data_3DB7 # _entry.id 3DB7 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.365 _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 3DB7 pdb_00003db7 10.2210/pdb3db7/pdb RCSB RCSB047820 ? ? WWPDB D_1000047820 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 389981 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3DB7 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2008-05-30 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title ;Crystal structure of putative calcium-regulated periplasmic protein of unknown function (NP_809836.1) from BACTEROIDES THETAIOTAOMICRON VPI-5482 at 1.40 A resolution ; _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 ? # _citation_author.citation_id primary _citation_author.name 'Joint Center for Structural Genomics (JCSG)' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _cell.entry_id 3DB7 _cell.length_a 66.170 _cell.length_b 48.420 _cell.length_c 44.610 _cell.angle_alpha 90.00 _cell.angle_beta 113.27 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3DB7 _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'putative calcium-regulated periplasmic protein' 14790.481 1 ? ? ? ? 2 non-polymer syn 'CALCIUM ION' 40.078 3 ? ? ? ? 3 non-polymer syn 1,2-ETHANEDIOL 62.068 2 ? ? ? ? 4 water nat water 18.015 194 ? ? ? ? # _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 ;GADDDKPIQVTQ(MSE)PQLAQQFIKQHFSDSKVALAK(MSE)ESDFLYKSYEVIFTNGNKVEFDKKGNWEEVDCKHTSV PVAIIPAAIQKYVTTNYPDAKVLKIERDKKDYEVKLSNRTELKFDLKFNLIDIDN ; _entity_poly.pdbx_seq_one_letter_code_can ;GADDDKPIQVTQMPQLAQQFIKQHFSDSKVALAKMESDFLYKSYEVIFTNGNKVEFDKKGNWEEVDCKHTSVPVAIIPAA IQKYVTTNYPDAKVLKIERDKKDYEVKLSNRTELKFDLKFNLIDIDN ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 389981 # 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 ALA n 1 3 ASP n 1 4 ASP n 1 5 ASP n 1 6 LYS n 1 7 PRO n 1 8 ILE n 1 9 GLN n 1 10 VAL n 1 11 THR n 1 12 GLN n 1 13 MSE n 1 14 PRO n 1 15 GLN n 1 16 LEU n 1 17 ALA n 1 18 GLN n 1 19 GLN n 1 20 PHE n 1 21 ILE n 1 22 LYS n 1 23 GLN n 1 24 HIS n 1 25 PHE n 1 26 SER n 1 27 ASP n 1 28 SER n 1 29 LYS n 1 30 VAL n 1 31 ALA n 1 32 LEU n 1 33 ALA n 1 34 LYS n 1 35 MSE n 1 36 GLU n 1 37 SER n 1 38 ASP n 1 39 PHE n 1 40 LEU n 1 41 TYR n 1 42 LYS n 1 43 SER n 1 44 TYR n 1 45 GLU n 1 46 VAL n 1 47 ILE n 1 48 PHE n 1 49 THR n 1 50 ASN n 1 51 GLY n 1 52 ASN n 1 53 LYS n 1 54 VAL n 1 55 GLU n 1 56 PHE n 1 57 ASP n 1 58 LYS n 1 59 LYS n 1 60 GLY n 1 61 ASN n 1 62 TRP n 1 63 GLU n 1 64 GLU n 1 65 VAL n 1 66 ASP n 1 67 CYS n 1 68 LYS n 1 69 HIS n 1 70 THR n 1 71 SER n 1 72 VAL n 1 73 PRO n 1 74 VAL n 1 75 ALA n 1 76 ILE n 1 77 ILE n 1 78 PRO n 1 79 ALA n 1 80 ALA n 1 81 ILE n 1 82 GLN n 1 83 LYS n 1 84 TYR n 1 85 VAL n 1 86 THR n 1 87 THR n 1 88 ASN n 1 89 TYR n 1 90 PRO n 1 91 ASP n 1 92 ALA n 1 93 LYS n 1 94 VAL n 1 95 LEU n 1 96 LYS n 1 97 ILE n 1 98 GLU n 1 99 ARG n 1 100 ASP n 1 101 LYS n 1 102 LYS n 1 103 ASP n 1 104 TYR n 1 105 GLU n 1 106 VAL n 1 107 LYS n 1 108 LEU n 1 109 SER n 1 110 ASN n 1 111 ARG n 1 112 THR n 1 113 GLU n 1 114 LEU n 1 115 LYS n 1 116 PHE n 1 117 ASP n 1 118 LEU n 1 119 LYS n 1 120 PHE n 1 121 ASN n 1 122 LEU n 1 123 ILE n 1 124 ASP n 1 125 ILE n 1 126 ASP n 1 127 ASN 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 'NP_809836.1, BT_0923' _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 'Bacteroides thetaiotaomicron' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 818 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain HK100 _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 SpeedET _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q8A994_BACTN _struct_ref.pdbx_db_accession Q8A994 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;ADDDKPIQVTQMPQLAQQFIKQHFSDSKVALAKMESDFLYKSYEVIFTNGNKVEFDKKGNWEEVDCKHTSVPVAIIPAAI QKYVTTNYPDAKVLKIERDKKDYEVKLSNRTELKFDLKFNLIDIDN ; _struct_ref.pdbx_align_begin 20 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3DB7 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 127 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8A994 _struct_ref_seq.db_align_beg 20 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 145 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 20 _struct_ref_seq.pdbx_auth_seq_align_end 145 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3DB7 _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code Q8A994 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 CA non-polymer . 'CALCIUM ION' ? 'Ca 2' 40.078 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 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 3DB7 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.22 _exptl_crystal.density_percent_sol 44.58 _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 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.3 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '0.2000M CaAcetate, 20.0000% PEG-3350, No Buffer pH 7., NANODROP, pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 277K' # _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 'MARMOSAIC 325 mm CCD' _diffrn_detector.pdbx_collection_date 2008-03-04 _diffrn_detector.details 'Flat mirror (vertical focusing)' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Single crystal Si(111) bent monochromator (horizontal focusing)' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.91837 1.0 2 0.97947 1.0 3 0.97891 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL11-1' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL11-1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.91837,0.97947,0.97891 # _reflns.entry_id 3DB7 _reflns.observed_criterion_sigma_I -3.00 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 24.922 _reflns.d_resolution_high 1.40 _reflns.number_obs 23150 _reflns.number_all ? _reflns.percent_possible_obs 90.5 _reflns.pdbx_Rmerge_I_obs 0.042 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 10.440 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.149 _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 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.percent_possible_all _reflns_shell.Rmerge_I_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.number_measured_all _reflns_shell.number_measured_obs _reflns_shell.number_unique_obs _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.40 1.45 ? 0.536 ? 1.5 ? ? ? ? ? ? ? 1 1 1.45 1.51 ? 0.369 ? 2.0 ? ? ? ? ? ? ? 2 1 1.51 1.58 ? 0.281 ? 2.7 ? ? ? ? ? ? ? 3 1 1.58 1.66 ? 0.211 ? 3.6 ? ? ? ? ? ? ? 4 1 1.66 1.76 ? 0.155 ? 4.8 ? ? ? ? ? ? ? 5 1 1.76 1.90 ? 0.093 ? 7.4 ? ? ? ? ? ? ? 6 1 1.90 2.09 ? 0.046 ? 12.4 ? ? ? ? ? ? ? 7 1 2.09 2.39 ? 0.036 ? 16.0 ? ? ? ? ? ? ? 8 1 2.39 3.01 ? 0.027 ? 20.8 ? ? ? ? ? ? ? 9 1 3.01 24.92 ? 0.017 ? 32.1 ? ? ? ? ? ? ? 10 1 # _refine.entry_id 3DB7 _refine.ls_number_reflns_obs 23150 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 24.922 _refine.ls_d_res_high 1.40 _refine.ls_percent_reflns_obs 90.53 _refine.ls_R_factor_obs 0.16228 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.16034 _refine.ls_R_factor_R_free 0.19824 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 1172 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.969 _refine.correlation_coeff_Fo_to_Fc_free 0.955 _refine.B_iso_mean 10.575 _refine.aniso_B[1][1] -0.28 _refine.aniso_B[2][2] 0.24 _refine.aniso_B[3][3] 0.17 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.15 _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 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;1.HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2.ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. 3.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4.ETHYLENE GLYCOL AND CALCIUM IONS FROM THE CRYSTALLIZATION COND ARE MODELED IN THIS STRUCTURE. ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _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 0.066 _refine.pdbx_overall_ESU_R_Free 0.071 _refine.overall_SU_ML 0.045 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 2.134 _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_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 1013 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 11 _refine_hist.number_atoms_solvent 194 _refine_hist.number_atoms_total 1218 _refine_hist.d_res_high 1.40 _refine_hist.d_res_low 24.922 # 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 0.018 0.022 ? 1131 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 771 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.559 1.965 ? 1539 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.096 3.000 ? 1902 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.603 5.000 ? 146 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 35.122 26.731 ? 52 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 11.482 15.000 ? 209 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 11.545 15.000 ? 1 'X-RAY DIFFRACTION' ? r_chiral_restr 0.102 0.200 ? 168 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.008 0.021 ? 1293 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.003 0.020 ? 207 '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 1.626 3.000 ? 697 'X-RAY DIFFRACTION' ? r_mcbond_other 0.510 3.000 ? 271 'X-RAY DIFFRACTION' ? r_mcangle_it 2.615 5.000 ? 1150 'X-RAY DIFFRACTION' ? r_scbond_it 3.931 8.000 ? 434 'X-RAY DIFFRACTION' ? r_scangle_it 5.984 11.000 ? 389 '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 1.401 _refine_ls_shell.d_res_low 1.437 _refine_ls_shell.number_reflns_R_work 1644 _refine_ls_shell.R_factor_R_work 0.258 _refine_ls_shell.percent_reflns_obs 91.98 _refine_ls_shell.R_factor_R_free 0.299 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 76 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3DB7 _struct.title ;Crystal structure of a putative calcium-regulated periplasmic protein (bt0923) from bacteroides thetaiotaomicron at 1.40 A resolution ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text 'Structural genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, ca-binding protein' _struct_keywords.pdbx_keywords 'Ca-BINDING PROTEIN' _struct_keywords.entry_id 3DB7 # 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 2 ? E N N 3 ? F N N 3 ? G N N 4 ? # _struct_biol.id 1 _struct_biol.details ;AUTHORS STATE THAT ONLY WHEN CA1 AND CA2 ARE INCLUDED IN THE CALCULATION, DOES PISA (v1.14) PREDICT THAT A STABLE DIMER COULD BE A PROBABLE QUATERNARY STRUCTURE. SIZE EXCLUSION CHROMATOGRAPHY WITH STATIC LIGHT SCATTERING (SEC+SLS) WITHOUT ADDED CALCIUM SUPPORTS THE ASSIGNMENT OF A MONOMER AS A SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. WHEN A SAMPLE WAS RUN WITH 0.2 M CALCIUM CHLORIDE IN THE MOBILE PHASE (SIMILAR CONCENTRATION TO THAT IN THE CRYSTALLIZATION REAGENT), THE SEC+SLS RESULTS SHOWED PRIMARILY DIMER. ; # 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 ? ASP A 5 ? GLY A 0 ASP A 23 5 ? 5 HELX_P HELX_P2 2 GLN A 9 ? MSE A 13 ? GLN A 27 MSE A 31 5 ? 5 HELX_P HELX_P3 3 PRO A 14 ? PHE A 25 ? PRO A 32 PHE A 43 1 ? 12 HELX_P HELX_P4 4 PRO A 73 ? ILE A 77 ? PRO A 91 ILE A 95 5 ? 5 HELX_P HELX_P5 5 PRO A 78 ? TYR A 89 ? PRO A 96 TYR A 107 1 ? 12 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A GLN 12 C ? ? ? 1_555 A MSE 13 N A ? A GLN 30 A MSE 31 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale2 covale both ? A GLN 12 C ? ? ? 1_555 A MSE 13 N B ? A GLN 30 A MSE 31 1_555 ? ? ? ? ? ? ? 1.313 ? ? covale3 covale both ? A MSE 13 C A ? ? 1_555 A PRO 14 N ? ? A MSE 31 A PRO 32 1_555 ? ? ? ? ? ? ? 1.348 ? ? covale4 covale both ? A MSE 13 C B ? ? 1_555 A PRO 14 N ? ? A MSE 31 A PRO 32 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale5 covale both ? A LYS 34 C ? ? ? 1_555 A MSE 35 N ? ? A LYS 52 A MSE 53 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale6 covale both ? A MSE 35 C ? ? ? 1_555 A GLU 36 N ? ? A MSE 53 A GLU 54 1_555 ? ? ? ? ? ? ? 1.332 ? ? metalc1 metalc ? ? B CA . CA ? ? ? 1_555 A GLU 36 OE1 ? ? A CA 1 A GLU 54 1_555 ? ? ? ? ? ? ? 2.463 ? ? metalc2 metalc ? ? B CA . CA ? ? ? 1_555 A GLU 36 OE2 ? ? A CA 1 A GLU 54 1_555 ? ? ? ? ? ? ? 2.691 ? ? metalc3 metalc ? ? B CA . CA ? ? ? 1_555 A GLU 45 OE2 ? ? A CA 1 A GLU 63 1_555 ? ? ? ? ? ? ? 2.344 ? ? metalc4 metalc ? ? B CA . CA ? ? ? 1_555 A GLU 55 OE1 ? ? A CA 1 A GLU 73 1_555 ? ? ? ? ? ? ? 2.508 ? ? metalc5 metalc ? ? B CA . CA ? ? ? 1_555 A GLU 55 OE2 ? ? A CA 1 A GLU 73 1_555 ? ? ? ? ? ? ? 2.506 ? ? metalc6 metalc ? ? C CA . CA ? ? ? 1_555 A GLU 55 OE1 ? ? A CA 2 A GLU 73 1_555 ? ? ? ? ? ? ? 2.314 ? ? metalc7 metalc ? ? C CA . CA ? ? ? 1_555 A GLU 64 OE1 ? ? A CA 2 A GLU 82 1_555 ? ? ? ? ? ? ? 2.279 ? ? metalc8 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 2 A HOH 146 1_555 ? ? ? ? ? ? ? 2.416 ? ? metalc9 metalc ? ? C CA . CA ? ? ? 1_555 G HOH . O ? ? A CA 2 A HOH 158 1_555 ? ? ? ? ? ? ? 2.466 ? ? metalc10 metalc ? ? D CA . CA ? ? ? 1_555 F EDO . O2 A ? A CA 3 A EDO 5 1_555 ? ? ? ? ? ? ? 2.497 ? ? metalc11 metalc ? ? D CA . CA ? ? ? 1_555 F EDO . O2 B ? A CA 3 A EDO 5 1_555 ? ? ? ? ? ? ? 2.519 ? ? metalc12 metalc ? ? D CA . CA ? ? ? 1_555 F EDO . O1 A ? A CA 3 A EDO 5 1_555 ? ? ? ? ? ? ? 2.460 ? ? metalc13 metalc ? ? D CA . CA ? ? ? 1_555 A GLU 105 OE2 A ? A CA 3 A GLU 123 1_555 ? ? ? ? ? ? ? 2.292 ? ? metalc14 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O B ? A CA 3 A HOH 336 1_555 ? ? ? ? ? ? ? 2.181 ? ? metalc15 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O A ? A CA 3 A HOH 337 1_555 ? ? ? ? ? ? ? 2.386 ? ? metalc16 metalc ? ? D CA . CA ? ? ? 1_555 G HOH . O B ? A CA 3 A HOH 337 1_555 ? ? ? ? ? ? ? 2.199 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 9 _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 ? anti-parallel A 5 6 ? anti-parallel A 6 7 ? anti-parallel A 7 8 ? anti-parallel A 8 9 ? 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 LYS A 6 ? ILE A 8 ? LYS A 24 ILE A 26 A 2 VAL A 30 ? ASP A 38 ? VAL A 48 ASP A 56 A 3 TYR A 41 ? PHE A 48 ? TYR A 59 PHE A 66 A 4 LYS A 53 ? PHE A 56 ? LYS A 71 PHE A 74 A 5 TRP A 62 ? ASP A 66 ? TRP A 80 ASP A 84 A 6 VAL A 94 ? ARG A 99 ? VAL A 112 ARG A 117 A 7 ASP A 103 ? LEU A 108 ? ASP A 121 LEU A 126 A 8 GLU A 113 ? ASP A 117 ? GLU A 131 ASP A 135 A 9 LEU A 122 ? ASP A 126 ? LEU A 140 ASP A 144 # 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 LYS A 6 ? N LYS A 24 O MSE A 35 ? O MSE A 53 A 2 3 N LEU A 32 ? N LEU A 50 O ILE A 47 ? O ILE A 65 A 3 4 N TYR A 44 ? N TYR A 62 O PHE A 56 ? O PHE A 74 A 4 5 N LYS A 53 ? N LYS A 71 O ASP A 66 ? O ASP A 84 A 5 6 N VAL A 65 ? N VAL A 83 O ILE A 97 ? O ILE A 115 A 6 7 N LEU A 95 ? N LEU A 113 O LYS A 107 ? O LYS A 125 A 7 8 N TYR A 104 ? N TYR A 122 O PHE A 116 ? O PHE A 134 A 8 9 N LYS A 115 ? N LYS A 133 O ILE A 123 ? O ILE A 141 # 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 CA 1 ? 6 'BINDING SITE FOR RESIDUE CA A 1' AC2 Software A CA 2 ? 6 'BINDING SITE FOR RESIDUE CA A 2' AC3 Software A CA 3 ? 3 'BINDING SITE FOR RESIDUE CA A 3' AC4 Software A EDO 4 ? 4 'BINDING SITE FOR RESIDUE EDO A 4' AC5 Software A EDO 5 ? 8 'BINDING SITE FOR RESIDUE EDO A 5' # 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 6 GLU A 36 ? GLU A 54 . ? 1_555 ? 2 AC1 6 GLU A 45 ? GLU A 63 . ? 1_555 ? 3 AC1 6 GLU A 55 ? GLU A 73 . ? 1_555 ? 4 AC1 6 ASP A 124 ? ASP A 142 . ? 2_555 ? 5 AC1 6 ILE A 125 ? ILE A 143 . ? 2_555 ? 6 AC1 6 ASP A 126 ? ASP A 144 . ? 2_555 ? 7 AC2 6 GLU A 55 ? GLU A 73 . ? 1_555 ? 8 AC2 6 GLU A 64 ? GLU A 82 . ? 1_555 ? 9 AC2 6 ASP A 124 ? ASP A 142 . ? 2_555 ? 10 AC2 6 ASP A 126 ? ASP A 144 . ? 2_555 ? 11 AC2 6 HOH G . ? HOH A 146 . ? 1_555 ? 12 AC2 6 HOH G . ? HOH A 158 . ? 1_555 ? 13 AC3 3 GLU A 105 ? GLU A 123 . ? 2_555 ? 14 AC3 3 HOH G . ? HOH A 336 . ? 2_555 ? 15 AC3 3 HOH G . ? HOH A 337 . ? 2_555 ? 16 AC4 4 ILE A 8 ? ILE A 26 . ? 1_555 ? 17 AC4 4 GLN A 9 ? GLN A 27 . ? 1_555 ? 18 AC4 4 ALA A 33 ? ALA A 51 . ? 1_555 ? 19 AC4 4 LYS A 119 ? LYS A 137 . ? 3_545 ? 20 AC5 8 GLU A 98 ? GLU A 116 . ? 1_555 ? 21 AC5 8 ARG A 99 ? ARG A 117 . ? 1_555 ? 22 AC5 8 ASP A 103 ? ASP A 121 . ? 1_555 ? 23 AC5 8 GLU A 105 ? GLU A 123 . ? 2_555 ? 24 AC5 8 LYS A 115 ? LYS A 133 . ? 2_555 ? 25 AC5 8 HOH G . ? HOH A 255 . ? 1_555 ? 26 AC5 8 HOH G . ? HOH A 336 . ? 1_555 ? 27 AC5 8 HOH G . ? HOH A 337 . ? 2_555 ? # _atom_sites.entry_id 3DB7 _atom_sites.fract_transf_matrix[1][1] 0.015113 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006499 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.020653 _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] 0.024401 _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 CA 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 0 0 GLY GLY A . n A 1 2 ALA 2 20 20 ALA ALA A . n A 1 3 ASP 3 21 21 ASP ASP A . n A 1 4 ASP 4 22 22 ASP ASP A . n A 1 5 ASP 5 23 23 ASP ASP A . n A 1 6 LYS 6 24 24 LYS LYS A . n A 1 7 PRO 7 25 25 PRO PRO A . n A 1 8 ILE 8 26 26 ILE ILE A . n A 1 9 GLN 9 27 27 GLN GLN A . n A 1 10 VAL 10 28 28 VAL VAL A . n A 1 11 THR 11 29 29 THR THR A . n A 1 12 GLN 12 30 30 GLN GLN A . n A 1 13 MSE 13 31 31 MSE MSE A . n A 1 14 PRO 14 32 32 PRO PRO A . n A 1 15 GLN 15 33 33 GLN GLN A . n A 1 16 LEU 16 34 34 LEU LEU A . n A 1 17 ALA 17 35 35 ALA ALA A . n A 1 18 GLN 18 36 36 GLN GLN A . n A 1 19 GLN 19 37 37 GLN GLN A . n A 1 20 PHE 20 38 38 PHE PHE A . n A 1 21 ILE 21 39 39 ILE ILE A . n A 1 22 LYS 22 40 40 LYS LYS A . n A 1 23 GLN 23 41 41 GLN GLN A . n A 1 24 HIS 24 42 42 HIS HIS A . n A 1 25 PHE 25 43 43 PHE PHE A . n A 1 26 SER 26 44 44 SER SER A . n A 1 27 ASP 27 45 45 ASP ASP A . n A 1 28 SER 28 46 46 SER SER A . n A 1 29 LYS 29 47 47 LYS LYS A . n A 1 30 VAL 30 48 48 VAL VAL A . n A 1 31 ALA 31 49 49 ALA ALA A . n A 1 32 LEU 32 50 50 LEU LEU A . n A 1 33 ALA 33 51 51 ALA ALA A . n A 1 34 LYS 34 52 52 LYS LYS A . n A 1 35 MSE 35 53 53 MSE MSE A . n A 1 36 GLU 36 54 54 GLU GLU A . n A 1 37 SER 37 55 55 SER SER A . n A 1 38 ASP 38 56 56 ASP ASP A . n A 1 39 PHE 39 57 57 PHE PHE A . n A 1 40 LEU 40 58 58 LEU LEU A . n A 1 41 TYR 41 59 59 TYR TYR A . n A 1 42 LYS 42 60 60 LYS LYS A . n A 1 43 SER 43 61 61 SER SER A . n A 1 44 TYR 44 62 62 TYR TYR A . n A 1 45 GLU 45 63 63 GLU GLU A . n A 1 46 VAL 46 64 64 VAL VAL A . n A 1 47 ILE 47 65 65 ILE ILE A . n A 1 48 PHE 48 66 66 PHE PHE A . n A 1 49 THR 49 67 67 THR THR A . n A 1 50 ASN 50 68 68 ASN ASN A . n A 1 51 GLY 51 69 69 GLY GLY A . n A 1 52 ASN 52 70 70 ASN ASN A . n A 1 53 LYS 53 71 71 LYS LYS A . n A 1 54 VAL 54 72 72 VAL VAL A . n A 1 55 GLU 55 73 73 GLU GLU A . n A 1 56 PHE 56 74 74 PHE PHE A . n A 1 57 ASP 57 75 75 ASP ASP A . n A 1 58 LYS 58 76 76 LYS LYS A . n A 1 59 LYS 59 77 77 LYS LYS A . n A 1 60 GLY 60 78 78 GLY GLY A . n A 1 61 ASN 61 79 79 ASN ASN A . n A 1 62 TRP 62 80 80 TRP TRP A . n A 1 63 GLU 63 81 81 GLU GLU A . n A 1 64 GLU 64 82 82 GLU GLU A . n A 1 65 VAL 65 83 83 VAL VAL A . n A 1 66 ASP 66 84 84 ASP ASP A . n A 1 67 CYS 67 85 85 CYS CYS A . n A 1 68 LYS 68 86 86 LYS LYS A . n A 1 69 HIS 69 87 87 HIS HIS A . n A 1 70 THR 70 88 88 THR THR A . n A 1 71 SER 71 89 89 SER SER A . n A 1 72 VAL 72 90 90 VAL VAL A . n A 1 73 PRO 73 91 91 PRO PRO A . n A 1 74 VAL 74 92 92 VAL VAL A . n A 1 75 ALA 75 93 93 ALA ALA A . n A 1 76 ILE 76 94 94 ILE ILE A . n A 1 77 ILE 77 95 95 ILE ILE A . n A 1 78 PRO 78 96 96 PRO PRO A . n A 1 79 ALA 79 97 97 ALA ALA A . n A 1 80 ALA 80 98 98 ALA ALA A . n A 1 81 ILE 81 99 99 ILE ILE A . n A 1 82 GLN 82 100 100 GLN GLN A . n A 1 83 LYS 83 101 101 LYS LYS A . n A 1 84 TYR 84 102 102 TYR TYR A . n A 1 85 VAL 85 103 103 VAL VAL A . n A 1 86 THR 86 104 104 THR THR A . n A 1 87 THR 87 105 105 THR THR A . n A 1 88 ASN 88 106 106 ASN ASN A . n A 1 89 TYR 89 107 107 TYR TYR A . n A 1 90 PRO 90 108 108 PRO PRO A . n A 1 91 ASP 91 109 109 ASP ASP A . n A 1 92 ALA 92 110 110 ALA ALA A . n A 1 93 LYS 93 111 111 LYS LYS A . n A 1 94 VAL 94 112 112 VAL VAL A . n A 1 95 LEU 95 113 113 LEU LEU A . n A 1 96 LYS 96 114 114 LYS LYS A . n A 1 97 ILE 97 115 115 ILE ILE A . n A 1 98 GLU 98 116 116 GLU GLU A . n A 1 99 ARG 99 117 117 ARG ARG A . n A 1 100 ASP 100 118 118 ASP ASP A . n A 1 101 LYS 101 119 119 LYS LYS A . n A 1 102 LYS 102 120 120 LYS LYS A . n A 1 103 ASP 103 121 121 ASP ASP A . n A 1 104 TYR 104 122 122 TYR TYR A . n A 1 105 GLU 105 123 123 GLU GLU A . n A 1 106 VAL 106 124 124 VAL VAL A . n A 1 107 LYS 107 125 125 LYS LYS A . n A 1 108 LEU 108 126 126 LEU LEU A . n A 1 109 SER 109 127 127 SER SER A . n A 1 110 ASN 110 128 128 ASN ASN A . n A 1 111 ARG 111 129 129 ARG ARG A . n A 1 112 THR 112 130 130 THR THR A . n A 1 113 GLU 113 131 131 GLU GLU A . n A 1 114 LEU 114 132 132 LEU LEU A . n A 1 115 LYS 115 133 133 LYS LYS A . n A 1 116 PHE 116 134 134 PHE PHE A . n A 1 117 ASP 117 135 135 ASP ASP A . n A 1 118 LEU 118 136 136 LEU LEU A . n A 1 119 LYS 119 137 137 LYS LYS A . n A 1 120 PHE 120 138 138 PHE PHE A . n A 1 121 ASN 121 139 139 ASN ASN A . n A 1 122 LEU 122 140 140 LEU LEU A . n A 1 123 ILE 123 141 141 ILE ILE A . n A 1 124 ASP 124 142 142 ASP ASP A . n A 1 125 ILE 125 143 143 ILE ILE A . n A 1 126 ASP 126 144 144 ASP ASP A . n A 1 127 ASN 127 145 145 ASN ASN A . n # _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # 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 CA 1 1 1 CA CA A . C 2 CA 1 2 2 CA CA A . D 2 CA 1 3 3 CA CA A . E 3 EDO 1 4 4 EDO EDO A . F 3 EDO 1 5 5 EDO EDO A . G 4 HOH 1 146 6 HOH HOH A . G 4 HOH 2 147 7 HOH HOH A . G 4 HOH 3 148 8 HOH HOH A . G 4 HOH 4 149 9 HOH HOH A . G 4 HOH 5 150 10 HOH HOH A . G 4 HOH 6 151 11 HOH HOH A . G 4 HOH 7 152 12 HOH HOH A . G 4 HOH 8 153 13 HOH HOH A . G 4 HOH 9 154 14 HOH HOH A . G 4 HOH 10 155 15 HOH HOH A . G 4 HOH 11 156 16 HOH HOH A . G 4 HOH 12 157 17 HOH HOH A . G 4 HOH 13 158 18 HOH HOH A . G 4 HOH 14 159 19 HOH HOH A . G 4 HOH 15 160 20 HOH HOH A . G 4 HOH 16 161 21 HOH HOH A . G 4 HOH 17 162 22 HOH HOH A . G 4 HOH 18 163 23 HOH HOH A . G 4 HOH 19 164 24 HOH HOH A . G 4 HOH 20 165 25 HOH HOH A . G 4 HOH 21 166 26 HOH HOH A . G 4 HOH 22 167 27 HOH HOH A . G 4 HOH 23 168 28 HOH HOH A . G 4 HOH 24 169 29 HOH HOH A . G 4 HOH 25 170 30 HOH HOH A . G 4 HOH 26 171 31 HOH HOH A . G 4 HOH 27 172 32 HOH HOH A . G 4 HOH 28 173 33 HOH HOH A . G 4 HOH 29 174 34 HOH HOH A . G 4 HOH 30 175 35 HOH HOH A . G 4 HOH 31 176 36 HOH HOH A . G 4 HOH 32 177 37 HOH HOH A . G 4 HOH 33 178 38 HOH HOH A . G 4 HOH 34 179 39 HOH HOH A . G 4 HOH 35 180 40 HOH HOH A . G 4 HOH 36 181 41 HOH HOH A . G 4 HOH 37 182 42 HOH HOH A . G 4 HOH 38 183 43 HOH HOH A . G 4 HOH 39 184 44 HOH HOH A . G 4 HOH 40 185 45 HOH HOH A . G 4 HOH 41 186 46 HOH HOH A . G 4 HOH 42 187 47 HOH HOH A . G 4 HOH 43 188 48 HOH HOH A . G 4 HOH 44 189 49 HOH HOH A . G 4 HOH 45 190 50 HOH HOH A . G 4 HOH 46 191 51 HOH HOH A . G 4 HOH 47 192 52 HOH HOH A . G 4 HOH 48 193 53 HOH HOH A . G 4 HOH 49 194 54 HOH HOH A . G 4 HOH 50 195 55 HOH HOH A . G 4 HOH 51 196 56 HOH HOH A . G 4 HOH 52 197 57 HOH HOH A . G 4 HOH 53 198 58 HOH HOH A . G 4 HOH 54 199 59 HOH HOH A . G 4 HOH 55 200 60 HOH HOH A . G 4 HOH 56 201 61 HOH HOH A . G 4 HOH 57 202 62 HOH HOH A . G 4 HOH 58 203 63 HOH HOH A . G 4 HOH 59 204 64 HOH HOH A . G 4 HOH 60 205 65 HOH HOH A . G 4 HOH 61 206 66 HOH HOH A . G 4 HOH 62 207 67 HOH HOH A . G 4 HOH 63 208 68 HOH HOH A . G 4 HOH 64 209 69 HOH HOH A . G 4 HOH 65 210 70 HOH HOH A . G 4 HOH 66 211 71 HOH HOH A . G 4 HOH 67 212 72 HOH HOH A . G 4 HOH 68 213 73 HOH HOH A . G 4 HOH 69 214 74 HOH HOH A . G 4 HOH 70 215 75 HOH HOH A . G 4 HOH 71 216 76 HOH HOH A . G 4 HOH 72 217 77 HOH HOH A . G 4 HOH 73 218 78 HOH HOH A . G 4 HOH 74 219 79 HOH HOH A . G 4 HOH 75 220 80 HOH HOH A . G 4 HOH 76 221 81 HOH HOH A . G 4 HOH 77 222 82 HOH HOH A . G 4 HOH 78 223 83 HOH HOH A . G 4 HOH 79 224 84 HOH HOH A . G 4 HOH 80 225 85 HOH HOH A . G 4 HOH 81 226 86 HOH HOH A . G 4 HOH 82 227 87 HOH HOH A . G 4 HOH 83 228 88 HOH HOH A . G 4 HOH 84 229 89 HOH HOH A . G 4 HOH 85 230 90 HOH HOH A . G 4 HOH 86 231 91 HOH HOH A . G 4 HOH 87 232 92 HOH HOH A . G 4 HOH 88 233 93 HOH HOH A . G 4 HOH 89 234 94 HOH HOH A . G 4 HOH 90 235 95 HOH HOH A . G 4 HOH 91 236 96 HOH HOH A . G 4 HOH 92 237 97 HOH HOH A . G 4 HOH 93 238 98 HOH HOH A . G 4 HOH 94 239 99 HOH HOH A . G 4 HOH 95 240 100 HOH HOH A . G 4 HOH 96 241 101 HOH HOH A . G 4 HOH 97 242 102 HOH HOH A . G 4 HOH 98 243 103 HOH HOH A . G 4 HOH 99 244 104 HOH HOH A . G 4 HOH 100 245 105 HOH HOH A . G 4 HOH 101 246 106 HOH HOH A . G 4 HOH 102 247 107 HOH HOH A . G 4 HOH 103 248 108 HOH HOH A . G 4 HOH 104 249 109 HOH HOH A . G 4 HOH 105 250 110 HOH HOH A . G 4 HOH 106 251 111 HOH HOH A . G 4 HOH 107 252 112 HOH HOH A . G 4 HOH 108 253 113 HOH HOH A . G 4 HOH 109 254 114 HOH HOH A . G 4 HOH 110 255 115 HOH HOH A . G 4 HOH 111 256 116 HOH HOH A . G 4 HOH 112 257 117 HOH HOH A . G 4 HOH 113 258 118 HOH HOH A . G 4 HOH 114 259 119 HOH HOH A . G 4 HOH 115 260 120 HOH HOH A . G 4 HOH 116 261 121 HOH HOH A . G 4 HOH 117 262 122 HOH HOH A . G 4 HOH 118 263 123 HOH HOH A . G 4 HOH 119 264 124 HOH HOH A . G 4 HOH 120 265 125 HOH HOH A . G 4 HOH 121 266 126 HOH HOH A . G 4 HOH 122 267 127 HOH HOH A . G 4 HOH 123 268 128 HOH HOH A . G 4 HOH 124 269 129 HOH HOH A . G 4 HOH 125 270 130 HOH HOH A . G 4 HOH 126 271 131 HOH HOH A . G 4 HOH 127 272 132 HOH HOH A . G 4 HOH 128 273 133 HOH HOH A . G 4 HOH 129 274 134 HOH HOH A . G 4 HOH 130 275 135 HOH HOH A . G 4 HOH 131 276 136 HOH HOH A . G 4 HOH 132 277 137 HOH HOH A . G 4 HOH 133 278 138 HOH HOH A . G 4 HOH 134 279 139 HOH HOH A . G 4 HOH 135 280 140 HOH HOH A . G 4 HOH 136 281 141 HOH HOH A . G 4 HOH 137 282 142 HOH HOH A . G 4 HOH 138 283 143 HOH HOH A . G 4 HOH 139 284 144 HOH HOH A . G 4 HOH 140 285 145 HOH HOH A . G 4 HOH 141 286 146 HOH HOH A . G 4 HOH 142 287 147 HOH HOH A . G 4 HOH 143 288 148 HOH HOH A . G 4 HOH 144 289 149 HOH HOH A . G 4 HOH 145 290 150 HOH HOH A . G 4 HOH 146 291 151 HOH HOH A . G 4 HOH 147 292 152 HOH HOH A . G 4 HOH 148 293 153 HOH HOH A . G 4 HOH 149 294 154 HOH HOH A . G 4 HOH 150 295 155 HOH HOH A . G 4 HOH 151 296 156 HOH HOH A . G 4 HOH 152 297 157 HOH HOH A . G 4 HOH 153 298 158 HOH HOH A . G 4 HOH 154 299 159 HOH HOH A . G 4 HOH 155 300 160 HOH HOH A . G 4 HOH 156 301 161 HOH HOH A . G 4 HOH 157 302 162 HOH HOH A . G 4 HOH 158 303 163 HOH HOH A . G 4 HOH 159 304 164 HOH HOH A . G 4 HOH 160 305 165 HOH HOH A . G 4 HOH 161 306 166 HOH HOH A . G 4 HOH 162 307 167 HOH HOH A . G 4 HOH 163 308 168 HOH HOH A . G 4 HOH 164 309 169 HOH HOH A . G 4 HOH 165 310 170 HOH HOH A . G 4 HOH 166 311 171 HOH HOH A . G 4 HOH 167 312 172 HOH HOH A . G 4 HOH 168 313 173 HOH HOH A . G 4 HOH 169 314 174 HOH HOH A . G 4 HOH 170 315 175 HOH HOH A . G 4 HOH 171 316 176 HOH HOH A . G 4 HOH 172 317 177 HOH HOH A . G 4 HOH 173 318 178 HOH HOH A . G 4 HOH 174 319 179 HOH HOH A . G 4 HOH 175 320 180 HOH HOH A . G 4 HOH 176 321 181 HOH HOH A . G 4 HOH 177 322 182 HOH HOH A . G 4 HOH 178 323 183 HOH HOH A . G 4 HOH 179 324 184 HOH HOH A . G 4 HOH 180 325 185 HOH HOH A . G 4 HOH 181 326 186 HOH HOH A . G 4 HOH 182 327 187 HOH HOH A . G 4 HOH 183 328 188 HOH HOH A . G 4 HOH 184 329 189 HOH HOH A . G 4 HOH 185 330 190 HOH HOH A . G 4 HOH 186 331 191 HOH HOH A . G 4 HOH 187 332 192 HOH HOH A . G 4 HOH 188 333 193 HOH HOH A . G 4 HOH 189 334 194 HOH HOH A . G 4 HOH 190 335 195 HOH HOH A . G 4 HOH 191 336 196 HOH HOH A . G 4 HOH 192 337 197 HOH HOH A . G 4 HOH 193 338 198 HOH HOH A . G 4 HOH 194 339 199 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 13 A MSE 31 ? MET SELENOMETHIONINE 2 A MSE 35 A MSE 53 ? MET SELENOMETHIONINE # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA dimeric 2 2 author_defined_assembly ? monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2 A,B,C,D,E,F,G 2 1 A,B,C,D,E,F,G # 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)' 3320 ? 1 MORE -77 ? 1 'SSA (A^2)' 12730 ? # 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 -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 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A CA 3 ? D CA . 2 1 A HOH 334 ? G HOH . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OE1 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 36 ? A GLU 54 ? 1_555 50.3 ? 2 OE1 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 45 ? A GLU 63 ? 1_555 76.4 ? 3 OE2 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 45 ? A GLU 63 ? 1_555 126.6 ? 4 OE1 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 127.7 ? 5 OE2 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 129.1 ? 6 OE2 ? A GLU 45 ? A GLU 63 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 79.3 ? 7 OE1 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 55 ? A GLU 73 ? 1_555 81.6 ? 8 OE2 ? A GLU 36 ? A GLU 54 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 55 ? A GLU 73 ? 1_555 81.7 ? 9 OE2 ? A GLU 45 ? A GLU 63 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 55 ? A GLU 73 ? 1_555 89.8 ? 10 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 CA ? B CA . ? A CA 1 ? 1_555 OE2 ? A GLU 55 ? A GLU 73 ? 1_555 52.6 ? 11 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 OE1 ? A GLU 64 ? A GLU 82 ? 1_555 90.5 ? 12 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 O ? G HOH . ? A HOH 146 ? 1_555 80.1 ? 13 OE1 ? A GLU 64 ? A GLU 82 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 O ? G HOH . ? A HOH 146 ? 1_555 105.2 ? 14 OE1 ? A GLU 55 ? A GLU 73 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 O ? G HOH . ? A HOH 158 ? 1_555 153.2 ? 15 OE1 ? A GLU 64 ? A GLU 82 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 O ? G HOH . ? A HOH 158 ? 1_555 85.6 ? 16 O ? G HOH . ? A HOH 146 ? 1_555 CA ? C CA . ? A CA 2 ? 1_555 O ? G HOH . ? A HOH 158 ? 1_555 75.4 ? 17 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O2 B F EDO . ? A EDO 5 ? 1_555 19.1 ? 18 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O1 A F EDO . ? A EDO 5 ? 1_555 60.8 ? 19 O2 B F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O1 A F EDO . ? A EDO 5 ? 1_555 73.5 ? 20 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 OE2 A A GLU 105 ? A GLU 123 ? 1_555 68.0 ? 21 O2 B F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 OE2 A A GLU 105 ? A GLU 123 ? 1_555 80.2 ? 22 O1 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 OE2 A A GLU 105 ? A GLU 123 ? 1_555 91.2 ? 23 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 336 ? 1_555 100.4 ? 24 O2 B F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 336 ? 1_555 104.8 ? 25 O1 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 336 ? 1_555 45.3 ? 26 OE2 A A GLU 105 ? A GLU 123 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 336 ? 1_555 128.5 ? 27 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O A G HOH . ? A HOH 337 ? 1_555 131.1 ? 28 O2 B F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O A G HOH . ? A HOH 337 ? 1_555 146.9 ? 29 O1 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O A G HOH . ? A HOH 337 ? 1_555 73.5 ? 30 OE2 A A GLU 105 ? A GLU 123 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O A G HOH . ? A HOH 337 ? 1_555 98.0 ? 31 O B G HOH . ? A HOH 336 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O A G HOH . ? A HOH 337 ? 1_555 50.9 ? 32 O2 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 95.4 ? 33 O2 B F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 114.3 ? 34 O1 A F EDO . ? A EDO 5 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 67.8 ? 35 OE2 A A GLU 105 ? A GLU 123 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 50.8 ? 36 O B G HOH . ? A HOH 336 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 82.9 ? 37 O A G HOH . ? A HOH 337 ? 1_555 CA ? D CA . ? A CA 3 ? 1_555 O B G HOH . ? A HOH 337 ? 1_555 48.9 ? # 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 2008-10-28 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2019-07-24 5 'Structure model' 1 4 2023-02-01 # _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' 'Author supporting evidence' 4 3 'Structure model' 'Refinement description' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Refinement description' 8 5 'Structure model' 'Database references' 9 5 'Structure model' 'Derived calculations' # 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' pdbx_struct_assembly_auth_evidence 2 3 'Structure model' software 3 4 'Structure model' pdbx_struct_special_symmetry 4 4 'Structure model' software 5 4 'Structure model' struct_conn 6 5 'Structure model' database_2 7 5 'Structure model' pdbx_struct_conn_angle 8 5 'Structure model' struct_conn 9 5 'Structure model' struct_ref_seq_dif 10 5 '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' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_software.classification' 4 4 'Structure model' '_software.contact_author' 5 4 'Structure model' '_software.contact_author_email' 6 4 'Structure model' '_software.language' 7 4 'Structure model' '_software.location' 8 4 'Structure model' '_software.name' 9 4 'Structure model' '_software.type' 10 4 'Structure model' '_software.version' 11 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 12 5 'Structure model' '_database_2.pdbx_DOI' 13 5 'Structure model' '_database_2.pdbx_database_accession' 14 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_comp_id' 15 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 16 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_alt_id' 17 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 18 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_atom_id' 19 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_comp_id' 20 5 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_seq_id' 21 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_comp_id' 22 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 23 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_alt_id' 24 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 25 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_atom_id' 26 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_comp_id' 27 5 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_seq_id' 28 5 'Structure model' '_pdbx_struct_conn_angle.value' 29 5 'Structure model' '_struct_conn.pdbx_dist_value' 30 5 'Structure model' '_struct_conn.pdbx_ptnr1_label_alt_id' 31 5 'Structure model' '_struct_conn.pdbx_ptnr2_label_alt_id' 32 5 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 33 5 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 34 5 'Structure model' '_struct_conn.ptnr1_label_asym_id' 35 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 36 5 'Structure model' '_struct_conn.ptnr1_label_comp_id' 37 5 'Structure model' '_struct_conn.ptnr1_label_seq_id' 38 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 39 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 40 5 'Structure model' '_struct_conn.ptnr2_label_asym_id' 41 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 42 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 43 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 44 5 'Structure model' '_struct_ref_seq_dif.details' 45 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 46 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 47 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 5.4168 _pdbx_refine_tls.origin_y 48.0223 _pdbx_refine_tls.origin_z 9.8704 _pdbx_refine_tls.T[1][1] -0.0143 _pdbx_refine_tls.T[2][2] -0.0308 _pdbx_refine_tls.T[3][3] -0.0250 _pdbx_refine_tls.T[1][2] -0.0043 _pdbx_refine_tls.T[1][3] -0.0026 _pdbx_refine_tls.T[2][3] 0.0052 _pdbx_refine_tls.L[1][1] 1.2557 _pdbx_refine_tls.L[2][2] 0.3124 _pdbx_refine_tls.L[3][3] 0.4953 _pdbx_refine_tls.L[1][2] 0.0120 _pdbx_refine_tls.L[1][3] 0.1457 _pdbx_refine_tls.L[2][3] 0.0582 _pdbx_refine_tls.S[1][1] 0.0117 _pdbx_refine_tls.S[1][2] -0.0362 _pdbx_refine_tls.S[1][3] -0.0013 _pdbx_refine_tls.S[2][1] 0.0069 _pdbx_refine_tls.S[2][2] -0.0177 _pdbx_refine_tls.S[2][3] -0.0076 _pdbx_refine_tls.S[3][1] 0.0011 _pdbx_refine_tls.S[3][2] 0.0328 _pdbx_refine_tls.S[3][3] 0.0060 _pdbx_refine_tls.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 A _pdbx_refine_tls_group.beg_auth_seq_id 0 _pdbx_refine_tls_group.beg_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id 1 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 145 _pdbx_refine_tls_group.end_label_asym_id A _pdbx_refine_tls_group.end_label_seq_id 127 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # _phasing.method MAD # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal REFMAC 5.4.0067 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SHELX . ? package 'George Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 3 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 4 XSCALE . ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/xscale_program.html ? ? 5 PDB_EXTRACT 3.004 'September 10, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 6 XDS . ? ? ? ? 'data reduction' ? ? ? 7 SHELXD . ? ? ? ? phasing ? ? ? 8 autoSHARP . ? ? ? ? phasing ? ? ? 9 # _pdbx_entry_details.entry_id 3DB7 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. THE CLONED CONSTRUCT CONTAINS RESIDUES 20-145 OF THE FULL LENGTH PROTEIN. ; _pdbx_entry_details.has_ligand_of_interest ? # 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 THR A 88 ? ? -136.51 -108.94 2 1 ARG A 129 ? ? 84.18 -6.44 # 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 LYS 24 ? CD ? A LYS 6 CD 2 1 Y 1 A LYS 24 ? CE ? A LYS 6 CE 3 1 Y 1 A LYS 24 ? NZ ? A LYS 6 NZ 4 1 Y 1 A ASP 45 ? CG ? A ASP 27 CG 5 1 Y 1 A ASP 45 ? OD1 ? A ASP 27 OD1 6 1 Y 1 A ASP 45 ? OD2 ? A ASP 27 OD2 7 1 Y 1 A LYS 47 ? CD ? A LYS 29 CD 8 1 Y 1 A LYS 47 ? CE ? A LYS 29 CE 9 1 Y 1 A LYS 47 ? NZ ? A LYS 29 NZ 10 1 Y 1 A LYS 60 ? CD ? A LYS 42 CD 11 1 Y 1 A LYS 60 ? CE ? A LYS 42 CE 12 1 Y 1 A LYS 60 ? NZ ? A LYS 42 NZ 13 1 Y 1 A LYS 76 ? NZ ? A LYS 58 NZ 14 1 Y 1 A LYS 77 ? CE ? A LYS 59 CE 15 1 Y 1 A LYS 77 ? NZ ? A LYS 59 NZ 16 1 Y 1 A LYS 111 ? CE ? A LYS 93 CE 17 1 Y 1 A LYS 111 ? NZ ? A LYS 93 NZ 18 1 Y 1 A LYS 120 ? CE ? A LYS 102 CE 19 1 Y 1 A LYS 120 ? NZ ? A LYS 102 NZ 20 1 Y 1 A ARG 129 ? CZ ? A ARG 111 CZ 21 1 Y 1 A ARG 129 ? NH1 ? A ARG 111 NH1 22 1 Y 1 A ARG 129 ? NH2 ? A ARG 111 NH2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CALCIUM ION' CA 3 1,2-ETHANEDIOL EDO 4 water HOH # loop_ _pdbx_struct_assembly_auth_evidence.id _pdbx_struct_assembly_auth_evidence.assembly_id _pdbx_struct_assembly_auth_evidence.experimental_support _pdbx_struct_assembly_auth_evidence.details 1 1 'gel filtration' ? 2 1 'light scattering' ? 3 2 'gel filtration' ? 4 2 'light scattering' ? #