data_2RIL # _entry.id 2RIL # _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 2RIL pdb_00002ril 10.2210/pdb2ril/pdb RCSB RCSB044901 ? ? WWPDB D_1000044901 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 378300 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 2RIL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-10-11 _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 A Putative Monooxygenase (YP_001095275.1) from Shewanella loihica PV-4 at 1.26 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 2RIL _cell.length_a 48.931 _cell.length_b 63.155 _cell.length_c 27.283 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _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 2RIL _symmetry.Int_Tables_number 18 _symmetry.space_group_name_H-M 'P 21 21 2' _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 'Antibiotic biosynthesis monooxygenase' 11290.241 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 3 non-polymer syn 'ACETATE ION' 59.044 1 ? ? ? ? 4 non-polymer syn S-1,2-PROPANEDIOL 76.094 1 ? ? ? ? 5 water nat water 18.015 110 ? ? ? ? # _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 ;G(MSE)SAPVTLINPFKVPADKLEAAIEYWEAHRDF(MSE)AQQPGYLSTQLHQSIDEGATYQLINVAIWQSEADFYQAA QK(MSE)RQALGHVQVEGL(CSD)GNPALYRVIRT ; _entity_poly.pdbx_seq_one_letter_code_can ;GMSAPVTLINPFKVPADKLEAAIEYWEAHRDFMAQQPGYLSTQLHQSIDEGATYQLINVAIWQSEADFYQAAQKMRQALG HVQVEGLCGNPALYRVIRT ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 378300 # 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 MSE n 1 3 SER n 1 4 ALA n 1 5 PRO n 1 6 VAL n 1 7 THR n 1 8 LEU n 1 9 ILE n 1 10 ASN n 1 11 PRO n 1 12 PHE n 1 13 LYS n 1 14 VAL n 1 15 PRO n 1 16 ALA n 1 17 ASP n 1 18 LYS n 1 19 LEU n 1 20 GLU n 1 21 ALA n 1 22 ALA n 1 23 ILE n 1 24 GLU n 1 25 TYR n 1 26 TRP n 1 27 GLU n 1 28 ALA n 1 29 HIS n 1 30 ARG n 1 31 ASP n 1 32 PHE n 1 33 MSE n 1 34 ALA n 1 35 GLN n 1 36 GLN n 1 37 PRO n 1 38 GLY n 1 39 TYR n 1 40 LEU n 1 41 SER n 1 42 THR n 1 43 GLN n 1 44 LEU n 1 45 HIS n 1 46 GLN n 1 47 SER n 1 48 ILE n 1 49 ASP n 1 50 GLU n 1 51 GLY n 1 52 ALA n 1 53 THR n 1 54 TYR n 1 55 GLN n 1 56 LEU n 1 57 ILE n 1 58 ASN n 1 59 VAL n 1 60 ALA n 1 61 ILE n 1 62 TRP n 1 63 GLN n 1 64 SER n 1 65 GLU n 1 66 ALA n 1 67 ASP n 1 68 PHE n 1 69 TYR n 1 70 GLN n 1 71 ALA n 1 72 ALA n 1 73 GLN n 1 74 LYS n 1 75 MSE n 1 76 ARG n 1 77 GLN n 1 78 ALA n 1 79 LEU n 1 80 GLY n 1 81 HIS n 1 82 VAL n 1 83 GLN n 1 84 VAL n 1 85 GLU n 1 86 GLY n 1 87 LEU n 1 88 CSD n 1 89 GLY n 1 90 ASN n 1 91 PRO n 1 92 ALA n 1 93 LEU n 1 94 TYR n 1 95 ARG n 1 96 VAL n 1 97 ILE n 1 98 ARG n 1 99 THR 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 Shewanella _entity_src_gen.pdbx_gene_src_gene 'YP_001095275.1, Shew_3150' _entity_src_gen.gene_src_species 'Shewanella loihica' _entity_src_gen.gene_src_strain PV-4 _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Shewanella loihica' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 323850 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc BAA-1088 _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 A3QHR8_SHELP _struct_ref.pdbx_db_accession A3QHR8 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MSAPVTLINPFKVPADKLEAAIEYWEAHRDFMAQQPGYLSTQLHQSIDEGATYQLINVAIWQSEADFYQAAQKMRQALGH VQVEGLCGNPALYRVIRT ; _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 2RIL _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 99 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A3QHR8 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 98 _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 98 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 2RIL _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 A3QHR8 _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 ACT non-polymer . 'ACETATE ION' ? 'C2 H3 O2 -1' 59.044 ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 CSD 'L-peptide linking' n 3-SULFINOALANINE 'S-CYSTEINESULFINIC ACID; S-SULFINOCYSTEINE' 'C3 H7 N O4 S' 153.157 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 PGO non-polymer . S-1,2-PROPANEDIOL ? 'C3 H8 O2' 76.094 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.method 'X-RAY DIFFRACTION' _exptl.entry_id 2RIL # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.87 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 34.11 _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 4.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details 'NANODROP, 40.0% 1,2-propanediol, 0.1M Acetate pH 4.5, 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 'ADSC QUANTUM 315' _diffrn_detector.details ? _diffrn_detector.pdbx_collection_date 2007-10-04 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Double crystal Si(111)' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.9537 1.0 2 0.9797 1.0 3 0.9795 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 8.2.2 _diffrn_source.type 'ALS BEAMLINE 8.2.2' _diffrn_source.pdbx_wavelength_list '0.9537, 0.9797, 0.9795' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ALS # _reflns.entry_id 2RIL _reflns.d_resolution_high 1.26 _reflns.d_resolution_low 26.528 _reflns.number_obs 14880 _reflns.pdbx_Rmerge_I_obs 0.059 _reflns.pdbx_netI_over_sigmaI 6.500 _reflns.pdbx_Rsym_value 0.059 _reflns.pdbx_redundancy 3.200 _reflns.percent_possible_obs 63.300 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.B_iso_Wilson_estimate ? _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 1.26 1.29 ? 53 ? 1.314 0.7 1.314 ? 1.00 ? 52 3.10 1 1 1.29 1.33 ? 213 ? 0.195 3.7 0.195 ? 1.20 ? 176 10.70 2 1 1.33 1.37 ? 465 ? 0.172 4.1 0.172 ? 1.30 ? 356 22.30 3 1 1.37 1.41 ? 892 ? 0.196 3.7 0.196 ? 1.50 ? 580 37.80 4 1 1.41 1.45 ? 1368 ? 0.190 3.7 0.190 ? 1.80 ? 750 50.30 5 1 1.45 1.51 ? 2402 ? 0.165 4.6 0.165 ? 2.60 ? 911 61.80 6 1 1.51 1.56 ? 2908 ? 0.136 4.7 0.136 ? 2.80 ? 1032 73.20 7 1 1.56 1.63 ? 3242 ? 0.122 6.1 0.122 ? 3.10 ? 1055 77.60 8 1 1.63 1.70 ? 3667 ? 0.097 7.4 0.097 ? 3.30 ? 1128 84.40 9 1 1.70 1.78 ? 3925 ? 0.085 8.0 0.085 ? 3.40 ? 1154 92.50 10 1 1.78 1.88 ? 4094 ? 0.084 7.8 0.084 ? 3.60 ? 1138 93.60 11 1 1.88 1.99 ? 3890 ? 0.075 8.5 0.075 ? 3.70 ? 1062 93.00 12 1 1.99 2.13 ? 3643 ? 0.066 7.4 0.066 ? 3.70 ? 989 91.90 13 1 2.13 2.30 ? 3419 ? 0.063 6.4 0.063 ? 3.60 ? 938 91.90 14 1 2.30 2.52 ? 3116 ? 0.061 9.5 0.061 ? 3.70 ? 844 90.30 15 1 2.52 2.82 ? 2809 ? 0.060 9.8 0.060 ? 3.60 ? 771 89.90 16 1 2.82 3.25 ? 2382 ? 0.055 10.2 0.055 ? 3.60 ? 664 87.40 17 1 3.25 3.98 ? 1896 ? 0.048 11.1 0.048 ? 3.30 ? 566 85.80 18 1 3.98 5.63 ? 1764 ? 0.046 12.3 0.046 ? 3.80 ? 461 87.50 19 1 5.63 26.528 ? 898 ? 0.053 9.3 0.053 ? 3.50 ? 253 82.20 20 1 # _refine.entry_id 2RIL _refine.ls_d_res_high 1.260 _refine.ls_d_res_low 26.528 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 63.010 _refine.ls_number_reflns_obs 14848 _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. 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 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. ACETATE, CHLORIDE, AND PGO WERE MODELED BASED ON CRYSTALLIZATION CONDITIONS. 4. CSD WAS MODELED BASED ON DENSITY. 5. THE NOMINAL RESOLUTION IS 1.50 A WITH 2718 OBSERVED REFLECTIONS BETWEEN 1.50-1.26 (28.8% COMPLETE FOR THIS SHELL) INCLUDED IN THE REFINEMENT. ; _refine.ls_R_factor_obs 0.141 _refine.ls_R_factor_R_work 0.140 _refine.ls_R_factor_R_free 0.162 _refine.ls_percent_reflns_R_free 5.000 _refine.ls_number_reflns_R_free 742 _refine.B_iso_mean 10.501 _refine.aniso_B[1][1] -0.100 _refine.aniso_B[2][2] -0.650 _refine.aniso_B[3][3] 0.750 _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 0.971 _refine.correlation_coeff_Fo_to_Fc_free 0.963 _refine.pdbx_overall_ESU_R 0.085 _refine.pdbx_overall_ESU_R_Free 0.063 _refine.overall_SU_ML 0.030 _refine.overall_SU_B 1.555 _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 MAD _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_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 748 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 110 _refine_hist.number_atoms_total 868 _refine_hist.d_res_high 1.260 _refine_hist.d_res_low 26.528 # 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 849 0.016 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 559 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1162 1.599 1.954 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1368 0.962 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 109 5.392 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 41 31.926 24.634 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 137 13.404 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 5 16.783 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 124 0.106 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 990 0.008 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 173 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 166 0.216 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 566 0.198 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 412 0.186 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 467 0.088 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 58 0.166 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 13 0.298 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 52 0.330 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 15 0.145 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 578 1.775 1.500 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 206 0.663 1.500 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 846 2.180 2.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 361 3.386 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 316 4.380 4.500 ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 1629 2.186 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_free 111 8.418 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded 1385 3.360 3.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.260 _refine_ls_shell.d_res_low 1.293 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 3.030 _refine_ls_shell.number_reflns_R_work 51 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.240 _refine_ls_shell.R_factor_R_free 0.625 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 1 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 52 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2RIL _struct.title 'Crystal structure of a putative monooxygenase (YP_001095275.1) from Shewanella loihica PV-4 at 1.26 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;YP_001095275.1, Putative monooxygenase, 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 2RIL # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? E N N 5 ? # _struct_biol.id 1 _struct_biol.details 'The biological unit of this protein has not been experimentally determined at the time of deposition.' # 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 18 ? ALA A 34 ? LYS A 17 ALA A 33 1 ? 17 HELX_P HELX_P2 2 SER A 64 ? GLY A 80 ? SER A 63 GLY A 79 1 ? 17 # _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 1 C ? ? ? 1_555 A MSE 2 N ? ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.322 ? ? covale2 covale both ? A MSE 2 C ? ? ? 1_555 A SER 3 N ? ? A MSE 1 A SER 2 1_555 ? ? ? ? ? ? ? 1.317 ? ? covale3 covale both ? A PHE 32 C ? ? ? 1_555 A MSE 33 N ? ? A PHE 31 A MSE 32 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale4 covale both ? A MSE 33 C ? ? ? 1_555 A ALA 34 N ? ? A MSE 32 A ALA 33 1_555 ? ? ? ? ? ? ? 1.323 ? ? covale5 covale both ? A LYS 74 C ? ? ? 1_555 A MSE 75 N A ? A LYS 73 A MSE 74 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale6 covale both ? A LYS 74 C ? ? ? 1_555 A MSE 75 N B ? A LYS 73 A MSE 74 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale7 covale both ? A MSE 75 C A ? ? 1_555 A ARG 76 N ? ? A MSE 74 A ARG 75 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale8 covale both ? A MSE 75 C B ? ? 1_555 A ARG 76 N ? ? A MSE 74 A ARG 75 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale9 covale both ? A LEU 87 C ? ? ? 1_555 A CSD 88 N ? ? A LEU 86 A CSD 87 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale10 covale both ? A CSD 88 C ? ? ? 1_555 A GLY 89 N ? ? A CSD 87 A GLY 88 1_555 ? ? ? ? ? ? ? 1.328 ? ? # _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 TYR A 39 ? GLN A 46 ? TYR A 38 GLN A 45 A 2 LEU A 56 ? TRP A 62 ? LEU A 55 TRP A 61 A 3 VAL A 6 ? PHE A 12 ? VAL A 5 PHE A 11 A 4 ALA A 92 ? TYR A 94 ? ALA A 91 TYR 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 HIS A 45 ? N HIS A 44 O ILE A 57 ? O ILE A 56 A 2 3 O LEU A 56 ? O LEU A 55 N PHE A 12 ? N PHE A 11 A 3 4 N THR A 7 ? N THR A 6 O TYR A 94 ? O TYR A 93 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A CL 99 ? 3 'BINDING SITE FOR RESIDUE CL A 99' AC2 Software A ACT 100 ? 4 'BINDING SITE FOR RESIDUE ACT A 100' AC3 Software A PGO 101 ? 5 'BINDING SITE FOR RESIDUE PGO A 101' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 3 ASN A 10 ? ASN A 9 . ? 1_555 ? 2 AC1 3 TRP A 26 ? TRP A 25 . ? 1_555 ? 3 AC1 3 ASN A 58 ? ASN A 57 . ? 1_555 ? 4 AC2 4 SER A 41 ? SER A 40 . ? 1_555 ? 5 AC2 4 GLY A 89 ? GLY A 88 . ? 1_556 ? 6 AC2 4 ASN A 90 ? ASN A 89 . ? 1_556 ? 7 AC2 4 HOH E . ? HOH A 205 . ? 1_555 ? 8 AC3 5 ARG A 30 ? ARG A 29 . ? 2_655 ? 9 AC3 5 ARG A 98 ? ARG A 97 . ? 1_555 ? 10 AC3 5 THR A 99 ? THR A 98 . ? 1_555 ? 11 AC3 5 HOH E . ? HOH A 173 . ? 2_655 ? 12 AC3 5 HOH E . ? HOH A 191 . ? 2_655 ? # _atom_sites.entry_id 2RIL _atom_sites.fract_transf_matrix[1][1] 0.020437 _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] 0.015834 _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] 0.036653 _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 CL N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 0 0 GLY GLY A . n A 1 2 MSE 2 1 1 MSE MSE A . n A 1 3 SER 3 2 2 SER SER A . n A 1 4 ALA 4 3 3 ALA ALA A . n A 1 5 PRO 5 4 4 PRO PRO A . n A 1 6 VAL 6 5 5 VAL VAL A . n A 1 7 THR 7 6 6 THR THR A . n A 1 8 LEU 8 7 7 LEU LEU A . n A 1 9 ILE 9 8 8 ILE ILE A . n A 1 10 ASN 10 9 9 ASN ASN A . n A 1 11 PRO 11 10 10 PRO PRO A . n A 1 12 PHE 12 11 11 PHE PHE A . n A 1 13 LYS 13 12 12 LYS LYS A . n A 1 14 VAL 14 13 13 VAL VAL A . n A 1 15 PRO 15 14 14 PRO PRO A . n A 1 16 ALA 16 15 15 ALA ALA A . n A 1 17 ASP 17 16 16 ASP ASP A . n A 1 18 LYS 18 17 17 LYS LYS A . n A 1 19 LEU 19 18 18 LEU LEU A . n A 1 20 GLU 20 19 19 GLU GLU A . n A 1 21 ALA 21 20 20 ALA ALA A . n A 1 22 ALA 22 21 21 ALA ALA A . n A 1 23 ILE 23 22 22 ILE ILE A . n A 1 24 GLU 24 23 23 GLU GLU A . n A 1 25 TYR 25 24 24 TYR TYR A . n A 1 26 TRP 26 25 25 TRP TRP A . n A 1 27 GLU 27 26 26 GLU GLU A . n A 1 28 ALA 28 27 27 ALA ALA A . n A 1 29 HIS 29 28 28 HIS HIS A . n A 1 30 ARG 30 29 29 ARG ARG A . n A 1 31 ASP 31 30 30 ASP ASP A . n A 1 32 PHE 32 31 31 PHE PHE A . n A 1 33 MSE 33 32 32 MSE MSE A . n A 1 34 ALA 34 33 33 ALA ALA A . n A 1 35 GLN 35 34 34 GLN GLN A . n A 1 36 GLN 36 35 35 GLN GLN A . n A 1 37 PRO 37 36 36 PRO PRO A . n A 1 38 GLY 38 37 37 GLY GLY A . n A 1 39 TYR 39 38 38 TYR TYR A . n A 1 40 LEU 40 39 39 LEU LEU A . n A 1 41 SER 41 40 40 SER SER A . n A 1 42 THR 42 41 41 THR THR A . n A 1 43 GLN 43 42 42 GLN GLN A . n A 1 44 LEU 44 43 43 LEU LEU A . n A 1 45 HIS 45 44 44 HIS HIS A . n A 1 46 GLN 46 45 45 GLN GLN A . n A 1 47 SER 47 46 46 SER SER A . n A 1 48 ILE 48 47 47 ILE ILE A . n A 1 49 ASP 49 48 48 ASP ASP A . n A 1 50 GLU 50 49 49 GLU GLU A . n A 1 51 GLY 51 50 50 GLY GLY A . n A 1 52 ALA 52 51 51 ALA ALA A . n A 1 53 THR 53 52 52 THR THR A . n A 1 54 TYR 54 53 53 TYR TYR A . n A 1 55 GLN 55 54 54 GLN GLN A . n A 1 56 LEU 56 55 55 LEU LEU A . n A 1 57 ILE 57 56 56 ILE ILE A . n A 1 58 ASN 58 57 57 ASN ASN A . n A 1 59 VAL 59 58 58 VAL VAL A . n A 1 60 ALA 60 59 59 ALA ALA A . n A 1 61 ILE 61 60 60 ILE ILE A . n A 1 62 TRP 62 61 61 TRP TRP A . n A 1 63 GLN 63 62 62 GLN GLN A . n A 1 64 SER 64 63 63 SER SER A . n A 1 65 GLU 65 64 64 GLU GLU A . n A 1 66 ALA 66 65 65 ALA ALA A . n A 1 67 ASP 67 66 66 ASP ASP A . n A 1 68 PHE 68 67 67 PHE PHE A . n A 1 69 TYR 69 68 68 TYR TYR A . n A 1 70 GLN 70 69 69 GLN GLN A . n A 1 71 ALA 71 70 70 ALA ALA A . n A 1 72 ALA 72 71 71 ALA ALA A . n A 1 73 GLN 73 72 72 GLN GLN A . n A 1 74 LYS 74 73 73 LYS LYS A . n A 1 75 MSE 75 74 74 MSE MSE A . n A 1 76 ARG 76 75 75 ARG ARG A . n A 1 77 GLN 77 76 76 GLN GLN A . n A 1 78 ALA 78 77 77 ALA ALA A . n A 1 79 LEU 79 78 78 LEU LEU A . n A 1 80 GLY 80 79 79 GLY GLY A . n A 1 81 HIS 81 80 ? ? ? A . n A 1 82 VAL 82 81 ? ? ? A . n A 1 83 GLN 83 82 ? ? ? A . n A 1 84 VAL 84 83 ? ? ? A . n A 1 85 GLU 85 84 84 GLU GLU A . n A 1 86 GLY 86 85 85 GLY GLY A . n A 1 87 LEU 87 86 86 LEU LEU A . n A 1 88 CSD 88 87 87 CSD CSD A . n A 1 89 GLY 89 88 88 GLY GLY A . n A 1 90 ASN 90 89 89 ASN ASN A . n A 1 91 PRO 91 90 90 PRO PRO A . n A 1 92 ALA 92 91 91 ALA ALA A . n A 1 93 LEU 93 92 92 LEU LEU A . n A 1 94 TYR 94 93 93 TYR TYR A . n A 1 95 ARG 95 94 94 ARG ARG A . n A 1 96 VAL 96 95 95 VAL VAL A . n A 1 97 ILE 97 96 96 ILE ILE A . n A 1 98 ARG 98 97 97 ARG ARG A . n A 1 99 THR 99 98 98 THR THR 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 CL 1 99 1 CL CL A . C 3 ACT 1 100 2 ACT ACT A . D 4 PGO 1 101 3 PGO PGO A . E 5 HOH 1 102 4 HOH HOH A . E 5 HOH 2 103 5 HOH HOH A . E 5 HOH 3 104 6 HOH HOH A . E 5 HOH 4 105 7 HOH HOH A . E 5 HOH 5 106 8 HOH HOH A . E 5 HOH 6 107 9 HOH HOH A . E 5 HOH 7 108 10 HOH HOH A . E 5 HOH 8 109 11 HOH HOH A . E 5 HOH 9 110 12 HOH HOH A . E 5 HOH 10 111 13 HOH HOH A . E 5 HOH 11 112 14 HOH HOH A . E 5 HOH 12 113 15 HOH HOH A . E 5 HOH 13 114 16 HOH HOH A . E 5 HOH 14 115 17 HOH HOH A . E 5 HOH 15 116 18 HOH HOH A . E 5 HOH 16 117 19 HOH HOH A . E 5 HOH 17 118 20 HOH HOH A . E 5 HOH 18 119 21 HOH HOH A . E 5 HOH 19 120 22 HOH HOH A . E 5 HOH 20 121 23 HOH HOH A . E 5 HOH 21 122 24 HOH HOH A . E 5 HOH 22 123 25 HOH HOH A . E 5 HOH 23 124 26 HOH HOH A . E 5 HOH 24 125 27 HOH HOH A . E 5 HOH 25 126 28 HOH HOH A . E 5 HOH 26 127 29 HOH HOH A . E 5 HOH 27 128 30 HOH HOH A . E 5 HOH 28 129 31 HOH HOH A . E 5 HOH 29 130 32 HOH HOH A . E 5 HOH 30 131 33 HOH HOH A . E 5 HOH 31 132 34 HOH HOH A . E 5 HOH 32 133 35 HOH HOH A . E 5 HOH 33 134 36 HOH HOH A . E 5 HOH 34 135 37 HOH HOH A . E 5 HOH 35 136 38 HOH HOH A . E 5 HOH 36 137 39 HOH HOH A . E 5 HOH 37 138 40 HOH HOH A . E 5 HOH 38 139 41 HOH HOH A . E 5 HOH 39 140 42 HOH HOH A . E 5 HOH 40 141 43 HOH HOH A . E 5 HOH 41 142 44 HOH HOH A . E 5 HOH 42 143 45 HOH HOH A . E 5 HOH 43 144 46 HOH HOH A . E 5 HOH 44 145 47 HOH HOH A . E 5 HOH 45 146 48 HOH HOH A . E 5 HOH 46 147 49 HOH HOH A . E 5 HOH 47 148 50 HOH HOH A . E 5 HOH 48 149 51 HOH HOH A . E 5 HOH 49 150 52 HOH HOH A . E 5 HOH 50 151 53 HOH HOH A . E 5 HOH 51 152 54 HOH HOH A . E 5 HOH 52 153 55 HOH HOH A . E 5 HOH 53 154 56 HOH HOH A . E 5 HOH 54 155 57 HOH HOH A . E 5 HOH 55 156 58 HOH HOH A . E 5 HOH 56 157 59 HOH HOH A . E 5 HOH 57 158 60 HOH HOH A . E 5 HOH 58 159 61 HOH HOH A . E 5 HOH 59 160 62 HOH HOH A . E 5 HOH 60 161 63 HOH HOH A . E 5 HOH 61 162 64 HOH HOH A . E 5 HOH 62 163 65 HOH HOH A . E 5 HOH 63 164 66 HOH HOH A . E 5 HOH 64 165 67 HOH HOH A . E 5 HOH 65 166 68 HOH HOH A . E 5 HOH 66 167 69 HOH HOH A . E 5 HOH 67 168 70 HOH HOH A . E 5 HOH 68 169 71 HOH HOH A . E 5 HOH 69 170 72 HOH HOH A . E 5 HOH 70 171 73 HOH HOH A . E 5 HOH 71 172 74 HOH HOH A . E 5 HOH 72 173 75 HOH HOH A . E 5 HOH 73 174 76 HOH HOH A . E 5 HOH 74 175 77 HOH HOH A . E 5 HOH 75 176 78 HOH HOH A . E 5 HOH 76 177 79 HOH HOH A . E 5 HOH 77 178 80 HOH HOH A . E 5 HOH 78 179 81 HOH HOH A . E 5 HOH 79 180 82 HOH HOH A . E 5 HOH 80 181 83 HOH HOH A . E 5 HOH 81 182 84 HOH HOH A . E 5 HOH 82 183 85 HOH HOH A . E 5 HOH 83 184 86 HOH HOH A . E 5 HOH 84 185 87 HOH HOH A . E 5 HOH 85 186 88 HOH HOH A . E 5 HOH 86 187 89 HOH HOH A . E 5 HOH 87 188 90 HOH HOH A . E 5 HOH 88 189 91 HOH HOH A . E 5 HOH 89 190 92 HOH HOH A . E 5 HOH 90 191 93 HOH HOH A . E 5 HOH 91 192 94 HOH HOH A . E 5 HOH 92 193 95 HOH HOH A . E 5 HOH 93 194 96 HOH HOH A . E 5 HOH 94 195 97 HOH HOH A . E 5 HOH 95 196 98 HOH HOH A . E 5 HOH 96 197 99 HOH HOH A . E 5 HOH 97 198 100 HOH HOH A . E 5 HOH 98 199 101 HOH HOH A . E 5 HOH 99 200 102 HOH HOH A . E 5 HOH 100 201 103 HOH HOH A . E 5 HOH 101 202 104 HOH HOH A . E 5 HOH 102 203 105 HOH HOH A . E 5 HOH 103 204 106 HOH HOH A . E 5 HOH 104 205 107 HOH HOH A . E 5 HOH 105 206 108 HOH HOH A . E 5 HOH 106 207 109 HOH HOH A . E 5 HOH 107 208 110 HOH HOH A . E 5 HOH 108 209 111 HOH HOH A . E 5 HOH 109 210 112 HOH HOH A . E 5 HOH 110 211 113 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 2 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 33 A MSE 32 ? MET SELENOMETHIONINE 3 A MSE 75 A MSE 74 ? MET SELENOMETHIONINE 4 A CSD 88 A CSD 87 ? CYS 3-SULFINOALANINE # _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,E # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 2700 _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' 2_655 -x+1,-y,z -1.0000000000 0.0000000000 0.0000000000 48.9310000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2007-10-23 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' 'Source and taxonomy' 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Refinement description' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Refinement description' 7 5 'Structure model' 'Database references' 8 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' # _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 5.3.0040 ? 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 SCALA . ? other 'Phil Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/INDEX.html Fortran_77 ? 5 PDB_EXTRACT 3.000 'July 2, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 6 ADSC Quantum ? ? ? ? 'data collection' ? ? ? 7 MOSFLM . ? ? ? ? '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. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. ; # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 89 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -154.64 _pdbx_validate_torsion.psi 64.68 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A GLU 84 ? CG ? A GLU 85 CG 2 1 Y 1 A GLU 84 ? CD ? A GLU 85 CD 3 1 Y 1 A GLU 84 ? OE1 ? A GLU 85 OE1 4 1 Y 1 A GLU 84 ? OE2 ? A GLU 85 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 HIS 80 ? A HIS 81 2 1 Y 1 A VAL 81 ? A VAL 82 3 1 Y 1 A GLN 82 ? A GLN 83 4 1 Y 1 A VAL 83 ? A VAL 84 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 'ACETATE ION' ACT 4 S-1,2-PROPANEDIOL PGO 5 water HOH #