data_1Z6I # _entry.id 1Z6I # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.329 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 1Z6I RCSB RCSB032359 WWPDB D_1000032359 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1Z6I _pdbx_database_status.recvd_initial_deposition_date 2005-03-22 _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.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chang, C.-I.' 1 'Ihara, K.' 2 'Chelliah, Y.' 3 'Mengin-Lecreulx, D.' 4 'Wakatsuki, S.' 5 'Deisenhofer, J.' 6 # _citation.id primary _citation.title ;Structure of the ectodomain of Drosophila peptidoglycan-recognition protein LCa suggests a molecular mechanism for pattern recognition ; _citation.journal_abbrev Proc.Natl.Acad.Sci.Usa _citation.journal_volume 102 _citation.page_first 10279 _citation.page_last 10284 _citation.year 2005 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 16006509 _citation.pdbx_database_id_DOI 10.1073/pnas.0504547102 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chang, C.-I.' 1 ? primary 'Ihara, K.' 2 ? primary 'Chelliah, Y.' 3 ? primary 'Mengin-Lecreulx, D.' 4 ? primary 'Wakatsuki, S.' 5 ? primary 'Deisenhofer, J.' 6 ? # _cell.entry_id 1Z6I _cell.length_a 105.799 _cell.length_b 105.799 _cell.length_c 105.799 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Z6I _symmetry.space_group_name_H-M 'P 41 3 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _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 'Peptidoglycan-recognition protein-LC' 18701.281 1 ? ? 'Extracellular domain' ? 2 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 1 ? ? ? ? 3 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 4 water nat water 18.015 25 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Immune response deficient 7 protein' # _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 ;DFVERQQWLAQPPQKEIPDLELPVGLVIALPTNSENCSTQAICVLRVRLLQTYDIESSQKCDIAYNFLIGGDGNVYVGRG WNKMGAHMNNINYDSQSLSFAYIGSFKTIQPSAKQLSVTRLLLERGVKLGKIAPSYRFTASSKLMPSVTDFKADALYASF ANWTHWS ; _entity_poly.pdbx_seq_one_letter_code_can ;DFVERQQWLAQPPQKEIPDLELPVGLVIALPTNSENCSTQAICVLRVRLLQTYDIESSQKCDIAYNFLIGGDGNVYVGRG WNKMGAHMNNINYDSQSLSFAYIGSFKTIQPSAKQLSVTRLLLERGVKLGKIAPSYRFTASSKLMPSVTDFKADALYASF ANWTHWS ; _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 ASP n 1 2 PHE n 1 3 VAL n 1 4 GLU n 1 5 ARG n 1 6 GLN n 1 7 GLN n 1 8 TRP n 1 9 LEU n 1 10 ALA n 1 11 GLN n 1 12 PRO n 1 13 PRO n 1 14 GLN n 1 15 LYS n 1 16 GLU n 1 17 ILE n 1 18 PRO n 1 19 ASP n 1 20 LEU n 1 21 GLU n 1 22 LEU n 1 23 PRO n 1 24 VAL n 1 25 GLY n 1 26 LEU n 1 27 VAL n 1 28 ILE n 1 29 ALA n 1 30 LEU n 1 31 PRO n 1 32 THR n 1 33 ASN n 1 34 SER n 1 35 GLU n 1 36 ASN n 1 37 CYS n 1 38 SER n 1 39 THR n 1 40 GLN n 1 41 ALA n 1 42 ILE n 1 43 CYS n 1 44 VAL n 1 45 LEU n 1 46 ARG n 1 47 VAL n 1 48 ARG n 1 49 LEU n 1 50 LEU n 1 51 GLN n 1 52 THR n 1 53 TYR n 1 54 ASP n 1 55 ILE n 1 56 GLU n 1 57 SER n 1 58 SER n 1 59 GLN n 1 60 LYS n 1 61 CYS n 1 62 ASP n 1 63 ILE n 1 64 ALA n 1 65 TYR n 1 66 ASN n 1 67 PHE n 1 68 LEU n 1 69 ILE n 1 70 GLY n 1 71 GLY n 1 72 ASP n 1 73 GLY n 1 74 ASN n 1 75 VAL n 1 76 TYR n 1 77 VAL n 1 78 GLY n 1 79 ARG n 1 80 GLY n 1 81 TRP n 1 82 ASN n 1 83 LYS n 1 84 MET n 1 85 GLY n 1 86 ALA n 1 87 HIS n 1 88 MET n 1 89 ASN n 1 90 ASN n 1 91 ILE n 1 92 ASN n 1 93 TYR n 1 94 ASP n 1 95 SER n 1 96 GLN n 1 97 SER n 1 98 LEU n 1 99 SER n 1 100 PHE n 1 101 ALA n 1 102 TYR n 1 103 ILE n 1 104 GLY n 1 105 SER n 1 106 PHE n 1 107 LYS n 1 108 THR n 1 109 ILE n 1 110 GLN n 1 111 PRO n 1 112 SER n 1 113 ALA n 1 114 LYS n 1 115 GLN n 1 116 LEU n 1 117 SER n 1 118 VAL n 1 119 THR n 1 120 ARG n 1 121 LEU n 1 122 LEU n 1 123 LEU n 1 124 GLU n 1 125 ARG n 1 126 GLY n 1 127 VAL n 1 128 LYS n 1 129 LEU n 1 130 GLY n 1 131 LYS n 1 132 ILE n 1 133 ALA n 1 134 PRO n 1 135 SER n 1 136 TYR n 1 137 ARG n 1 138 PHE n 1 139 THR n 1 140 ALA n 1 141 SER n 1 142 SER n 1 143 LYS n 1 144 LEU n 1 145 MET n 1 146 PRO n 1 147 SER n 1 148 VAL n 1 149 THR n 1 150 ASP n 1 151 PHE n 1 152 LYS n 1 153 ALA n 1 154 ASP n 1 155 ALA n 1 156 LEU n 1 157 TYR n 1 158 ALA n 1 159 SER n 1 160 PHE n 1 161 ALA n 1 162 ASN n 1 163 TRP n 1 164 THR n 1 165 HIS n 1 166 TRP n 1 167 SER 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 'fruit fly' _entity_src_gen.gene_src_genus Drosophila _entity_src_gen.pdbx_gene_src_gene 'PGRP-LC, ird7, PGRPLC' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _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 'Drosophila melanogaster' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 7227 _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 'fall armyworm' _entity_src_gen.pdbx_host_org_scientific_name 'Spodoptera frugiperda' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 7108 _entity_src_gen.host_org_genus Spodoptera _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 ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name pFASTBAC-HTa _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code PGPLC_DROME _struct_ref.pdbx_db_accession Q9GNK5 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;RFVERQQWLAQPPQKEIPDLELPVGLVIALPTNSENCSTQAICVLRVRLLQTYDIESSQKCDIAYNFLIGGDGNVYVGRG WNKMGAHMNNINYDSQSLSFAYIGSFKTIQPSAKQLSVTRLLLERGVKLGKIAPSYRFTASSKLMPSVTDFKADALYASF ANWTHWS ; _struct_ref.pdbx_align_begin 354 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 1Z6I _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 167 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9GNK5 _struct_ref_seq.db_align_beg 354 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 520 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 354 _struct_ref_seq.pdbx_auth_seq_align_end 520 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 1Z6I _struct_ref_seq_dif.mon_id ASP _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code Q9GNK5 _struct_ref_seq_dif.db_mon_id ARG _struct_ref_seq_dif.pdbx_seq_db_seq_num 354 _struct_ref_seq_dif.details 'cloning artifact' _struct_ref_seq_dif.pdbx_auth_seq_num 354 _struct_ref_seq_dif.pdbx_ordinal 1 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 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 NAG 'D-saccharide, beta linking' . 2-acetamido-2-deoxy-beta-D-glucopyranose ? 'C8 H15 N O6' 221.208 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 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 1Z6I _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.5 _exptl_crystal.density_percent_sol 49.8 _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 298.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 4.2 _exptl_crystal_grow.pdbx_details 'ammonium sulphate, phosphate citrate, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K, temperature 298.0K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 110.0 _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 2005-01-22 _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 'Numerical link type Si(111) double crystal monochromator' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.0000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-5A' _diffrn_source.pdbx_synchrotron_site 'Photon Factory' _diffrn_source.pdbx_synchrotron_beamline BL-5A _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0000 # _reflns.entry_id 1Z6I _reflns.observed_criterion_sigma_F -3.0 _reflns.observed_criterion_sigma_I -3.0 _reflns.d_resolution_high 2.50 _reflns.d_resolution_low 74.54 _reflns.number_all 7484 _reflns.number_obs 7439 _reflns.percent_possible_obs 99.4 _reflns.pdbx_Rmerge_I_obs 0.062 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 27.44 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 6.6 _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 2.50 _reflns_shell.d_res_low 2.59 _reflns_shell.percent_possible_all 99.6 _reflns_shell.Rmerge_I_obs 0.558 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.42 _reflns_shell.pdbx_redundancy 6.6 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 719 _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 1Z6I _refine.ls_number_reflns_obs 7002 _refine.ls_number_reflns_all 7439 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 74.54 _refine.ls_d_res_high 2.50 _refine.ls_percent_reflns_obs 99.40 _refine.ls_R_factor_obs 0.215 _refine.ls_R_factor_all 0.225 _refine.ls_R_factor_R_work 0.213 _refine.ls_R_factor_R_free 0.241 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.5 _refine.ls_number_reflns_R_free 405 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.945 _refine.correlation_coeff_Fo_to_Fc_free 0.925 _refine.B_iso_mean 51.742 _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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_Free 0.272 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.pdbx_overall_ESU_R ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1316 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 24 _refine_hist.number_atoms_solvent 25 _refine_hist.number_atoms_total 1365 _refine_hist.d_res_high 2.50 _refine_hist.d_res_low 74.54 # 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 0.010 0.021 ? 1371 'X-RAY DIFFRACTION' ? r_bond_other_d 0.002 0.020 ? 1215 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.268 1.963 ? 1864 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.803 3.000 ? 2829 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.452 5.000 ? 166 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.074 0.200 ? 206 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.004 0.020 ? 1498 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 273 'X-RAY DIFFRACTION' ? r_nbd_refined 0.194 0.200 ? 252 'X-RAY DIFFRACTION' ? r_nbd_other 0.234 0.200 ? 1375 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other 0.083 0.200 ? 804 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.185 0.200 ? 32 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.205 0.200 ? 8 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 0.200 0.200 ? 39 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.141 0.200 ? 2 '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 0.549 1.500 ? 832 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.082 2.000 ? 1342 'X-RAY DIFFRACTION' ? r_scbond_it 1.483 3.000 ? 539 'X-RAY DIFFRACTION' ? r_scangle_it 2.666 4.500 ? 522 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.50 _refine_ls_shell.d_res_low 2.566 _refine_ls_shell.number_reflns_R_work 505 _refine_ls_shell.R_factor_R_work 0.25 _refine_ls_shell.percent_reflns_obs ? _refine_ls_shell.R_factor_R_free 0.396 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 29 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.R_factor_all ? # _struct.entry_id 1Z6I _struct.title 'Crystal structure of the ectodomain of Drosophila transmembrane receptor PGRP-LCa' _struct.pdbx_descriptor 'Peptidoglycan-recognition protein-LC' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1Z6I _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN,IMMUNE SYSTEM' _struct_keywords.text 'MIXED BETA-SHEET, 3/10 helix, MEMBRANE PROTEIN, 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 3 ? D N N 3 ? E N N 4 ? # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _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 THR A 39 ? SER A 57 ? THR A 392 SER A 410 1 ? 19 HELX_P HELX_P2 2 ASN A 90 ? SER A 95 ? ASN A 443 SER A 448 1 ? 6 HELX_P HELX_P3 3 SER A 112 ? LEU A 129 ? SER A 465 LEU A 482 1 ? 18 HELX_P HELX_P4 4 SER A 141 ? MET A 145 ? SER A 494 MET A 498 1 ? 5 HELX_P HELX_P5 5 VAL A 148 ? LYS A 152 ? VAL A 501 LYS A 505 5 ? 5 HELX_P HELX_P6 6 ASP A 154 ? SER A 159 ? ASP A 507 SER A 512 1 ? 6 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role disulf1 disulf ? ? A CYS 37 SG ? ? ? 1_555 A CYS 43 SG ? ? A CYS 390 A CYS 396 1_555 ? ? ? ? ? ? ? 2.044 ? ? covale1 covale one ? A ASN 36 ND2 ? ? ? 1_555 B NAG . C1 ? ? A ASN 389 A NAG 999 1_555 ? ? ? ? ? ? ? 1.452 ? N-Glycosylation # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id LEU _struct_mon_prot_cis.label_seq_id 22 _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 LEU _struct_mon_prot_cis.auth_seq_id 375 _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 23 _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_2 376 _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 -5.83 # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 6 _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 ? anti-parallel A 3 4 ? parallel A 4 5 ? parallel A 5 6 ? 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 PHE A 2 ? VAL A 3 ? PHE A 355 VAL A 356 A 2 VAL A 75 ? VAL A 77 ? VAL A 428 VAL A 430 A 3 PHE A 67 ? ILE A 69 ? PHE A 420 ILE A 422 A 4 LEU A 98 ? TYR A 102 ? LEU A 451 TYR A 455 A 5 VAL A 24 ? PRO A 31 ? VAL A 377 PRO A 384 A 6 ILE A 132 ? ALA A 140 ? ILE A 485 ALA A 493 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N VAL A 3 ? N VAL A 356 O VAL A 75 ? O VAL A 428 A 2 3 O TYR A 76 ? O TYR A 429 N LEU A 68 ? N LEU A 421 A 3 4 N ILE A 69 ? N ILE A 422 O ALA A 101 ? O ALA A 454 A 4 5 O TYR A 102 ? O TYR A 455 N LEU A 30 ? N LEU A 383 A 5 6 N VAL A 24 ? N VAL A 377 O ALA A 133 ? O ALA A 486 # _database_PDB_matrix.entry_id 1Z6I _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 1Z6I _atom_sites.fract_transf_matrix[1][1] 0.009452 _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] 0.009452 _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] 0.009452 _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 ASP 1 354 354 ASP ASP A . n A 1 2 PHE 2 355 355 PHE PHE A . n A 1 3 VAL 3 356 356 VAL VAL A . n A 1 4 GLU 4 357 357 GLU GLU A . n A 1 5 ARG 5 358 358 ARG ARG A . n A 1 6 GLN 6 359 359 GLN GLN A . n A 1 7 GLN 7 360 360 GLN GLN A . n A 1 8 TRP 8 361 361 TRP TRP A . n A 1 9 LEU 9 362 362 LEU LEU A . n A 1 10 ALA 10 363 363 ALA ALA A . n A 1 11 GLN 11 364 364 GLN GLN A . n A 1 12 PRO 12 365 365 PRO PRO A . n A 1 13 PRO 13 366 366 PRO PRO A . n A 1 14 GLN 14 367 367 GLN GLN A . n A 1 15 LYS 15 368 368 LYS LYS A . n A 1 16 GLU 16 369 369 GLU GLU A . n A 1 17 ILE 17 370 370 ILE ILE A . n A 1 18 PRO 18 371 371 PRO PRO A . n A 1 19 ASP 19 372 372 ASP ASP A . n A 1 20 LEU 20 373 373 LEU LEU A . n A 1 21 GLU 21 374 374 GLU GLU A . n A 1 22 LEU 22 375 375 LEU LEU A . n A 1 23 PRO 23 376 376 PRO PRO A . n A 1 24 VAL 24 377 377 VAL VAL A . n A 1 25 GLY 25 378 378 GLY GLY A . n A 1 26 LEU 26 379 379 LEU LEU A . n A 1 27 VAL 27 380 380 VAL VAL A . n A 1 28 ILE 28 381 381 ILE ILE A . n A 1 29 ALA 29 382 382 ALA ALA A . n A 1 30 LEU 30 383 383 LEU LEU A . n A 1 31 PRO 31 384 384 PRO PRO A . n A 1 32 THR 32 385 385 THR THR A . n A 1 33 ASN 33 386 386 ASN ASN A . n A 1 34 SER 34 387 387 SER SER A . n A 1 35 GLU 35 388 388 GLU GLU A . n A 1 36 ASN 36 389 389 ASN ASN A . n A 1 37 CYS 37 390 390 CYS CYS A . n A 1 38 SER 38 391 391 SER SER A . n A 1 39 THR 39 392 392 THR THR A . n A 1 40 GLN 40 393 393 GLN GLN A . n A 1 41 ALA 41 394 394 ALA ALA A . n A 1 42 ILE 42 395 395 ILE ILE A . n A 1 43 CYS 43 396 396 CYS CYS A . n A 1 44 VAL 44 397 397 VAL VAL A . n A 1 45 LEU 45 398 398 LEU LEU A . n A 1 46 ARG 46 399 399 ARG ARG A . n A 1 47 VAL 47 400 400 VAL VAL A . n A 1 48 ARG 48 401 401 ARG ARG A . n A 1 49 LEU 49 402 402 LEU LEU A . n A 1 50 LEU 50 403 403 LEU LEU A . n A 1 51 GLN 51 404 404 GLN GLN A . n A 1 52 THR 52 405 405 THR THR A . n A 1 53 TYR 53 406 406 TYR TYR A . n A 1 54 ASP 54 407 407 ASP ASP A . n A 1 55 ILE 55 408 408 ILE ILE A . n A 1 56 GLU 56 409 409 GLU GLU A . n A 1 57 SER 57 410 410 SER SER A . n A 1 58 SER 58 411 411 SER SER A . n A 1 59 GLN 59 412 412 GLN GLN A . n A 1 60 LYS 60 413 413 LYS LYS A . n A 1 61 CYS 61 414 414 CYS CYS A . n A 1 62 ASP 62 415 415 ASP ASP A . n A 1 63 ILE 63 416 416 ILE ILE A . n A 1 64 ALA 64 417 417 ALA ALA A . n A 1 65 TYR 65 418 418 TYR TYR A . n A 1 66 ASN 66 419 419 ASN ASN A . n A 1 67 PHE 67 420 420 PHE PHE A . n A 1 68 LEU 68 421 421 LEU LEU A . n A 1 69 ILE 69 422 422 ILE ILE A . n A 1 70 GLY 70 423 423 GLY GLY A . n A 1 71 GLY 71 424 424 GLY GLY A . n A 1 72 ASP 72 425 425 ASP ASP A . n A 1 73 GLY 73 426 426 GLY GLY A . n A 1 74 ASN 74 427 427 ASN ASN A . n A 1 75 VAL 75 428 428 VAL VAL A . n A 1 76 TYR 76 429 429 TYR TYR A . n A 1 77 VAL 77 430 430 VAL VAL A . n A 1 78 GLY 78 431 431 GLY GLY A . n A 1 79 ARG 79 432 432 ARG ARG A . n A 1 80 GLY 80 433 433 GLY GLY A . n A 1 81 TRP 81 434 434 TRP TRP A . n A 1 82 ASN 82 435 435 ASN ASN A . n A 1 83 LYS 83 436 436 LYS LYS A . n A 1 84 MET 84 437 437 MET MET A . n A 1 85 GLY 85 438 438 GLY GLY A . n A 1 86 ALA 86 439 439 ALA ALA A . n A 1 87 HIS 87 440 440 HIS HIS A . n A 1 88 MET 88 441 441 MET MET A . n A 1 89 ASN 89 442 442 ASN ASN A . n A 1 90 ASN 90 443 443 ASN ASN A . n A 1 91 ILE 91 444 444 ILE ILE A . n A 1 92 ASN 92 445 445 ASN ASN A . n A 1 93 TYR 93 446 446 TYR TYR A . n A 1 94 ASP 94 447 447 ASP ASP A . n A 1 95 SER 95 448 448 SER SER A . n A 1 96 GLN 96 449 449 GLN GLN A . n A 1 97 SER 97 450 450 SER SER A . n A 1 98 LEU 98 451 451 LEU LEU A . n A 1 99 SER 99 452 452 SER SER A . n A 1 100 PHE 100 453 453 PHE PHE A . n A 1 101 ALA 101 454 454 ALA ALA A . n A 1 102 TYR 102 455 455 TYR TYR A . n A 1 103 ILE 103 456 456 ILE ILE A . n A 1 104 GLY 104 457 457 GLY GLY A . n A 1 105 SER 105 458 458 SER SER A . n A 1 106 PHE 106 459 459 PHE PHE A . n A 1 107 LYS 107 460 460 LYS LYS A . n A 1 108 THR 108 461 461 THR THR A . n A 1 109 ILE 109 462 462 ILE ILE A . n A 1 110 GLN 110 463 463 GLN GLN A . n A 1 111 PRO 111 464 464 PRO PRO A . n A 1 112 SER 112 465 465 SER SER A . n A 1 113 ALA 113 466 466 ALA ALA A . n A 1 114 LYS 114 467 467 LYS LYS A . n A 1 115 GLN 115 468 468 GLN GLN A . n A 1 116 LEU 116 469 469 LEU LEU A . n A 1 117 SER 117 470 470 SER SER A . n A 1 118 VAL 118 471 471 VAL VAL A . n A 1 119 THR 119 472 472 THR THR A . n A 1 120 ARG 120 473 473 ARG ARG A . n A 1 121 LEU 121 474 474 LEU LEU A . n A 1 122 LEU 122 475 475 LEU LEU A . n A 1 123 LEU 123 476 476 LEU LEU A . n A 1 124 GLU 124 477 477 GLU GLU A . n A 1 125 ARG 125 478 478 ARG ARG A . n A 1 126 GLY 126 479 479 GLY GLY A . n A 1 127 VAL 127 480 480 VAL VAL A . n A 1 128 LYS 128 481 481 LYS LYS A . n A 1 129 LEU 129 482 482 LEU LEU A . n A 1 130 GLY 130 483 483 GLY GLY A . n A 1 131 LYS 131 484 484 LYS LYS A . n A 1 132 ILE 132 485 485 ILE ILE A . n A 1 133 ALA 133 486 486 ALA ALA A . n A 1 134 PRO 134 487 487 PRO PRO A . n A 1 135 SER 135 488 488 SER SER A . n A 1 136 TYR 136 489 489 TYR TYR A . n A 1 137 ARG 137 490 490 ARG ARG A . n A 1 138 PHE 138 491 491 PHE PHE A . n A 1 139 THR 139 492 492 THR THR A . n A 1 140 ALA 140 493 493 ALA ALA A . n A 1 141 SER 141 494 494 SER SER A . n A 1 142 SER 142 495 495 SER SER A . n A 1 143 LYS 143 496 496 LYS LYS A . n A 1 144 LEU 144 497 497 LEU LEU A . n A 1 145 MET 145 498 498 MET MET A . n A 1 146 PRO 146 499 499 PRO PRO A . n A 1 147 SER 147 500 500 SER SER A . n A 1 148 VAL 148 501 501 VAL VAL A . n A 1 149 THR 149 502 502 THR THR A . n A 1 150 ASP 150 503 503 ASP ASP A . n A 1 151 PHE 151 504 504 PHE PHE A . n A 1 152 LYS 152 505 505 LYS LYS A . n A 1 153 ALA 153 506 506 ALA ALA A . n A 1 154 ASP 154 507 507 ASP ASP A . n A 1 155 ALA 155 508 508 ALA ALA A . n A 1 156 LEU 156 509 509 LEU LEU A . n A 1 157 TYR 157 510 510 TYR TYR A . n A 1 158 ALA 158 511 511 ALA ALA A . n A 1 159 SER 159 512 512 SER SER A . n A 1 160 PHE 160 513 513 PHE PHE A . n A 1 161 ALA 161 514 514 ALA ALA A . n A 1 162 ASN 162 515 515 ASN ASN A . n A 1 163 TRP 163 516 516 TRP TRP A . n A 1 164 THR 164 517 517 THR THR A . n A 1 165 HIS 165 518 518 HIS HIS A . n A 1 166 TRP 166 519 519 TRP TRP A . n A 1 167 SER 167 520 520 SER SER 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 NAG 1 999 999 NAG NAG A . C 3 SO4 1 201 201 SO4 SO4 A . D 3 SO4 1 202 202 SO4 SO4 A . E 4 HOH 1 1 1 HOH HOH A . E 4 HOH 2 2 2 HOH HOH A . E 4 HOH 3 3 3 HOH HOH A . E 4 HOH 4 4 4 HOH HOH A . E 4 HOH 5 5 5 HOH HOH A . E 4 HOH 6 6 6 HOH HOH A . E 4 HOH 7 7 7 HOH HOH A . E 4 HOH 8 8 8 HOH HOH A . E 4 HOH 9 9 9 HOH HOH A . E 4 HOH 10 10 10 HOH HOH A . E 4 HOH 11 11 11 HOH HOH A . E 4 HOH 12 12 12 HOH HOH A . E 4 HOH 13 13 13 HOH HOH A . E 4 HOH 14 14 14 HOH HOH A . E 4 HOH 15 15 15 HOH HOH A . E 4 HOH 16 16 16 HOH HOH A . E 4 HOH 17 17 17 HOH HOH A . E 4 HOH 18 18 18 HOH HOH A . E 4 HOH 19 19 19 HOH HOH A . E 4 HOH 20 20 20 HOH HOH A . E 4 HOH 21 21 21 HOH HOH A . E 4 HOH 22 22 22 HOH HOH A . E 4 HOH 23 23 23 HOH HOH A . E 4 HOH 24 24 24 HOH HOH A . E 4 HOH 25 25 25 HOH HOH A . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id ASN _pdbx_struct_mod_residue.label_seq_id 36 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id ASN _pdbx_struct_mod_residue.auth_seq_id 389 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id ASN _pdbx_struct_mod_residue.details 'GLYCOSYLATION SITE' # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _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,E # _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 2005-07-19 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2020-07-29 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 4 'Structure model' repository Remediation 'Carbohydrate remediation' ? # 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' 'Non-polymer description' 3 3 'Structure model' 'Version format compliance' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Derived calculations' 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' chem_comp 2 4 'Structure model' entity 3 4 'Structure model' pdbx_chem_comp_identifier 4 4 'Structure model' pdbx_entity_nonpoly 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_ref_seq_dif 7 4 'Structure model' struct_site 8 4 'Structure model' struct_site_gen # 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' '_chem_comp.name' 2 4 'Structure model' '_chem_comp.type' 3 4 'Structure model' '_entity.pdbx_description' 4 4 'Structure model' '_pdbx_entity_nonpoly.name' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_conn.pdbx_role' 7 4 'Structure model' '_struct_ref_seq_dif.details' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.1.24 ? 1 HKL-2000 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 PHASER phasing . ? 4 # 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 CB A ASP 372 ? ? CG A ASP 372 ? ? OD2 A ASP 372 ? ? 124.49 118.30 6.19 0.90 N 2 1 CB A ASP 507 ? ? CG A ASP 507 ? ? OD2 A ASP 507 ? ? 123.93 118.30 5.63 0.90 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 ALA A 506 ? ? -112.98 -75.52 2 1 ASP A 507 ? ? 100.76 -55.85 # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier NAG 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpNAcb NAG 'COMMON NAME' GMML 1.0 N-acetyl-b-D-glucopyranosamine NAG 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-GlcpNAc NAG 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 GlcNAc # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 2-acetamido-2-deoxy-beta-D-glucopyranose NAG 3 'SULFATE ION' SO4 4 water HOH #