Y 1 A ARG 127 ? NH1 ? A ARG 127 NH1 21 1 Y 1 A ARG 127 ? NH2 ? A ARG 127 NH2 22 1 Y 1 A ARG 173 ? CZ ? A ARG 173 CZ 23 1 Y 1 A ARG 173 ? NH1 ? A ARG 173 NH1 24 1 Y 1 A ARG 173 ? NH2 ? A ARG 173 NH2 25 1 Y 1 A TYR 176 ? CG ? A TYR 176 CG 26 1 Y 1 A TYR 176 ? CD1 ? A TYR 176 CD1 27 1 Y 1 A TYR 176 ? CD2 ? A TYR 176 CD2 28 1 Y 1 A TYR 176 ? CE1 ? A TYR 176 CE1 29 1 Y 1 A TYR 176 ? CE2 ? A TYR 176 CE2 30 1 Y 1 A TYR 176 ? CZ ? A TYR 176 CZ 31 1 Y 1 A TYR 176 ? OH ? A TYR 176 OH 32 1 Y 1 A GLU 177 ? CG ? A GLU 177 CG 33 1 Y 1 A GLU 177 ? CD ? A GLU 177 CD 34 1 Y 1 A GLU 177 ? OE1 ? A GLU 177 OE1 35 1 Y 1 A GLU 177 ? OE2 ? A GLU 177 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 MSE 1 ? A MSE 1 2 1 Y 1 A PRO 2 ? A PRO 2 3 1 Y 1 A ASP 3 ? A ASP 3 4 1 Y 1 A ASN 4 ? A ASN 4 5 1 Y 1 A GLU 5 ? A GLU 5 6 1 Y 1 A VAL 6 ? A VAL 6 7 1 Y 1 A ALA 178 ? A ALA 178 8 1 Y 1 A GLN 179 ? A GLN 179 9 1 Y 1 A LEU 180 ? A LEU 180 10 1 Y 1 A MSE 181 ? A MSE 181 11 1 Y 1 A ALA 182 ? A ALA 182 12 1 Y 1 A THR 183 ? A THR 183 13 1 Y 1 A ALA 184 ? A ALA 184 14 1 Y 1 A GLY 185 ? A GLY 185 15 1 Y 1 A MSE 186 ? A MSE 186 16 1 Y 1 A ASP 187 ? A ASP 187 17 1 Y 1 A GLU 188 ? A GLU 188 18 1 Y 1 A SER 189 ? A SER 189 19 1 Y 1 A ASP 190 ? A ASP 190 20 1 Y 1 A ASP 191 ? A ASP 191 21 1 Y 1 A LEU 192 ? A LEU 192 22 1 Y 1 A PHE 193 ? A PHE 193 23 1 Y 1 A ALA 194 ? A ALA 194 24 1 Y 1 A PRO 195 ? A PRO 195 25 1 Y 1 A ILE 196 ? A ILE 196 26 1 Y 1 A LEU 197 ? A LEU 197 27 1 Y 1 A LYS 198 ? A LYS 198 28 1 Y 1 A GLY 199 ? A GLY 199 29 1 Y 1 A ALA 200 ? A ALA 200 30 1 Y 1 A GLN 201 ? A GLN 201 31 1 Y 1 A ARG 202 ? A ARG 202 32 1 Y 1 A ARG 203 ? A ARG 203 33 1 Y 1 A ALA 204 ? A ALA 204 34 1 Y 1 A VAL 205 ? A VAL 205 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 water HOH #