data_2XL4 # _entry.id 2XL4 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.296 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2XL4 PDBE EBI-44631 WWPDB D_1290044631 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2XL4 _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2010-07-19 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Lebreton, A.' 1 ? 'Job, V.' 2 ? 'Tham, T.N.' 3 ? 'Camejo, A.' 4 ? 'Mattei, P.J.' 5 ? 'Regnault, B.' 6 ? 'Cabanes, D.' 7 ? 'Dessen, A.' 8 ? 'Cossart, P.' 9 ? 'Bierne, H.' 10 ? # _citation.id primary _citation.title 'A bacterial protein targets the BAHD1 chromatin complex to stimulate type III interferon response.' _citation.journal_abbrev Science _citation.journal_volume 331 _citation.page_first 1319 _citation.page_last 1321 _citation.year 2011 _citation.journal_id_ASTM SCIEAS _citation.country US _citation.journal_id_ISSN 1095-9203 _citation.journal_id_CSD 0038 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21252314 _citation.pdbx_database_id_DOI 10.1126/science.1200120 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Lebreton, A.' 1 ? primary 'Lakisic, G.' 2 ? primary 'Job, V.' 3 ? primary 'Fritsch, L.' 4 ? primary 'Tham, T.N.' 5 ? primary 'Camejo, A.' 6 ? primary 'Mattei, P.J.' 7 ? primary 'Regnault, B.' 8 ? primary 'Nahori, M.A.' 9 ? primary 'Cabanes, D.' 10 ? primary 'Gautreau, A.' 11 ? primary 'Ait-Si-Ali, S.' 12 ? primary 'Dessen, A.' 13 ? primary 'Cossart, P.' 14 ? primary 'Bierne, H.' 15 ? # _cell.entry_id 2XL4 _cell.length_a 49.672 _cell.length_b 49.672 _cell.length_c 141.799 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XL4 _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 # 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 'Listeria nuclear targeted protein A' 20157.469 1 ? S127A 'RESIDUES 34-205' ? 2 non-polymer syn GLYCEROL 92.094 2 ? ? ? ? 3 water nat water 18.015 41 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;GS(MSE)GEDEGEQTKTKKDSNKVVKTASRPKLSTKDLALIKADLAEFEARELSSEKILKDTIKEESWSDLDFANDNINQ (MSE)IGT(MSE)KRYQQEILSIDAIKRASEASADTEAFKKIFKEWSEFKIERIQVTIDLLNGKKDSEAVFKKTYPNQII FKKVRTNKLQTALNNLKVGYELLDSQK ; _entity_poly.pdbx_seq_one_letter_code_can ;GSMGEDEGEQTKTKKDSNKVVKTASRPKLSTKDLALIKADLAEFEARELSSEKILKDTIKEESWSDLDFANDNINQMIGT MKRYQQEILSIDAIKRASEASADTEAFKKIFKEWSEFKIERIQVTIDLLNGKKDSEAVFKKTYPNQIIFKKVRTNKLQTA LNNLKVGYELLDSQK ; _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 SER n 1 3 MSE n 1 4 GLY n 1 5 GLU n 1 6 ASP n 1 7 GLU n 1 8 GLY n 1 9 GLU n 1 10 GLN n 1 11 THR n 1 12 LYS n 1 13 THR n 1 14 LYS n 1 15 LYS n 1 16 ASP n 1 17 SER n 1 18 ASN n 1 19 LYS n 1 20 VAL n 1 21 VAL n 1 22 LYS n 1 23 THR n 1 24 ALA n 1 25 SER n 1 26 ARG n 1 27 PRO n 1 28 LYS n 1 29 LEU n 1 30 SER n 1 31 THR n 1 32 LYS n 1 33 ASP n 1 34 LEU n 1 35 ALA n 1 36 LEU n 1 37 ILE n 1 38 LYS n 1 39 ALA n 1 40 ASP n 1 41 LEU n 1 42 ALA n 1 43 GLU n 1 44 PHE n 1 45 GLU n 1 46 ALA n 1 47 ARG n 1 48 GLU n 1 49 LEU n 1 50 SER n 1 51 SER n 1 52 GLU n 1 53 LYS n 1 54 ILE n 1 55 LEU n 1 56 LYS n 1 57 ASP n 1 58 THR n 1 59 ILE n 1 60 LYS n 1 61 GLU n 1 62 GLU n 1 63 SER n 1 64 TRP n 1 65 SER n 1 66 ASP n 1 67 LEU n 1 68 ASP n 1 69 PHE n 1 70 ALA n 1 71 ASN n 1 72 ASP n 1 73 ASN n 1 74 ILE n 1 75 ASN n 1 76 GLN n 1 77 MSE n 1 78 ILE n 1 79 GLY n 1 80 THR n 1 81 MSE n 1 82 LYS n 1 83 ARG n 1 84 TYR n 1 85 GLN n 1 86 GLN n 1 87 GLU n 1 88 ILE n 1 89 LEU n 1 90 SER n 1 91 ILE n 1 92 ASP n 1 93 ALA n 1 94 ILE n 1 95 LYS n 1 96 ARG n 1 97 ALA n 1 98 SER n 1 99 GLU n 1 100 ALA n 1 101 SER n 1 102 ALA n 1 103 ASP n 1 104 THR n 1 105 GLU n 1 106 ALA n 1 107 PHE n 1 108 LYS n 1 109 LYS n 1 110 ILE n 1 111 PHE n 1 112 LYS n 1 113 GLU n 1 114 TRP n 1 115 SER n 1 116 GLU n 1 117 PHE n 1 118 LYS n 1 119 ILE n 1 120 GLU n 1 121 ARG n 1 122 ILE n 1 123 GLN n 1 124 VAL n 1 125 THR n 1 126 ILE n 1 127 ASP n 1 128 LEU n 1 129 LEU n 1 130 ASN n 1 131 GLY n 1 132 LYS n 1 133 LYS n 1 134 ASP n 1 135 SER n 1 136 GLU n 1 137 ALA n 1 138 VAL n 1 139 PHE n 1 140 LYS n 1 141 LYS n 1 142 THR n 1 143 TYR n 1 144 PRO n 1 145 ASN n 1 146 GLN n 1 147 ILE n 1 148 ILE n 1 149 PHE n 1 150 LYS n 1 151 LYS n 1 152 VAL n 1 153 ARG n 1 154 THR n 1 155 ASN n 1 156 LYS n 1 157 LEU n 1 158 GLN n 1 159 THR n 1 160 ALA n 1 161 LEU n 1 162 ASN n 1 163 ASN n 1 164 LEU n 1 165 LYS n 1 166 VAL n 1 167 GLY n 1 168 TYR n 1 169 GLU n 1 170 LEU n 1 171 LEU n 1 172 ASP n 1 173 SER n 1 174 GLN n 1 175 LYS 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 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 175 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'lntA, lmo0438' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'ATCC BAA-679 / EGD-e' _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 'Listeria monocytogenes serovar 1/2a' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 169963 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc BAA-679 _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 BL21(DE3)' _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 ? _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 pGEX _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pGEX-lntA _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code LNTA_LISMO _struct_ref.pdbx_db_accession Q8Y9T5 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;GEDEGEQTKTKKDSNKVVKTASRPKLSTKDLALIKADLAEFEARELSSEKILKDTIKEESWSDLDFANDNINQMIGTMKR YQQEILSIDAIKRSSEASADTEAFKKIFKEWSEFKIERIQVTIDLLNGKKDSEAVFKKTYPNQIIFKKVRTNKLQTALNN LKVGYELLDSQK ; _struct_ref.pdbx_align_begin 34 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2XL4 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 175 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q8Y9T5 _struct_ref_seq.db_align_beg 34 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 205 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 34 _struct_ref_seq.pdbx_auth_seq_align_end 205 # 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 2XL4 GLY A 1 ? UNP Q8Y9T5 ? ? 'expression tag' 31 1 1 2XL4 SER A 2 ? UNP Q8Y9T5 ? ? 'expression tag' 32 2 1 2XL4 MSE A 3 ? UNP Q8Y9T5 ? ? 'expression tag' 33 3 1 2XL4 ALA A 97 ? UNP Q8Y9T5 SER 127 'engineered mutation' 127 4 # 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 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 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 2XL4 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.26 _exptl_crystal.density_percent_sol 45.46 _exptl_crystal.description NONE # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '0.15 M NASO4 18% PEG 3350' # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type MARRESEARCH _diffrn_detector.pdbx_collection_date 2009-09-28 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.979 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE BM30A' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline BM30A _diffrn_source.pdbx_wavelength 0.979 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 2XL4 _reflns.observed_criterion_sigma_I 2.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.00 _reflns.d_resolution_high 2.30 _reflns.number_obs 8491 _reflns.number_all ? _reflns.percent_possible_obs 96.4 _reflns.pdbx_Rmerge_I_obs 0.08 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 24.90 _reflns.B_iso_Wilson_estimate 41.23 _reflns.pdbx_redundancy 13.6 _reflns.pdbx_CC_half ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_Rrim_I_all ? # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 2.30 _reflns_shell.d_res_low 6.83 _reflns_shell.percent_possible_all 90.3 _reflns_shell.Rmerge_I_obs 0.50 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 7.00 _reflns_shell.pdbx_redundancy 13.3 _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_Rrim_I_all ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 2XL4 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 8086 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 28.85 _refine.ls_d_res_high 2.30 _refine.ls_percent_reflns_obs 99.98 _refine.ls_R_factor_obs 0.23323 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.23220 _refine.ls_R_factor_R_free 0.25521 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.7 _refine.ls_number_reflns_R_free 398 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.935 _refine.correlation_coeff_Fo_to_Fc_free 0.914 _refine.B_iso_mean 39.261 _refine.aniso_B[1][1] 1.97 _refine.aniso_B[2][2] 1.97 _refine.aniso_B[3][3] -3.94 _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 MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.' _refine.pdbx_starting_model NONE _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.350 _refine.pdbx_overall_ESU_R_Free 0.236 _refine.overall_SU_ML 0.192 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 8.032 _refine.overall_SU_R_Cruickshank_DPI ? _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 1197 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 12 _refine_hist.number_atoms_solvent 41 _refine_hist.number_atoms_total 1250 _refine_hist.d_res_high 2.30 _refine_hist.d_res_low 28.85 # 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 0.020 0.022 ? 1235 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.972 1.978 ? 1652 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5.549 5.000 ? 148 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 38.098 25.932 ? 59 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 22.254 15.000 ? 256 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 27.623 15.000 ? 6 'X-RAY DIFFRACTION' ? r_chiral_restr 0.151 0.200 ? 186 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.008 0.020 ? 887 '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 0.921 1.500 ? 740 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.787 2.000 ? 1196 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 3.636 3.000 ? 495 'X-RAY DIFFRACTION' ? r_scbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it 5.205 4.500 ? 456 'X-RAY DIFFRACTION' ? r_scangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.300 _refine_ls_shell.d_res_low 2.360 _refine_ls_shell.number_reflns_R_work 579 _refine_ls_shell.R_factor_R_work 0.297 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.318 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 35 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 2XL4 _struct.title 'LntA, a virulence factor from Listeria monocytogenes' _struct.pdbx_descriptor 'LMO0438 PROTEIN' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2XL4 _struct_keywords.pdbx_keywords 'IMMUNE SYSTEM' _struct_keywords.text 'TOXIN, IMMUNE SYSTEM' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 SER A 30 ? LYS A 60 ? SER A 60 LYS A 90 1 ? 31 HELX_P HELX_P2 2 ASP A 66 ? SER A 90 ? ASP A 96 SER A 120 1 ? 25 HELX_P HELX_P3 3 ILE A 91 ? ARG A 96 ? ILE A 121 ARG A 126 1 ? 6 HELX_P HELX_P4 4 ALA A 97 ? ALA A 100 ? ALA A 127 ALA A 130 5 ? 4 HELX_P HELX_P5 5 SER A 101 ? ASN A 130 ? SER A 131 ASN A 160 1 ? 30 HELX_P HELX_P6 6 LYS A 133 ? TYR A 143 ? LYS A 163 TYR A 173 1 ? 11 HELX_P HELX_P7 7 ASN A 145 ? LEU A 164 ? ASN A 175 LEU A 194 1 ? 20 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? A GLN 76 C ? ? ? 1_555 A MSE 77 N ? ? A GLN 106 A MSE 107 1_555 ? ? ? ? ? ? ? 1.322 ? covale2 covale ? ? A MSE 77 C ? ? ? 1_555 A ILE 78 N ? ? A MSE 107 A ILE 108 1_555 ? ? ? ? ? ? ? 1.339 ? covale3 covale ? ? A THR 80 C ? ? ? 1_555 A MSE 81 N ? ? A THR 110 A MSE 111 1_555 ? ? ? ? ? ? ? 1.336 ? covale4 covale ? ? A MSE 81 C ? ? ? 1_555 A LYS 82 N ? ? A MSE 111 A LYS 112 1_555 ? ? ? ? ? ? ? 1.328 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 ? ? ? ? 2 'BINDING SITE FOR RESIDUE GOL A 1203' AC2 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE GOL A 1204' # 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 2 SER A 101 ? SER A 131 . ? 1_555 ? 2 AC1 2 ALA A 102 ? ALA A 132 . ? 1_555 ? 3 AC2 5 ASP A 40 ? ASP A 70 . ? 1_555 ? 4 AC2 5 GLU A 43 ? GLU A 73 . ? 1_555 ? 5 AC2 5 ARG A 83 ? ARG A 113 . ? 1_555 ? 6 AC2 5 TYR A 84 ? TYR A 114 . ? 1_555 ? 7 AC2 5 LYS A 133 ? LYS A 163 . ? 3_545 ? # _database_PDB_matrix.entry_id 2XL4 _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 2XL4 _atom_sites.fract_transf_matrix[1][1] 0.020132 _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] 0.020132 _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] 0.007052 _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 SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 31 ? ? ? A . n A 1 2 SER 2 32 ? ? ? A . n A 1 3 MSE 3 33 ? ? ? A . n A 1 4 GLY 4 34 ? ? ? A . n A 1 5 GLU 5 35 ? ? ? A . n A 1 6 ASP 6 36 ? ? ? A . n A 1 7 GLU 7 37 ? ? ? A . n A 1 8 GLY 8 38 ? ? ? A . n A 1 9 GLU 9 39 ? ? ? A . n A 1 10 GLN 10 40 ? ? ? A . n A 1 11 THR 11 41 ? ? ? A . n A 1 12 LYS 12 42 ? ? ? A . n A 1 13 THR 13 43 ? ? ? A . n A 1 14 LYS 14 44 ? ? ? A . n A 1 15 LYS 15 45 ? ? ? A . n A 1 16 ASP 16 46 ? ? ? A . n A 1 17 SER 17 47 ? ? ? A . n A 1 18 ASN 18 48 ? ? ? A . n A 1 19 LYS 19 49 ? ? ? A . n A 1 20 VAL 20 50 ? ? ? A . n A 1 21 VAL 21 51 ? ? ? A . n A 1 22 LYS 22 52 ? ? ? A . n A 1 23 THR 23 53 ? ? ? A . n A 1 24 ALA 24 54 ? ? ? A . n A 1 25 SER 25 55 ? ? ? A . n A 1 26 ARG 26 56 56 ARG ARG A . n A 1 27 PRO 27 57 57 PRO PRO A . n A 1 28 LYS 28 58 58 LYS LYS A . n A 1 29 LEU 29 59 59 LEU LEU A . n A 1 30 SER 30 60 60 SER SER A . n A 1 31 THR 31 61 61 THR THR A . n A 1 32 LYS 32 62 62 LYS LYS A . n A 1 33 ASP 33 63 63 ASP ASP A . n A 1 34 LEU 34 64 64 LEU LEU A . n A 1 35 ALA 35 65 65 ALA ALA A . n A 1 36 LEU 36 66 66 LEU LEU A . n A 1 37 ILE 37 67 67 ILE ILE A . n A 1 38 LYS 38 68 68 LYS LYS A . n A 1 39 ALA 39 69 69 ALA ALA A . n A 1 40 ASP 40 70 70 ASP ASP A . n A 1 41 LEU 41 71 71 LEU LEU A . n A 1 42 ALA 42 72 72 ALA ALA A . n A 1 43 GLU 43 73 73 GLU GLU A . n A 1 44 PHE 44 74 74 PHE PHE A . n A 1 45 GLU 45 75 75 GLU GLU A . n A 1 46 ALA 46 76 76 ALA ALA A . n A 1 47 ARG 47 77 77 ARG ARG A . n A 1 48 GLU 48 78 78 GLU GLU A . n A 1 49 LEU 49 79 79 LEU LEU A . n A 1 50 SER 50 80 80 SER SER A . n A 1 51 SER 51 81 81 SER SER A . n A 1 52 GLU 52 82 82 GLU GLU A . n A 1 53 LYS 53 83 83 LYS LYS A . n A 1 54 ILE 54 84 84 ILE ILE A . n A 1 55 LEU 55 85 85 LEU LEU A . n A 1 56 LYS 56 86 86 LYS LYS A . n A 1 57 ASP 57 87 87 ASP ASP A . n A 1 58 THR 58 88 88 THR THR A . n A 1 59 ILE 59 89 89 ILE ILE A . n A 1 60 LYS 60 90 90 LYS LYS A . n A 1 61 GLU 61 91 91 GLU GLU A . n A 1 62 GLU 62 92 92 GLU GLU A . n A 1 63 SER 63 93 93 SER SER A . n A 1 64 TRP 64 94 94 TRP TRP A . n A 1 65 SER 65 95 95 SER SER A . n A 1 66 ASP 66 96 96 ASP ASP A . n A 1 67 LEU 67 97 97 LEU LEU A . n A 1 68 ASP 68 98 98 ASP ASP A . n A 1 69 PHE 69 99 99 PHE PHE A . n A 1 70 ALA 70 100 100 ALA ALA A . n A 1 71 ASN 71 101 101 ASN ASN A . n A 1 72 ASP 72 102 102 ASP ASP A . n A 1 73 ASN 73 103 103 ASN ASN A . n A 1 74 ILE 74 104 104 ILE ILE A . n A 1 75 ASN 75 105 105 ASN ASN A . n A 1 76 GLN 76 106 106 GLN GLN A . n A 1 77 MSE 77 107 107 MSE MSE A . n A 1 78 ILE 78 108 108 ILE ILE A . n A 1 79 GLY 79 109 109 GLY GLY A . n A 1 80 THR 80 110 110 THR THR A . n A 1 81 MSE 81 111 111 MSE MSE A . n A 1 82 LYS 82 112 112 LYS LYS A . n A 1 83 ARG 83 113 113 ARG ARG A . n A 1 84 TYR 84 114 114 TYR TYR A . n A 1 85 GLN 85 115 115 GLN GLN A . n A 1 86 GLN 86 116 116 GLN GLN A . n A 1 87 GLU 87 117 117 GLU GLU A . n A 1 88 ILE 88 118 118 ILE ILE A . n A 1 89 LEU 89 119 119 LEU LEU A . n A 1 90 SER 90 120 120 SER SER A . n A 1 91 ILE 91 121 121 ILE ILE A . n A 1 92 ASP 92 122 122 ASP ASP A . n A 1 93 ALA 93 123 123 ALA ALA A . n A 1 94 ILE 94 124 124 ILE ILE A . n A 1 95 LYS 95 125 125 LYS LYS A . n A 1 96 ARG 96 126 126 ARG ARG A . n A 1 97 ALA 97 127 127 ALA ALA A . n A 1 98 SER 98 128 128 SER SER A . n A 1 99 GLU 99 129 129 GLU GLU A . n A 1 100 ALA 100 130 130 ALA ALA A . n A 1 101 SER 101 131 131 SER SER A . n A 1 102 ALA 102 132 132 ALA ALA A . n A 1 103 ASP 103 133 133 ASP ASP A . n A 1 104 THR 104 134 134 THR THR A . n A 1 105 GLU 105 135 135 GLU GLU A . n A 1 106 ALA 106 136 136 ALA ALA A . n A 1 107 PHE 107 137 137 PHE PHE A . n A 1 108 LYS 108 138 138 LYS LYS A . n A 1 109 LYS 109 139 139 LYS LYS A . n A 1 110 ILE 110 140 140 ILE ILE A . n A 1 111 PHE 111 141 141 PHE PHE A . n A 1 112 LYS 112 142 142 LYS LYS A . n A 1 113 GLU 113 143 143 GLU GLU A . n A 1 114 TRP 114 144 144 TRP TRP A . n A 1 115 SER 115 145 145 SER SER A . n A 1 116 GLU 116 146 146 GLU GLU A . n A 1 117 PHE 117 147 147 PHE PHE A . n A 1 118 LYS 118 148 148 LYS LYS A . n A 1 119 ILE 119 149 149 ILE ILE A . n A 1 120 GLU 120 150 150 GLU GLU A . n A 1 121 ARG 121 151 151 ARG ARG A . n A 1 122 ILE 122 152 152 ILE ILE A . n A 1 123 GLN 123 153 153 GLN GLN A . n A 1 124 VAL 124 154 154 VAL VAL A . n A 1 125 THR 125 155 155 THR THR A . n A 1 126 ILE 126 156 156 ILE ILE A . n A 1 127 ASP 127 157 157 ASP ASP A . n A 1 128 LEU 128 158 158 LEU LEU A . n A 1 129 LEU 129 159 159 LEU LEU A . n A 1 130 ASN 130 160 160 ASN ASN A . n A 1 131 GLY 131 161 161 GLY GLY A . n A 1 132 LYS 132 162 162 LYS LYS A . n A 1 133 LYS 133 163 163 LYS LYS A . n A 1 134 ASP 134 164 164 ASP ASP A . n A 1 135 SER 135 165 165 SER SER A . n A 1 136 GLU 136 166 166 GLU GLU A . n A 1 137 ALA 137 167 167 ALA ALA A . n A 1 138 VAL 138 168 168 VAL VAL A . n A 1 139 PHE 139 169 169 PHE PHE A . n A 1 140 LYS 140 170 170 LYS LYS A . n A 1 141 LYS 141 171 171 LYS LYS A . n A 1 142 THR 142 172 172 THR THR A . n A 1 143 TYR 143 173 173 TYR TYR A . n A 1 144 PRO 144 174 174 PRO PRO A . n A 1 145 ASN 145 175 175 ASN ASN A . n A 1 146 GLN 146 176 176 GLN GLN A . n A 1 147 ILE 147 177 177 ILE ILE A . n A 1 148 ILE 148 178 178 ILE ILE A . n A 1 149 PHE 149 179 179 PHE PHE A . n A 1 150 LYS 150 180 180 LYS LYS A . n A 1 151 LYS 151 181 181 LYS LYS A . n A 1 152 VAL 152 182 182 VAL VAL A . n A 1 153 ARG 153 183 183 ARG ARG A . n A 1 154 THR 154 184 184 THR THR A . n A 1 155 ASN 155 185 185 ASN ASN A . n A 1 156 LYS 156 186 186 LYS LYS A . n A 1 157 LEU 157 187 187 LEU LEU A . n A 1 158 GLN 158 188 188 GLN GLN A . n A 1 159 THR 159 189 189 THR THR A . n A 1 160 ALA 160 190 190 ALA ALA A . n A 1 161 LEU 161 191 191 LEU LEU A . n A 1 162 ASN 162 192 192 ASN ASN A . n A 1 163 ASN 163 193 193 ASN ASN A . n A 1 164 LEU 164 194 194 LEU LEU A . n A 1 165 LYS 165 195 195 LYS LYS A . n A 1 166 VAL 166 196 196 VAL VAL A . n A 1 167 GLY 167 197 197 GLY GLY A . n A 1 168 TYR 168 198 198 TYR TYR A . n A 1 169 GLU 169 199 199 GLU GLU A . n A 1 170 LEU 170 200 200 LEU LEU A . n A 1 171 LEU 171 201 201 LEU LEU A . n A 1 172 ASP 172 202 202 ASP ASP A . n A 1 173 SER 173 203 ? ? ? A . n A 1 174 GLN 174 204 ? ? ? A . n A 1 175 LYS 175 205 ? ? ? 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 GOL 1 1203 1203 GOL GOL A . C 2 GOL 1 1204 1204 GOL GOL A . D 3 HOH 1 2001 2001 HOH HOH A . D 3 HOH 2 2002 2002 HOH HOH A . D 3 HOH 3 2003 2003 HOH HOH A . D 3 HOH 4 2004 2004 HOH HOH A . D 3 HOH 5 2005 2005 HOH HOH A . D 3 HOH 6 2006 2006 HOH HOH A . D 3 HOH 7 2007 2007 HOH HOH A . D 3 HOH 8 2008 2008 HOH HOH A . D 3 HOH 9 2009 2009 HOH HOH A . D 3 HOH 10 2010 2010 HOH HOH A . D 3 HOH 11 2011 2011 HOH HOH A . D 3 HOH 12 2012 2012 HOH HOH A . D 3 HOH 13 2013 2013 HOH HOH A . D 3 HOH 14 2014 2014 HOH HOH A . D 3 HOH 15 2015 2015 HOH HOH A . D 3 HOH 16 2016 2016 HOH HOH A . D 3 HOH 17 2017 2017 HOH HOH A . D 3 HOH 18 2018 2018 HOH HOH A . D 3 HOH 19 2019 2019 HOH HOH A . D 3 HOH 20 2020 2020 HOH HOH A . D 3 HOH 21 2021 2021 HOH HOH A . D 3 HOH 22 2022 2022 HOH HOH A . D 3 HOH 23 2023 2023 HOH HOH A . D 3 HOH 24 2024 2024 HOH HOH A . D 3 HOH 25 2025 2025 HOH HOH A . D 3 HOH 26 2026 2026 HOH HOH A . D 3 HOH 27 2027 2027 HOH HOH A . D 3 HOH 28 2028 2028 HOH HOH A . D 3 HOH 29 2029 2029 HOH HOH A . D 3 HOH 30 2030 2030 HOH HOH A . D 3 HOH 31 2031 2031 HOH HOH A . D 3 HOH 32 2032 2032 HOH HOH A . D 3 HOH 33 2033 2033 HOH HOH A . D 3 HOH 34 2034 2034 HOH HOH A . D 3 HOH 35 2035 2035 HOH HOH A . D 3 HOH 36 2036 2036 HOH HOH A . D 3 HOH 37 2037 2037 HOH HOH A . D 3 HOH 38 2038 2038 HOH HOH A . D 3 HOH 39 2039 2039 HOH HOH A . D 3 HOH 40 2040 2040 HOH HOH A . D 3 HOH 41 2041 2041 HOH HOH A . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 77 A MSE 107 ? MET 'modified residue' 2 A MSE 81 A MSE 111 ? MET 'modified residue' # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # _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 2011-02-02 2 'Structure model' 1 1 2011-05-08 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2018-10-03 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' 6 4 'Structure model' 'Source and taxonomy' 7 4 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 4 'Structure model' audit_author 2 4 'Structure model' citation 3 4 'Structure model' entity 4 4 'Structure model' entity_name_com 5 4 'Structure model' entity_src_gen 6 4 'Structure model' entity_src_nat 7 4 'Structure model' pdbx_struct_mod_residue 8 4 'Structure model' struct_ref # 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 4 'Structure model' '_audit_author.name' 2 4 'Structure model' '_citation.journal_id_ISSN' 3 4 'Structure model' '_citation.page_last' 4 4 'Structure model' '_citation.pdbx_database_id_DOI' 5 4 'Structure model' '_citation.title' 6 4 'Structure model' '_entity.pdbx_description' 7 4 'Structure model' '_entity.pdbx_mutation' 8 4 'Structure model' '_entity.src_method' 9 4 'Structure model' '_pdbx_struct_mod_residue.details' 10 4 'Structure model' '_struct_ref.db_code' 11 4 'Structure model' '_struct_ref.pdbx_align_begin' 12 4 'Structure model' '_struct_ref.pdbx_seq_one_letter_code' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.5.0102 ? 1 XDS 'data reduction' . ? 2 XDS 'data scaling' . ? 3 SHARP phasing . ? 4 # _pdbx_entry_details.entry_id 2XL4 _pdbx_entry_details.compound_details 'ENGINEERED RESIDUE IN CHAIN A, SER 127 TO ALA' _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CA A MSE 107 ? ? CB A MSE 107 ? ? CG A MSE 107 ? ? 101.98 113.30 -11.32 1.70 N 2 1 CG A MSE 107 ? ? SE A MSE 107 ? ? CE A MSE 107 ? ? 80.29 98.90 -18.61 2.20 N # 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 SER A 95 ? ? -116.07 54.39 2 1 ARG A 126 ? ? -92.58 35.09 3 1 SER A 131 ? ? -48.48 159.17 # 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 31 ? A GLY 1 2 1 Y 1 A SER 32 ? A SER 2 3 1 Y 1 A MSE 33 ? A MSE 3 4 1 Y 1 A GLY 34 ? A GLY 4 5 1 Y 1 A GLU 35 ? A GLU 5 6 1 Y 1 A ASP 36 ? A ASP 6 7 1 Y 1 A GLU 37 ? A GLU 7 8 1 Y 1 A GLY 38 ? A GLY 8 9 1 Y 1 A GLU 39 ? A GLU 9 10 1 Y 1 A GLN 40 ? A GLN 10 11 1 Y 1 A THR 41 ? A THR 11 12 1 Y 1 A LYS 42 ? A LYS 12 13 1 Y 1 A THR 43 ? A THR 13 14 1 Y 1 A LYS 44 ? A LYS 14 15 1 Y 1 A LYS 45 ? A LYS 15 16 1 Y 1 A ASP 46 ? A ASP 16 17 1 Y 1 A SER 47 ? A SER 17 18 1 Y 1 A ASN 48 ? A ASN 18 19 1 Y 1 A LYS 49 ? A LYS 19 20 1 Y 1 A VAL 50 ? A VAL 20 21 1 Y 1 A VAL 51 ? A VAL 21 22 1 Y 1 A LYS 52 ? A LYS 22 23 1 Y 1 A THR 53 ? A THR 23 24 1 Y 1 A ALA 54 ? A ALA 24 25 1 Y 1 A SER 55 ? A SER 25 26 1 Y 1 A SER 203 ? A SER 173 27 1 Y 1 A GLN 204 ? A GLN 174 28 1 Y 1 A LYS 205 ? A LYS 175 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 GLYCEROL GOL 3 water HOH #