data_3DOU # _entry.id 3DOU # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.338 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3DOU RCSB RCSB048304 WWPDB D_1000048304 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id NYSGXRC-11117o _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3DOU _pdbx_database_status.recvd_initial_deposition_date 2008-07-06 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Patskovsky, Y.' 1 ? 'Ozyurt, S.' 2 ? 'Dickey, M.' 3 ? 'Hu, S.' 4 ? 'Bain, K.' 5 ? 'Wasserman, S.' 6 ? 'Sauder, J.M.' 7 0000-0002-0254-4955 'Burley, S.K.' 8 0000-0002-2487-9713 'Almo, S.C.' 9 ? 'New York SGX Research Center for Structural Genomics (NYSGXRC)' 10 ? # _citation.id primary _citation.title 'Crystal Structure of Methyltransferase Involved in Cell Division from Thermoplasma Volcanicum' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Patskovsky, Y.' 1 ? primary 'Ozyurt, S.' 2 ? primary 'Dickey, M.' 3 ? primary 'Hu, S.' 4 ? primary 'Bain, K.' 5 ? primary 'Wasserman, S.' 6 ? primary 'Sauder, J.M.' 7 ? primary 'Burley, S.K.' 8 0000-0002-2487-9713 primary 'Almo, S.C.' 9 ? # _cell.entry_id 3DOU _cell.length_a 64.620 _cell.length_b 50.053 _cell.length_c 56.457 _cell.angle_alpha 90.00 _cell.angle_beta 108.08 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3DOU _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'Ribosomal RNA large subunit methyltransferase J' 22104.369 1 2.1.1.- ? 'C terminal segment, residues 17-196' ? 2 non-polymer syn S-ADENOSYLMETHIONINE 398.437 1 ? ? ? ? 3 water nat water 18.015 152 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name ;rRNA (uridine-2'-O-)-methyltransferase, 23S rRNA m2U2552 methyltransferase ; # _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)SLQLRSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNSLARKIISIDLQE(MSE)EEIAGVRFIRCDIF KETIFDDIDRALREEGIEKVDDVVSDA(MSE)AKVSGIPSRDHAVSYQIGQRV(MSE)EIAVRYLRNGGNVLLKQFQGD (MSE)TNDFIAIWRKNFSSYKISKPPASRGSSSEIYI(MSE)FFGFKAEGHHHHHH ; _entity_poly.pdbx_seq_one_letter_code_can ;MSLQLRSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNSLARKIISIDLQEMEEIAGVRFIRCDIFKETIFDDI DRALREEGIEKVDDVVSDAMAKVSGIPSRDHAVSYQIGQRVMEIAVRYLRNGGNVLLKQFQGDMTNDFIAIWRKNFSSYK ISKPPASRGSSSEIYIMFFGFKAEGHHHHHH ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier NYSGXRC-11117o # 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 SER n 1 3 LEU n 1 4 GLN n 1 5 LEU n 1 6 ARG n 1 7 SER n 1 8 ARG n 1 9 ALA n 1 10 ALA n 1 11 PHE n 1 12 LYS n 1 13 LEU n 1 14 GLU n 1 15 PHE n 1 16 LEU n 1 17 LEU n 1 18 ASP n 1 19 ARG n 1 20 TYR n 1 21 ARG n 1 22 VAL n 1 23 VAL n 1 24 ARG n 1 25 LYS n 1 26 GLY n 1 27 ASP n 1 28 ALA n 1 29 VAL n 1 30 ILE n 1 31 GLU n 1 32 ILE n 1 33 GLY n 1 34 SER n 1 35 SER n 1 36 PRO n 1 37 GLY n 1 38 GLY n 1 39 TRP n 1 40 THR n 1 41 GLN n 1 42 VAL n 1 43 LEU n 1 44 ASN n 1 45 SER n 1 46 LEU n 1 47 ALA n 1 48 ARG n 1 49 LYS n 1 50 ILE n 1 51 ILE n 1 52 SER n 1 53 ILE n 1 54 ASP n 1 55 LEU n 1 56 GLN n 1 57 GLU n 1 58 MSE n 1 59 GLU n 1 60 GLU n 1 61 ILE n 1 62 ALA n 1 63 GLY n 1 64 VAL n 1 65 ARG n 1 66 PHE n 1 67 ILE n 1 68 ARG n 1 69 CYS n 1 70 ASP n 1 71 ILE n 1 72 PHE n 1 73 LYS n 1 74 GLU n 1 75 THR n 1 76 ILE n 1 77 PHE n 1 78 ASP n 1 79 ASP n 1 80 ILE n 1 81 ASP n 1 82 ARG n 1 83 ALA n 1 84 LEU n 1 85 ARG n 1 86 GLU n 1 87 GLU n 1 88 GLY n 1 89 ILE n 1 90 GLU n 1 91 LYS n 1 92 VAL n 1 93 ASP n 1 94 ASP n 1 95 VAL n 1 96 VAL n 1 97 SER n 1 98 ASP n 1 99 ALA n 1 100 MSE n 1 101 ALA n 1 102 LYS n 1 103 VAL n 1 104 SER n 1 105 GLY n 1 106 ILE n 1 107 PRO n 1 108 SER n 1 109 ARG n 1 110 ASP n 1 111 HIS n 1 112 ALA n 1 113 VAL n 1 114 SER n 1 115 TYR n 1 116 GLN n 1 117 ILE n 1 118 GLY n 1 119 GLN n 1 120 ARG n 1 121 VAL n 1 122 MSE n 1 123 GLU n 1 124 ILE n 1 125 ALA n 1 126 VAL n 1 127 ARG n 1 128 TYR n 1 129 LEU n 1 130 ARG n 1 131 ASN n 1 132 GLY n 1 133 GLY n 1 134 ASN n 1 135 VAL n 1 136 LEU n 1 137 LEU n 1 138 LYS n 1 139 GLN n 1 140 PHE n 1 141 GLN n 1 142 GLY n 1 143 ASP n 1 144 MSE n 1 145 THR n 1 146 ASN n 1 147 ASP n 1 148 PHE n 1 149 ILE n 1 150 ALA n 1 151 ILE n 1 152 TRP n 1 153 ARG n 1 154 LYS n 1 155 ASN n 1 156 PHE n 1 157 SER n 1 158 SER n 1 159 TYR n 1 160 LYS n 1 161 ILE n 1 162 SER n 1 163 LYS n 1 164 PRO n 1 165 PRO n 1 166 ALA n 1 167 SER n 1 168 ARG n 1 169 GLY n 1 170 SER n 1 171 SER n 1 172 SER n 1 173 GLU n 1 174 ILE n 1 175 TYR n 1 176 ILE n 1 177 MSE n 1 178 PHE n 1 179 PHE n 1 180 GLY n 1 181 PHE n 1 182 LYS n 1 183 ALA n 1 184 GLU n 1 185 GLY n 1 186 HIS n 1 187 HIS n 1 188 HIS n 1 189 HIS n 1 190 HIS n 1 191 HIS 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 'rrmJ, TV0292, TVG0303954' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain GSS1 _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 'Thermoplasma volcanium' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 50339 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _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 ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code RRMJ_THEVO _struct_ref.pdbx_db_accession Q97C13 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;QLRSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNSLARKIISIDLQEMEEIAGVRFIRCDIFKETIFDDIDRA LREEGIEKVDDVVSDAMAKVSGIPSRDHAVSYQIGQRVMEIAVRYLRNGGNVLLKQFQGDMTNDFIAIWRKNFSSYKISK PPASRGSSSEIYIMFFGFKA ; _struct_ref.pdbx_align_begin 17 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3DOU _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 183 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q97C13 _struct_ref_seq.db_align_beg 17 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 196 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 17 _struct_ref_seq.pdbx_auth_seq_align_end 196 # 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 3DOU MSE A 1 ? UNP Q97C13 ? ? 'expression tag' 14 1 1 3DOU SER A 2 ? UNP Q97C13 ? ? 'expression tag' 15 2 1 3DOU LEU A 3 ? UNP Q97C13 ? ? 'expression tag' 16 3 1 3DOU GLU A 184 ? UNP Q97C13 ? ? 'expression tag' 197 4 1 3DOU GLY A 185 ? UNP Q97C13 ? ? 'expression tag' 198 5 1 3DOU HIS A 186 ? UNP Q97C13 ? ? 'expression tag' 199 6 1 3DOU HIS A 187 ? UNP Q97C13 ? ? 'expression tag' 200 7 1 3DOU HIS A 188 ? UNP Q97C13 ? ? 'expression tag' 201 8 1 3DOU HIS A 189 ? UNP Q97C13 ? ? 'expression tag' 202 9 1 3DOU HIS A 190 ? UNP Q97C13 ? ? 'expression tag' 203 10 1 3DOU HIS A 191 ? UNP Q97C13 ? ? 'expression tag' 204 11 # 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 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 SAM non-polymer . S-ADENOSYLMETHIONINE ? 'C15 H22 N6 O5 S' 398.437 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3DOU _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.99 _exptl_crystal.density_percent_sol 38.28 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.50 _exptl_crystal_grow.pdbx_details '100MM HEPES,PH 7.5, 20% PEG3350, 10% GLYCEROL, VAPOR DIFFUSION, TEMPERATURE 298K, pH 7.50' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 77.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MAR CCD 165 mm' _diffrn_detector.pdbx_collection_date 2007-06-27 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator DIAMOND _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9793 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 31-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 31-ID _diffrn_source.pdbx_wavelength 0.9793 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 3DOU _reflns.observed_criterion_sigma_I -5.000 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.000 _reflns.d_resolution_high 1.450 _reflns.number_obs 30605 _reflns.number_all ? _reflns.percent_possible_obs 99.70 _reflns.pdbx_Rmerge_I_obs 0.062 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 5.4000 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 3.800 _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_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.45 _reflns_shell.d_res_low 1.50 _reflns_shell.percent_possible_all 98.6 _reflns_shell.Rmerge_I_obs 0.726 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 1.200 _reflns_shell.pdbx_redundancy 3.70 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3DOU _refine.ls_number_reflns_obs 28898 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 20.00 _refine.ls_d_res_high 1.45 _refine.ls_percent_reflns_obs 99.67 _refine.ls_R_factor_obs 0.1671 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.16566 _refine.ls_R_factor_R_free 0.19456 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.1 _refine.ls_number_reflns_R_free 1538 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.971 _refine.correlation_coeff_Fo_to_Fc_free 0.963 _refine.B_iso_mean 20.183 _refine.aniso_B[1][1] 0.15 _refine.aniso_B[2][2] 0.22 _refine.aniso_B[3][3] -0.34 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.05 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.067 _refine.pdbx_overall_ESU_R_Free 0.069 _refine.overall_SU_ML 0.042 _refine.overall_SU_B 1.053 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_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 1489 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 27 _refine_hist.number_atoms_solvent 152 _refine_hist.number_atoms_total 1668 _refine_hist.d_res_high 1.45 _refine_hist.d_res_low 20.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.012 0.022 ? 1554 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.484 1.979 ? 2109 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 11.629 5.000 ? 203 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 34.225 23.117 ? 77 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 13.966 15.000 ? 299 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 17.248 15.000 ? 17 'X-RAY DIFFRACTION' ? r_chiral_restr 0.087 0.200 ? 233 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.020 ? 1171 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.213 0.300 ? 732 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.306 0.500 ? 1084 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.139 0.500 ? 260 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.133 0.300 ? 50 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.165 0.500 ? 25 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 2.742 2.000 ? 948 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 3.669 3.000 ? 1490 'X-RAY DIFFRACTION' ? r_scbond_it 4.901 3.000 ? 692 'X-RAY DIFFRACTION' ? r_scangle_it 7.454 5.000 ? 603 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.449 _refine_ls_shell.d_res_low 1.487 _refine_ls_shell.number_reflns_R_work 2115 _refine_ls_shell.R_factor_R_work 0.301 _refine_ls_shell.percent_reflns_obs 98.14 _refine_ls_shell.R_factor_R_free 0.335 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 103 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3DOU _struct.title 'Crystal structure of methyltransferase involved in cell division from thermoplasma volcanicum gss1' _struct.pdbx_descriptor 'Ribosomal RNA large subunit methyltransferase J (E.C.2.1.1.-)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3DOU _struct_keywords.pdbx_keywords TRANSFERASE _struct_keywords.text ;METHYLTRANSFERASE, CELL DIVISION, STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, PSI, NEW YORK STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, TRANSFERASE, Cytoplasm, rRNA processing, New York SGX Research Center for Structural Genomics ; # 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 ? # 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 SER A 7 ? ARG A 21 ? SER A 20 ARG A 34 1 ? 15 HELX_P HELX_P2 2 GLY A 37 ? ASN A 44 ? GLY A 50 ASN A 57 1 ? 8 HELX_P HELX_P3 3 THR A 75 ? GLY A 88 ? THR A 88 GLY A 101 1 ? 14 HELX_P HELX_P4 4 ILE A 106 ? TYR A 128 ? ILE A 119 TYR A 141 1 ? 23 HELX_P HELX_P5 5 MSE A 144 ? ARG A 153 ? MSE A 157 ARG A 166 1 ? 10 # _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 GLU 57 C ? ? ? 1_555 A MSE 58 N ? ? A GLU 70 A MSE 71 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale2 covale both ? A MSE 58 C ? ? ? 1_555 A GLU 59 N ? ? A MSE 71 A GLU 72 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale3 covale both ? A ALA 99 C ? ? ? 1_555 A MSE 100 N ? ? A ALA 112 A MSE 113 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale4 covale both ? A MSE 100 C ? ? ? 1_555 A ALA 101 N ? ? A MSE 113 A ALA 114 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale5 covale both ? A VAL 121 C ? ? ? 1_555 A MSE 122 N ? ? A VAL 134 A MSE 135 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale6 covale both ? A MSE 122 C ? ? ? 1_555 A GLU 123 N ? ? A MSE 135 A GLU 136 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale7 covale both ? A ASP 143 C ? ? ? 1_555 A MSE 144 N ? ? A ASP 156 A MSE 157 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale8 covale both ? A MSE 144 C ? ? ? 1_555 A THR 145 N ? ? A MSE 157 A THR 158 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale9 covale both ? A ILE 176 C ? ? ? 1_555 A MSE 177 N ? ? A ILE 189 A MSE 190 1_555 ? ? ? ? ? ? ? 1.332 ? ? covale10 covale both ? A MSE 177 C ? ? ? 1_555 A PHE 178 N ? ? A MSE 190 A PHE 191 1_555 ? ? ? ? ? ? ? 1.318 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 SER 35 A . ? SER 48 A PRO 36 A ? PRO 49 A 1 2.51 2 SER 35 A . ? SER 48 A PRO 36 A ? PRO 49 A 1 0.81 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 7 _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 ? parallel A 2 3 ? parallel A 3 4 ? parallel A 4 5 ? parallel A 5 6 ? anti-parallel A 6 7 ? 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 ARG A 65 ? ARG A 68 ? ARG A 78 ARG A 81 A 2 LYS A 49 ? ASP A 54 ? LYS A 62 ASP A 67 A 3 ALA A 28 ? ILE A 32 ? ALA A 41 ILE A 45 A 4 VAL A 92 ? SER A 97 ? VAL A 105 SER A 110 A 5 LEU A 129 ? PHE A 140 ? LEU A 142 PHE A 153 A 6 GLU A 173 ? PHE A 181 ? GLU A 186 PHE A 194 A 7 PHE A 156 ? SER A 162 ? PHE A 169 SER A 175 # 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 O ILE A 67 ? O ILE A 80 N SER A 52 ? N SER A 65 A 2 3 O ILE A 51 ? O ILE A 64 N GLU A 31 ? N GLU A 44 A 3 4 N ILE A 32 ? N ILE A 45 O VAL A 96 ? O VAL A 109 A 4 5 N VAL A 92 ? N VAL A 105 O ARG A 130 ? O ARG A 143 A 5 6 N GLN A 139 ? N GLN A 152 O ILE A 174 ? O ILE A 187 A 6 7 O MSE A 177 ? O MSE A 190 N LYS A 160 ? N LYS A 173 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id SAM _struct_site.pdbx_auth_seq_id 1 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 21 _struct_site.details 'BINDING SITE FOR RESIDUE SAM A 1' # 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 21 ALA A 9 ? ALA A 22 . ? 1_555 ? 2 AC1 21 GLY A 33 ? GLY A 46 . ? 1_555 ? 3 AC1 21 SER A 35 ? SER A 48 . ? 1_555 ? 4 AC1 21 PRO A 36 ? PRO A 49 . ? 1_555 ? 5 AC1 21 GLY A 37 ? GLY A 50 . ? 1_555 ? 6 AC1 21 GLY A 38 ? GLY A 51 . ? 1_555 ? 7 AC1 21 TRP A 39 ? TRP A 52 . ? 1_555 ? 8 AC1 21 ASP A 54 ? ASP A 67 . ? 1_555 ? 9 AC1 21 LEU A 55 ? LEU A 68 . ? 1_555 ? 10 AC1 21 GLN A 56 ? GLN A 69 . ? 1_555 ? 11 AC1 21 CYS A 69 ? CYS A 82 . ? 1_555 ? 12 AC1 21 ASP A 70 ? ASP A 83 . ? 1_555 ? 13 AC1 21 ILE A 71 ? ILE A 84 . ? 1_555 ? 14 AC1 21 PHE A 72 ? PHE A 85 . ? 1_555 ? 15 AC1 21 ASP A 98 ? ASP A 111 . ? 1_555 ? 16 AC1 21 ALA A 99 ? ALA A 112 . ? 1_555 ? 17 AC1 21 LYS A 138 ? LYS A 151 . ? 1_555 ? 18 AC1 21 HOH C . ? HOH A 215 . ? 1_555 ? 19 AC1 21 HOH C . ? HOH A 287 . ? 1_555 ? 20 AC1 21 HOH C . ? HOH A 307 . ? 1_555 ? 21 AC1 21 HOH C . ? HOH A 337 . ? 1_555 ? # _database_PDB_matrix.entry_id 3DOU _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3DOU _atom_sites.fract_transf_matrix[1][1] 0.015475 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.005051 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.019979 _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] 0.018632 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C 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 14 ? ? ? A . n A 1 2 SER 2 15 ? ? ? A . n A 1 3 LEU 3 16 ? ? ? A . n A 1 4 GLN 4 17 17 GLN GLN A . n A 1 5 LEU 5 18 18 LEU LEU A . n A 1 6 ARG 6 19 19 ARG ARG A . n A 1 7 SER 7 20 20 SER SER A . n A 1 8 ARG 8 21 21 ARG ARG A . n A 1 9 ALA 9 22 22 ALA ALA A . n A 1 10 ALA 10 23 23 ALA ALA A . n A 1 11 PHE 11 24 24 PHE PHE A . n A 1 12 LYS 12 25 25 LYS LYS A . n A 1 13 LEU 13 26 26 LEU LEU A . n A 1 14 GLU 14 27 27 GLU GLU A . n A 1 15 PHE 15 28 28 PHE PHE A . n A 1 16 LEU 16 29 29 LEU LEU A . n A 1 17 LEU 17 30 30 LEU LEU A . n A 1 18 ASP 18 31 31 ASP ASP A . n A 1 19 ARG 19 32 32 ARG ARG A . n A 1 20 TYR 20 33 33 TYR TYR A . n A 1 21 ARG 21 34 34 ARG ARG A . n A 1 22 VAL 22 35 35 VAL VAL A . n A 1 23 VAL 23 36 36 VAL VAL A . n A 1 24 ARG 24 37 37 ARG ARG A . n A 1 25 LYS 25 38 38 LYS LYS A . n A 1 26 GLY 26 39 39 GLY GLY A . n A 1 27 ASP 27 40 40 ASP ASP A . n A 1 28 ALA 28 41 41 ALA ALA A . n A 1 29 VAL 29 42 42 VAL VAL A . n A 1 30 ILE 30 43 43 ILE ILE A . n A 1 31 GLU 31 44 44 GLU GLU A . n A 1 32 ILE 32 45 45 ILE ILE A . n A 1 33 GLY 33 46 46 GLY GLY A . n A 1 34 SER 34 47 47 SER SER A . n A 1 35 SER 35 48 48 SER SER A . n A 1 36 PRO 36 49 49 PRO PRO A . n A 1 37 GLY 37 50 50 GLY GLY A . n A 1 38 GLY 38 51 51 GLY GLY A . n A 1 39 TRP 39 52 52 TRP TRP A . n A 1 40 THR 40 53 53 THR THR A . n A 1 41 GLN 41 54 54 GLN GLN A . n A 1 42 VAL 42 55 55 VAL VAL A . n A 1 43 LEU 43 56 56 LEU LEU A . n A 1 44 ASN 44 57 57 ASN ASN A . n A 1 45 SER 45 58 58 SER SER A . n A 1 46 LEU 46 59 59 LEU LEU A . n A 1 47 ALA 47 60 60 ALA ALA A . n A 1 48 ARG 48 61 61 ARG ARG A . n A 1 49 LYS 49 62 62 LYS LYS A . n A 1 50 ILE 50 63 63 ILE ILE A . n A 1 51 ILE 51 64 64 ILE ILE A . n A 1 52 SER 52 65 65 SER SER A . n A 1 53 ILE 53 66 66 ILE ILE A . n A 1 54 ASP 54 67 67 ASP ASP A . n A 1 55 LEU 55 68 68 LEU LEU A . n A 1 56 GLN 56 69 69 GLN GLN A . n A 1 57 GLU 57 70 70 GLU GLU A . n A 1 58 MSE 58 71 71 MSE MSE A . n A 1 59 GLU 59 72 72 GLU GLU A . n A 1 60 GLU 60 73 73 GLU GLU A . n A 1 61 ILE 61 74 74 ILE ILE A . n A 1 62 ALA 62 75 75 ALA ALA A . n A 1 63 GLY 63 76 76 GLY GLY A . n A 1 64 VAL 64 77 77 VAL VAL A . n A 1 65 ARG 65 78 78 ARG ARG A . n A 1 66 PHE 66 79 79 PHE PHE A . n A 1 67 ILE 67 80 80 ILE ILE A . n A 1 68 ARG 68 81 81 ARG ARG A . n A 1 69 CYS 69 82 82 CYS CYS A . n A 1 70 ASP 70 83 83 ASP ASP A . n A 1 71 ILE 71 84 84 ILE ILE A . n A 1 72 PHE 72 85 85 PHE PHE A . n A 1 73 LYS 73 86 86 LYS LYS A . n A 1 74 GLU 74 87 87 GLU GLU A . n A 1 75 THR 75 88 88 THR THR A . n A 1 76 ILE 76 89 89 ILE ILE A . n A 1 77 PHE 77 90 90 PHE PHE A . n A 1 78 ASP 78 91 91 ASP ASP A . n A 1 79 ASP 79 92 92 ASP ASP A . n A 1 80 ILE 80 93 93 ILE ILE A . n A 1 81 ASP 81 94 94 ASP ASP A . n A 1 82 ARG 82 95 95 ARG ARG A . n A 1 83 ALA 83 96 96 ALA ALA A . n A 1 84 LEU 84 97 97 LEU LEU A . n A 1 85 ARG 85 98 98 ARG ARG A . n A 1 86 GLU 86 99 99 GLU GLU A . n A 1 87 GLU 87 100 100 GLU GLU A . n A 1 88 GLY 88 101 101 GLY GLY A . n A 1 89 ILE 89 102 102 ILE ILE A . n A 1 90 GLU 90 103 103 GLU GLU A . n A 1 91 LYS 91 104 104 LYS LYS A . n A 1 92 VAL 92 105 105 VAL VAL A . n A 1 93 ASP 93 106 106 ASP ASP A . n A 1 94 ASP 94 107 107 ASP ASP A . n A 1 95 VAL 95 108 108 VAL VAL A . n A 1 96 VAL 96 109 109 VAL VAL A . n A 1 97 SER 97 110 110 SER SER A . n A 1 98 ASP 98 111 111 ASP ASP A . n A 1 99 ALA 99 112 112 ALA ALA A . n A 1 100 MSE 100 113 113 MSE MSE A . n A 1 101 ALA 101 114 114 ALA ALA A . n A 1 102 LYS 102 115 115 LYS LYS A . n A 1 103 VAL 103 116 116 VAL VAL A . n A 1 104 SER 104 117 117 SER SER A . n A 1 105 GLY 105 118 118 GLY GLY A . n A 1 106 ILE 106 119 119 ILE ILE A . n A 1 107 PRO 107 120 120 PRO PRO A . n A 1 108 SER 108 121 121 SER SER A . n A 1 109 ARG 109 122 122 ARG ARG A . n A 1 110 ASP 110 123 123 ASP ASP A . n A 1 111 HIS 111 124 124 HIS HIS A . n A 1 112 ALA 112 125 125 ALA ALA A . n A 1 113 VAL 113 126 126 VAL VAL A . n A 1 114 SER 114 127 127 SER SER A . n A 1 115 TYR 115 128 128 TYR TYR A . n A 1 116 GLN 116 129 129 GLN GLN A . n A 1 117 ILE 117 130 130 ILE ILE A . n A 1 118 GLY 118 131 131 GLY GLY A . n A 1 119 GLN 119 132 132 GLN GLN A . n A 1 120 ARG 120 133 133 ARG ARG A . n A 1 121 VAL 121 134 134 VAL VAL A . n A 1 122 MSE 122 135 135 MSE MSE A . n A 1 123 GLU 123 136 136 GLU GLU A . n A 1 124 ILE 124 137 137 ILE ILE A . n A 1 125 ALA 125 138 138 ALA ALA A . n A 1 126 VAL 126 139 139 VAL VAL A . n A 1 127 ARG 127 140 140 ARG ARG A . n A 1 128 TYR 128 141 141 TYR TYR A . n A 1 129 LEU 129 142 142 LEU LEU A . n A 1 130 ARG 130 143 143 ARG ARG A . n A 1 131 ASN 131 144 144 ASN ASN A . n A 1 132 GLY 132 145 145 GLY GLY A . n A 1 133 GLY 133 146 146 GLY GLY A . n A 1 134 ASN 134 147 147 ASN ASN A . n A 1 135 VAL 135 148 148 VAL VAL A . n A 1 136 LEU 136 149 149 LEU LEU A . n A 1 137 LEU 137 150 150 LEU LEU A . n A 1 138 LYS 138 151 151 LYS LYS A . n A 1 139 GLN 139 152 152 GLN GLN A . n A 1 140 PHE 140 153 153 PHE PHE A . n A 1 141 GLN 141 154 154 GLN GLN A . n A 1 142 GLY 142 155 155 GLY GLY A . n A 1 143 ASP 143 156 156 ASP ASP A . n A 1 144 MSE 144 157 157 MSE MSE A . n A 1 145 THR 145 158 158 THR THR A . n A 1 146 ASN 146 159 159 ASN ASN A . n A 1 147 ASP 147 160 160 ASP ASP A . n A 1 148 PHE 148 161 161 PHE PHE A . n A 1 149 ILE 149 162 162 ILE ILE A . n A 1 150 ALA 150 163 163 ALA ALA A . n A 1 151 ILE 151 164 164 ILE ILE A . n A 1 152 TRP 152 165 165 TRP TRP A . n A 1 153 ARG 153 166 166 ARG ARG A . n A 1 154 LYS 154 167 167 LYS LYS A . n A 1 155 ASN 155 168 168 ASN ASN A . n A 1 156 PHE 156 169 169 PHE PHE A . n A 1 157 SER 157 170 170 SER SER A . n A 1 158 SER 158 171 171 SER SER A . n A 1 159 TYR 159 172 172 TYR TYR A . n A 1 160 LYS 160 173 173 LYS LYS A . n A 1 161 ILE 161 174 174 ILE ILE A . n A 1 162 SER 162 175 175 SER SER A . n A 1 163 LYS 163 176 176 LYS LYS A . n A 1 164 PRO 164 177 177 PRO PRO A . n A 1 165 PRO 165 178 ? ? ? A . n A 1 166 ALA 166 179 ? ? ? A . n A 1 167 SER 167 180 ? ? ? A . n A 1 168 ARG 168 181 ? ? ? A . n A 1 169 GLY 169 182 ? ? ? A . n A 1 170 SER 170 183 ? ? ? A . n A 1 171 SER 171 184 184 SER SER A . n A 1 172 SER 172 185 185 SER SER A . n A 1 173 GLU 173 186 186 GLU GLU A . n A 1 174 ILE 174 187 187 ILE ILE A . n A 1 175 TYR 175 188 188 TYR TYR A . n A 1 176 ILE 176 189 189 ILE ILE A . n A 1 177 MSE 177 190 190 MSE MSE A . n A 1 178 PHE 178 191 191 PHE PHE A . n A 1 179 PHE 179 192 192 PHE PHE A . n A 1 180 GLY 180 193 193 GLY GLY A . n A 1 181 PHE 181 194 194 PHE PHE A . n A 1 182 LYS 182 195 195 LYS LYS A . n A 1 183 ALA 183 196 196 ALA ALA A . n A 1 184 GLU 184 197 197 GLU GLU A . n A 1 185 GLY 185 198 ? ? ? A . n A 1 186 HIS 186 199 ? ? ? A . n A 1 187 HIS 187 200 ? ? ? A . n A 1 188 HIS 188 201 ? ? ? A . n A 1 189 HIS 189 202 ? ? ? A . n A 1 190 HIS 190 203 ? ? ? A . n A 1 191 HIS 191 204 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'New York SGX Research Center for Structural Genomics' _pdbx_SG_project.initial_of_center NYSGXRC # 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 SAM 1 1 1 SAM SAM A . C 3 HOH 1 205 1 HOH HOH A . C 3 HOH 2 206 2 HOH HOH A . C 3 HOH 3 207 3 HOH HOH A . C 3 HOH 4 208 4 HOH HOH A . C 3 HOH 5 209 7 HOH HOH A . C 3 HOH 6 210 10 HOH HOH A . C 3 HOH 7 211 11 HOH HOH A . C 3 HOH 8 212 12 HOH HOH A . C 3 HOH 9 213 15 HOH HOH A . C 3 HOH 10 214 17 HOH HOH A . C 3 HOH 11 215 18 HOH HOH A . C 3 HOH 12 216 19 HOH HOH A . C 3 HOH 13 217 20 HOH HOH A . C 3 HOH 14 218 22 HOH HOH A . C 3 HOH 15 219 23 HOH HOH A . C 3 HOH 16 220 24 HOH HOH A . C 3 HOH 17 221 26 HOH HOH A . C 3 HOH 18 222 27 HOH HOH A . C 3 HOH 19 223 28 HOH HOH A . C 3 HOH 20 224 29 HOH HOH A . C 3 HOH 21 225 30 HOH HOH A . C 3 HOH 22 226 31 HOH HOH A . C 3 HOH 23 227 32 HOH HOH A . C 3 HOH 24 228 33 HOH HOH A . C 3 HOH 25 229 34 HOH HOH A . C 3 HOH 26 230 35 HOH HOH A . C 3 HOH 27 231 36 HOH HOH A . C 3 HOH 28 232 37 HOH HOH A . C 3 HOH 29 233 40 HOH HOH A . C 3 HOH 30 234 41 HOH HOH A . C 3 HOH 31 235 42 HOH HOH A . C 3 HOH 32 236 43 HOH HOH A . C 3 HOH 33 237 44 HOH HOH A . C 3 HOH 34 238 45 HOH HOH A . C 3 HOH 35 239 46 HOH HOH A . C 3 HOH 36 240 47 HOH HOH A . C 3 HOH 37 241 48 HOH HOH A . C 3 HOH 38 242 49 HOH HOH A . C 3 HOH 39 243 50 HOH HOH A . C 3 HOH 40 244 51 HOH HOH A . C 3 HOH 41 245 52 HOH HOH A . C 3 HOH 42 246 55 HOH HOH A . C 3 HOH 43 247 56 HOH HOH A . C 3 HOH 44 248 57 HOH HOH A . C 3 HOH 45 249 58 HOH HOH A . C 3 HOH 46 250 59 HOH HOH A . C 3 HOH 47 251 60 HOH HOH A . C 3 HOH 48 252 61 HOH HOH A . C 3 HOH 49 253 62 HOH HOH A . C 3 HOH 50 254 63 HOH HOH A . C 3 HOH 51 255 65 HOH HOH A . C 3 HOH 52 256 66 HOH HOH A . C 3 HOH 53 257 67 HOH HOH A . C 3 HOH 54 258 68 HOH HOH A . C 3 HOH 55 259 69 HOH HOH A . C 3 HOH 56 260 70 HOH HOH A . C 3 HOH 57 261 71 HOH HOH A . C 3 HOH 58 262 72 HOH HOH A . C 3 HOH 59 263 73 HOH HOH A . C 3 HOH 60 264 74 HOH HOH A . C 3 HOH 61 265 75 HOH HOH A . C 3 HOH 62 266 76 HOH HOH A . C 3 HOH 63 267 77 HOH HOH A . C 3 HOH 64 268 79 HOH HOH A . C 3 HOH 65 269 80 HOH HOH A . C 3 HOH 66 270 81 HOH HOH A . C 3 HOH 67 271 82 HOH HOH A . C 3 HOH 68 272 83 HOH HOH A . C 3 HOH 69 273 86 HOH HOH A . C 3 HOH 70 274 87 HOH HOH A . C 3 HOH 71 275 88 HOH HOH A . C 3 HOH 72 276 91 HOH HOH A . C 3 HOH 73 277 92 HOH HOH A . C 3 HOH 74 278 93 HOH HOH A . C 3 HOH 75 279 95 HOH HOH A . C 3 HOH 76 280 96 HOH HOH A . C 3 HOH 77 281 97 HOH HOH A . C 3 HOH 78 282 98 HOH HOH A . C 3 HOH 79 283 99 HOH HOH A . C 3 HOH 80 284 101 HOH HOH A . C 3 HOH 81 285 102 HOH HOH A . C 3 HOH 82 286 103 HOH HOH A . C 3 HOH 83 287 105 HOH HOH A . C 3 HOH 84 288 106 HOH HOH A . C 3 HOH 85 289 107 HOH HOH A . C 3 HOH 86 290 110 HOH HOH A . C 3 HOH 87 291 111 HOH HOH A . C 3 HOH 88 292 113 HOH HOH A . C 3 HOH 89 293 114 HOH HOH A . C 3 HOH 90 294 115 HOH HOH A . C 3 HOH 91 295 116 HOH HOH A . C 3 HOH 92 296 117 HOH HOH A . C 3 HOH 93 297 118 HOH HOH A . C 3 HOH 94 298 119 HOH HOH A . C 3 HOH 95 299 120 HOH HOH A . C 3 HOH 96 300 121 HOH HOH A . C 3 HOH 97 301 122 HOH HOH A . C 3 HOH 98 302 123 HOH HOH A . C 3 HOH 99 303 125 HOH HOH A . C 3 HOH 100 304 126 HOH HOH A . C 3 HOH 101 305 128 HOH HOH A . C 3 HOH 102 306 129 HOH HOH A . C 3 HOH 103 307 131 HOH HOH A . C 3 HOH 104 308 133 HOH HOH A . C 3 HOH 105 309 135 HOH HOH A . C 3 HOH 106 310 137 HOH HOH A . C 3 HOH 107 311 139 HOH HOH A . C 3 HOH 108 312 141 HOH HOH A . C 3 HOH 109 313 142 HOH HOH A . C 3 HOH 110 314 143 HOH HOH A . C 3 HOH 111 315 144 HOH HOH A . C 3 HOH 112 316 145 HOH HOH A . C 3 HOH 113 317 147 HOH HOH A . C 3 HOH 114 318 151 HOH HOH A . C 3 HOH 115 319 154 HOH HOH A . C 3 HOH 116 320 155 HOH HOH A . C 3 HOH 117 321 159 HOH HOH A . C 3 HOH 118 322 160 HOH HOH A . C 3 HOH 119 323 161 HOH HOH A . C 3 HOH 120 324 162 HOH HOH A . C 3 HOH 121 325 163 HOH HOH A . C 3 HOH 122 326 164 HOH HOH A . C 3 HOH 123 327 165 HOH HOH A . C 3 HOH 124 328 167 HOH HOH A . C 3 HOH 125 329 168 HOH HOH A . C 3 HOH 126 330 169 HOH HOH A . C 3 HOH 127 331 171 HOH HOH A . C 3 HOH 128 332 172 HOH HOH A . C 3 HOH 129 333 173 HOH HOH A . C 3 HOH 130 334 174 HOH HOH A . C 3 HOH 131 335 175 HOH HOH A . C 3 HOH 132 336 176 HOH HOH A . C 3 HOH 133 337 177 HOH HOH A . C 3 HOH 134 338 178 HOH HOH A . C 3 HOH 135 339 179 HOH HOH A . C 3 HOH 136 340 180 HOH HOH A . C 3 HOH 137 341 181 HOH HOH A . C 3 HOH 138 342 182 HOH HOH A . C 3 HOH 139 343 183 HOH HOH A . C 3 HOH 140 344 184 HOH HOH A . C 3 HOH 141 345 185 HOH HOH A . C 3 HOH 142 346 186 HOH HOH A . C 3 HOH 143 347 187 HOH HOH A . C 3 HOH 144 348 188 HOH HOH A . C 3 HOH 145 349 189 HOH HOH A . C 3 HOH 146 350 190 HOH HOH A . C 3 HOH 147 351 191 HOH HOH A . C 3 HOH 148 352 192 HOH HOH A . C 3 HOH 149 353 193 HOH HOH A . C 3 HOH 150 354 194 HOH HOH A . C 3 HOH 151 355 195 HOH HOH A . C 3 HOH 152 356 196 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 58 A MSE 71 ? MET SELENOMETHIONINE 2 A MSE 100 A MSE 113 ? MET SELENOMETHIONINE 3 A MSE 122 A MSE 135 ? MET SELENOMETHIONINE 4 A MSE 144 A MSE 157 ? MET SELENOMETHIONINE 5 A MSE 177 A MSE 190 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 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 2008-09-02 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2018-11-14 4 'Structure model' 1 3 2021-02-10 # _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' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Structure summary' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' audit_author 2 4 'Structure model' audit_author 3 4 'Structure model' citation_author 4 4 'Structure model' struct_conn 5 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_audit_author.identifier_ORCID' 2 4 'Structure model' '_audit_author.identifier_ORCID' 3 4 'Structure model' '_citation_author.identifier_ORCID' 4 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 5 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 6 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 7 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal SHELXD phasing . ? 1 REFMAC refinement 5.2.0019 ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id LEU _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 59 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -133.75 _pdbx_validate_torsion.psi -45.34 # 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 14 ? A MSE 1 2 1 Y 1 A SER 15 ? A SER 2 3 1 Y 1 A LEU 16 ? A LEU 3 4 1 Y 1 A PRO 178 ? A PRO 165 5 1 Y 1 A ALA 179 ? A ALA 166 6 1 Y 1 A SER 180 ? A SER 167 7 1 Y 1 A ARG 181 ? A ARG 168 8 1 Y 1 A GLY 182 ? A GLY 169 9 1 Y 1 A SER 183 ? A SER 170 10 1 Y 1 A GLY 198 ? A GLY 185 11 1 Y 1 A HIS 199 ? A HIS 186 12 1 Y 1 A HIS 200 ? A HIS 187 13 1 Y 1 A HIS 201 ? A HIS 188 14 1 Y 1 A HIS 202 ? A HIS 189 15 1 Y 1 A HIS 203 ? A HIS 190 16 1 Y 1 A HIS 204 ? A HIS 191 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 S-ADENOSYLMETHIONINE SAM 3 water HOH #