data_4JYY # _entry.id 4JYY # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4JYY RCSB RCSB078680 WWPDB D_1000078680 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3TJT homolouge unspecified PDB 4JZ2 . unspecified PDB 4JZG . unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4JYY _pdbx_database_status.recvd_initial_deposition_date 2013-04-01 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.methods_development_category ? _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 # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Li, W.' 1 'Ying, T.L.' 2 'Wang, C.L.' 3 'Zhao, Y.' 4 'Wang, H.F.' 5 'Tan, X.S.' 6 # _citation.id primary _citation.title 'Crystal structure of the azide and iron substituted Clostrium difficile SOD2 complex' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Li, W.' 1 primary 'Ying, T.L.' 2 primary 'Wang, C.L.' 3 primary 'Zhao, Y.' 4 primary 'Wang, H.F.' 5 primary 'Tan, X.S.' 6 # _cell.entry_id 4JYY _cell.length_a 80.375 _cell.length_b 80.375 _cell.length_c 250.532 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _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 4JYY _symmetry.space_group_name_H-M 'P 65 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _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 'Superoxide dismutase' 24280.244 1 1.15.1.1 ? 'UNP residues 27-234' ? 2 non-polymer syn 'FE (III) ION' 55.845 1 ? ? ? ? 3 non-polymer syn 'AZIDE ION' 42.020 1 ? ? ? ? 4 water nat water 18.015 135 ? ? ? ? # _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 ;PENNKFKVKPLPYAYDALEPYIDKETMKLHHDKHYQAYVDKLNAALEKYPELYNYSLCELLQNLDSLPKDIATTVRNNAG GAYNHKFFFDIMTPEKTIPSESLKEAIDRDFGSFEKFKQEFQKSALDVFGSGWAWLVATKDGKLSIMTTPNQDSPVSKNL TPIIGLDVWEHAYYLKYQNRRNEYIDNWFNVVNWNGALENYKNLKSQD ; _entity_poly.pdbx_seq_one_letter_code_can ;PENNKFKVKPLPYAYDALEPYIDKETMKLHHDKHYQAYVDKLNAALEKYPELYNYSLCELLQNLDSLPKDIATTVRNNAG GAYNHKFFFDIMTPEKTIPSESLKEAIDRDFGSFEKFKQEFQKSALDVFGSGWAWLVATKDGKLSIMTTPNQDSPVSKNL TPIIGLDVWEHAYYLKYQNRRNEYIDNWFNVVNWNGALENYKNLKSQD ; _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 PRO n 1 2 GLU n 1 3 ASN n 1 4 ASN n 1 5 LYS n 1 6 PHE n 1 7 LYS n 1 8 VAL n 1 9 LYS n 1 10 PRO n 1 11 LEU n 1 12 PRO n 1 13 TYR n 1 14 ALA n 1 15 TYR n 1 16 ASP n 1 17 ALA n 1 18 LEU n 1 19 GLU n 1 20 PRO n 1 21 TYR n 1 22 ILE n 1 23 ASP n 1 24 LYS n 1 25 GLU n 1 26 THR n 1 27 MET n 1 28 LYS n 1 29 LEU n 1 30 HIS n 1 31 HIS n 1 32 ASP n 1 33 LYS n 1 34 HIS n 1 35 TYR n 1 36 GLN n 1 37 ALA n 1 38 TYR n 1 39 VAL n 1 40 ASP n 1 41 LYS n 1 42 LEU n 1 43 ASN n 1 44 ALA n 1 45 ALA n 1 46 LEU n 1 47 GLU n 1 48 LYS n 1 49 TYR n 1 50 PRO n 1 51 GLU n 1 52 LEU n 1 53 TYR n 1 54 ASN n 1 55 TYR n 1 56 SER n 1 57 LEU n 1 58 CYS n 1 59 GLU n 1 60 LEU n 1 61 LEU n 1 62 GLN n 1 63 ASN n 1 64 LEU n 1 65 ASP n 1 66 SER n 1 67 LEU n 1 68 PRO n 1 69 LYS n 1 70 ASP n 1 71 ILE n 1 72 ALA n 1 73 THR n 1 74 THR n 1 75 VAL n 1 76 ARG n 1 77 ASN n 1 78 ASN n 1 79 ALA n 1 80 GLY n 1 81 GLY n 1 82 ALA n 1 83 TYR n 1 84 ASN n 1 85 HIS n 1 86 LYS n 1 87 PHE n 1 88 PHE n 1 89 PHE n 1 90 ASP n 1 91 ILE n 1 92 MET n 1 93 THR n 1 94 PRO n 1 95 GLU n 1 96 LYS n 1 97 THR n 1 98 ILE n 1 99 PRO n 1 100 SER n 1 101 GLU n 1 102 SER n 1 103 LEU n 1 104 LYS n 1 105 GLU n 1 106 ALA n 1 107 ILE n 1 108 ASP n 1 109 ARG n 1 110 ASP n 1 111 PHE n 1 112 GLY n 1 113 SER n 1 114 PHE n 1 115 GLU n 1 116 LYS n 1 117 PHE n 1 118 LYS n 1 119 GLN n 1 120 GLU n 1 121 PHE n 1 122 GLN n 1 123 LYS n 1 124 SER n 1 125 ALA n 1 126 LEU n 1 127 ASP n 1 128 VAL n 1 129 PHE n 1 130 GLY n 1 131 SER n 1 132 GLY n 1 133 TRP n 1 134 ALA n 1 135 TRP n 1 136 LEU n 1 137 VAL n 1 138 ALA n 1 139 THR n 1 140 LYS n 1 141 ASP n 1 142 GLY n 1 143 LYS n 1 144 LEU n 1 145 SER n 1 146 ILE n 1 147 MET n 1 148 THR n 1 149 THR n 1 150 PRO n 1 151 ASN n 1 152 GLN n 1 153 ASP n 1 154 SER n 1 155 PRO n 1 156 VAL n 1 157 SER n 1 158 LYS n 1 159 ASN n 1 160 LEU n 1 161 THR n 1 162 PRO n 1 163 ILE n 1 164 ILE n 1 165 GLY n 1 166 LEU n 1 167 ASP n 1 168 VAL n 1 169 TRP n 1 170 GLU n 1 171 HIS n 1 172 ALA n 1 173 TYR n 1 174 TYR n 1 175 LEU n 1 176 LYS n 1 177 TYR n 1 178 GLN n 1 179 ASN n 1 180 ARG n 1 181 ARG n 1 182 ASN n 1 183 GLU n 1 184 TYR n 1 185 ILE n 1 186 ASP n 1 187 ASN n 1 188 TRP n 1 189 PHE n 1 190 ASN n 1 191 VAL n 1 192 VAL n 1 193 ASN n 1 194 TRP n 1 195 ASN n 1 196 GLY n 1 197 ALA n 1 198 LEU n 1 199 GLU n 1 200 ASN n 1 201 TYR n 1 202 LYS n 1 203 ASN n 1 204 LEU n 1 205 LYS n 1 206 SER n 1 207 GLN n 1 208 ASP 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 'CD630_16310, sodA' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 630 _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 'Clostridium difficile' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 272563 _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 'Rosseta(DE3)Plys S' _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 pMAL-c2x _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q186I6_CLOD6 _struct_ref.pdbx_db_accession Q186I6 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;PENNKFKVKPLPYAYDALEPYIDKETMKLHHDKHYQAYVDKLNAALEKYPELYNYSLCELLQNLDSLPKDIATTVRNNAG GAYNHKFFFDIMTPEKTIPSESLKEAIDRDFGSFEKFKQEFQKSALDVFGSGWAWLVATKDGKLSIMTTPNQDSPVSKNL TPIIGLDVWEHAYYLKYQNRRNEYIDNWFNVVNWNGALENYKNLKSQD ; _struct_ref.pdbx_align_begin 27 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4JYY _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 208 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q186I6 _struct_ref_seq.db_align_beg 27 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 234 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 27 _struct_ref_seq.pdbx_auth_seq_align_end 234 # 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 AZI non-polymer . 'AZIDE ION' ? 'N3 -1' 42.020 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 FE non-polymer . 'FE (III) ION' ? 'Fe 3' 55.845 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 4JYY _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 4.81 _exptl_crystal.density_percent_sol 74.43 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.0 _exptl_crystal_grow.pdbx_details '60% (v/v) tacsimateTM, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.pdbx_collection_date 2012-01-03 _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 CHANNEL' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9795 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRF BEAMLINE BL17U' _diffrn_source.pdbx_synchrotron_site SSRF _diffrn_source.pdbx_synchrotron_beamline BL17U _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9795 # _reflns.entry_id 4JYY _reflns.observed_criterion_sigma_I 3 _reflns.observed_criterion_sigma_F 1 _reflns.d_resolution_low 40.2 _reflns.d_resolution_high 2.1 _reflns.number_obs 28940 _reflns.number_all ? _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.083 _reflns.pdbx_Rsym_value 0.094 _reflns.pdbx_netI_over_sigmaI 69.6 _reflns.B_iso_Wilson_estimate 35 _reflns.pdbx_redundancy 41.9 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.10 _reflns_shell.d_res_low 2.14 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.703 _reflns_shell.pdbx_Rsym_value 0.671 _reflns_shell.meanI_over_sigI_obs 9.0 _reflns_shell.pdbx_redundancy 43.2 _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_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 4JYY _refine.ls_number_reflns_obs 28331 _refine.ls_number_reflns_all 28940 _refine.pdbx_ls_sigma_I 1.0 _refine.pdbx_ls_sigma_F 1.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 40.187 _refine.ls_d_res_high 2.101 _refine.ls_percent_reflns_obs 97.78 _refine.ls_R_factor_obs 0.1831 _refine.ls_R_factor_all 0.219 _refine.ls_R_factor_R_work 0.1820 _refine.ls_R_factor_R_free 0.1977 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 6.93 _refine.ls_number_reflns_R_free 1962 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 35 _refine.aniso_B[1][1] -1.1415 _refine.aniso_B[2][2] -1.1415 _refine.aniso_B[3][3] 2.2831 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] -0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.385 _refine.solvent_model_param_bsol 48.017 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model 3TJT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model Isotropic _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.20 _refine.overall_FOM_work_R_set 0.8788 _refine.B_iso_max 81.750 _refine.B_iso_min 22.620 _refine.pdbx_overall_phase_error 18.2500 _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _refine.ls_redundancy_reflns_obs ? _refine.overall_SU_B ? _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.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 1669 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 135 _refine_hist.number_atoms_total 1808 _refine_hist.d_res_high 2.101 _refine_hist.d_res_low 40.187 # 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_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 0.007 ? ? 1719 ? 'X-RAY DIFFRACTION' f_angle_d 0.976 ? ? 2331 ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 17.114 ? ? 616 ? 'X-RAY DIFFRACTION' f_chiral_restr 0.072 ? ? 241 ? 'X-RAY DIFFRACTION' f_plane_restr 0.004 ? ? 300 ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs 'X-RAY DIFFRACTION' 14 2.1005 2.1530 1760 0.2067 94.00 0.2469 . . 132 . . . . 'X-RAY DIFFRACTION' 14 2.1530 2.2112 1779 0.2011 95.00 0.2234 . . 131 . . . . 'X-RAY DIFFRACTION' 14 2.2112 2.2763 1796 0.2042 96.00 0.2316 . . 132 . . . . 'X-RAY DIFFRACTION' 14 2.2763 2.3498 1832 0.2085 97.00 0.2456 . . 136 . . . . 'X-RAY DIFFRACTION' 14 2.3498 2.4337 1839 0.1946 97.00 0.2533 . . 138 . . . . 'X-RAY DIFFRACTION' 14 2.4337 2.5312 1843 0.1943 98.00 0.1870 . . 139 . . . . 'X-RAY DIFFRACTION' 14 2.5312 2.6464 1851 0.1959 99.00 0.2418 . . 135 . . . . 'X-RAY DIFFRACTION' 14 2.6464 2.7858 1881 0.2054 98.00 0.2042 . . 141 . . . . 'X-RAY DIFFRACTION' 14 2.7858 2.9603 1879 0.1996 98.00 0.2767 . . 140 . . . . 'X-RAY DIFFRACTION' 14 2.9603 3.1888 1901 0.1914 99.00 0.2280 . . 143 . . . . 'X-RAY DIFFRACTION' 14 3.1888 3.5096 1922 0.1806 99.00 0.1860 . . 142 . . . . 'X-RAY DIFFRACTION' 14 3.5096 4.0170 1955 0.1562 100.00 0.1709 . . 147 . . . . 'X-RAY DIFFRACTION' 14 4.0170 5.0594 1986 0.1487 100.00 0.1458 . . 147 . . . . 'X-RAY DIFFRACTION' 14 5.0594 40.1948 2145 0.1879 100.00 0.1818 . . 159 . . . . # _struct.entry_id 4JYY _struct.title 'Crystal structure of the azide and iron substituted Clostrium difficile SOD2 complex' _struct.pdbx_descriptor 'Superoxide dismutase (E.C.1.15.1.1)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4JYY _struct_keywords.pdbx_keywords OXIDOREDUCTASE _struct_keywords.text 'Rossmann Fold, superoxide dismutase, METAL ION Binding, cytosol, OXIDOREDUCTASE' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? D N N 4 ? # _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 ASP A 23 ? LYS A 33 ? ASP A 49 LYS A 59 1 ? 11 HELX_P HELX_P2 2 LYS A 33 ? GLU A 47 ? LYS A 59 GLU A 73 1 ? 15 HELX_P HELX_P3 3 LYS A 48 ? TYR A 55 ? LYS A 74 TYR A 81 5 ? 8 HELX_P HELX_P4 4 SER A 56 ? ASN A 63 ? SER A 82 ASN A 89 1 ? 8 HELX_P HELX_P5 5 LEU A 64 ? LEU A 67 ? LEU A 90 LEU A 93 5 ? 4 HELX_P HELX_P6 6 PRO A 68 ? ILE A 91 ? PRO A 94 ILE A 117 1 ? 24 HELX_P HELX_P7 7 SER A 100 ? GLY A 112 ? SER A 126 GLY A 138 1 ? 13 HELX_P HELX_P8 8 SER A 113 ? VAL A 128 ? SER A 139 VAL A 154 1 ? 16 HELX_P HELX_P9 9 SER A 154 ? ASN A 159 ? SER A 180 ASN A 185 5 ? 6 HELX_P HELX_P10 10 TRP A 169 ? ALA A 172 ? TRP A 195 ALA A 198 5 ? 4 HELX_P HELX_P11 11 TYR A 173 ? GLN A 178 ? TYR A 199 GLN A 204 1 ? 6 HELX_P HELX_P12 12 ARG A 180 ? PHE A 189 ? ARG A 206 PHE A 215 1 ? 10 HELX_P HELX_P13 13 ASN A 193 ? ASN A 203 ? ASN A 219 ASN A 229 1 ? 11 # _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 metalc1 metalc ? ? A ASP 167 OD2 ? ? ? 1_555 B FE . FE ? ? A ASP 193 A FE 301 1_555 ? ? ? ? ? ? ? 1.955 ? metalc2 metalc ? ? A HIS 85 NE2 ? ? ? 1_555 B FE . FE ? ? A HIS 111 A FE 301 1_555 ? ? ? ? ? ? ? 2.231 ? metalc3 metalc ? ? A HIS 171 NE2 ? ? ? 1_555 B FE . FE ? ? A HIS 197 A FE 301 1_555 ? ? ? ? ? ? ? 2.292 ? metalc4 metalc ? ? A HIS 30 NE2 ? ? ? 1_555 B FE . FE ? ? A HIS 56 A FE 301 1_555 ? ? ? ? ? ? ? 2.302 ? metalc5 metalc ? ? B FE . FE ? ? ? 1_555 D HOH . O ? ? A FE 301 A HOH 407 1_555 ? ? ? ? ? ? ? 2.392 ? # _struct_conn_type.id metalc _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id GLU _struct_mon_prot_cis.label_seq_id 19 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id GLU _struct_mon_prot_cis.auth_seq_id 45 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 PRO _struct_mon_prot_cis.pdbx_label_seq_id_2 20 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 PRO _struct_mon_prot_cis.pdbx_auth_seq_id_2 46 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle 4.09 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel # 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 LEU A 144 ? PRO A 150 ? LEU A 170 PRO A 176 A 2 GLY A 132 ? ALA A 138 ? GLY A 158 ALA A 164 A 3 THR A 161 ? ASP A 167 ? THR A 187 ASP A 193 # 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 MET A 147 ? O MET A 173 N TRP A 135 ? N TRP A 161 A 2 3 N LEU A 136 ? N LEU A 162 O ILE A 163 ? O ILE A 189 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE FE A 301' AC2 Software ? ? ? ? 2 'BINDING SITE FOR RESIDUE AZI A 302' # 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 5 HIS A 30 ? HIS A 56 . ? 1_555 ? 2 AC1 5 HIS A 85 ? HIS A 111 . ? 1_555 ? 3 AC1 5 ASP A 167 ? ASP A 193 . ? 1_555 ? 4 AC1 5 HIS A 171 ? HIS A 197 . ? 1_555 ? 5 AC1 5 HOH D . ? HOH A 407 . ? 1_555 ? 6 AC2 2 THR A 73 ? THR A 99 . ? 1_555 ? 7 AC2 2 ARG A 76 ? ARG A 102 . ? 1_555 ? # _database_PDB_matrix.entry_id 4JYY _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 4JYY _atom_sites.fract_transf_matrix[1][1] 0.012442 _atom_sites.fract_transf_matrix[1][2] 0.007183 _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] 0.014366 _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] 0.003992 _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 FE 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 PRO 1 27 ? ? ? A . n A 1 2 GLU 2 28 ? ? ? A . n A 1 3 ASN 3 29 29 ASN ASN A . n A 1 4 ASN 4 30 30 ASN ASN A . n A 1 5 LYS 5 31 31 LYS LYS A . n A 1 6 PHE 6 32 32 PHE PHE A . n A 1 7 LYS 7 33 33 LYS LYS A . n A 1 8 VAL 8 34 34 VAL VAL A . n A 1 9 LYS 9 35 35 LYS LYS A . n A 1 10 PRO 10 36 36 PRO PRO A . n A 1 11 LEU 11 37 37 LEU LEU A . n A 1 12 PRO 12 38 38 PRO PRO A . n A 1 13 TYR 13 39 39 TYR TYR A . n A 1 14 ALA 14 40 40 ALA ALA A . n A 1 15 TYR 15 41 41 TYR TYR A . n A 1 16 ASP 16 42 42 ASP ASP A . n A 1 17 ALA 17 43 43 ALA ALA A . n A 1 18 LEU 18 44 44 LEU LEU A . n A 1 19 GLU 19 45 45 GLU GLU A . n A 1 20 PRO 20 46 46 PRO PRO A . n A 1 21 TYR 21 47 47 TYR TYR A . n A 1 22 ILE 22 48 48 ILE ILE A . n A 1 23 ASP 23 49 49 ASP ASP A . n A 1 24 LYS 24 50 50 LYS LYS A . n A 1 25 GLU 25 51 51 GLU GLU A . n A 1 26 THR 26 52 52 THR THR A . n A 1 27 MET 27 53 53 MET MET A . n A 1 28 LYS 28 54 54 LYS LYS A . n A 1 29 LEU 29 55 55 LEU LEU A . n A 1 30 HIS 30 56 56 HIS HIS A . n A 1 31 HIS 31 57 57 HIS HIS A . n A 1 32 ASP 32 58 58 ASP ASP A . n A 1 33 LYS 33 59 59 LYS LYS A . n A 1 34 HIS 34 60 60 HIS HIS A . n A 1 35 TYR 35 61 61 TYR TYR A . n A 1 36 GLN 36 62 62 GLN GLN A . n A 1 37 ALA 37 63 63 ALA ALA A . n A 1 38 TYR 38 64 64 TYR TYR A . n A 1 39 VAL 39 65 65 VAL VAL A . n A 1 40 ASP 40 66 66 ASP ASP A . n A 1 41 LYS 41 67 67 LYS LYS A . n A 1 42 LEU 42 68 68 LEU LEU A . n A 1 43 ASN 43 69 69 ASN ASN A . n A 1 44 ALA 44 70 70 ALA ALA A . n A 1 45 ALA 45 71 71 ALA ALA A . n A 1 46 LEU 46 72 72 LEU LEU A . n A 1 47 GLU 47 73 73 GLU GLU A . n A 1 48 LYS 48 74 74 LYS LYS A . n A 1 49 TYR 49 75 75 TYR TYR A . n A 1 50 PRO 50 76 76 PRO PRO A . n A 1 51 GLU 51 77 77 GLU GLU A . n A 1 52 LEU 52 78 78 LEU LEU A . n A 1 53 TYR 53 79 79 TYR TYR A . n A 1 54 ASN 54 80 80 ASN ASN A . n A 1 55 TYR 55 81 81 TYR TYR A . n A 1 56 SER 56 82 82 SER SER A . n A 1 57 LEU 57 83 83 LEU LEU A . n A 1 58 CYS 58 84 84 CYS CYS A . n A 1 59 GLU 59 85 85 GLU GLU A . n A 1 60 LEU 60 86 86 LEU LEU A . n A 1 61 LEU 61 87 87 LEU LEU A . n A 1 62 GLN 62 88 88 GLN GLN A . n A 1 63 ASN 63 89 89 ASN ASN A . n A 1 64 LEU 64 90 90 LEU LEU A . n A 1 65 ASP 65 91 91 ASP ASP A . n A 1 66 SER 66 92 92 SER SER A . n A 1 67 LEU 67 93 93 LEU LEU A . n A 1 68 PRO 68 94 94 PRO PRO A . n A 1 69 LYS 69 95 95 LYS LYS A . n A 1 70 ASP 70 96 96 ASP ASP A . n A 1 71 ILE 71 97 97 ILE ILE A . n A 1 72 ALA 72 98 98 ALA ALA A . n A 1 73 THR 73 99 99 THR THR A . n A 1 74 THR 74 100 100 THR THR A . n A 1 75 VAL 75 101 101 VAL VAL A . n A 1 76 ARG 76 102 102 ARG ARG A . n A 1 77 ASN 77 103 103 ASN ASN A . n A 1 78 ASN 78 104 104 ASN ASN A . n A 1 79 ALA 79 105 105 ALA ALA A . n A 1 80 GLY 80 106 106 GLY GLY A . n A 1 81 GLY 81 107 107 GLY GLY A . n A 1 82 ALA 82 108 108 ALA ALA A . n A 1 83 TYR 83 109 109 TYR TYR A . n A 1 84 ASN 84 110 110 ASN ASN A . n A 1 85 HIS 85 111 111 HIS HIS A . n A 1 86 LYS 86 112 112 LYS LYS A . n A 1 87 PHE 87 113 113 PHE PHE A . n A 1 88 PHE 88 114 114 PHE PHE A . n A 1 89 PHE 89 115 115 PHE PHE A . n A 1 90 ASP 90 116 116 ASP ASP A . n A 1 91 ILE 91 117 117 ILE ILE A . n A 1 92 MET 92 118 118 MET MET A . n A 1 93 THR 93 119 119 THR THR A . n A 1 94 PRO 94 120 120 PRO PRO A . n A 1 95 GLU 95 121 121 GLU GLU A . n A 1 96 LYS 96 122 122 LYS LYS A . n A 1 97 THR 97 123 123 THR THR A . n A 1 98 ILE 98 124 124 ILE ILE A . n A 1 99 PRO 99 125 125 PRO PRO A . n A 1 100 SER 100 126 126 SER SER A . n A 1 101 GLU 101 127 127 GLU GLU A . n A 1 102 SER 102 128 128 SER SER A . n A 1 103 LEU 103 129 129 LEU LEU A . n A 1 104 LYS 104 130 130 LYS LYS A . n A 1 105 GLU 105 131 131 GLU GLU A . n A 1 106 ALA 106 132 132 ALA ALA A . n A 1 107 ILE 107 133 133 ILE ILE A . n A 1 108 ASP 108 134 134 ASP ASP A . n A 1 109 ARG 109 135 135 ARG ARG A . n A 1 110 ASP 110 136 136 ASP ASP A . n A 1 111 PHE 111 137 137 PHE PHE A . n A 1 112 GLY 112 138 138 GLY GLY A . n A 1 113 SER 113 139 139 SER SER A . n A 1 114 PHE 114 140 140 PHE PHE A . n A 1 115 GLU 115 141 141 GLU GLU A . n A 1 116 LYS 116 142 142 LYS LYS A . n A 1 117 PHE 117 143 143 PHE PHE A . n A 1 118 LYS 118 144 144 LYS LYS A . n A 1 119 GLN 119 145 145 GLN GLN A . n A 1 120 GLU 120 146 146 GLU GLU A . n A 1 121 PHE 121 147 147 PHE PHE A . n A 1 122 GLN 122 148 148 GLN GLN A . n A 1 123 LYS 123 149 149 LYS LYS A . n A 1 124 SER 124 150 150 SER SER A . n A 1 125 ALA 125 151 151 ALA ALA A . n A 1 126 LEU 126 152 152 LEU LEU A . n A 1 127 ASP 127 153 153 ASP ASP A . n A 1 128 VAL 128 154 154 VAL VAL A . n A 1 129 PHE 129 155 155 PHE PHE A . n A 1 130 GLY 130 156 156 GLY GLY A . n A 1 131 SER 131 157 157 SER SER A . n A 1 132 GLY 132 158 158 GLY GLY A . n A 1 133 TRP 133 159 159 TRP TRP A . n A 1 134 ALA 134 160 160 ALA ALA A . n A 1 135 TRP 135 161 161 TRP TRP A . n A 1 136 LEU 136 162 162 LEU LEU A . n A 1 137 VAL 137 163 163 VAL VAL A . n A 1 138 ALA 138 164 164 ALA ALA A . n A 1 139 THR 139 165 165 THR THR A . n A 1 140 LYS 140 166 166 LYS LYS A . n A 1 141 ASP 141 167 167 ASP ASP A . n A 1 142 GLY 142 168 168 GLY GLY A . n A 1 143 LYS 143 169 169 LYS LYS A . n A 1 144 LEU 144 170 170 LEU LEU A . n A 1 145 SER 145 171 171 SER SER A . n A 1 146 ILE 146 172 172 ILE ILE A . n A 1 147 MET 147 173 173 MET MET A . n A 1 148 THR 148 174 174 THR THR A . n A 1 149 THR 149 175 175 THR THR A . n A 1 150 PRO 150 176 176 PRO PRO A . n A 1 151 ASN 151 177 177 ASN ASN A . n A 1 152 GLN 152 178 178 GLN GLN A . n A 1 153 ASP 153 179 179 ASP ASP A . n A 1 154 SER 154 180 180 SER SER A . n A 1 155 PRO 155 181 181 PRO PRO A . n A 1 156 VAL 156 182 182 VAL VAL A . n A 1 157 SER 157 183 183 SER SER A . n A 1 158 LYS 158 184 184 LYS LYS A . n A 1 159 ASN 159 185 185 ASN ASN A . n A 1 160 LEU 160 186 186 LEU LEU A . n A 1 161 THR 161 187 187 THR THR A . n A 1 162 PRO 162 188 188 PRO PRO A . n A 1 163 ILE 163 189 189 ILE ILE A . n A 1 164 ILE 164 190 190 ILE ILE A . n A 1 165 GLY 165 191 191 GLY GLY A . n A 1 166 LEU 166 192 192 LEU LEU A . n A 1 167 ASP 167 193 193 ASP ASP A . n A 1 168 VAL 168 194 194 VAL VAL A . n A 1 169 TRP 169 195 195 TRP TRP A . n A 1 170 GLU 170 196 196 GLU GLU A . n A 1 171 HIS 171 197 197 HIS HIS A . n A 1 172 ALA 172 198 198 ALA ALA A . n A 1 173 TYR 173 199 199 TYR TYR A . n A 1 174 TYR 174 200 200 TYR TYR A . n A 1 175 LEU 175 201 201 LEU LEU A . n A 1 176 LYS 176 202 202 LYS LYS A . n A 1 177 TYR 177 203 203 TYR TYR A . n A 1 178 GLN 178 204 204 GLN GLN A . n A 1 179 ASN 179 205 205 ASN ASN A . n A 1 180 ARG 180 206 206 ARG ARG A . n A 1 181 ARG 181 207 207 ARG ARG A . n A 1 182 ASN 182 208 208 ASN ASN A . n A 1 183 GLU 183 209 209 GLU GLU A . n A 1 184 TYR 184 210 210 TYR TYR A . n A 1 185 ILE 185 211 211 ILE ILE A . n A 1 186 ASP 186 212 212 ASP ASP A . n A 1 187 ASN 187 213 213 ASN ASN A . n A 1 188 TRP 188 214 214 TRP TRP A . n A 1 189 PHE 189 215 215 PHE PHE A . n A 1 190 ASN 190 216 216 ASN ASN A . n A 1 191 VAL 191 217 217 VAL VAL A . n A 1 192 VAL 192 218 218 VAL VAL A . n A 1 193 ASN 193 219 219 ASN ASN A . n A 1 194 TRP 194 220 220 TRP TRP A . n A 1 195 ASN 195 221 221 ASN ASN A . n A 1 196 GLY 196 222 222 GLY GLY A . n A 1 197 ALA 197 223 223 ALA ALA A . n A 1 198 LEU 198 224 224 LEU LEU A . n A 1 199 GLU 199 225 225 GLU GLU A . n A 1 200 ASN 200 226 226 ASN ASN A . n A 1 201 TYR 201 227 227 TYR TYR A . n A 1 202 LYS 202 228 228 LYS LYS A . n A 1 203 ASN 203 229 229 ASN ASN A . n A 1 204 LEU 204 230 230 LEU LEU A . n A 1 205 LYS 205 231 ? ? ? A . n A 1 206 SER 206 232 ? ? ? A . n A 1 207 GLN 207 233 ? ? ? A . n A 1 208 ASP 208 234 ? ? ? A . n # _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 2110 ? 1 MORE -9 ? 1 'SSA (A^2)' 18300 ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 12_544 x,x-y-1,-z-1/6 0.5000000000 0.8660254038 0.0000000000 40.1875000000 0.8660254038 -0.5000000000 0.0000000000 -69.6067918292 0.0000000000 0.0000000000 -1.0000000000 -41.7553333333 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 401 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id D _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OD2 ? A ASP 167 ? A ASP 193 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 85 ? A HIS 111 ? 1_555 115.4 ? 2 OD2 ? A ASP 167 ? A ASP 193 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 171 ? A HIS 197 ? 1_555 118.5 ? 3 NE2 ? A HIS 85 ? A HIS 111 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 171 ? A HIS 197 ? 1_555 125.9 ? 4 OD2 ? A ASP 167 ? A ASP 193 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 30 ? A HIS 56 ? 1_555 84.1 ? 5 NE2 ? A HIS 85 ? A HIS 111 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 30 ? A HIS 56 ? 1_555 88.9 ? 6 NE2 ? A HIS 171 ? A HIS 197 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 NE2 ? A HIS 30 ? A HIS 56 ? 1_555 99.9 ? 7 OD2 ? A ASP 167 ? A ASP 193 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 O ? D HOH . ? A HOH 407 ? 1_555 83.9 ? 8 NE2 ? A HIS 85 ? A HIS 111 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 O ? D HOH . ? A HOH 407 ? 1_555 95.4 ? 9 NE2 ? A HIS 171 ? A HIS 197 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 O ? D HOH . ? A HOH 407 ? 1_555 86.7 ? 10 NE2 ? A HIS 30 ? A HIS 56 ? 1_555 FE ? B FE . ? A FE 301 ? 1_555 O ? D HOH . ? A HOH 407 ? 1_555 167.9 ? # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2014-04-02 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal ADSC 'data collection' Quantum ? 1 PHASES phasing . ? 2 PHENIX refinement '(phenix.refine: 1.5_2)' ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # 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 LYS A 59 ? ? -106.17 -61.08 2 1 GLU A 127 ? ? 53.43 -140.47 3 1 ASN A 177 ? ? 55.10 -122.53 4 1 TYR A 199 ? ? -143.31 -4.92 5 1 GLN A 204 ? ? 48.73 -129.82 # 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 PRO 27 ? A PRO 1 2 1 Y 1 A GLU 28 ? A GLU 2 3 1 Y 1 A LYS 231 ? A LYS 205 4 1 Y 1 A SER 232 ? A SER 206 5 1 Y 1 A GLN 233 ? A GLN 207 6 1 Y 1 A ASP 234 ? A ASP 208 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'FE (III) ION' FE 3 'AZIDE ION' AZI 4 water HOH # 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 FE 1 301 1 FE FE A . C 3 AZI 1 302 300 AZI AZI A . D 4 HOH 1 401 1 HOH HOH A . D 4 HOH 2 402 2 HOH HOH A . D 4 HOH 3 403 3 HOH HOH A . D 4 HOH 4 404 4 HOH HOH A . D 4 HOH 5 405 5 HOH HOH A . D 4 HOH 6 406 6 HOH HOH A . D 4 HOH 7 407 7 HOH HOH A . D 4 HOH 8 408 8 HOH HOH A . D 4 HOH 9 409 9 HOH HOH A . D 4 HOH 10 410 10 HOH HOH A . D 4 HOH 11 411 11 HOH HOH A . D 4 HOH 12 412 12 HOH HOH A . D 4 HOH 13 413 13 HOH HOH A . D 4 HOH 14 414 14 HOH HOH A . D 4 HOH 15 415 15 HOH HOH A . D 4 HOH 16 416 16 HOH HOH A . D 4 HOH 17 417 17 HOH HOH A . D 4 HOH 18 418 18 HOH HOH A . D 4 HOH 19 419 19 HOH HOH A . D 4 HOH 20 420 20 HOH HOH A . D 4 HOH 21 421 21 HOH HOH A . D 4 HOH 22 422 22 HOH HOH A . D 4 HOH 23 423 23 HOH HOH A . D 4 HOH 24 424 24 HOH HOH A . D 4 HOH 25 425 25 HOH HOH A . D 4 HOH 26 426 26 HOH HOH A . D 4 HOH 27 427 27 HOH HOH A . D 4 HOH 28 428 28 HOH HOH A . D 4 HOH 29 429 29 HOH HOH A . D 4 HOH 30 430 30 HOH HOH A . D 4 HOH 31 431 31 HOH HOH A . D 4 HOH 32 432 32 HOH HOH A . D 4 HOH 33 433 33 HOH HOH A . D 4 HOH 34 434 34 HOH HOH A . D 4 HOH 35 435 35 HOH HOH A . D 4 HOH 36 436 36 HOH HOH A . D 4 HOH 37 437 37 HOH HOH A . D 4 HOH 38 438 38 HOH HOH A . D 4 HOH 39 439 39 HOH HOH A . D 4 HOH 40 440 40 HOH HOH A . D 4 HOH 41 441 42 HOH HOH A . D 4 HOH 42 442 43 HOH HOH A . D 4 HOH 43 443 44 HOH HOH A . D 4 HOH 44 444 45 HOH HOH A . D 4 HOH 45 445 46 HOH HOH A . D 4 HOH 46 446 47 HOH HOH A . D 4 HOH 47 447 48 HOH HOH A . D 4 HOH 48 448 49 HOH HOH A . D 4 HOH 49 449 50 HOH HOH A . D 4 HOH 50 450 51 HOH HOH A . D 4 HOH 51 451 52 HOH HOH A . D 4 HOH 52 452 53 HOH HOH A . D 4 HOH 53 453 54 HOH HOH A . D 4 HOH 54 454 55 HOH HOH A . D 4 HOH 55 455 56 HOH HOH A . D 4 HOH 56 456 57 HOH HOH A . D 4 HOH 57 457 58 HOH HOH A . D 4 HOH 58 458 59 HOH HOH A . D 4 HOH 59 459 60 HOH HOH A . D 4 HOH 60 460 61 HOH HOH A . D 4 HOH 61 461 62 HOH HOH A . D 4 HOH 62 462 63 HOH HOH A . D 4 HOH 63 463 64 HOH HOH A . D 4 HOH 64 464 65 HOH HOH A . D 4 HOH 65 465 66 HOH HOH A . D 4 HOH 66 466 67 HOH HOH A . D 4 HOH 67 467 68 HOH HOH A . D 4 HOH 68 468 69 HOH HOH A . D 4 HOH 69 469 71 HOH HOH A . D 4 HOH 70 470 72 HOH HOH A . D 4 HOH 71 471 73 HOH HOH A . D 4 HOH 72 472 74 HOH HOH A . D 4 HOH 73 473 75 HOH HOH A . D 4 HOH 74 474 76 HOH HOH A . D 4 HOH 75 475 77 HOH HOH A . D 4 HOH 76 476 78 HOH HOH A . D 4 HOH 77 477 79 HOH HOH A . D 4 HOH 78 478 80 HOH HOH A . D 4 HOH 79 479 81 HOH HOH A . D 4 HOH 80 480 82 HOH HOH A . D 4 HOH 81 481 83 HOH HOH A . D 4 HOH 82 482 84 HOH HOH A . D 4 HOH 83 483 85 HOH HOH A . D 4 HOH 84 484 86 HOH HOH A . D 4 HOH 85 485 87 HOH HOH A . D 4 HOH 86 486 88 HOH HOH A . D 4 HOH 87 487 89 HOH HOH A . D 4 HOH 88 488 90 HOH HOH A . D 4 HOH 89 489 92 HOH HOH A . D 4 HOH 90 490 93 HOH HOH A . D 4 HOH 91 491 97 HOH HOH A . D 4 HOH 92 492 98 HOH HOH A . D 4 HOH 93 493 99 HOH HOH A . D 4 HOH 94 494 100 HOH HOH A . D 4 HOH 95 495 101 HOH HOH A . D 4 HOH 96 496 102 HOH HOH A . D 4 HOH 97 497 103 HOH HOH A . D 4 HOH 98 498 104 HOH HOH A . D 4 HOH 99 499 106 HOH HOH A . D 4 HOH 100 500 107 HOH HOH A . D 4 HOH 101 501 108 HOH HOH A . D 4 HOH 102 502 110 HOH HOH A . D 4 HOH 103 503 111 HOH HOH A . D 4 HOH 104 504 112 HOH HOH A . D 4 HOH 105 505 113 HOH HOH A . D 4 HOH 106 506 117 HOH HOH A . D 4 HOH 107 507 118 HOH HOH A . D 4 HOH 108 508 122 HOH HOH A . D 4 HOH 109 509 124 HOH HOH A . D 4 HOH 110 510 126 HOH HOH A . D 4 HOH 111 511 127 HOH HOH A . D 4 HOH 112 512 128 HOH HOH A . D 4 HOH 113 513 130 HOH HOH A . D 4 HOH 114 514 132 HOH HOH A . D 4 HOH 115 515 133 HOH HOH A . D 4 HOH 116 516 135 HOH HOH A . D 4 HOH 117 517 136 HOH HOH A . D 4 HOH 118 518 137 HOH HOH A . D 4 HOH 119 519 138 HOH HOH A . D 4 HOH 120 520 144 HOH HOH A . D 4 HOH 121 521 148 HOH HOH A . D 4 HOH 122 522 149 HOH HOH A . D 4 HOH 123 523 150 HOH HOH A . D 4 HOH 124 524 151 HOH HOH A . D 4 HOH 125 525 153 HOH HOH A . D 4 HOH 126 526 155 HOH HOH A . D 4 HOH 127 527 156 HOH HOH A . D 4 HOH 128 528 158 HOH HOH A . D 4 HOH 129 529 167 HOH HOH A . D 4 HOH 130 530 168 HOH HOH A . D 4 HOH 131 531 169 HOH HOH A . D 4 HOH 132 532 170 HOH HOH A . D 4 HOH 133 533 171 HOH HOH A . D 4 HOH 134 534 173 HOH HOH A . D 4 HOH 135 535 176 HOH HOH A . #