data_3BM7 # _entry.id 3BM7 # _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 3BM7 pdb_00003bm7 10.2210/pdb3bm7/pdb RCSB RCSB045690 ? ? WWPDB D_1000045690 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 378310 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3BM7 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-12-12 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _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 protein of unknown function with ferredoxin-like fold (NP_420935.1) from Caulobacter crescentus at 1.35 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 3BM7 _cell.length_a 61.780 _cell.length_b 81.200 _cell.length_c 46.760 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 3BM7 _symmetry.Int_Tables_number 20 _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _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 'Protein of unknown function with ferredoxin-like fold' 12808.907 1 ? ? ? ? 2 non-polymer syn 1,2-ETHANEDIOL 62.068 2 ? ? ? ? 3 water nat water 18.015 121 ? ? ? ? # _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)GSDKIHHHHHHENLYFQG(MSE)IGVVATLKVQPAKAAEFEKVFLDLAAKVKANEPGCLVYQLTRSKTEEGVYKV LELYAS(MSE)DALKHHGGTDYFKAAGAA(MSE)GPT(MSE)AGAPVIEYLDAVE ; _entity_poly.pdbx_seq_one_letter_code_can ;MGSDKIHHHHHHENLYFQGMIGVVATLKVQPAKAAEFEKVFLDLAAKVKANEPGCLVYQLTRSKTEEGVYKVLELYASMD ALKHHGGTDYFKAAGAAMGPTMAGAPVIEYLDAVE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 378310 # 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 GLY n 1 3 SER n 1 4 ASP n 1 5 LYS n 1 6 ILE n 1 7 HIS n 1 8 HIS n 1 9 HIS n 1 10 HIS n 1 11 HIS n 1 12 HIS n 1 13 GLU n 1 14 ASN n 1 15 LEU n 1 16 TYR n 1 17 PHE n 1 18 GLN n 1 19 GLY n 1 20 MSE n 1 21 ILE n 1 22 GLY n 1 23 VAL n 1 24 VAL n 1 25 ALA n 1 26 THR n 1 27 LEU n 1 28 LYS n 1 29 VAL n 1 30 GLN n 1 31 PRO n 1 32 ALA n 1 33 LYS n 1 34 ALA n 1 35 ALA n 1 36 GLU n 1 37 PHE n 1 38 GLU n 1 39 LYS n 1 40 VAL n 1 41 PHE n 1 42 LEU n 1 43 ASP n 1 44 LEU n 1 45 ALA n 1 46 ALA n 1 47 LYS n 1 48 VAL n 1 49 LYS n 1 50 ALA n 1 51 ASN n 1 52 GLU n 1 53 PRO n 1 54 GLY n 1 55 CYS n 1 56 LEU n 1 57 VAL n 1 58 TYR n 1 59 GLN n 1 60 LEU n 1 61 THR n 1 62 ARG n 1 63 SER n 1 64 LYS n 1 65 THR n 1 66 GLU n 1 67 GLU n 1 68 GLY n 1 69 VAL n 1 70 TYR n 1 71 LYS n 1 72 VAL n 1 73 LEU n 1 74 GLU n 1 75 LEU n 1 76 TYR n 1 77 ALA n 1 78 SER n 1 79 MSE n 1 80 ASP n 1 81 ALA n 1 82 LEU n 1 83 LYS n 1 84 HIS n 1 85 HIS n 1 86 GLY n 1 87 GLY n 1 88 THR n 1 89 ASP n 1 90 TYR n 1 91 PHE n 1 92 LYS n 1 93 ALA n 1 94 ALA n 1 95 GLY n 1 96 ALA n 1 97 ALA n 1 98 MSE n 1 99 GLY n 1 100 PRO n 1 101 THR n 1 102 MSE n 1 103 ALA n 1 104 GLY n 1 105 ALA n 1 106 PRO n 1 107 VAL n 1 108 ILE n 1 109 GLU n 1 110 TYR n 1 111 LEU n 1 112 ASP n 1 113 ALA n 1 114 VAL n 1 115 GLU 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 Caulobacter _entity_src_gen.pdbx_gene_src_gene 'NP_420935.1, CC_2132' _entity_src_gen.gene_src_species 'Caulobacter vibrioides' _entity_src_gen.gene_src_strain CB15 _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 'Caulobacter crescentus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 190650 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc 19089 _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 Escherichia _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 Q9A6G2_CAUCR _struct_ref.pdbx_db_accession Q9A6G2 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MIGVVATLKVQPAKAAEFEKVFLDLAAKVKANEPGCLVYQLTRSKTEEGVYKVLELYASMDALKHHGGTDYFKAAGAAMG PTMAGAPVIEYLDAVE ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3BM7 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 20 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 115 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9A6G2 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 96 _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 96 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 3BM7 MSE A 1 ? UNP Q9A6G2 ? ? 'expression tag' -18 1 1 3BM7 GLY A 2 ? UNP Q9A6G2 ? ? 'expression tag' -17 2 1 3BM7 SER A 3 ? UNP Q9A6G2 ? ? 'expression tag' -16 3 1 3BM7 ASP A 4 ? UNP Q9A6G2 ? ? 'expression tag' -15 4 1 3BM7 LYS A 5 ? UNP Q9A6G2 ? ? 'expression tag' -14 5 1 3BM7 ILE A 6 ? UNP Q9A6G2 ? ? 'expression tag' -13 6 1 3BM7 HIS A 7 ? UNP Q9A6G2 ? ? 'expression tag' -12 7 1 3BM7 HIS A 8 ? UNP Q9A6G2 ? ? 'expression tag' -11 8 1 3BM7 HIS A 9 ? UNP Q9A6G2 ? ? 'expression tag' -10 9 1 3BM7 HIS A 10 ? UNP Q9A6G2 ? ? 'expression tag' -9 10 1 3BM7 HIS A 11 ? UNP Q9A6G2 ? ? 'expression tag' -8 11 1 3BM7 HIS A 12 ? UNP Q9A6G2 ? ? 'expression tag' -7 12 1 3BM7 GLU A 13 ? UNP Q9A6G2 ? ? 'expression tag' -6 13 1 3BM7 ASN A 14 ? UNP Q9A6G2 ? ? 'expression tag' -5 14 1 3BM7 LEU A 15 ? UNP Q9A6G2 ? ? 'expression tag' -4 15 1 3BM7 TYR A 16 ? UNP Q9A6G2 ? ? 'expression tag' -3 16 1 3BM7 PHE A 17 ? UNP Q9A6G2 ? ? 'expression tag' -2 17 1 3BM7 GLN A 18 ? UNP Q9A6G2 ? ? 'expression tag' -1 18 1 3BM7 GLY A 19 ? UNP Q9A6G2 ? ? 'expression tag' 0 19 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 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.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 3BM7 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.29 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 46.27 _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.pH 9.0 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details 'NANODROP, 1.0M LiCl, 10.0% PEG 6000, 0.1M Bicine pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'Flat mirror (vertical focusing)' _diffrn_detector.pdbx_collection_date 2007-11-19 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Single crystal Si(111) bent (horizontal focusing)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97904 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL11-1 _diffrn_source.type 'SSRL BEAMLINE BL11-1' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97904 _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 3BM7 _reflns.d_resolution_high 1.35 _reflns.d_resolution_low 25.777 _reflns.number_obs 25876 _reflns.pdbx_Rmerge_I_obs 0.030 _reflns.pdbx_netI_over_sigmaI 13.620 _reflns.percent_possible_obs 97.700 _reflns.B_iso_Wilson_estimate 19.93 _reflns.observed_criterion_sigma_I -3.00 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_redundancy ? _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.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.35 1.40 6076 ? 4965 0.456 1.8 ? ? ? ? ? 96.70 1 1 1.40 1.45 6545 ? 4463 0.341 2.5 ? ? ? ? ? 99.20 2 1 1.45 1.52 7741 ? 5276 0.250 3.4 ? ? ? ? ? 99.20 3 1 1.52 1.60 7239 ? 4943 0.163 4.7 ? ? ? ? ? 99.00 4 1 1.60 1.70 7241 ? 4963 0.099 6.9 ? ? ? ? ? 99.00 5 1 1.70 1.83 10391 ? 4875 0.084 10.2 ? ? ? ? ? 98.90 6 1 1.83 2.02 15259 ? 5094 0.060 15.7 ? ? ? ? ? 99.20 7 1 2.02 2.31 18388 ? 4912 0.040 24.1 ? ? ? ? ? 99.00 8 1 2.31 2.91 18171 ? 4770 0.030 31.5 ? ? ? ? ? 96.10 9 1 2.91 25.777 15482 ? 4557 0.023 37.6 ? ? ? ? ? 90.90 10 1 # _refine.entry_id 3BM7 _refine.ls_d_res_high 1.350 _refine.ls_d_res_low 25.777 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 98.630 _refine.ls_number_reflns_obs 25860 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _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 MOLECULES FROM THE CRYSTALLIZATION CONDITIONS WERE MODELED. 5. THERE IS UNMODELED DENSITY NEAR GLN 40. ; _refine.ls_R_factor_obs 0.190 _refine.ls_R_factor_R_work 0.189 _refine.ls_R_factor_R_free 0.209 _refine.ls_percent_reflns_R_free 5.100 _refine.ls_number_reflns_R_free 1317 _refine.B_iso_mean 18.442 _refine.aniso_B[1][1] -1.520 _refine.aniso_B[2][2] 2.120 _refine.aniso_B[3][3] -0.600 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.969 _refine.correlation_coeff_Fo_to_Fc_free 0.962 _refine.pdbx_overall_ESU_R 0.056 _refine.pdbx_overall_ESU_R_Free 0.057 _refine.overall_SU_ML 0.050 _refine.overall_SU_B 2.689 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_phase_error ? _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 793 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 8 _refine_hist.number_atoms_solvent 121 _refine_hist.number_atoms_total 922 _refine_hist.d_res_high 1.350 _refine_hist.d_res_low 25.777 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 872 0.016 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 558 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1187 1.476 1.960 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1378 0.920 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 117 5.379 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 35 27.179 25.143 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 138 13.246 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 1 5.293 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 130 0.093 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1014 0.007 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 171 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 183 0.221 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 536 0.179 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 435 0.184 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 429 0.087 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 89 0.160 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 13 0.287 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 29 0.229 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 16 0.205 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 601 2.062 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 228 0.456 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 898 2.520 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 337 4.335 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 289 4.860 11.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.350 _refine_ls_shell.d_res_low 1.385 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 98.390 _refine_ls_shell.number_reflns_R_work 1804 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.347 _refine_ls_shell.R_factor_R_free 0.365 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 87 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1891 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3BM7 _struct.title ;CRYSTAL STRUCTURE OF A PUTATIVE ANTIBIOTIC BIOSYNTHESIS MONOOXYGENASE (CC_2132) FROM CAULOBACTER CRESCENTUS CB15 AT 1.35 A RESOLUTION ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;FERREDOXIN-LIKE FOLD, ANTIBIOTIC BIOSYNTHESIS MONOOXYGENASE, STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, OXIDOREDUCTASE ; _struct_keywords.pdbx_keywords OXIDOREDUCTASE _struct_keywords.entry_id 3BM7 # 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 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 HIS A 12 ? TYR A 16 ? HIS A -7 TYR A -3 5 ? 5 HELX_P HELX_P2 2 LYS A 33 ? GLU A 52 ? LYS A 14 GLU A 33 1 ? 20 HELX_P HELX_P3 3 SER A 78 ? THR A 88 ? SER A 59 THR A 69 1 ? 11 HELX_P HELX_P4 4 THR A 88 ? GLY A 99 ? THR A 69 GLY A 80 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 GLY 19 C ? ? ? 1_555 A MSE 20 N A ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale2 covale both ? A GLY 19 C ? ? ? 1_555 A MSE 20 N B ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.315 ? ? covale3 covale both ? A MSE 20 C A ? ? 1_555 A ILE 21 N ? ? A MSE 1 A ILE 2 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale4 covale both ? A MSE 20 C B ? ? 1_555 A ILE 21 N ? ? A MSE 1 A ILE 2 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale5 covale both ? A SER 78 C ? ? ? 1_555 A MSE 79 N ? ? A SER 59 A MSE 60 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale6 covale both ? A MSE 79 C ? ? ? 1_555 A ASP 80 N ? ? A MSE 60 A ASP 61 1_555 ? ? ? ? ? ? ? 1.335 ? ? covale7 covale both ? A ALA 97 C ? ? ? 1_555 A MSE 98 N A ? A ALA 78 A MSE 79 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale8 covale both ? A ALA 97 C ? ? ? 1_555 A MSE 98 N B ? A ALA 78 A MSE 79 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale9 covale both ? A MSE 98 C A ? ? 1_555 A GLY 99 N ? ? A MSE 79 A GLY 80 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale10 covale both ? A MSE 98 C B ? ? 1_555 A GLY 99 N ? ? A MSE 79 A GLY 80 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale11 covale both ? A THR 101 C ? ? ? 1_555 A MSE 102 N ? ? A THR 82 A MSE 83 1_555 ? ? ? ? ? ? ? 1.333 ? ? covale12 covale both ? A MSE 102 C ? ? ? 1_555 A ALA 103 N ? ? A MSE 83 A ALA 84 1_555 ? ? ? ? ? ? ? 1.335 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 4 _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 # 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 CYS A 55 ? ARG A 62 ? CYS A 36 ARG A 43 A 2 VAL A 69 ? TYR A 76 ? VAL A 50 TYR A 57 A 3 ILE A 21 ? VAL A 29 ? ILE A 2 VAL A 10 A 4 MSE A 102 ? ASP A 112 ? MSE A 83 ASP A 93 # 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 GLN A 59 ? N GLN A 40 O LEU A 73 ? O LEU A 54 A 2 3 O VAL A 72 ? O VAL A 53 N ALA A 25 ? N ALA A 6 A 3 4 N THR A 26 ? N THR A 7 O VAL A 107 ? O VAL A 88 # 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 EDO 97 ? 6 'BINDING SITE FOR RESIDUE EDO A 97' AC2 Software A EDO 98 ? 7 'BINDING SITE FOR RESIDUE EDO A 98' # 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 ASP A 43 ? ASP A 24 . ? 4_567 ? 2 AC1 6 LYS A 49 ? LYS A 30 . ? 1_555 ? 3 AC1 6 ALA A 50 ? ALA A 31 . ? 1_555 ? 4 AC1 6 ASN A 51 ? ASN A 32 . ? 1_555 ? 5 AC1 6 GLU A 52 ? GLU A 33 . ? 1_555 ? 6 AC1 6 PRO A 53 ? PRO A 34 . ? 1_555 ? 7 AC2 7 ARG A 62 ? ARG A 43 . ? 1_555 ? 8 AC2 7 SER A 63 ? SER A 44 . ? 1_555 ? 9 AC2 7 GLU A 66 ? GLU A 47 . ? 1_555 ? 10 AC2 7 GLY A 68 ? GLY A 49 . ? 1_555 ? 11 AC2 7 VAL A 69 ? VAL A 50 . ? 1_555 ? 12 AC2 7 TYR A 70 ? TYR A 51 . ? 1_555 ? 13 AC2 7 HOH D . ? HOH A 152 . ? 1_555 ? # _atom_sites.entry_id 3BM7 _atom_sites.fract_transf_matrix[1][1] 0.016186 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.012315 _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] 0.021386 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 MSE 1 -18 ? ? ? A . n A 1 2 GLY 2 -17 ? ? ? A . n A 1 3 SER 3 -16 ? ? ? A . n A 1 4 ASP 4 -15 ? ? ? A . n A 1 5 LYS 5 -14 ? ? ? A . n A 1 6 ILE 6 -13 ? ? ? A . n A 1 7 HIS 7 -12 ? ? ? A . n A 1 8 HIS 8 -11 ? ? ? A . n A 1 9 HIS 9 -10 ? ? ? A . n A 1 10 HIS 10 -9 -9 HIS HIS A . n A 1 11 HIS 11 -8 -8 HIS HIS A . n A 1 12 HIS 12 -7 -7 HIS HIS A . n A 1 13 GLU 13 -6 -6 GLU GLU A . n A 1 14 ASN 14 -5 -5 ASN ASN A . n A 1 15 LEU 15 -4 -4 LEU LEU A . n A 1 16 TYR 16 -3 -3 TYR TYR A . n A 1 17 PHE 17 -2 -2 PHE PHE A . n A 1 18 GLN 18 -1 -1 GLN GLN A . n A 1 19 GLY 19 0 0 GLY GLY A . n A 1 20 MSE 20 1 1 MSE MSE A . n A 1 21 ILE 21 2 2 ILE ILE A . n A 1 22 GLY 22 3 3 GLY GLY A . n A 1 23 VAL 23 4 4 VAL VAL A . n A 1 24 VAL 24 5 5 VAL VAL A . n A 1 25 ALA 25 6 6 ALA ALA A . n A 1 26 THR 26 7 7 THR THR A . n A 1 27 LEU 27 8 8 LEU LEU A . n A 1 28 LYS 28 9 9 LYS LYS A . n A 1 29 VAL 29 10 10 VAL VAL A . n A 1 30 GLN 30 11 11 GLN GLN A . n A 1 31 PRO 31 12 12 PRO PRO A . n A 1 32 ALA 32 13 13 ALA ALA A . n A 1 33 LYS 33 14 14 LYS LYS A . n A 1 34 ALA 34 15 15 ALA ALA A . n A 1 35 ALA 35 16 16 ALA ALA A . n A 1 36 GLU 36 17 17 GLU GLU A . n A 1 37 PHE 37 18 18 PHE PHE A . n A 1 38 GLU 38 19 19 GLU GLU A . n A 1 39 LYS 39 20 20 LYS LYS A . n A 1 40 VAL 40 21 21 VAL VAL A . n A 1 41 PHE 41 22 22 PHE PHE A . n A 1 42 LEU 42 23 23 LEU LEU A . n A 1 43 ASP 43 24 24 ASP ASP A . n A 1 44 LEU 44 25 25 LEU LEU A . n A 1 45 ALA 45 26 26 ALA ALA A . n A 1 46 ALA 46 27 27 ALA ALA A . n A 1 47 LYS 47 28 28 LYS LYS A . n A 1 48 VAL 48 29 29 VAL VAL A . n A 1 49 LYS 49 30 30 LYS LYS A . n A 1 50 ALA 50 31 31 ALA ALA A . n A 1 51 ASN 51 32 32 ASN ASN A . n A 1 52 GLU 52 33 33 GLU GLU A . n A 1 53 PRO 53 34 34 PRO PRO A . n A 1 54 GLY 54 35 35 GLY GLY A . n A 1 55 CYS 55 36 36 CYS CYS A . n A 1 56 LEU 56 37 37 LEU LEU A . n A 1 57 VAL 57 38 38 VAL VAL A . n A 1 58 TYR 58 39 39 TYR TYR A . n A 1 59 GLN 59 40 40 GLN GLN A . n A 1 60 LEU 60 41 41 LEU LEU A . n A 1 61 THR 61 42 42 THR THR A . n A 1 62 ARG 62 43 43 ARG ARG A . n A 1 63 SER 63 44 44 SER SER A . n A 1 64 LYS 64 45 45 LYS LYS A . n A 1 65 THR 65 46 46 THR THR A . n A 1 66 GLU 66 47 47 GLU GLU A . n A 1 67 GLU 67 48 48 GLU GLU A . n A 1 68 GLY 68 49 49 GLY GLY A . n A 1 69 VAL 69 50 50 VAL VAL A . n A 1 70 TYR 70 51 51 TYR TYR A . n A 1 71 LYS 71 52 52 LYS LYS A . n A 1 72 VAL 72 53 53 VAL VAL A . n A 1 73 LEU 73 54 54 LEU LEU A . n A 1 74 GLU 74 55 55 GLU GLU A . n A 1 75 LEU 75 56 56 LEU LEU A . n A 1 76 TYR 76 57 57 TYR TYR A . n A 1 77 ALA 77 58 58 ALA ALA A . n A 1 78 SER 78 59 59 SER SER A . n A 1 79 MSE 79 60 60 MSE MSE A . n A 1 80 ASP 80 61 61 ASP ASP A . n A 1 81 ALA 81 62 62 ALA ALA A . n A 1 82 LEU 82 63 63 LEU LEU A . n A 1 83 LYS 83 64 64 LYS LYS A . n A 1 84 HIS 84 65 65 HIS HIS A . n A 1 85 HIS 85 66 66 HIS HIS A . n A 1 86 GLY 86 67 67 GLY GLY A . n A 1 87 GLY 87 68 68 GLY GLY A . n A 1 88 THR 88 69 69 THR THR A . n A 1 89 ASP 89 70 70 ASP ASP A . n A 1 90 TYR 90 71 71 TYR TYR A . n A 1 91 PHE 91 72 72 PHE PHE A . n A 1 92 LYS 92 73 73 LYS LYS A . n A 1 93 ALA 93 74 74 ALA ALA A . n A 1 94 ALA 94 75 75 ALA ALA A . n A 1 95 GLY 95 76 76 GLY GLY A . n A 1 96 ALA 96 77 77 ALA ALA A . n A 1 97 ALA 97 78 78 ALA ALA A . n A 1 98 MSE 98 79 79 MSE MSE A . n A 1 99 GLY 99 80 80 GLY GLY A . n A 1 100 PRO 100 81 81 PRO PRO A . n A 1 101 THR 101 82 82 THR THR A . n A 1 102 MSE 102 83 83 MSE MSE A . n A 1 103 ALA 103 84 84 ALA ALA A . n A 1 104 GLY 104 85 85 GLY GLY A . n A 1 105 ALA 105 86 86 ALA ALA A . n A 1 106 PRO 106 87 87 PRO PRO A . n A 1 107 VAL 107 88 88 VAL VAL A . n A 1 108 ILE 108 89 89 ILE ILE A . n A 1 109 GLU 109 90 90 GLU GLU A . n A 1 110 TYR 110 91 91 TYR TYR A . n A 1 111 LEU 111 92 92 LEU LEU A . n A 1 112 ASP 112 93 93 ASP ASP A . n A 1 113 ALA 113 94 94 ALA ALA A . n A 1 114 VAL 114 95 95 VAL VAL A . n A 1 115 GLU 115 96 96 GLU GLU 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 EDO 1 97 1 EDO EDO A . C 2 EDO 1 98 2 EDO EDO A . D 3 HOH 1 99 3 HOH HOH A . D 3 HOH 2 100 4 HOH HOH A . D 3 HOH 3 101 5 HOH HOH A . D 3 HOH 4 102 6 HOH HOH A . D 3 HOH 5 103 7 HOH HOH A . D 3 HOH 6 104 8 HOH HOH A . D 3 HOH 7 105 9 HOH HOH A . D 3 HOH 8 106 10 HOH HOH A . D 3 HOH 9 107 11 HOH HOH A . D 3 HOH 10 108 12 HOH HOH A . D 3 HOH 11 109 13 HOH HOH A . D 3 HOH 12 110 14 HOH HOH A . D 3 HOH 13 111 15 HOH HOH A . D 3 HOH 14 112 16 HOH HOH A . D 3 HOH 15 113 17 HOH HOH A . D 3 HOH 16 114 18 HOH HOH A . D 3 HOH 17 115 19 HOH HOH A . D 3 HOH 18 116 20 HOH HOH A . D 3 HOH 19 117 21 HOH HOH A . D 3 HOH 20 118 22 HOH HOH A . D 3 HOH 21 119 23 HOH HOH A . D 3 HOH 22 120 24 HOH HOH A . D 3 HOH 23 121 25 HOH HOH A . D 3 HOH 24 122 26 HOH HOH A . D 3 HOH 25 123 27 HOH HOH A . D 3 HOH 26 124 28 HOH HOH A . D 3 HOH 27 125 29 HOH HOH A . D 3 HOH 28 126 30 HOH HOH A . D 3 HOH 29 127 31 HOH HOH A . D 3 HOH 30 128 32 HOH HOH A . D 3 HOH 31 129 33 HOH HOH A . D 3 HOH 32 130 34 HOH HOH A . D 3 HOH 33 131 35 HOH HOH A . D 3 HOH 34 132 36 HOH HOH A . D 3 HOH 35 133 37 HOH HOH A . D 3 HOH 36 134 38 HOH HOH A . D 3 HOH 37 135 39 HOH HOH A . D 3 HOH 38 136 40 HOH HOH A . D 3 HOH 39 137 41 HOH HOH A . D 3 HOH 40 138 42 HOH HOH A . D 3 HOH 41 139 43 HOH HOH A . D 3 HOH 42 140 44 HOH HOH A . D 3 HOH 43 141 45 HOH HOH A . D 3 HOH 44 142 46 HOH HOH A . D 3 HOH 45 143 47 HOH HOH A . D 3 HOH 46 144 48 HOH HOH A . D 3 HOH 47 145 49 HOH HOH A . D 3 HOH 48 146 50 HOH HOH A . D 3 HOH 49 147 51 HOH HOH A . D 3 HOH 50 148 52 HOH HOH A . D 3 HOH 51 149 53 HOH HOH A . D 3 HOH 52 150 54 HOH HOH A . D 3 HOH 53 151 55 HOH HOH A . D 3 HOH 54 152 56 HOH HOH A . D 3 HOH 55 153 57 HOH HOH A . D 3 HOH 56 154 58 HOH HOH A . D 3 HOH 57 155 59 HOH HOH A . D 3 HOH 58 156 60 HOH HOH A . D 3 HOH 59 157 61 HOH HOH A . D 3 HOH 60 158 62 HOH HOH A . D 3 HOH 61 159 63 HOH HOH A . D 3 HOH 62 160 64 HOH HOH A . D 3 HOH 63 161 65 HOH HOH A . D 3 HOH 64 162 66 HOH HOH A . D 3 HOH 65 163 67 HOH HOH A . D 3 HOH 66 164 68 HOH HOH A . D 3 HOH 67 165 69 HOH HOH A . D 3 HOH 68 166 70 HOH HOH A . D 3 HOH 69 167 71 HOH HOH A . D 3 HOH 70 168 72 HOH HOH A . D 3 HOH 71 169 73 HOH HOH A . D 3 HOH 72 170 74 HOH HOH A . D 3 HOH 73 171 75 HOH HOH A . D 3 HOH 74 172 76 HOH HOH A . D 3 HOH 75 173 77 HOH HOH A . D 3 HOH 76 174 78 HOH HOH A . D 3 HOH 77 175 79 HOH HOH A . D 3 HOH 78 176 80 HOH HOH A . D 3 HOH 79 177 81 HOH HOH A . D 3 HOH 80 178 82 HOH HOH A . D 3 HOH 81 179 83 HOH HOH A . D 3 HOH 82 180 84 HOH HOH A . D 3 HOH 83 181 85 HOH HOH A . D 3 HOH 84 182 86 HOH HOH A . D 3 HOH 85 183 87 HOH HOH A . D 3 HOH 86 184 88 HOH HOH A . D 3 HOH 87 185 89 HOH HOH A . D 3 HOH 88 186 90 HOH HOH A . D 3 HOH 89 187 91 HOH HOH A . D 3 HOH 90 188 92 HOH HOH A . D 3 HOH 91 189 93 HOH HOH A . D 3 HOH 92 190 94 HOH HOH A . D 3 HOH 93 191 95 HOH HOH A . D 3 HOH 94 192 96 HOH HOH A . D 3 HOH 95 193 97 HOH HOH A . D 3 HOH 96 194 98 HOH HOH A . D 3 HOH 97 195 99 HOH HOH A . D 3 HOH 98 196 100 HOH HOH A . D 3 HOH 99 197 101 HOH HOH A . D 3 HOH 100 198 102 HOH HOH A . D 3 HOH 101 199 103 HOH HOH A . D 3 HOH 102 200 104 HOH HOH A . D 3 HOH 103 201 105 HOH HOH A . D 3 HOH 104 202 106 HOH HOH A . D 3 HOH 105 203 107 HOH HOH A . D 3 HOH 106 204 108 HOH HOH A . D 3 HOH 107 205 109 HOH HOH A . D 3 HOH 108 206 110 HOH HOH A . D 3 HOH 109 207 111 HOH HOH A . D 3 HOH 110 208 112 HOH HOH A . D 3 HOH 111 209 113 HOH HOH A . D 3 HOH 112 210 114 HOH HOH A . D 3 HOH 113 211 115 HOH HOH A . D 3 HOH 114 212 116 HOH HOH A . D 3 HOH 115 213 117 HOH HOH A . D 3 HOH 116 214 118 HOH HOH A . D 3 HOH 117 215 119 HOH HOH A . D 3 HOH 118 216 120 HOH HOH A . D 3 HOH 119 217 121 HOH HOH A . D 3 HOH 120 218 122 HOH HOH A . D 3 HOH 121 219 123 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 20 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 79 A MSE 60 ? MET SELENOMETHIONINE 3 A MSE 98 A MSE 79 ? MET SELENOMETHIONINE 4 A MSE 102 A MSE 83 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 2290 _pdbx_struct_assembly_prop.details ? # 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' 3_556 -x,y,-z+3/2 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 70.1400000000 # 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 2007-12-25 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 2023-01-25 # _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' 'Source and taxonomy' 3 2 'Structure model' 'Version format compliance' 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' software 2 4 'Structure model' software 3 4 'Structure model' struct_conn 4 5 'Structure model' database_2 5 5 'Structure model' struct_ref_seq_dif 6 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' '_struct_ref_seq_dif.details' 15 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 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 8.6547 _pdbx_refine_tls.origin_y 26.0183 _pdbx_refine_tls.origin_z 39.9787 _pdbx_refine_tls.T[1][1] -0.0603 _pdbx_refine_tls.T[2][2] -0.0517 _pdbx_refine_tls.T[3][3] -0.0283 _pdbx_refine_tls.T[1][2] -0.0010 _pdbx_refine_tls.T[1][3] 0.0042 _pdbx_refine_tls.T[2][3] -0.0107 _pdbx_refine_tls.L[1][1] 1.5585 _pdbx_refine_tls.L[2][2] 1.1006 _pdbx_refine_tls.L[3][3] 1.7524 _pdbx_refine_tls.L[1][2] -0.3744 _pdbx_refine_tls.L[1][3] 0.4798 _pdbx_refine_tls.L[2][3] -0.2780 _pdbx_refine_tls.S[1][1] 0.0078 _pdbx_refine_tls.S[2][2] 0.0177 _pdbx_refine_tls.S[3][3] -0.0255 _pdbx_refine_tls.S[1][2] -0.0118 _pdbx_refine_tls.S[1][3] 0.0304 _pdbx_refine_tls.S[2][3] -0.1766 _pdbx_refine_tls.S[2][1] 0.0574 _pdbx_refine_tls.S[3][1] -0.0139 _pdbx_refine_tls.S[3][2] 0.1299 _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_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id 10 _pdbx_refine_tls_group.end_label_asym_id A _pdbx_refine_tls_group.end_label_seq_id 115 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id -9 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 96 _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # _phasing.method SAD # 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 5.2.0019 ? 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 3.000 'July 2, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 6 MAR345 CCD ? ? ? ? 'data collection' ? ? ? 7 XDS . ? ? ? ? 'data reduction' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? 9 SHARP . ? ? ? ? phasing ? ? ? 10 # _pdbx_database_remark.id 999 _pdbx_database_remark.text ; SEQUENCE THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. ; # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 OD1 _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 ASN _pdbx_validate_symm_contact.auth_seq_id_1 -5 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 B _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 A _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 157 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 6_554 _pdbx_validate_symm_contact.dist 2.16 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id TYR _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 39 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -152.20 _pdbx_validate_torsion.psi 87.02 # 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 9 ? CE ? A LYS 28 CE 2 1 Y 1 A LYS 9 ? NZ ? A LYS 28 NZ 3 1 Y 1 A LYS 20 ? CD ? A LYS 39 CD 4 1 Y 1 A LYS 20 ? CE ? A LYS 39 CE 5 1 Y 1 A LYS 20 ? NZ ? A LYS 39 NZ 6 1 Y 1 A GLU 47 ? CD ? A GLU 66 CD 7 1 Y 1 A GLU 47 ? OE1 ? A GLU 66 OE1 8 1 Y 1 A GLU 47 ? OE2 ? A GLU 66 OE2 9 1 Y 1 A GLU 48 ? CG ? A GLU 67 CG 10 1 Y 1 A GLU 48 ? CD ? A GLU 67 CD 11 1 Y 1 A GLU 48 ? OE1 ? A GLU 67 OE1 12 1 Y 1 A GLU 48 ? OE2 ? A GLU 67 OE2 13 1 Y 1 A LYS 64 ? CE ? A LYS 83 CE 14 1 Y 1 A LYS 64 ? NZ ? A LYS 83 NZ 15 1 Y 1 A GLU 96 ? CD ? A GLU 115 CD 16 1 Y 1 A GLU 96 ? OE1 ? A GLU 115 OE1 17 1 Y 1 A GLU 96 ? OE2 ? A GLU 115 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 -18 ? A MSE 1 2 1 Y 1 A GLY -17 ? A GLY 2 3 1 Y 1 A SER -16 ? A SER 3 4 1 Y 1 A ASP -15 ? A ASP 4 5 1 Y 1 A LYS -14 ? A LYS 5 6 1 Y 1 A ILE -13 ? A ILE 6 7 1 Y 1 A HIS -12 ? A HIS 7 8 1 Y 1 A HIS -11 ? A HIS 8 9 1 Y 1 A HIS -10 ? A HIS 9 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 water HOH #