data_3OFJ # _entry.id 3OFJ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 3OFJ pdb_00003ofj 10.2210/pdb3ofj/pdb RCSB RCSB061051 ? ? WWPDB D_1000061051 ? ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 3OFK _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3OFJ _pdbx_database_status.recvd_initial_deposition_date 2010-08-15 _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 ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Cakici, O.' 1 'Sikorski, M.' 2 'Stepkowski, T.' 3 'Bujacz, G.' 4 'Jaskolski, M.' 5 # loop_ _citation.id _citation.title _citation.journal_abbrev _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 _citation.book_publisher _citation.pdbx_database_id_PubMed _citation.pdbx_database_id_DOI primary 'Crystal Structures of NodS N-Methyltransferase from Bradyrhizobium japonicum in Ligand-Free Form and as SAH Complex.' J.Mol.Biol. 404 874 889 2010 JMOBAK UK 0022-2836 0070 ? 20970431 10.1016/j.jmb.2010.10.016 1 ;Cloning, expression, purification, crystallization and preliminary X-ray analysis of NodS N-methyltransferase from Bradyrhizobium japonicum WM9 ; 'Acta Crystallogr.,Sect.F' F64 1149 1152 2008 ? DK 1744-3091 ? ? 19052372 ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Cakici, O.' 1 ? primary 'Sikorski, M.' 2 ? primary 'Stepkowski, T.' 3 ? primary 'Bujacz, G.' 4 ? primary 'Jaskolski, M.' 5 ? 1 'Cakici, O.' 6 ? 1 'Sikorski, M.' 7 ? 1 'Stepkowski, T.' 8 ? 1 'Bujacz, G.' 9 ? 1 'Jaskolski, M.' 10 ? # _cell.entry_id 3OFJ _cell.length_a 48.700 _cell.length_b 48.700 _cell.length_c 141.530 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _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 3OFJ _symmetry.space_group_name_H-M 'P 43 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _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 'Nodulation protein S' 24152.400 1 2.1.1.- ? ? ? 2 water nat water 18.015 18 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;GIDPFTMVSVDNTYQSLERELANDDPWRLDDNPFERERHTQLLRLSLSSGAVSNGLEIGCAAGAFTEKLAPHCKRLTVID VMPRAIGRACQRTKRWSHISWAATDILQFSTAELFDLIVVAEVLYYLEDMTQMRTAIDNMVKMLAPGGHLVFGSARDATC RRWGHVAGAETVITILTEALTEVERVQCQGQSADEDCLLARFRNPERSSIRPDGRA ; _entity_poly.pdbx_seq_one_letter_code_can ;GIDPFTMVSVDNTYQSLERELANDDPWRLDDNPFERERHTQLLRLSLSSGAVSNGLEIGCAAGAFTEKLAPHCKRLTVID VMPRAIGRACQRTKRWSHISWAATDILQFSTAELFDLIVVAEVLYYLEDMTQMRTAIDNMVKMLAPGGHLVFGSARDATC RRWGHVAGAETVITILTEALTEVERVQCQGQSADEDCLLARFRNPERSSIRPDGRA ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # 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 ILE n 1 3 ASP n 1 4 PRO n 1 5 PHE n 1 6 THR n 1 7 MET n 1 8 VAL n 1 9 SER n 1 10 VAL n 1 11 ASP n 1 12 ASN n 1 13 THR n 1 14 TYR n 1 15 GLN n 1 16 SER n 1 17 LEU n 1 18 GLU n 1 19 ARG n 1 20 GLU n 1 21 LEU n 1 22 ALA n 1 23 ASN n 1 24 ASP n 1 25 ASP n 1 26 PRO n 1 27 TRP n 1 28 ARG n 1 29 LEU n 1 30 ASP n 1 31 ASP n 1 32 ASN n 1 33 PRO n 1 34 PHE n 1 35 GLU n 1 36 ARG n 1 37 GLU n 1 38 ARG n 1 39 HIS n 1 40 THR n 1 41 GLN n 1 42 LEU n 1 43 LEU n 1 44 ARG n 1 45 LEU n 1 46 SER n 1 47 LEU n 1 48 SER n 1 49 SER n 1 50 GLY n 1 51 ALA n 1 52 VAL n 1 53 SER n 1 54 ASN n 1 55 GLY n 1 56 LEU n 1 57 GLU n 1 58 ILE n 1 59 GLY n 1 60 CYS n 1 61 ALA n 1 62 ALA n 1 63 GLY n 1 64 ALA n 1 65 PHE n 1 66 THR n 1 67 GLU n 1 68 LYS n 1 69 LEU n 1 70 ALA n 1 71 PRO n 1 72 HIS n 1 73 CYS n 1 74 LYS n 1 75 ARG n 1 76 LEU n 1 77 THR n 1 78 VAL n 1 79 ILE n 1 80 ASP n 1 81 VAL n 1 82 MET n 1 83 PRO n 1 84 ARG n 1 85 ALA n 1 86 ILE n 1 87 GLY n 1 88 ARG n 1 89 ALA n 1 90 CYS n 1 91 GLN n 1 92 ARG n 1 93 THR n 1 94 LYS n 1 95 ARG n 1 96 TRP n 1 97 SER n 1 98 HIS n 1 99 ILE n 1 100 SER n 1 101 TRP n 1 102 ALA n 1 103 ALA n 1 104 THR n 1 105 ASP n 1 106 ILE n 1 107 LEU n 1 108 GLN n 1 109 PHE n 1 110 SER n 1 111 THR n 1 112 ALA n 1 113 GLU n 1 114 LEU n 1 115 PHE n 1 116 ASP n 1 117 LEU n 1 118 ILE n 1 119 VAL n 1 120 VAL n 1 121 ALA n 1 122 GLU n 1 123 VAL n 1 124 LEU n 1 125 TYR n 1 126 TYR n 1 127 LEU n 1 128 GLU n 1 129 ASP n 1 130 MET n 1 131 THR n 1 132 GLN n 1 133 MET n 1 134 ARG n 1 135 THR n 1 136 ALA n 1 137 ILE n 1 138 ASP n 1 139 ASN n 1 140 MET n 1 141 VAL n 1 142 LYS n 1 143 MET n 1 144 LEU n 1 145 ALA n 1 146 PRO n 1 147 GLY n 1 148 GLY n 1 149 HIS n 1 150 LEU n 1 151 VAL n 1 152 PHE n 1 153 GLY n 1 154 SER n 1 155 ALA n 1 156 ARG n 1 157 ASP n 1 158 ALA n 1 159 THR n 1 160 CYS n 1 161 ARG n 1 162 ARG n 1 163 TRP n 1 164 GLY n 1 165 HIS n 1 166 VAL n 1 167 ALA n 1 168 GLY n 1 169 ALA n 1 170 GLU n 1 171 THR n 1 172 VAL n 1 173 ILE n 1 174 THR n 1 175 ILE n 1 176 LEU n 1 177 THR n 1 178 GLU n 1 179 ALA n 1 180 LEU n 1 181 THR n 1 182 GLU n 1 183 VAL n 1 184 GLU n 1 185 ARG n 1 186 VAL n 1 187 GLN n 1 188 CYS n 1 189 GLN n 1 190 GLY n 1 191 GLN n 1 192 SER n 1 193 ALA n 1 194 ASP n 1 195 GLU n 1 196 ASP n 1 197 CYS n 1 198 LEU n 1 199 LEU n 1 200 ALA n 1 201 ARG n 1 202 PHE n 1 203 ARG n 1 204 ASN n 1 205 PRO n 1 206 GLU n 1 207 ARG n 1 208 SER n 1 209 SER n 1 210 ILE n 1 211 ARG n 1 212 PRO n 1 213 ASP n 1 214 GLY n 1 215 ARG n 1 216 ALA 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 nodS _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain WM9 _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ;The crystallized protein has a heptapeptide tag (GIDPFTM-) attached at the N-terminus (residues -6 through 0). The first codon of the nodS sequence (gtg) has been translated in this NodS protein as Val1, which is different from the Met1 residue occurring in NodS isolated from Bradyrhizobium japonicum WM9. The present protein is therefore a single-site variant of the natural polypeptide. ; _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Bradyrhizobium sp.' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 133505 _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 CODONPLUS(DE3)RIPL' _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 pET151/D-TOPO _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9AQ22_BRASW _struct_ref.pdbx_db_accession Q9AQ22 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SVDNTYQSLERELANDDPWRLDDNPFERERHTQLLRLSLSSGAVSNGLEIGCAAGAFTEKLAPHCKRLTVIDVMPRAIGR ACQRTKRWSHISWAATDILQFSTAELFDLIVVAEVLYYLEDMTQMRTAIDNMVKMLAPGGHLVFGSARDATCRRWGHVAG AETVITILTEALTEVERVQCQGQSADEDCLLARFRNPERSSIRPDGRA ; _struct_ref.pdbx_align_begin 2 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3OFJ _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 9 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 216 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9AQ22 _struct_ref_seq.db_align_beg 2 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 209 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 209 # 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 3OFJ GLY A 1 ? UNP Q9AQ22 ? ? 'expression tag' -6 1 1 3OFJ ILE A 2 ? UNP Q9AQ22 ? ? 'expression tag' -5 2 1 3OFJ ASP A 3 ? UNP Q9AQ22 ? ? 'expression tag' -4 3 1 3OFJ PRO A 4 ? UNP Q9AQ22 ? ? 'expression tag' -3 4 1 3OFJ PHE A 5 ? UNP Q9AQ22 ? ? 'expression tag' -2 5 1 3OFJ THR A 6 ? UNP Q9AQ22 ? ? 'expression tag' -1 6 1 3OFJ MET A 7 ? UNP Q9AQ22 ? ? 'expression tag' 0 7 1 3OFJ VAL A 8 ? UNP Q9AQ22 ? ? 'SEE REMARK 999' 1 8 # 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3OFJ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.74 _exptl_crystal.density_percent_sol 29.2 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 292 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.9 _exptl_crystal_grow.pdbx_details '28% PEG 3350, 0.1 M magnesium chloride, pH 7.9, VAPOR DIFFUSION, SITTING DROP, temperature 292K' _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 'MAR CCD 165 mm' _diffrn_detector.pdbx_collection_date 2007-12-10 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111)' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.8086 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'EMBL/DESY, HAMBURG BEAMLINE X13' _diffrn_source.pdbx_synchrotron_site 'EMBL/DESY, HAMBURG' _diffrn_source.pdbx_synchrotron_beamline X13 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.8086 # _reflns.entry_id 3OFJ _reflns.observed_criterion_sigma_I -3 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 20 _reflns.d_resolution_high 2.42 _reflns.number_obs 6954 _reflns.number_all ? _reflns.percent_possible_obs 99.6 _reflns.pdbx_Rmerge_I_obs 0.087 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 16.7 _reflns.B_iso_Wilson_estimate 59.1 _reflns.pdbx_redundancy 6.74 _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 # _reflns_shell.d_res_high 2.42 _reflns_shell.d_res_low 2.51 _reflns_shell.percent_possible_all 97.3 _reflns_shell.Rmerge_I_obs 0.440 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3OFJ _refine.ls_number_reflns_obs 5300 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I -3 _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 _refine.ls_d_res_high 2.43 _refine.ls_percent_reflns_obs ? _refine.ls_R_factor_obs 0.2127 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2033 _refine.ls_R_factor_R_free 0.2764 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 12.7 _refine.ls_number_reflns_R_free 768 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.941 _refine.correlation_coeff_Fo_to_Fc_free 0.901 _refine.B_iso_mean 80.922 _refine.aniso_B[1][1] -0.17 _refine.aniso_B[2][2] -0.17 _refine.aniso_B[3][3] 0.34 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method R-FREE _refine.details 'HYDROGEN ATOMS WERE ADDED AT RIDING POSITIONS' _refine.pdbx_starting_model 'NodS from NodS-SAH complex (3OFK)' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'Engh & Huber' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free 0.354 _refine.overall_SU_ML 0.247 _refine.overall_SU_B 24.485 _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _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_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 1326 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 18 _refine_hist.number_atoms_total 1344 _refine_hist.d_res_high 2.43 _refine_hist.d_res_low 20 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.018 0.021 ? 1349 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.843 1.949 ? 1837 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.905 5.000 ? 177 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 34.212 24.182 ? 55 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 18.855 15.000 ? 212 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 18.501 15.000 ? 8 'X-RAY DIFFRACTION' ? r_chiral_restr 0.114 0.200 ? 220 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.021 ? 1010 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.955 1.500 ? 883 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.934 2.500 ? 1406 'X-RAY DIFFRACTION' ? r_scbond_it 5.171 5.000 ? 466 'X-RAY DIFFRACTION' ? r_scangle_it 7.843 10.000 ? 431 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _struct.entry_id 3OFJ _struct.title 'Crystal structure of N-methyltransferase NodS from Bradyrhizobium japonicum WM9' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3OFJ _struct_keywords.pdbx_keywords TRANSFERASE _struct_keywords.text ;NODS, N-METHYLTRANSFERASE, SAH, SAM, NOD FACTOR, NODULATION, NITROGEN FIXATION, SYMBIOSIS, alpha/beta structure, variant of Rossmann fold, SAM-dependent N-methyltransferase, S-adenosyl-L-methionine (SAM), lipochitooligosaccharide, Methylation, 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 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 ASN A 32 ? SER A 48 ? ASN A 25 SER A 41 1 ? 17 HELX_P HELX_P2 2 GLY A 63 ? ALA A 70 ? GLY A 56 ALA A 63 1 ? 8 HELX_P HELX_P3 3 MET A 82 ? THR A 93 ? MET A 75 THR A 86 1 ? 12 HELX_P HELX_P4 4 ASP A 129 ? MET A 143 ? ASP A 122 MET A 136 1 ? 15 HELX_P HELX_P5 5 ARG A 156 ? ARG A 162 ? ARG A 149 ARG A 155 1 ? 7 HELX_P HELX_P6 6 GLY A 168 ? LEU A 180 ? GLY A 161 LEU A 173 1 ? 13 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _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 ILE A 99 ? ALA A 102 ? ILE A 92 ALA A 95 A 2 CYS A 73 ? ILE A 79 ? CYS A 66 ILE A 72 A 3 VAL A 52 ? ILE A 58 ? VAL A 45 ILE A 51 A 4 PHE A 115 ? VAL A 120 ? PHE A 108 VAL A 113 A 5 LEU A 144 ? ALA A 155 ? LEU A 137 ALA A 148 A 6 CYS A 197 ? ARG A 203 ? CYS A 190 ARG A 196 A 7 THR A 181 ? GLN A 187 ? THR A 174 GLN A 180 # 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 SER A 100 ? O SER A 93 N VAL A 78 ? N VAL A 71 A 2 3 O ARG A 75 ? O ARG A 68 N GLY A 55 ? N GLY A 48 A 3 4 N LEU A 56 ? N LEU A 49 O LEU A 117 ? O LEU A 110 A 4 5 N VAL A 120 ? N VAL A 113 O VAL A 151 ? O VAL A 144 A 5 6 N LEU A 150 ? N LEU A 143 O PHE A 202 ? O PHE A 195 A 6 7 O ARG A 201 ? O ARG A 194 N VAL A 183 ? N VAL A 176 # _database_PDB_matrix.entry_id 3OFJ _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 3OFJ _atom_sites.fract_transf_matrix[1][1] 0.020534 _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] 0.020534 _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] 0.007066 _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 # 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 -6 ? ? ? A . n A 1 2 ILE 2 -5 ? ? ? A . n A 1 3 ASP 3 -4 ? ? ? A . n A 1 4 PRO 4 -3 ? ? ? A . n A 1 5 PHE 5 -2 ? ? ? A . n A 1 6 THR 6 -1 ? ? ? A . n A 1 7 MET 7 0 ? ? ? A . n A 1 8 VAL 8 1 ? ? ? A . n A 1 9 SER 9 2 ? ? ? A . n A 1 10 VAL 10 3 ? ? ? A . n A 1 11 ASP 11 4 ? ? ? A . n A 1 12 ASN 12 5 ? ? ? A . n A 1 13 THR 13 6 ? ? ? A . n A 1 14 TYR 14 7 ? ? ? A . n A 1 15 GLN 15 8 ? ? ? A . n A 1 16 SER 16 9 ? ? ? A . n A 1 17 LEU 17 10 ? ? ? A . n A 1 18 GLU 18 11 ? ? ? A . n A 1 19 ARG 19 12 ? ? ? A . n A 1 20 GLU 20 13 ? ? ? A . n A 1 21 LEU 21 14 ? ? ? A . n A 1 22 ALA 22 15 ? ? ? A . n A 1 23 ASN 23 16 ? ? ? A . n A 1 24 ASP 24 17 ? ? ? A . n A 1 25 ASP 25 18 ? ? ? A . n A 1 26 PRO 26 19 ? ? ? A . n A 1 27 TRP 27 20 ? ? ? A . n A 1 28 ARG 28 21 ? ? ? A . n A 1 29 LEU 29 22 22 LEU LEU A . n A 1 30 ASP 30 23 23 ASP ASP A . n A 1 31 ASP 31 24 24 ASP ASP A . n A 1 32 ASN 32 25 25 ASN ASN A . n A 1 33 PRO 33 26 26 PRO PRO A . n A 1 34 PHE 34 27 27 PHE PHE A . n A 1 35 GLU 35 28 28 GLU GLU A . n A 1 36 ARG 36 29 29 ARG ARG A . n A 1 37 GLU 37 30 30 GLU GLU A . n A 1 38 ARG 38 31 31 ARG ARG A . n A 1 39 HIS 39 32 32 HIS HIS A . n A 1 40 THR 40 33 33 THR THR A . n A 1 41 GLN 41 34 34 GLN GLN A . n A 1 42 LEU 42 35 35 LEU LEU A . n A 1 43 LEU 43 36 36 LEU LEU A . n A 1 44 ARG 44 37 37 ARG ARG A . n A 1 45 LEU 45 38 38 LEU LEU A . n A 1 46 SER 46 39 39 SER SER A . n A 1 47 LEU 47 40 40 LEU LEU A . n A 1 48 SER 48 41 41 SER SER A . n A 1 49 SER 49 42 42 SER SER A . n A 1 50 GLY 50 43 43 GLY GLY A . n A 1 51 ALA 51 44 44 ALA ALA A . n A 1 52 VAL 52 45 45 VAL VAL A . n A 1 53 SER 53 46 46 SER SER A . n A 1 54 ASN 54 47 47 ASN ASN A . n A 1 55 GLY 55 48 48 GLY GLY A . n A 1 56 LEU 56 49 49 LEU LEU A . n A 1 57 GLU 57 50 50 GLU GLU A . n A 1 58 ILE 58 51 51 ILE ILE A . n A 1 59 GLY 59 52 52 GLY GLY A . n A 1 60 CYS 60 53 53 CYS CYS A . n A 1 61 ALA 61 54 54 ALA ALA A . n A 1 62 ALA 62 55 55 ALA ALA A . n A 1 63 GLY 63 56 56 GLY GLY A . n A 1 64 ALA 64 57 57 ALA ALA A . n A 1 65 PHE 65 58 58 PHE PHE A . n A 1 66 THR 66 59 59 THR THR A . n A 1 67 GLU 67 60 60 GLU GLU A . n A 1 68 LYS 68 61 61 LYS LYS A . n A 1 69 LEU 69 62 62 LEU LEU A . n A 1 70 ALA 70 63 63 ALA ALA A . n A 1 71 PRO 71 64 64 PRO PRO A . n A 1 72 HIS 72 65 65 HIS HIS A . n A 1 73 CYS 73 66 66 CYS CYS A . n A 1 74 LYS 74 67 67 LYS LYS A . n A 1 75 ARG 75 68 68 ARG ARG A . n A 1 76 LEU 76 69 69 LEU LEU A . n A 1 77 THR 77 70 70 THR THR A . n A 1 78 VAL 78 71 71 VAL VAL A . n A 1 79 ILE 79 72 72 ILE ILE A . n A 1 80 ASP 80 73 73 ASP ASP A . n A 1 81 VAL 81 74 74 VAL VAL A . n A 1 82 MET 82 75 75 MET MET A . n A 1 83 PRO 83 76 76 PRO PRO A . n A 1 84 ARG 84 77 77 ARG ARG A . n A 1 85 ALA 85 78 78 ALA ALA A . n A 1 86 ILE 86 79 79 ILE ILE A . n A 1 87 GLY 87 80 80 GLY GLY A . n A 1 88 ARG 88 81 81 ARG ARG A . n A 1 89 ALA 89 82 82 ALA ALA A . n A 1 90 CYS 90 83 83 CYS CYS A . n A 1 91 GLN 91 84 84 GLN GLN A . n A 1 92 ARG 92 85 85 ARG ARG A . n A 1 93 THR 93 86 86 THR THR A . n A 1 94 LYS 94 87 87 LYS LYS A . n A 1 95 ARG 95 88 88 ARG ARG A . n A 1 96 TRP 96 89 89 TRP TRP A . n A 1 97 SER 97 90 90 SER SER A . n A 1 98 HIS 98 91 91 HIS HIS A . n A 1 99 ILE 99 92 92 ILE ILE A . n A 1 100 SER 100 93 93 SER SER A . n A 1 101 TRP 101 94 94 TRP TRP A . n A 1 102 ALA 102 95 95 ALA ALA A . n A 1 103 ALA 103 96 96 ALA ALA A . n A 1 104 THR 104 97 97 THR THR A . n A 1 105 ASP 105 98 98 ASP ASP A . n A 1 106 ILE 106 99 99 ILE ILE A . n A 1 107 LEU 107 100 100 LEU LEU A . n A 1 108 GLN 108 101 101 GLN GLN A . n A 1 109 PHE 109 102 102 PHE PHE A . n A 1 110 SER 110 103 103 SER SER A . n A 1 111 THR 111 104 104 THR THR A . n A 1 112 ALA 112 105 105 ALA ALA A . n A 1 113 GLU 113 106 106 GLU GLU A . n A 1 114 LEU 114 107 107 LEU LEU A . n A 1 115 PHE 115 108 108 PHE PHE A . n A 1 116 ASP 116 109 109 ASP ASP A . n A 1 117 LEU 117 110 110 LEU LEU A . n A 1 118 ILE 118 111 111 ILE ILE A . n A 1 119 VAL 119 112 112 VAL VAL A . n A 1 120 VAL 120 113 113 VAL VAL A . n A 1 121 ALA 121 114 114 ALA ALA A . n A 1 122 GLU 122 115 115 GLU GLU A . n A 1 123 VAL 123 116 116 VAL VAL A . n A 1 124 LEU 124 117 117 LEU LEU A . n A 1 125 TYR 125 118 118 TYR TYR A . n A 1 126 TYR 126 119 119 TYR TYR A . n A 1 127 LEU 127 120 120 LEU LEU A . n A 1 128 GLU 128 121 121 GLU GLU A . n A 1 129 ASP 129 122 122 ASP ASP A . n A 1 130 MET 130 123 123 MET MET A . n A 1 131 THR 131 124 124 THR THR A . n A 1 132 GLN 132 125 125 GLN GLN A . n A 1 133 MET 133 126 126 MET MET A . n A 1 134 ARG 134 127 127 ARG ARG A . n A 1 135 THR 135 128 128 THR THR A . n A 1 136 ALA 136 129 129 ALA ALA A . n A 1 137 ILE 137 130 130 ILE ILE A . n A 1 138 ASP 138 131 131 ASP ASP A . n A 1 139 ASN 139 132 132 ASN ASN A . n A 1 140 MET 140 133 133 MET MET A . n A 1 141 VAL 141 134 134 VAL VAL A . n A 1 142 LYS 142 135 135 LYS LYS A . n A 1 143 MET 143 136 136 MET MET A . n A 1 144 LEU 144 137 137 LEU LEU A . n A 1 145 ALA 145 138 138 ALA ALA A . n A 1 146 PRO 146 139 139 PRO PRO A . n A 1 147 GLY 147 140 140 GLY GLY A . n A 1 148 GLY 148 141 141 GLY GLY A . n A 1 149 HIS 149 142 142 HIS HIS A . n A 1 150 LEU 150 143 143 LEU LEU A . n A 1 151 VAL 151 144 144 VAL VAL A . n A 1 152 PHE 152 145 145 PHE PHE A . n A 1 153 GLY 153 146 146 GLY GLY A . n A 1 154 SER 154 147 147 SER SER A . n A 1 155 ALA 155 148 148 ALA ALA A . n A 1 156 ARG 156 149 149 ARG ARG A . n A 1 157 ASP 157 150 150 ASP ASP A . n A 1 158 ALA 158 151 151 ALA ALA A . n A 1 159 THR 159 152 152 THR THR A . n A 1 160 CYS 160 153 153 CYS CYS A . n A 1 161 ARG 161 154 154 ARG ARG A . n A 1 162 ARG 162 155 155 ARG ARG A . n A 1 163 TRP 163 156 156 TRP TRP A . n A 1 164 GLY 164 157 157 GLY GLY A . n A 1 165 HIS 165 158 158 HIS HIS A . n A 1 166 VAL 166 159 159 VAL VAL A . n A 1 167 ALA 167 160 160 ALA ALA A . n A 1 168 GLY 168 161 161 GLY GLY A . n A 1 169 ALA 169 162 162 ALA ALA A . n A 1 170 GLU 170 163 163 GLU GLU A . n A 1 171 THR 171 164 164 THR THR A . n A 1 172 VAL 172 165 165 VAL VAL A . n A 1 173 ILE 173 166 166 ILE ILE A . n A 1 174 THR 174 167 167 THR THR A . n A 1 175 ILE 175 168 168 ILE ILE A . n A 1 176 LEU 176 169 169 LEU LEU A . n A 1 177 THR 177 170 170 THR THR A . n A 1 178 GLU 178 171 171 GLU GLU A . n A 1 179 ALA 179 172 172 ALA ALA A . n A 1 180 LEU 180 173 173 LEU LEU A . n A 1 181 THR 181 174 174 THR THR A . n A 1 182 GLU 182 175 175 GLU GLU A . n A 1 183 VAL 183 176 176 VAL VAL A . n A 1 184 GLU 184 177 177 GLU GLU A . n A 1 185 ARG 185 178 178 ARG ARG A . n A 1 186 VAL 186 179 179 VAL VAL A . n A 1 187 GLN 187 180 180 GLN GLN A . n A 1 188 CYS 188 181 181 CYS CYS A . n A 1 189 GLN 189 182 182 GLN GLN A . n A 1 190 GLY 190 183 183 GLY GLY A . n A 1 191 GLN 191 184 184 GLN GLN A . n A 1 192 SER 192 185 185 SER SER A . n A 1 193 ALA 193 186 186 ALA ALA A . n A 1 194 ASP 194 187 187 ASP ASP A . n A 1 195 GLU 195 188 188 GLU GLU A . n A 1 196 ASP 196 189 189 ASP ASP A . n A 1 197 CYS 197 190 190 CYS CYS A . n A 1 198 LEU 198 191 191 LEU LEU A . n A 1 199 LEU 199 192 192 LEU LEU A . n A 1 200 ALA 200 193 193 ALA ALA A . n A 1 201 ARG 201 194 194 ARG ARG A . n A 1 202 PHE 202 195 195 PHE PHE A . n A 1 203 ARG 203 196 196 ARG ARG A . n A 1 204 ASN 204 197 197 ASN ASN A . n A 1 205 PRO 205 198 198 PRO PRO A . n A 1 206 GLU 206 199 199 GLU GLU A . n A 1 207 ARG 207 200 ? ? ? A . n A 1 208 SER 208 201 ? ? ? A . n A 1 209 SER 209 202 ? ? ? A . n A 1 210 ILE 210 203 ? ? ? A . n A 1 211 ARG 211 204 ? ? ? A . n A 1 212 PRO 212 205 ? ? ? A . n A 1 213 ASP 213 206 ? ? ? A . n A 1 214 GLY 214 207 ? ? ? A . n A 1 215 ARG 215 208 ? ? ? A . n A 1 216 ALA 216 209 ? ? ? A . n # 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 HOH 1 210 210 HOH HOH A . B 2 HOH 2 211 211 HOH HOH A . B 2 HOH 3 212 212 HOH HOH A . B 2 HOH 4 213 213 HOH HOH A . B 2 HOH 5 214 214 HOH HOH A . B 2 HOH 6 215 215 HOH HOH A . B 2 HOH 7 216 216 HOH HOH A . B 2 HOH 8 217 217 HOH HOH A . B 2 HOH 9 218 218 HOH HOH A . B 2 HOH 10 219 219 HOH HOH A . B 2 HOH 11 220 220 HOH HOH A . B 2 HOH 12 221 221 HOH HOH A . B 2 HOH 13 222 222 HOH HOH A . B 2 HOH 14 223 223 HOH HOH A . B 2 HOH 15 224 224 HOH HOH A . B 2 HOH 16 225 225 HOH HOH A . B 2 HOH 17 226 226 HOH HOH A . B 2 HOH 18 227 227 HOH HOH A . # _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 # _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 2010-10-27 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2023-09-06 # _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' 'Data collection' 4 3 'Structure model' 'Database references' 5 3 'Structure model' 'Refinement description' # 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' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' diffrn_source 5 3 'Structure model' pdbx_initial_refinement_model 6 3 'Structure model' struct_ref_seq_dif # 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' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_diffrn_source.pdbx_synchrotron_site' 4 3 'Structure model' '_struct_ref_seq_dif.details' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 24.6700 -6.4620 14.4400 0.0900 0.1702 0.1848 -0.0695 -0.0170 -0.0134 1.9812 2.5085 6.7102 -1.6537 -0.3671 0.6468 0.0879 -0.2462 -0.1445 0.1253 -0.1554 0.1820 0.1543 -0.4388 0.0676 'X-RAY DIFFRACTION' 2 ? refined 15.2460 4.3720 16.0560 0.4888 0.3152 0.3786 0.0895 -0.0226 -0.0694 9.4427 3.0226 6.3916 0.1398 -0.7700 0.5865 0.1961 -0.2794 -0.1363 0.1798 -0.1608 0.4442 0.0011 -0.7893 -0.0352 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 22 ? ? A 148 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 149 ? ? A 199 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345dtb 'data collection' . ? 1 PHASER phasing . ? 2 REFMAC refinement 5.5.0072 ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _pdbx_entry_details.entry_id 3OFJ _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THE AUTHORS STATE THAT VAL1 IS THE FIRST RESIDUE OF THE PROTEIN SEQUENCE AND CORRESPONDS TO STANDARD TRANSLATION OF THE GTG CODON AS VALINE, EVEN THOUGH IN THE SEQUENCE DATABASE REFERENCE THIS POSITION IS OCCUPIED BY METHIONINE. ; _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ALA A 54 ? ? 46.70 -124.34 2 1 LYS A 87 ? ? -39.70 -35.78 3 1 ARG A 149 ? ? -57.65 173.90 4 1 CYS A 181 ? ? -113.16 65.79 5 1 GLN A 182 ? ? -66.51 85.97 6 1 GLN A 184 ? ? -89.97 -80.65 7 1 SER A 185 ? ? -70.99 -158.64 # 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 ARG 29 ? CG ? A ARG 36 CG 2 1 Y 1 A ARG 29 ? CD ? A ARG 36 CD 3 1 Y 1 A ARG 29 ? NE ? A ARG 36 NE 4 1 Y 1 A ARG 29 ? CZ ? A ARG 36 CZ 5 1 Y 1 A ARG 29 ? NH1 ? A ARG 36 NH1 6 1 Y 1 A ARG 29 ? NH2 ? A ARG 36 NH2 7 1 Y 1 A ARG 68 ? CG ? A ARG 75 CG 8 1 Y 1 A ARG 68 ? CD ? A ARG 75 CD 9 1 Y 1 A ARG 68 ? NE ? A ARG 75 NE 10 1 Y 1 A ARG 68 ? CZ ? A ARG 75 CZ 11 1 Y 1 A ARG 68 ? NH1 ? A ARG 75 NH1 12 1 Y 1 A ARG 68 ? NH2 ? A ARG 75 NH2 13 1 Y 1 A ARG 77 ? CG ? A ARG 84 CG 14 1 Y 1 A ARG 77 ? CD ? A ARG 84 CD 15 1 Y 1 A ARG 77 ? NE ? A ARG 84 NE 16 1 Y 1 A ARG 77 ? CZ ? A ARG 84 CZ 17 1 Y 1 A ARG 77 ? NH1 ? A ARG 84 NH1 18 1 Y 1 A ARG 77 ? NH2 ? A ARG 84 NH2 19 1 Y 1 A ARG 81 ? CG ? A ARG 88 CG 20 1 Y 1 A ARG 81 ? CD ? A ARG 88 CD 21 1 Y 1 A ARG 81 ? NE ? A ARG 88 NE 22 1 Y 1 A ARG 81 ? CZ ? A ARG 88 CZ 23 1 Y 1 A ARG 81 ? NH1 ? A ARG 88 NH1 24 1 Y 1 A ARG 81 ? NH2 ? A ARG 88 NH2 25 1 Y 1 A LYS 87 ? CG ? A LYS 94 CG 26 1 Y 1 A LYS 87 ? CD ? A LYS 94 CD 27 1 Y 1 A LYS 87 ? CE ? A LYS 94 CE 28 1 Y 1 A LYS 87 ? NZ ? A LYS 94 NZ 29 1 Y 1 A GLU 106 ? CG ? A GLU 113 CG 30 1 Y 1 A GLU 106 ? CD ? A GLU 113 CD 31 1 Y 1 A GLU 106 ? OE1 ? A GLU 113 OE1 32 1 Y 1 A GLU 106 ? OE2 ? A GLU 113 OE2 33 1 Y 1 A ARG 149 ? CG ? A ARG 156 CG 34 1 Y 1 A ARG 149 ? CD ? A ARG 156 CD 35 1 Y 1 A ARG 149 ? NE ? A ARG 156 NE 36 1 Y 1 A ARG 149 ? CZ ? A ARG 156 CZ 37 1 Y 1 A ARG 149 ? NH1 ? A ARG 156 NH1 38 1 Y 1 A ARG 149 ? NH2 ? A ARG 156 NH2 39 1 Y 1 A ARG 154 ? CG ? A ARG 161 CG 40 1 Y 1 A ARG 154 ? CD ? A ARG 161 CD 41 1 Y 1 A ARG 154 ? NE ? A ARG 161 NE 42 1 Y 1 A ARG 154 ? CZ ? A ARG 161 CZ 43 1 Y 1 A ARG 154 ? NH1 ? A ARG 161 NH1 44 1 Y 1 A ARG 154 ? NH2 ? A ARG 161 NH2 45 1 Y 1 A ARG 155 ? CG ? A ARG 162 CG 46 1 Y 1 A ARG 155 ? CD ? A ARG 162 CD 47 1 Y 1 A ARG 155 ? NE ? A ARG 162 NE 48 1 Y 1 A ARG 155 ? CZ ? A ARG 162 CZ 49 1 Y 1 A ARG 155 ? NH1 ? A ARG 162 NH1 50 1 Y 1 A ARG 155 ? NH2 ? A ARG 162 NH2 51 1 Y 1 A GLN 184 ? CG ? A GLN 191 CG 52 1 Y 1 A GLN 184 ? CD ? A GLN 191 CD 53 1 Y 1 A GLN 184 ? OE1 ? A GLN 191 OE1 54 1 Y 1 A GLN 184 ? NE2 ? A GLN 191 NE2 55 1 Y 1 A ASP 189 ? CG ? A ASP 196 CG 56 1 Y 1 A ASP 189 ? OD1 ? A ASP 196 OD1 57 1 Y 1 A ASP 189 ? OD2 ? A ASP 196 OD2 # 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 GLY -6 ? A GLY 1 2 1 Y 1 A ILE -5 ? A ILE 2 3 1 Y 1 A ASP -4 ? A ASP 3 4 1 Y 1 A PRO -3 ? A PRO 4 5 1 Y 1 A PHE -2 ? A PHE 5 6 1 Y 1 A THR -1 ? A THR 6 7 1 Y 1 A MET 0 ? A MET 7 8 1 Y 1 A VAL 1 ? A VAL 8 9 1 Y 1 A SER 2 ? A SER 9 10 1 Y 1 A VAL 3 ? A VAL 10 11 1 Y 1 A ASP 4 ? A ASP 11 12 1 Y 1 A ASN 5 ? A ASN 12 13 1 Y 1 A THR 6 ? A THR 13 14 1 Y 1 A TYR 7 ? A TYR 14 15 1 Y 1 A GLN 8 ? A GLN 15 16 1 Y 1 A SER 9 ? A SER 16 17 1 Y 1 A LEU 10 ? A LEU 17 18 1 Y 1 A GLU 11 ? A GLU 18 19 1 Y 1 A ARG 12 ? A ARG 19 20 1 Y 1 A GLU 13 ? A GLU 20 21 1 Y 1 A LEU 14 ? A LEU 21 22 1 Y 1 A ALA 15 ? A ALA 22 23 1 Y 1 A ASN 16 ? A ASN 23 24 1 Y 1 A ASP 17 ? A ASP 24 25 1 Y 1 A ASP 18 ? A ASP 25 26 1 Y 1 A PRO 19 ? A PRO 26 27 1 Y 1 A TRP 20 ? A TRP 27 28 1 Y 1 A ARG 21 ? A ARG 28 29 1 Y 1 A ARG 200 ? A ARG 207 30 1 Y 1 A SER 201 ? A SER 208 31 1 Y 1 A SER 202 ? A SER 209 32 1 Y 1 A ILE 203 ? A ILE 210 33 1 Y 1 A ARG 204 ? A ARG 211 34 1 Y 1 A PRO 205 ? A PRO 212 35 1 Y 1 A ASP 206 ? A ASP 213 36 1 Y 1 A GLY 207 ? A GLY 214 37 1 Y 1 A ARG 208 ? A ARG 215 38 1 Y 1 A ALA 209 ? A ALA 216 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 HIS N N N N 137 HIS CA C N S 138 HIS C C N N 139 HIS O O N N 140 HIS CB C N N 141 HIS CG C Y N 142 HIS ND1 N Y N 143 HIS CD2 C Y N 144 HIS CE1 C Y N 145 HIS NE2 N Y N 146 HIS OXT O N N 147 HIS H H N N 148 HIS H2 H N N 149 HIS HA H N N 150 HIS HB2 H N N 151 HIS HB3 H N N 152 HIS HD1 H N N 153 HIS HD2 H N N 154 HIS HE1 H N N 155 HIS HE2 H N N 156 HIS HXT H N N 157 HOH O O N N 158 HOH H1 H N N 159 HOH H2 H N N 160 ILE N N N N 161 ILE CA C N S 162 ILE C C N N 163 ILE O O N N 164 ILE CB C N S 165 ILE CG1 C N N 166 ILE CG2 C N N 167 ILE CD1 C N N 168 ILE OXT O N N 169 ILE H H N N 170 ILE H2 H N N 171 ILE HA H N N 172 ILE HB H N N 173 ILE HG12 H N N 174 ILE HG13 H N N 175 ILE HG21 H N N 176 ILE HG22 H N N 177 ILE HG23 H N N 178 ILE HD11 H N N 179 ILE HD12 H N N 180 ILE HD13 H N N 181 ILE HXT H N N 182 LEU N N N N 183 LEU CA C N S 184 LEU C C N N 185 LEU O O N N 186 LEU CB C N N 187 LEU CG C N N 188 LEU CD1 C N N 189 LEU CD2 C N N 190 LEU OXT O N N 191 LEU H H N N 192 LEU H2 H N N 193 LEU HA H N N 194 LEU HB2 H N N 195 LEU HB3 H N N 196 LEU HG H N N 197 LEU HD11 H N N 198 LEU HD12 H N N 199 LEU HD13 H N N 200 LEU HD21 H N N 201 LEU HD22 H N N 202 LEU HD23 H N N 203 LEU HXT H N N 204 LYS N N N N 205 LYS CA C N S 206 LYS C C N N 207 LYS O O N N 208 LYS CB C N N 209 LYS CG C N N 210 LYS CD C N N 211 LYS CE C N N 212 LYS NZ N N N 213 LYS OXT O N N 214 LYS H H N N 215 LYS H2 H N N 216 LYS HA H N N 217 LYS HB2 H N N 218 LYS HB3 H N N 219 LYS HG2 H N N 220 LYS HG3 H N N 221 LYS HD2 H N N 222 LYS HD3 H N N 223 LYS HE2 H N N 224 LYS HE3 H N N 225 LYS HZ1 H N N 226 LYS HZ2 H N N 227 LYS HZ3 H N N 228 LYS HXT H N N 229 MET N N N N 230 MET CA C N S 231 MET C C N N 232 MET O O N N 233 MET CB C N N 234 MET CG C N N 235 MET SD S N N 236 MET CE C N N 237 MET OXT O N N 238 MET H H N N 239 MET H2 H N N 240 MET HA H N N 241 MET HB2 H N N 242 MET HB3 H N N 243 MET HG2 H N N 244 MET HG3 H N N 245 MET HE1 H N N 246 MET HE2 H N N 247 MET HE3 H N N 248 MET HXT H N N 249 PHE N N N N 250 PHE CA C N S 251 PHE C C N N 252 PHE O O N N 253 PHE CB C N N 254 PHE CG C Y N 255 PHE CD1 C Y N 256 PHE CD2 C Y N 257 PHE CE1 C Y N 258 PHE CE2 C Y N 259 PHE CZ C Y N 260 PHE OXT O N N 261 PHE H H N N 262 PHE H2 H N N 263 PHE HA H N N 264 PHE HB2 H N N 265 PHE HB3 H N N 266 PHE HD1 H N N 267 PHE HD2 H N N 268 PHE HE1 H N N 269 PHE HE2 H N N 270 PHE HZ H N N 271 PHE HXT H N N 272 PRO N N N N 273 PRO CA C N S 274 PRO C C N N 275 PRO O O N N 276 PRO CB C N N 277 PRO CG C N N 278 PRO CD C N N 279 PRO OXT O N N 280 PRO H H N N 281 PRO HA H N N 282 PRO HB2 H N N 283 PRO HB3 H N N 284 PRO HG2 H N N 285 PRO HG3 H N N 286 PRO HD2 H N N 287 PRO HD3 H N N 288 PRO HXT H N N 289 SER N N N N 290 SER CA C N S 291 SER C C N N 292 SER O O N N 293 SER CB C N N 294 SER OG O N N 295 SER OXT O N N 296 SER H H N N 297 SER H2 H N N 298 SER HA H N N 299 SER HB2 H N N 300 SER HB3 H N N 301 SER HG H N N 302 SER HXT H N N 303 THR N N N N 304 THR CA C N S 305 THR C C N N 306 THR O O N N 307 THR CB C N R 308 THR OG1 O N N 309 THR CG2 C N N 310 THR OXT O N N 311 THR H H N N 312 THR H2 H N N 313 THR HA H N N 314 THR HB H N N 315 THR HG1 H N N 316 THR HG21 H N N 317 THR HG22 H N N 318 THR HG23 H N N 319 THR HXT H N N 320 TRP N N N N 321 TRP CA C N S 322 TRP C C N N 323 TRP O O N N 324 TRP CB C N N 325 TRP CG C Y N 326 TRP CD1 C Y N 327 TRP CD2 C Y N 328 TRP NE1 N Y N 329 TRP CE2 C Y N 330 TRP CE3 C Y N 331 TRP CZ2 C Y N 332 TRP CZ3 C Y N 333 TRP CH2 C Y N 334 TRP OXT O N N 335 TRP H H N N 336 TRP H2 H N N 337 TRP HA H N N 338 TRP HB2 H N N 339 TRP HB3 H N N 340 TRP HD1 H N N 341 TRP HE1 H N N 342 TRP HE3 H N N 343 TRP HZ2 H N N 344 TRP HZ3 H N N 345 TRP HH2 H N N 346 TRP HXT H N N 347 TYR N N N N 348 TYR CA C N S 349 TYR C C N N 350 TYR O O N N 351 TYR CB C N N 352 TYR CG C Y N 353 TYR CD1 C Y N 354 TYR CD2 C Y N 355 TYR CE1 C Y N 356 TYR CE2 C Y N 357 TYR CZ C Y N 358 TYR OH O N N 359 TYR OXT O N N 360 TYR H H N N 361 TYR H2 H N N 362 TYR HA H N N 363 TYR HB2 H N N 364 TYR HB3 H N N 365 TYR HD1 H N N 366 TYR HD2 H N N 367 TYR HE1 H N N 368 TYR HE2 H N N 369 TYR HH H N N 370 TYR HXT H N N 371 VAL N N N N 372 VAL CA C N S 373 VAL C C N N 374 VAL O O N N 375 VAL CB C N N 376 VAL CG1 C N N 377 VAL CG2 C N N 378 VAL OXT O N N 379 VAL H H N N 380 VAL H2 H N N 381 VAL HA H N N 382 VAL HB H N N 383 VAL HG11 H N N 384 VAL HG12 H N N 385 VAL HG13 H N N 386 VAL HG21 H N N 387 VAL HG22 H N N 388 VAL HG23 H N N 389 VAL HXT H N N 390 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 HIS N CA sing N N 129 HIS N H sing N N 130 HIS N H2 sing N N 131 HIS CA C sing N N 132 HIS CA CB sing N N 133 HIS CA HA sing N N 134 HIS C O doub N N 135 HIS C OXT sing N N 136 HIS CB CG sing N N 137 HIS CB HB2 sing N N 138 HIS CB HB3 sing N N 139 HIS CG ND1 sing Y N 140 HIS CG CD2 doub Y N 141 HIS ND1 CE1 doub Y N 142 HIS ND1 HD1 sing N N 143 HIS CD2 NE2 sing Y N 144 HIS CD2 HD2 sing N N 145 HIS CE1 NE2 sing Y N 146 HIS CE1 HE1 sing N N 147 HIS NE2 HE2 sing N N 148 HIS OXT HXT sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 ILE N CA sing N N 152 ILE N H sing N N 153 ILE N H2 sing N N 154 ILE CA C sing N N 155 ILE CA CB sing N N 156 ILE CA HA sing N N 157 ILE C O doub N N 158 ILE C OXT sing N N 159 ILE CB CG1 sing N N 160 ILE CB CG2 sing N N 161 ILE CB HB sing N N 162 ILE CG1 CD1 sing N N 163 ILE CG1 HG12 sing N N 164 ILE CG1 HG13 sing N N 165 ILE CG2 HG21 sing N N 166 ILE CG2 HG22 sing N N 167 ILE CG2 HG23 sing N N 168 ILE CD1 HD11 sing N N 169 ILE CD1 HD12 sing N N 170 ILE CD1 HD13 sing N N 171 ILE OXT HXT sing N N 172 LEU N CA sing N N 173 LEU N H sing N N 174 LEU N H2 sing N N 175 LEU CA C sing N N 176 LEU CA CB sing N N 177 LEU CA HA sing N N 178 LEU C O doub N N 179 LEU C OXT sing N N 180 LEU CB CG sing N N 181 LEU CB HB2 sing N N 182 LEU CB HB3 sing N N 183 LEU CG CD1 sing N N 184 LEU CG CD2 sing N N 185 LEU CG HG sing N N 186 LEU CD1 HD11 sing N N 187 LEU CD1 HD12 sing N N 188 LEU CD1 HD13 sing N N 189 LEU CD2 HD21 sing N N 190 LEU CD2 HD22 sing N N 191 LEU CD2 HD23 sing N N 192 LEU OXT HXT sing N N 193 LYS N CA sing N N 194 LYS N H sing N N 195 LYS N H2 sing N N 196 LYS CA C sing N N 197 LYS CA CB sing N N 198 LYS CA HA sing N N 199 LYS C O doub N N 200 LYS C OXT sing N N 201 LYS CB CG sing N N 202 LYS CB HB2 sing N N 203 LYS CB HB3 sing N N 204 LYS CG CD sing N N 205 LYS CG HG2 sing N N 206 LYS CG HG3 sing N N 207 LYS CD CE sing N N 208 LYS CD HD2 sing N N 209 LYS CD HD3 sing N N 210 LYS CE NZ sing N N 211 LYS CE HE2 sing N N 212 LYS CE HE3 sing N N 213 LYS NZ HZ1 sing N N 214 LYS NZ HZ2 sing N N 215 LYS NZ HZ3 sing N N 216 LYS OXT HXT sing N N 217 MET N CA sing N N 218 MET N H sing N N 219 MET N H2 sing N N 220 MET CA C sing N N 221 MET CA CB sing N N 222 MET CA HA sing N N 223 MET C O doub N N 224 MET C OXT sing N N 225 MET CB CG sing N N 226 MET CB HB2 sing N N 227 MET CB HB3 sing N N 228 MET CG SD sing N N 229 MET CG HG2 sing N N 230 MET CG HG3 sing N N 231 MET SD CE sing N N 232 MET CE HE1 sing N N 233 MET CE HE2 sing N N 234 MET CE HE3 sing N N 235 MET OXT HXT sing N N 236 PHE N CA sing N N 237 PHE N H sing N N 238 PHE N H2 sing N N 239 PHE CA C sing N N 240 PHE CA CB sing N N 241 PHE CA HA sing N N 242 PHE C O doub N N 243 PHE C OXT sing N N 244 PHE CB CG sing N N 245 PHE CB HB2 sing N N 246 PHE CB HB3 sing N N 247 PHE CG CD1 doub Y N 248 PHE CG CD2 sing Y N 249 PHE CD1 CE1 sing Y N 250 PHE CD1 HD1 sing N N 251 PHE CD2 CE2 doub Y N 252 PHE CD2 HD2 sing N N 253 PHE CE1 CZ doub Y N 254 PHE CE1 HE1 sing N N 255 PHE CE2 CZ sing Y N 256 PHE CE2 HE2 sing N N 257 PHE CZ HZ sing N N 258 PHE OXT HXT sing N N 259 PRO N CA sing N N 260 PRO N CD sing N N 261 PRO N H sing N N 262 PRO CA C sing N N 263 PRO CA CB sing N N 264 PRO CA HA sing N N 265 PRO C O doub N N 266 PRO C OXT sing N N 267 PRO CB CG sing N N 268 PRO CB HB2 sing N N 269 PRO CB HB3 sing N N 270 PRO CG CD sing N N 271 PRO CG HG2 sing N N 272 PRO CG HG3 sing N N 273 PRO CD HD2 sing N N 274 PRO CD HD3 sing N N 275 PRO OXT HXT sing N N 276 SER N CA sing N N 277 SER N H sing N N 278 SER N H2 sing N N 279 SER CA C sing N N 280 SER CA CB sing N N 281 SER CA HA sing N N 282 SER C O doub N N 283 SER C OXT sing N N 284 SER CB OG sing N N 285 SER CB HB2 sing N N 286 SER CB HB3 sing N N 287 SER OG HG sing N N 288 SER OXT HXT sing N N 289 THR N CA sing N N 290 THR N H sing N N 291 THR N H2 sing N N 292 THR CA C sing N N 293 THR CA CB sing N N 294 THR CA HA sing N N 295 THR C O doub N N 296 THR C OXT sing N N 297 THR CB OG1 sing N N 298 THR CB CG2 sing N N 299 THR CB HB sing N N 300 THR OG1 HG1 sing N N 301 THR CG2 HG21 sing N N 302 THR CG2 HG22 sing N N 303 THR CG2 HG23 sing N N 304 THR OXT HXT sing N N 305 TRP N CA sing N N 306 TRP N H sing N N 307 TRP N H2 sing N N 308 TRP CA C sing N N 309 TRP CA CB sing N N 310 TRP CA HA sing N N 311 TRP C O doub N N 312 TRP C OXT sing N N 313 TRP CB CG sing N N 314 TRP CB HB2 sing N N 315 TRP CB HB3 sing N N 316 TRP CG CD1 doub Y N 317 TRP CG CD2 sing Y N 318 TRP CD1 NE1 sing Y N 319 TRP CD1 HD1 sing N N 320 TRP CD2 CE2 doub Y N 321 TRP CD2 CE3 sing Y N 322 TRP NE1 CE2 sing Y N 323 TRP NE1 HE1 sing N N 324 TRP CE2 CZ2 sing Y N 325 TRP CE3 CZ3 doub Y N 326 TRP CE3 HE3 sing N N 327 TRP CZ2 CH2 doub Y N 328 TRP CZ2 HZ2 sing N N 329 TRP CZ3 CH2 sing Y N 330 TRP CZ3 HZ3 sing N N 331 TRP CH2 HH2 sing N N 332 TRP OXT HXT sing N N 333 TYR N CA sing N N 334 TYR N H sing N N 335 TYR N H2 sing N N 336 TYR CA C sing N N 337 TYR CA CB sing N N 338 TYR CA HA sing N N 339 TYR C O doub N N 340 TYR C OXT sing N N 341 TYR CB CG sing N N 342 TYR CB HB2 sing N N 343 TYR CB HB3 sing N N 344 TYR CG CD1 doub Y N 345 TYR CG CD2 sing Y N 346 TYR CD1 CE1 sing Y N 347 TYR CD1 HD1 sing N N 348 TYR CD2 CE2 doub Y N 349 TYR CD2 HD2 sing N N 350 TYR CE1 CZ doub Y N 351 TYR CE1 HE1 sing N N 352 TYR CE2 CZ sing Y N 353 TYR CE2 HE2 sing N N 354 TYR CZ OH sing N N 355 TYR OH HH sing N N 356 TYR OXT HXT sing N N 357 VAL N CA sing N N 358 VAL N H sing N N 359 VAL N H2 sing N N 360 VAL CA C sing N N 361 VAL CA CB sing N N 362 VAL CA HA sing N N 363 VAL C O doub N N 364 VAL C OXT sing N N 365 VAL CB CG1 sing N N 366 VAL CB CG2 sing N N 367 VAL CB HB sing N N 368 VAL CG1 HG11 sing N N 369 VAL CG1 HG12 sing N N 370 VAL CG1 HG13 sing N N 371 VAL CG2 HG21 sing N N 372 VAL CG2 HG22 sing N N 373 VAL CG2 HG23 sing N N 374 VAL OXT HXT sing N N 375 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 3OFK _pdbx_initial_refinement_model.details 'NodS from NodS-SAH complex (3OFK)' #