data_3OMS # _entry.id 3OMS # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.287 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3OMS RCSB RCSB061312 WWPDB D_1000061312 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id APC25907 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.entry_id 3OMS _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-08-27 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Osipiuk, J.' 1 'Li, H.' 2 'Abdullah, J.' 3 'Joachimiak, A.' 4 'Midwest Center for Structural Genomics (MCSG)' 5 # _citation.id primary _citation.title ;X-ray crystal structure of putative 3-demethylubiquinone-9 3-methyltransferase, PhnB protein, from Bacillus cereus. ; _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Osipiuk, J.' 1 primary 'Li, H.' 2 primary 'Abdullah, J.' 3 primary 'Joachimiak, A.' 4 # _cell.length_a 62.302 _cell.length_b 62.302 _cell.length_c 90.654 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 3OMS _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.space_group_name_H-M 'P 41 21 2' _symmetry.entry_id 3OMS _symmetry.Int_Tables_number 92 _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 'PhnB protein' 15877.775 1 ? ? ? ? 2 non-polymer syn 1,2-ETHANEDIOL 62.068 2 ? ? ? ? 3 water nat water 18.015 103 ? ? ? ? # _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 ;SNA(MSE)SNANQKITTFL(MSE)FEGKAEEA(MSE)NFYTSLFDQSEIVSISRYDENGPGKEGTVIHATFTLNGQEF (MSE)CIDSYVNHNFTFTPA(MSE)SLYVTCETEEEIDTVFHKLAQDGAIL(MSE)PLGSYPFSKKFGWLNDKYGVSWQL TLAE ; _entity_poly.pdbx_seq_one_letter_code_can ;SNAMSNANQKITTFLMFEGKAEEAMNFYTSLFDQSEIVSISRYDENGPGKEGTVIHATFTLNGQEFMCIDSYVNHNFTFT PAMSLYVTCETEEEIDTVFHKLAQDGAILMPLGSYPFSKKFGWLNDKYGVSWQLTLAE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier APC25907 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 ALA n 1 4 MSE n 1 5 SER n 1 6 ASN n 1 7 ALA n 1 8 ASN n 1 9 GLN n 1 10 LYS n 1 11 ILE n 1 12 THR n 1 13 THR n 1 14 PHE n 1 15 LEU n 1 16 MSE n 1 17 PHE n 1 18 GLU n 1 19 GLY n 1 20 LYS n 1 21 ALA n 1 22 GLU n 1 23 GLU n 1 24 ALA n 1 25 MSE n 1 26 ASN n 1 27 PHE n 1 28 TYR n 1 29 THR n 1 30 SER n 1 31 LEU n 1 32 PHE n 1 33 ASP n 1 34 GLN n 1 35 SER n 1 36 GLU n 1 37 ILE n 1 38 VAL n 1 39 SER n 1 40 ILE n 1 41 SER n 1 42 ARG n 1 43 TYR n 1 44 ASP n 1 45 GLU n 1 46 ASN n 1 47 GLY n 1 48 PRO n 1 49 GLY n 1 50 LYS n 1 51 GLU n 1 52 GLY n 1 53 THR n 1 54 VAL n 1 55 ILE n 1 56 HIS n 1 57 ALA n 1 58 THR n 1 59 PHE n 1 60 THR n 1 61 LEU n 1 62 ASN n 1 63 GLY n 1 64 GLN n 1 65 GLU n 1 66 PHE n 1 67 MSE n 1 68 CYS n 1 69 ILE n 1 70 ASP n 1 71 SER n 1 72 TYR n 1 73 VAL n 1 74 ASN n 1 75 HIS n 1 76 ASN n 1 77 PHE n 1 78 THR n 1 79 PHE n 1 80 THR n 1 81 PRO n 1 82 ALA n 1 83 MSE n 1 84 SER n 1 85 LEU n 1 86 TYR n 1 87 VAL n 1 88 THR n 1 89 CYS n 1 90 GLU n 1 91 THR n 1 92 GLU n 1 93 GLU n 1 94 GLU n 1 95 ILE n 1 96 ASP n 1 97 THR n 1 98 VAL n 1 99 PHE n 1 100 HIS n 1 101 LYS n 1 102 LEU n 1 103 ALA n 1 104 GLN n 1 105 ASP n 1 106 GLY n 1 107 ALA n 1 108 ILE n 1 109 LEU n 1 110 MSE n 1 111 PRO n 1 112 LEU n 1 113 GLY n 1 114 SER n 1 115 TYR n 1 116 PRO n 1 117 PHE n 1 118 SER n 1 119 LYS n 1 120 LYS n 1 121 PHE n 1 122 GLY n 1 123 TRP n 1 124 LEU n 1 125 ASN n 1 126 ASP n 1 127 LYS n 1 128 TYR n 1 129 GLY n 1 130 VAL n 1 131 SER n 1 132 TRP n 1 133 GLN n 1 134 LEU n 1 135 THR n 1 136 LEU n 1 137 ALA n 1 138 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 ? _entity_src_gen.pdbx_gene_src_gene BC_2431 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'ATCC 14579' _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 'Bacillus cereus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 226900 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 'BL21(DE3)' _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pMCSG7 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q81DD6_BACCR _struct_ref.pdbx_db_accession Q81DD6 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MSNANQKITTFLMFEGKAEEAMNFYTSLFDQSEIVSISRYDENGPGKEGTVIHATFTLNGQEFMCIDSYVNHNFTFTPAM SLYVTCETEEEIDTVFHKLAQDGAILMPLGSYPFSKKFGWLNDKYGVSWQLTLAE ; _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 3OMS _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 138 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q81DD6 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 135 _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 135 # 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 3OMS SER A 1 ? UNP Q81DD6 ? ? 'expression tag' -2 1 1 3OMS ASN A 2 ? UNP Q81DD6 ? ? 'expression tag' -1 2 1 3OMS ALA A 3 ? UNP Q81DD6 ? ? 'expression tag' 0 3 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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.crystals_number 1 _exptl.entry_id 3OMS _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.77 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 55.60 _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 4.2 _exptl_crystal_grow.temp 294 _exptl_crystal_grow.pdbx_details '40% PEG-300, 0.1 M phoshate citrate buffer, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 294K' _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 SBC-3 _diffrn_detector.pdbx_collection_date 2004-11-11 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator 'double crystal monochromator' _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9792 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-BM' _diffrn_source.pdbx_wavelength_list 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-BM # _reflns.entry_id 3OMS _reflns.d_resolution_high 1.900 _reflns.d_resolution_low 36.7 _reflns.number_obs 14643 _reflns.pdbx_Rmerge_I_obs 0.138 _reflns.pdbx_netI_over_sigmaI 7.700 _reflns.pdbx_chi_squared 3.390 _reflns.pdbx_redundancy 15.800 _reflns.percent_possible_obs 99.800 _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.number_all 14643 _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate 41.9 _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_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 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_diffrn_id _reflns_shell.pdbx_ordinal 1.900 1.930 ? ? ? 0.856 3.09 ? 0.762 17.400 ? 715 100.000 ? 1 1.930 1.970 ? ? ? 0.710 ? ? 0.771 17.300 ? 708 100.000 ? 2 1.970 2.010 ? ? ? 0.508 ? ? 0.759 17.300 ? 724 100.000 ? 3 2.010 2.050 ? ? ? 0.404 ? ? 0.847 17.400 ? 700 100.000 ? 4 2.050 2.090 ? ? ? 0.349 ? ? 0.996 17.200 ? 713 100.000 ? 5 2.090 2.140 ? ? ? 0.311 ? ? 0.923 17.300 ? 728 100.000 ? 6 2.140 2.190 ? ? ? 0.295 ? ? 1.085 17.200 ? 702 100.000 ? 7 2.190 2.250 ? ? ? 0.273 ? ? 1.286 17.100 ? 735 100.000 ? 8 2.250 2.320 ? ? ? 0.245 ? ? 1.435 17.100 ? 716 100.000 ? 9 2.320 2.390 ? ? ? 0.221 ? ? 1.538 17.000 ? 726 100.000 ? 10 2.390 2.480 ? ? ? 0.222 ? ? 1.911 17.000 ? 723 100.000 ? 11 2.480 2.580 ? ? ? 0.195 ? ? 2.368 16.700 ? 718 100.000 ? 12 2.580 2.700 ? ? ? 0.180 ? ? 3.114 16.500 ? 730 100.000 ? 13 2.700 2.840 ? ? ? 0.169 ? ? 3.919 16.200 ? 737 100.000 ? 14 2.840 3.020 ? ? ? 0.153 ? ? 4.903 15.800 ? 730 100.000 ? 15 3.020 3.250 ? ? ? 0.128 ? ? 6.084 14.900 ? 746 100.000 ? 16 3.250 3.580 ? ? ? 0.116 ? ? 7.403 14.100 ? 734 100.000 ? 17 3.580 4.090 ? ? ? 0.105 ? ? 8.853 12.700 ? 761 99.900 ? 18 4.090 5.160 ? ? ? 0.099 ? ? 11.155 10.200 ? 769 99.600 ? 19 5.160 50.000 ? ? ? 0.115 ? ? 16.187 11.600 ? 828 97.800 ? 20 # _refine.entry_id 3OMS _refine.ls_d_res_high 1.9000 _refine.ls_d_res_low 36.7 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.4300 _refine.ls_number_reflns_obs 14535 _refine.ls_number_reflns_all 14535 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : RESIDUAL ONLY' _refine.ls_R_factor_all 0.1814 _refine.ls_R_factor_obs 0.1814 _refine.ls_R_factor_R_work 0.1798 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2129 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.0000 _refine.ls_number_reflns_R_free 727 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 37.193 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.1500 _refine.aniso_B[2][2] 0.1500 _refine.aniso_B[3][3] -0.2900 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9650 _refine.correlation_coeff_Fo_to_Fc_free 0.9480 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.1210 _refine.overall_SU_ML 0.0810 _refine.overall_SU_B 6.1320 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.4000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 59.230 _refine.B_iso_min 10.380 _refine.occupancy_max 1.000 _refine.occupancy_min 0.300 _refine.pdbx_ls_sigma_I 0 _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1032 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 8 _refine_hist.number_atoms_solvent 103 _refine_hist.number_atoms_total 1143 _refine_hist.d_res_high 1.9000 _refine_hist.d_res_low 36.7 # 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 1117 0.018 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 736 0.003 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1522 1.550 1.933 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1810 0.900 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 144 6.155 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 56 39.204 25.357 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 186 13.163 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 1 3.823 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 164 0.089 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1260 0.008 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 235 0.001 0.020 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 663 0.961 1.500 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 270 0.276 1.500 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1080 1.706 2.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 454 2.519 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 434 4.081 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.9020 _refine_ls_shell.d_res_low 1.9520 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 99.3400 _refine_ls_shell.number_reflns_R_work 990 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2540 _refine_ls_shell.R_factor_R_free 0.2640 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 60 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1050 _refine_ls_shell.number_reflns_obs 1054 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3OMS _struct.title 'Putative 3-demethylubiquinone-9 3-methyltransferase, PhnB protein, from Bacillus cereus.' _struct.pdbx_descriptor 'PhnB protein' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3OMS _struct_keywords.text ;structural genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, methyltransferase, glyoxalase family, TRANSFERASE ; _struct_keywords.pdbx_keywords TRANSFERASE # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? # _struct_biol.id 1 # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 LYS A 20 ? SER A 30 ? LYS A 17 SER A 27 1 ? 11 HELX_P HELX_P2 2 THR A 91 ? GLN A 104 ? THR A 88 GLN A 101 1 ? 14 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? A LEU 15 C ? ? ? 1_555 A MSE 16 N ? ? A LEU 12 A MSE 13 1_555 ? ? ? ? ? ? ? 1.347 ? covale2 covale ? ? A MSE 16 C ? ? ? 1_555 A PHE 17 N ? ? A MSE 13 A PHE 14 1_555 ? ? ? ? ? ? ? 1.335 ? covale3 covale ? ? A ALA 24 C ? ? ? 1_555 A MSE 25 N ? ? A ALA 21 A MSE 22 1_555 ? ? ? ? ? ? ? 1.342 ? covale4 covale ? ? A MSE 25 C ? ? ? 1_555 A ASN 26 N ? ? A MSE 22 A ASN 23 1_555 ? ? ? ? ? ? ? 1.327 ? covale5 covale ? ? A PHE 66 C ? ? ? 1_555 A MSE 67 N ? ? A PHE 63 A MSE 64 1_555 ? ? ? ? ? ? ? 1.333 ? covale6 covale ? ? A MSE 67 C ? ? ? 1_555 A CYS 68 N ? ? A MSE 64 A CYS 65 1_555 ? ? ? ? ? ? ? 1.337 ? covale7 covale ? ? A ALA 82 C ? ? ? 1_555 A MSE 83 N ? ? A ALA 79 A MSE 80 1_555 ? ? ? ? ? ? ? 1.316 ? covale8 covale ? ? A MSE 83 C ? ? ? 1_555 A SER 84 N ? ? A MSE 80 A SER 81 1_555 ? ? ? ? ? ? ? 1.343 ? covale9 covale ? ? A LEU 109 C ? ? ? 1_555 A MSE 110 N ? ? A LEU 106 A MSE 107 1_555 ? ? ? ? ? ? ? 1.338 ? covale10 covale ? ? A MSE 110 C ? ? ? 1_555 A PRO 111 N ? ? A MSE 107 A PRO 108 1_555 ? ? ? ? ? ? ? 1.335 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLY _struct_mon_prot_cis.label_seq_id 47 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id GLY _struct_mon_prot_cis.auth_seq_id 44 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 48 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 45 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 7.70 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 4 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? parallel B 2 3 ? anti-parallel B 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 THR A 13 ? PHE A 17 ? THR A 10 PHE A 14 A 2 GLN A 64 ? ASP A 70 ? GLN A 61 ASP A 67 A 3 VAL A 54 ? LEU A 61 ? VAL A 51 LEU A 58 A 4 ILE A 37 ? ARG A 42 ? ILE A 34 ARG A 39 B 1 LEU A 85 ? CYS A 89 ? LEU A 82 CYS A 86 B 2 SER A 131 ? LEU A 136 ? SER A 128 LEU A 133 B 3 SER A 118 ? ASN A 125 ? SER A 115 ASN A 122 B 4 ALA A 107 ? TYR A 115 ? ALA A 104 TYR A 112 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N LEU A 15 ? N LEU A 12 O MSE A 67 ? O MSE A 64 A 2 3 O PHE A 66 ? O PHE A 63 N PHE A 59 ? N PHE A 56 A 3 4 O THR A 58 ? O THR A 55 N VAL A 38 ? N VAL A 35 B 1 2 N VAL A 87 ? N VAL A 84 O GLN A 133 ? O GLN A 130 B 2 3 O LEU A 134 ? O LEU A 131 N GLY A 122 ? N GLY A 119 B 3 4 O SER A 118 ? O SER A 115 N TYR A 115 ? N TYR A 112 # 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 ? ? ? ? 4 'BINDING SITE FOR RESIDUE EDO A 501' AC2 Software ? ? ? ? 2 'BINDING SITE FOR RESIDUE EDO A 502' # 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 4 ILE A 40 ? ILE A 37 . ? 6_455 ? 2 AC1 4 ARG A 42 ? ARG A 39 . ? 6_455 ? 3 AC1 4 SER A 114 ? SER A 111 . ? 1_555 ? 4 AC1 4 TYR A 115 ? TYR A 112 . ? 1_555 ? 5 AC2 2 SER A 30 ? SER A 27 . ? 1_555 ? 6 AC2 2 LEU A 31 ? LEU A 28 . ? 1_555 ? # _atom_sites.entry_id 3OMS _atom_sites.fract_transf_matrix[1][1] 0.016051 _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] 0.016051 _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] 0.011031 _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 SER 1 -2 ? ? ? A . n A 1 2 ASN 2 -1 ? ? ? A . n A 1 3 ALA 3 0 ? ? ? A . n A 1 4 MSE 4 1 ? ? ? A . n A 1 5 SER 5 2 ? ? ? A . n A 1 6 ASN 6 3 ? ? ? A . n A 1 7 ALA 7 4 ? ? ? A . n A 1 8 ASN 8 5 ? ? ? A . n A 1 9 GLN 9 6 6 GLN GLN A . n A 1 10 LYS 10 7 7 LYS LYS A . n A 1 11 ILE 11 8 8 ILE ILE A . n A 1 12 THR 12 9 9 THR THR A . n A 1 13 THR 13 10 10 THR THR A . n A 1 14 PHE 14 11 11 PHE PHE A . n A 1 15 LEU 15 12 12 LEU LEU A . n A 1 16 MSE 16 13 13 MSE MSE A . n A 1 17 PHE 17 14 14 PHE PHE A . n A 1 18 GLU 18 15 15 GLU GLU A . n A 1 19 GLY 19 16 16 GLY GLY A . n A 1 20 LYS 20 17 17 LYS LYS A . n A 1 21 ALA 21 18 18 ALA ALA A . n A 1 22 GLU 22 19 19 GLU GLU A . n A 1 23 GLU 23 20 20 GLU GLU A . n A 1 24 ALA 24 21 21 ALA ALA A . n A 1 25 MSE 25 22 22 MSE MSE A . n A 1 26 ASN 26 23 23 ASN ASN A . n A 1 27 PHE 27 24 24 PHE PHE A . n A 1 28 TYR 28 25 25 TYR TYR A . n A 1 29 THR 29 26 26 THR THR A . n A 1 30 SER 30 27 27 SER SER A . n A 1 31 LEU 31 28 28 LEU LEU A . n A 1 32 PHE 32 29 29 PHE PHE A . n A 1 33 ASP 33 30 30 ASP ASP A . n A 1 34 GLN 34 31 31 GLN GLN A . n A 1 35 SER 35 32 32 SER SER A . n A 1 36 GLU 36 33 33 GLU GLU A . n A 1 37 ILE 37 34 34 ILE ILE A . n A 1 38 VAL 38 35 35 VAL VAL A . n A 1 39 SER 39 36 36 SER SER A . n A 1 40 ILE 40 37 37 ILE ILE A . n A 1 41 SER 41 38 38 SER SER A . n A 1 42 ARG 42 39 39 ARG ARG A . n A 1 43 TYR 43 40 40 TYR TYR A . n A 1 44 ASP 44 41 41 ASP ASP A . n A 1 45 GLU 45 42 42 GLU GLU A . n A 1 46 ASN 46 43 43 ASN ASN A . n A 1 47 GLY 47 44 44 GLY GLY A . n A 1 48 PRO 48 45 45 PRO PRO A . n A 1 49 GLY 49 46 46 GLY GLY A . n A 1 50 LYS 50 47 47 LYS LYS A . n A 1 51 GLU 51 48 48 GLU GLU A . n A 1 52 GLY 52 49 49 GLY GLY A . n A 1 53 THR 53 50 50 THR THR A . n A 1 54 VAL 54 51 51 VAL VAL A . n A 1 55 ILE 55 52 52 ILE ILE A . n A 1 56 HIS 56 53 53 HIS HIS A . n A 1 57 ALA 57 54 54 ALA ALA A . n A 1 58 THR 58 55 55 THR THR A . n A 1 59 PHE 59 56 56 PHE PHE A . n A 1 60 THR 60 57 57 THR THR A . n A 1 61 LEU 61 58 58 LEU LEU A . n A 1 62 ASN 62 59 59 ASN ASN A . n A 1 63 GLY 63 60 60 GLY GLY A . n A 1 64 GLN 64 61 61 GLN GLN A . n A 1 65 GLU 65 62 62 GLU GLU A . n A 1 66 PHE 66 63 63 PHE PHE A . n A 1 67 MSE 67 64 64 MSE MSE A . n A 1 68 CYS 68 65 65 CYS CYS A . n A 1 69 ILE 69 66 66 ILE ILE A . n A 1 70 ASP 70 67 67 ASP ASP A . n A 1 71 SER 71 68 68 SER SER A . n A 1 72 TYR 72 69 69 TYR TYR A . n A 1 73 VAL 73 70 70 VAL VAL A . n A 1 74 ASN 74 71 71 ASN ASN A . n A 1 75 HIS 75 72 72 HIS HIS A . n A 1 76 ASN 76 73 73 ASN ASN A . n A 1 77 PHE 77 74 74 PHE PHE A . n A 1 78 THR 78 75 75 THR THR A . n A 1 79 PHE 79 76 76 PHE PHE A . n A 1 80 THR 80 77 77 THR THR A . n A 1 81 PRO 81 78 78 PRO PRO A . n A 1 82 ALA 82 79 79 ALA ALA A . n A 1 83 MSE 83 80 80 MSE MSE A . n A 1 84 SER 84 81 81 SER SER A . n A 1 85 LEU 85 82 82 LEU LEU A . n A 1 86 TYR 86 83 83 TYR TYR A . n A 1 87 VAL 87 84 84 VAL VAL A . n A 1 88 THR 88 85 85 THR THR A . n A 1 89 CYS 89 86 86 CYS CYS A . n A 1 90 GLU 90 87 87 GLU GLU A . n A 1 91 THR 91 88 88 THR THR A . n A 1 92 GLU 92 89 89 GLU GLU A . n A 1 93 GLU 93 90 90 GLU GLU A . n A 1 94 GLU 94 91 91 GLU GLU A . n A 1 95 ILE 95 92 92 ILE ILE A . n A 1 96 ASP 96 93 93 ASP ASP A . n A 1 97 THR 97 94 94 THR THR A . n A 1 98 VAL 98 95 95 VAL VAL A . n A 1 99 PHE 99 96 96 PHE PHE A . n A 1 100 HIS 100 97 97 HIS HIS A . n A 1 101 LYS 101 98 98 LYS LYS A . n A 1 102 LEU 102 99 99 LEU LEU A . n A 1 103 ALA 103 100 100 ALA ALA A . n A 1 104 GLN 104 101 101 GLN GLN A . n A 1 105 ASP 105 102 102 ASP ASP A . n A 1 106 GLY 106 103 103 GLY GLY A . n A 1 107 ALA 107 104 104 ALA ALA A . n A 1 108 ILE 108 105 105 ILE ILE A . n A 1 109 LEU 109 106 106 LEU LEU A . n A 1 110 MSE 110 107 107 MSE MSE A . n A 1 111 PRO 111 108 108 PRO PRO A . n A 1 112 LEU 112 109 109 LEU LEU A . n A 1 113 GLY 113 110 110 GLY GLY A . n A 1 114 SER 114 111 111 SER SER A . n A 1 115 TYR 115 112 112 TYR TYR A . n A 1 116 PRO 116 113 113 PRO PRO A . n A 1 117 PHE 117 114 114 PHE PHE A . n A 1 118 SER 118 115 115 SER SER A . n A 1 119 LYS 119 116 116 LYS LYS A . n A 1 120 LYS 120 117 117 LYS LYS A . n A 1 121 PHE 121 118 118 PHE PHE A . n A 1 122 GLY 122 119 119 GLY GLY A . n A 1 123 TRP 123 120 120 TRP TRP A . n A 1 124 LEU 124 121 121 LEU LEU A . n A 1 125 ASN 125 122 122 ASN ASN A . n A 1 126 ASP 126 123 123 ASP ASP A . n A 1 127 LYS 127 124 124 LYS LYS A . n A 1 128 TYR 128 125 125 TYR TYR A . n A 1 129 GLY 129 126 126 GLY GLY A . n A 1 130 VAL 130 127 127 VAL VAL A . n A 1 131 SER 131 128 128 SER SER A . n A 1 132 TRP 132 129 129 TRP TRP A . n A 1 133 GLN 133 130 130 GLN GLN A . n A 1 134 LEU 134 131 131 LEU LEU A . n A 1 135 THR 135 132 132 THR THR A . n A 1 136 LEU 136 133 133 LEU LEU A . n A 1 137 ALA 137 134 134 ALA ALA A . n A 1 138 GLU 138 135 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 EDO 1 501 501 EDO EDO A . C 2 EDO 1 502 502 EDO EDO A . D 3 HOH 1 136 1 HOH HOH A . D 3 HOH 2 137 2 HOH HOH A . D 3 HOH 3 138 3 HOH HOH A . D 3 HOH 4 139 4 HOH HOH A . D 3 HOH 5 140 5 HOH HOH A . D 3 HOH 6 141 6 HOH HOH A . D 3 HOH 7 142 7 HOH HOH A . D 3 HOH 8 143 8 HOH HOH A . D 3 HOH 9 144 9 HOH HOH A . D 3 HOH 10 145 10 HOH HOH A . D 3 HOH 11 146 11 HOH HOH A . D 3 HOH 12 147 12 HOH HOH A . D 3 HOH 13 148 13 HOH HOH A . D 3 HOH 14 149 14 HOH HOH A . D 3 HOH 15 150 15 HOH HOH A . D 3 HOH 16 151 16 HOH HOH A . D 3 HOH 17 152 17 HOH HOH A . D 3 HOH 18 153 18 HOH HOH A . D 3 HOH 19 154 19 HOH HOH A . D 3 HOH 20 155 20 HOH HOH A . D 3 HOH 21 156 21 HOH HOH A . D 3 HOH 22 157 22 HOH HOH A . D 3 HOH 23 158 23 HOH HOH A . D 3 HOH 24 159 24 HOH HOH A . D 3 HOH 25 160 25 HOH HOH A . D 3 HOH 26 161 26 HOH HOH A . D 3 HOH 27 162 27 HOH HOH A . D 3 HOH 28 163 28 HOH HOH A . D 3 HOH 29 164 29 HOH HOH A . D 3 HOH 30 165 30 HOH HOH A . D 3 HOH 31 166 31 HOH HOH A . D 3 HOH 32 167 32 HOH HOH A . D 3 HOH 33 168 33 HOH HOH A . D 3 HOH 34 169 34 HOH HOH A . D 3 HOH 35 170 35 HOH HOH A . D 3 HOH 36 171 36 HOH HOH A . D 3 HOH 37 172 37 HOH HOH A . D 3 HOH 38 173 38 HOH HOH A . D 3 HOH 39 174 39 HOH HOH A . D 3 HOH 40 175 40 HOH HOH A . D 3 HOH 41 176 41 HOH HOH A . D 3 HOH 42 177 42 HOH HOH A . D 3 HOH 43 178 43 HOH HOH A . D 3 HOH 44 179 44 HOH HOH A . D 3 HOH 45 180 45 HOH HOH A . D 3 HOH 46 181 46 HOH HOH A . D 3 HOH 47 182 47 HOH HOH A . D 3 HOH 48 183 48 HOH HOH A . D 3 HOH 49 184 49 HOH HOH A . D 3 HOH 50 185 50 HOH HOH A . D 3 HOH 51 186 51 HOH HOH A . D 3 HOH 52 187 52 HOH HOH A . D 3 HOH 53 188 53 HOH HOH A . D 3 HOH 54 189 54 HOH HOH A . D 3 HOH 55 190 55 HOH HOH A . D 3 HOH 56 191 56 HOH HOH A . D 3 HOH 57 192 57 HOH HOH A . D 3 HOH 58 193 58 HOH HOH A . D 3 HOH 59 194 59 HOH HOH A . D 3 HOH 60 195 60 HOH HOH A . D 3 HOH 61 196 61 HOH HOH A . D 3 HOH 62 197 62 HOH HOH A . D 3 HOH 63 198 63 HOH HOH A . D 3 HOH 64 199 64 HOH HOH A . D 3 HOH 65 200 65 HOH HOH A . D 3 HOH 66 201 66 HOH HOH A . D 3 HOH 67 202 67 HOH HOH A . D 3 HOH 68 203 68 HOH HOH A . D 3 HOH 69 204 69 HOH HOH A . D 3 HOH 70 205 70 HOH HOH A . D 3 HOH 71 206 71 HOH HOH A . D 3 HOH 72 207 72 HOH HOH A . D 3 HOH 73 208 73 HOH HOH A . D 3 HOH 74 209 74 HOH HOH A . D 3 HOH 75 210 75 HOH HOH A . D 3 HOH 76 211 76 HOH HOH A . D 3 HOH 77 212 77 HOH HOH A . D 3 HOH 78 213 78 HOH HOH A . D 3 HOH 79 214 79 HOH HOH A . D 3 HOH 80 215 80 HOH HOH A . D 3 HOH 81 216 81 HOH HOH A . D 3 HOH 82 217 82 HOH HOH A . D 3 HOH 83 218 83 HOH HOH A . D 3 HOH 84 219 84 HOH HOH A . D 3 HOH 85 220 85 HOH HOH A . D 3 HOH 86 221 86 HOH HOH A . D 3 HOH 87 222 87 HOH HOH A . D 3 HOH 88 223 88 HOH HOH A . D 3 HOH 89 224 89 HOH HOH A . D 3 HOH 90 225 90 HOH HOH A . D 3 HOH 91 226 91 HOH HOH A . D 3 HOH 92 227 92 HOH HOH A . D 3 HOH 93 228 93 HOH HOH A . D 3 HOH 94 229 94 HOH HOH A . D 3 HOH 95 230 95 HOH HOH A . D 3 HOH 96 231 96 HOH HOH A . D 3 HOH 97 232 97 HOH HOH A . D 3 HOH 98 233 98 HOH HOH A . D 3 HOH 99 234 99 HOH HOH A . D 3 HOH 100 235 100 HOH HOH A . D 3 HOH 101 236 101 HOH HOH A . D 3 HOH 102 237 102 HOH HOH A . D 3 HOH 103 238 103 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 16 A MSE 13 ? MET SELENOMETHIONINE 2 A MSE 25 A MSE 22 ? MET SELENOMETHIONINE 3 A MSE 67 A MSE 64 ? MET SELENOMETHIONINE 4 A MSE 83 A MSE 80 ? MET SELENOMETHIONINE 5 A MSE 110 A MSE 107 ? 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 # 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)' 3520 ? 1 MORE -14 ? 1 'SSA (A^2)' 12590 ? # 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' 7_556 y,x,-z+1 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 90.6540000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2010-09-08 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-08 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Refinement description' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 3 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category software # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 5.6391 _pdbx_refine_tls.origin_y 11.5424 _pdbx_refine_tls.origin_z 36.6645 _pdbx_refine_tls.T[1][1] 0.0585 _pdbx_refine_tls.T[2][2] 0.0620 _pdbx_refine_tls.T[3][3] 0.0553 _pdbx_refine_tls.T[1][2] -0.0510 _pdbx_refine_tls.T[1][3] -0.0440 _pdbx_refine_tls.T[2][3] 0.0319 _pdbx_refine_tls.L[1][1] 3.1842 _pdbx_refine_tls.L[2][2] 1.5083 _pdbx_refine_tls.L[3][3] 2.3468 _pdbx_refine_tls.L[1][2] -0.3238 _pdbx_refine_tls.L[1][3] -0.3797 _pdbx_refine_tls.L[2][3] -0.2130 _pdbx_refine_tls.S[1][1] -0.0614 _pdbx_refine_tls.S[2][2] 0.0171 _pdbx_refine_tls.S[3][3] 0.0443 _pdbx_refine_tls.S[1][2] 0.1872 _pdbx_refine_tls.S[1][3] 0.0293 _pdbx_refine_tls.S[2][3] -0.0668 _pdbx_refine_tls.S[2][1] -0.0728 _pdbx_refine_tls.S[3][1] -0.0096 _pdbx_refine_tls.S[3][2] -0.1116 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id -10 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 9999 _pdbx_refine_tls_group.selection_details ? _pdbx_refine_tls_group.beg_label_asym_id . _pdbx_refine_tls_group.beg_label_seq_id . _pdbx_refine_tls_group.end_label_asym_id . _pdbx_refine_tls_group.end_label_seq_id . _pdbx_refine_tls_group.selection ? # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 DENZO . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 REFMAC 5.5.0109 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 4 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 5 SBC-Collect . ? ? ? ? 'data collection' ? ? ? 6 HKL-2000 . ? ? ? ? 'data reduction' ? ? ? 7 HKL-2000 . ? ? ? ? 'data scaling' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? 9 MLPHARE . ? ? ? ? phasing ? ? ? 10 DM . ? ? ? ? phasing ? ? ? 11 SOLVE . ? ? ? ? phasing ? ? ? 12 RESOLVE . ? ? ? ? phasing ? ? ? # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 HOH _pdbx_validate_close_contact.auth_seq_id_1 165 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 O _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 HOH _pdbx_validate_close_contact.auth_seq_id_2 207 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.06 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id THR _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 75 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -148.37 _pdbx_validate_torsion.psi -158.99 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A SER -2 ? A SER 1 2 1 Y 1 A ASN -1 ? A ASN 2 3 1 Y 1 A ALA 0 ? A ALA 3 4 1 Y 1 A MSE 1 ? A MSE 4 5 1 Y 1 A SER 2 ? A SER 5 6 1 Y 1 A ASN 3 ? A ASN 6 7 1 Y 1 A ALA 4 ? A ALA 7 8 1 Y 1 A ASN 5 ? A ASN 8 9 1 Y 1 A GLU 135 ? A GLU 138 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 water HOH #