data_3QNT # _entry.id 3QNT # _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 3QNT RCSB RCSB063878 WWPDB D_1000063878 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3QNT _pdbx_database_status.recvd_initial_deposition_date 2011-02-09 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # _audit_author.name 'Kwon, H.J.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'The Structure of the NPC1L1 N-Terminal Domain in a Closed Conformation.' _citation.journal_abbrev 'Plos One' _citation.journal_volume 6 _citation.page_first e18722 _citation.page_last e18722 _citation.year 2011 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1932-6203 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21525977 _citation.pdbx_database_id_DOI 10.1371/journal.pone.0018722 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kwon, H.J.' 1 ? primary 'Palnitkar, M.' 2 ? primary 'Deisenhofer, J.' 3 ? # _cell.entry_id 3QNT _cell.length_a 73.235 _cell.length_b 107.133 _cell.length_c 68.718 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3QNT _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _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 'Niemann-Pick C1-like protein 1' 28074.682 1 ? ? 'UNP residues 22-284' ? 2 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 2 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'NPC1-like 1 protein, NPC1L1 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 ;GAEPYTTIHQPGYCAFYDECGKNPELSGSLMTLSNVSCLSNTPARKITGDHLILLQKICPRLYTGPNTQACCSAKQLVSL EASLSITKALLTRCPACSDNFVNLHCHNTCSPNQSLFINVTRVAQLGAGQLPAVVAYEAFYQHSFAEQSYDSCSRVRVPA AATLAVGTMCGVYGSALCNAQRWLNFQGDTGNGLAPLDITFHLLEPGQAVGSGIQPLNEGVARCNESQGDDVATCSCQDC AASCPAIARPQALDSTFYLGQMPGS ; _entity_poly.pdbx_seq_one_letter_code_can ;GAEPYTTIHQPGYCAFYDECGKNPELSGSLMTLSNVSCLSNTPARKITGDHLILLQKICPRLYTGPNTQACCSAKQLVSL EASLSITKALLTRCPACSDNFVNLHCHNTCSPNQSLFINVTRVAQLGAGQLPAVVAYEAFYQHSFAEQSYDSCSRVRVPA AATLAVGTMCGVYGSALCNAQRWLNFQGDTGNGLAPLDITFHLLEPGQAVGSGIQPLNEGVARCNESQGDDVATCSCQDC AASCPAIARPQALDSTFYLGQMPGS ; _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 ALA n 1 3 GLU n 1 4 PRO n 1 5 TYR n 1 6 THR n 1 7 THR n 1 8 ILE n 1 9 HIS n 1 10 GLN n 1 11 PRO n 1 12 GLY n 1 13 TYR n 1 14 CYS n 1 15 ALA n 1 16 PHE n 1 17 TYR n 1 18 ASP n 1 19 GLU n 1 20 CYS n 1 21 GLY n 1 22 LYS n 1 23 ASN n 1 24 PRO n 1 25 GLU n 1 26 LEU n 1 27 SER n 1 28 GLY n 1 29 SER n 1 30 LEU n 1 31 MET n 1 32 THR n 1 33 LEU n 1 34 SER n 1 35 ASN n 1 36 VAL n 1 37 SER n 1 38 CYS n 1 39 LEU n 1 40 SER n 1 41 ASN n 1 42 THR n 1 43 PRO n 1 44 ALA n 1 45 ARG n 1 46 LYS n 1 47 ILE n 1 48 THR n 1 49 GLY n 1 50 ASP n 1 51 HIS n 1 52 LEU n 1 53 ILE n 1 54 LEU n 1 55 LEU n 1 56 GLN n 1 57 LYS n 1 58 ILE n 1 59 CYS n 1 60 PRO n 1 61 ARG n 1 62 LEU n 1 63 TYR n 1 64 THR n 1 65 GLY n 1 66 PRO n 1 67 ASN n 1 68 THR n 1 69 GLN n 1 70 ALA n 1 71 CYS n 1 72 CYS n 1 73 SER n 1 74 ALA n 1 75 LYS n 1 76 GLN n 1 77 LEU n 1 78 VAL n 1 79 SER n 1 80 LEU n 1 81 GLU n 1 82 ALA n 1 83 SER n 1 84 LEU n 1 85 SER n 1 86 ILE n 1 87 THR n 1 88 LYS n 1 89 ALA n 1 90 LEU n 1 91 LEU n 1 92 THR n 1 93 ARG n 1 94 CYS n 1 95 PRO n 1 96 ALA n 1 97 CYS n 1 98 SER n 1 99 ASP n 1 100 ASN n 1 101 PHE n 1 102 VAL n 1 103 ASN n 1 104 LEU n 1 105 HIS n 1 106 CYS n 1 107 HIS n 1 108 ASN n 1 109 THR n 1 110 CYS n 1 111 SER n 1 112 PRO n 1 113 ASN n 1 114 GLN n 1 115 SER n 1 116 LEU n 1 117 PHE n 1 118 ILE n 1 119 ASN n 1 120 VAL n 1 121 THR n 1 122 ARG n 1 123 VAL n 1 124 ALA n 1 125 GLN n 1 126 LEU n 1 127 GLY n 1 128 ALA n 1 129 GLY n 1 130 GLN n 1 131 LEU n 1 132 PRO n 1 133 ALA n 1 134 VAL n 1 135 VAL n 1 136 ALA n 1 137 TYR n 1 138 GLU n 1 139 ALA n 1 140 PHE n 1 141 TYR n 1 142 GLN n 1 143 HIS n 1 144 SER n 1 145 PHE n 1 146 ALA n 1 147 GLU n 1 148 GLN n 1 149 SER n 1 150 TYR n 1 151 ASP n 1 152 SER n 1 153 CYS n 1 154 SER n 1 155 ARG n 1 156 VAL n 1 157 ARG n 1 158 VAL n 1 159 PRO n 1 160 ALA n 1 161 ALA n 1 162 ALA n 1 163 THR n 1 164 LEU n 1 165 ALA n 1 166 VAL n 1 167 GLY n 1 168 THR n 1 169 MET n 1 170 CYS n 1 171 GLY n 1 172 VAL n 1 173 TYR n 1 174 GLY n 1 175 SER n 1 176 ALA n 1 177 LEU n 1 178 CYS n 1 179 ASN n 1 180 ALA n 1 181 GLN n 1 182 ARG n 1 183 TRP n 1 184 LEU n 1 185 ASN n 1 186 PHE n 1 187 GLN n 1 188 GLY n 1 189 ASP n 1 190 THR n 1 191 GLY n 1 192 ASN n 1 193 GLY n 1 194 LEU n 1 195 ALA n 1 196 PRO n 1 197 LEU n 1 198 ASP n 1 199 ILE n 1 200 THR n 1 201 PHE n 1 202 HIS n 1 203 LEU n 1 204 LEU n 1 205 GLU n 1 206 PRO n 1 207 GLY n 1 208 GLN n 1 209 ALA n 1 210 VAL n 1 211 GLY n 1 212 SER n 1 213 GLY n 1 214 ILE n 1 215 GLN n 1 216 PRO n 1 217 LEU n 1 218 ASN n 1 219 GLU n 1 220 GLY n 1 221 VAL n 1 222 ALA n 1 223 ARG n 1 224 CYS n 1 225 ASN n 1 226 GLU n 1 227 SER n 1 228 GLN n 1 229 GLY n 1 230 ASP n 1 231 ASP n 1 232 VAL n 1 233 ALA n 1 234 THR n 1 235 CYS n 1 236 SER n 1 237 CYS n 1 238 GLN n 1 239 ASP n 1 240 CYS n 1 241 ALA n 1 242 ALA n 1 243 SER n 1 244 CYS n 1 245 PRO n 1 246 ALA n 1 247 ILE n 1 248 ALA n 1 249 ARG n 1 250 PRO n 1 251 GLN n 1 252 ALA n 1 253 LEU n 1 254 ASP n 1 255 SER n 1 256 THR n 1 257 PHE n 1 258 TYR n 1 259 LEU n 1 260 GLY n 1 261 GLN n 1 262 MET n 1 263 PRO n 1 264 GLY n 1 265 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 human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene NPC1L1 _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 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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 'TRICHOPLUSIA NI' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 7111 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code NPCL1_HUMAN _struct_ref.pdbx_db_accession Q9UHC9 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;EPYTTIHQPGYCAFYDECGKNPELSGSLMTLSNVSCLSNTPARKITGDHLILLQKICPRLYTGPNTQACCSAKQLVSLEA SLSITKALLTRCPACSDNFVNLHCHNTCSPNQSLFINVTRVAQLGAGQLPAVVAYEAFYQHSFAEQSYDSCSRVRVPAAA TLAVGTMCGVYGSALCNAQRWLNFQGDTGNGLAPLDITFHLLEPGQAVGSGIQPLNEGVARCNESQGDDVATCSCQDCAA SCPAIARPQALDSTFYLGQMPGS ; _struct_ref.pdbx_align_begin 22 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3QNT _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 265 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9UHC9 _struct_ref_seq.db_align_beg 22 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 284 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 22 _struct_ref_seq.pdbx_auth_seq_align_end 284 # 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 3QNT GLY A 1 ? UNP Q9UHC9 ? ? 'expression tag' 20 1 1 3QNT ALA A 2 ? UNP Q9UHC9 ? ? 'expression tag' 21 2 # 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 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 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 3QNT _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.40 _exptl_crystal.density_percent_sol 48.76 _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 294 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_details 'pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2010-06-18 _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 0.97929 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97929 # _reflns.entry_id 3QNT _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50 _reflns.d_resolution_high 2.83 _reflns.number_obs 6148 _reflns.number_all ? _reflns.percent_possible_obs 92.3 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _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_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.83 _reflns_shell.d_res_low 2.90 _reflns_shell.percent_possible_all 83.0 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3QNT _refine.ls_number_reflns_obs 5831 _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 45.39 _refine.ls_d_res_high 2.83 _refine.ls_percent_reflns_obs 91.63 _refine.ls_R_factor_obs 0.22933 _refine.ls_R_factor_R_work 0.22602 _refine.ls_R_factor_R_free 0.29049 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.9 _refine.ls_number_reflns_R_free 299 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.915 _refine.correlation_coeff_Fo_to_Fc_free 0.861 _refine.B_iso_mean 50.144 _refine.aniso_B[1][1] -0.40 _refine.aniso_B[2][2] 3.44 _refine.aniso_B[3][3] -3.04 _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 1.20 _refine.pdbx_solvent_ion_probe_radii 1.00 _refine.pdbx_solvent_shrinkage_radii 1.00 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _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 0.483 _refine.overall_SU_ML 0.385 _refine.overall_SU_B 44.052 _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.ls_R_factor_all ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_ESU_R ? _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 1804 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 28 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1832 _refine_hist.d_res_high 2.83 _refine_hist.d_res_low 45.39 # 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 0.006 0.021 ? 1879 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.027 1.973 ? 2569 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 4.747 5.000 ? 243 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 39.107 25.065 ? 77 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 18.153 15.000 ? 278 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 17.999 15.000 ? 8 'X-RAY DIFFRACTION' ? r_chiral_restr 0.062 0.200 ? 297 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.002 0.020 ? 1423 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.187 0.200 ? 799 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.293 0.200 ? 1291 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.120 0.200 ? 63 '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 0.167 0.200 ? 69 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.053 0.200 ? 1 '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 0.205 1.500 ? 1240 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 0.378 2.000 ? 1949 'X-RAY DIFFRACTION' ? r_scbond_it 0.447 3.000 ? 702 'X-RAY DIFFRACTION' ? r_scangle_it 0.776 4.500 ? 620 '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 2.83 _refine_ls_shell.d_res_low 2.906 _refine_ls_shell.number_reflns_R_work 317 _refine_ls_shell.R_factor_R_work 0.251 _refine_ls_shell.percent_reflns_obs 71.58 _refine_ls_shell.R_factor_R_free 0.421 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 18 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3QNT _struct.title 'NPC1L1 (NTD) Structure' _struct.pdbx_descriptor 'NPC1 (Niemann-Pick disease, type C1, gene)-like 1, isoform CRA_b' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3QNT _struct_keywords.pdbx_keywords 'TRANSPORT PROTEIN' _struct_keywords.text 'Cholesterol Transport Protein, TRANSPORT PROTEIN' # 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 ? # _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 THR A 48 ? CYS A 59 ? THR A 67 CYS A 78 1 ? 12 HELX_P HELX_P2 2 PRO A 60 ? TYR A 63 ? PRO A 79 TYR A 82 5 ? 4 HELX_P HELX_P3 3 SER A 73 ? LEU A 91 ? SER A 92 LEU A 110 1 ? 19 HELX_P HELX_P4 4 CYS A 94 ? SER A 111 ? CYS A 113 SER A 130 1 ? 18 HELX_P HELX_P5 5 ASN A 113 ? LEU A 116 ? ASN A 132 LEU A 135 5 ? 4 HELX_P HELX_P6 6 HIS A 143 ? SER A 154 ? HIS A 162 SER A 173 1 ? 12 HELX_P HELX_P7 7 VAL A 166 ? CYS A 170 ? VAL A 185 CYS A 189 5 ? 5 HELX_P HELX_P8 8 ASN A 179 ? GLY A 188 ? ASN A 198 GLY A 207 1 ? 10 HELX_P HELX_P9 9 GLU A 205 ? VAL A 210 ? GLU A 224 VAL A 229 1 ? 6 HELX_P HELX_P10 10 CYS A 240 ? CYS A 244 ? CYS A 259 CYS A 263 5 ? 5 # _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 14 SG ? ? ? 1_555 A CYS 71 SG ? ? A CYS 33 A CYS 90 1_555 ? ? ? ? ? ? ? 2.031 ? ? disulf2 disulf ? ? A CYS 20 SG ? ? ? 1_555 A CYS 38 SG ? ? A CYS 39 A CYS 57 1_555 ? ? ? ? ? ? ? 2.043 ? ? disulf3 disulf ? ? A CYS 59 SG ? ? ? 1_555 A CYS 106 SG ? ? A CYS 78 A CYS 125 1_555 ? ? ? ? ? ? ? 2.035 ? ? disulf4 disulf ? ? A CYS 72 SG ? ? ? 1_555 A CYS 110 SG ? ? A CYS 91 A CYS 129 1_555 ? ? ? ? ? ? ? 2.039 ? ? disulf5 disulf ? ? A CYS 94 SG ? ? ? 1_555 A CYS 235 SG ? ? A CYS 113 A CYS 254 1_555 ? ? ? ? ? ? ? 2.041 ? ? disulf6 disulf ? ? A CYS 97 SG ? ? ? 1_555 A CYS 153 SG ? ? A CYS 116 A CYS 172 1_555 ? ? ? ? ? ? ? 2.043 ? ? disulf7 disulf ? ? A CYS 170 SG ? ? ? 1_555 A CYS 178 SG ? ? A CYS 189 A CYS 197 1_555 ? ? ? ? ? ? ? 2.042 ? ? disulf8 disulf ? ? A CYS 224 SG ? ? ? 1_555 A CYS 240 SG ? ? A CYS 243 A CYS 259 1_555 ? ? ? ? ? ? ? 2.038 ? ? disulf9 disulf ? ? A CYS 237 SG ? ? ? 1_555 A CYS 244 SG ? ? A CYS 256 A CYS 263 1_555 ? ? ? ? ? ? ? 2.034 ? ? covale1 covale one ? B NAG . C1 ? ? ? 1_555 A ASN 35 ND2 ? ? A NAG 1 A ASN 54 1_555 ? ? ? ? ? ? ? 1.446 ? N-Glycosylation covale2 covale one ? C NAG . C1 ? ? ? 1_555 A ASN 119 ND2 ? ? A NAG 2 A ASN 138 1_555 ? ? ? ? ? ? ? 1.447 ? 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 CYS _struct_mon_prot_cis.label_seq_id 244 _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 CYS _struct_mon_prot_cis.auth_seq_id 263 _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_2 245 _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_2 264 _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 1.81 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 4 ? C ? 2 ? # 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 A 3 4 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? parallel C 1 2 ? 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 PHE A 16 ? GLY A 21 ? PHE A 35 GLY A 40 A 2 VAL A 36 ? LEU A 39 ? VAL A 55 LEU A 58 A 3 ALA A 133 ? GLN A 142 ? ALA A 152 GLN A 161 A 4 ILE A 118 ? ALA A 124 ? ILE A 137 ALA A 143 B 1 PHE A 16 ? GLY A 21 ? PHE A 35 GLY A 40 B 2 VAL A 36 ? LEU A 39 ? VAL A 55 LEU A 58 B 3 ALA A 133 ? GLN A 142 ? ALA A 152 GLN A 161 B 4 ASP A 198 ? LEU A 204 ? ASP A 217 LEU A 223 C 1 ARG A 45 ? LYS A 46 ? ARG A 64 LYS A 65 C 2 GLN A 69 ? ALA A 70 ? GLN A 88 ALA A 89 # 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 CYS A 20 ? N CYS A 39 O VAL A 36 ? O VAL A 55 A 2 3 N SER A 37 ? N SER A 56 O VAL A 134 ? O VAL A 153 A 3 4 O ALA A 133 ? O ALA A 152 N ALA A 124 ? N ALA A 143 B 1 2 N CYS A 20 ? N CYS A 39 O VAL A 36 ? O VAL A 55 B 2 3 N SER A 37 ? N SER A 56 O VAL A 134 ? O VAL A 153 B 3 4 N TYR A 141 ? N TYR A 160 O HIS A 202 ? O HIS A 221 C 1 2 N ARG A 45 ? N ARG A 64 O ALA A 70 ? O ALA A 89 # _database_PDB_matrix.entry_id 3QNT _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 3QNT _atom_sites.fract_transf_matrix[1][1] 0.013655 _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] 0.009334 _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] 0.014552 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 20 ? ? ? A . n A 1 2 ALA 2 21 ? ? ? A . n A 1 3 GLU 3 22 22 GLU GLU A . n A 1 4 PRO 4 23 23 PRO PRO A . n A 1 5 TYR 5 24 24 TYR TYR A . n A 1 6 THR 6 25 25 THR THR A . n A 1 7 THR 7 26 26 THR THR A . n A 1 8 ILE 8 27 27 ILE ILE A . n A 1 9 HIS 9 28 28 HIS HIS A . n A 1 10 GLN 10 29 29 GLN GLN A . n A 1 11 PRO 11 30 30 PRO PRO A . n A 1 12 GLY 12 31 31 GLY GLY A . n A 1 13 TYR 13 32 32 TYR TYR A . n A 1 14 CYS 14 33 33 CYS CYS A . n A 1 15 ALA 15 34 34 ALA ALA A . n A 1 16 PHE 16 35 35 PHE PHE A . n A 1 17 TYR 17 36 36 TYR TYR A . n A 1 18 ASP 18 37 37 ASP ASP A . n A 1 19 GLU 19 38 38 GLU GLU A . n A 1 20 CYS 20 39 39 CYS CYS A . n A 1 21 GLY 21 40 40 GLY GLY A . n A 1 22 LYS 22 41 41 LYS LYS A . n A 1 23 ASN 23 42 42 ASN ASN A . n A 1 24 PRO 24 43 43 PRO PRO A . n A 1 25 GLU 25 44 44 GLU GLU A . n A 1 26 LEU 26 45 45 LEU LEU A . n A 1 27 SER 27 46 46 SER SER A . n A 1 28 GLY 28 47 47 GLY GLY A . n A 1 29 SER 29 48 48 SER SER A . n A 1 30 LEU 30 49 49 LEU LEU A . n A 1 31 MET 31 50 50 MET MET A . n A 1 32 THR 32 51 51 THR THR A . n A 1 33 LEU 33 52 52 LEU LEU A . n A 1 34 SER 34 53 53 SER SER A . n A 1 35 ASN 35 54 54 ASN ASN A . n A 1 36 VAL 36 55 55 VAL VAL A . n A 1 37 SER 37 56 56 SER SER A . n A 1 38 CYS 38 57 57 CYS CYS A . n A 1 39 LEU 39 58 58 LEU LEU A . n A 1 40 SER 40 59 59 SER SER A . n A 1 41 ASN 41 60 60 ASN ASN A . n A 1 42 THR 42 61 61 THR THR A . n A 1 43 PRO 43 62 62 PRO PRO A . n A 1 44 ALA 44 63 63 ALA ALA A . n A 1 45 ARG 45 64 64 ARG ARG A . n A 1 46 LYS 46 65 65 LYS LYS A . n A 1 47 ILE 47 66 66 ILE ILE A . n A 1 48 THR 48 67 67 THR THR A . n A 1 49 GLY 49 68 68 GLY GLY A . n A 1 50 ASP 50 69 69 ASP ASP A . n A 1 51 HIS 51 70 70 HIS HIS A . n A 1 52 LEU 52 71 71 LEU LEU A . n A 1 53 ILE 53 72 72 ILE ILE A . n A 1 54 LEU 54 73 73 LEU LEU A . n A 1 55 LEU 55 74 74 LEU LEU A . n A 1 56 GLN 56 75 75 GLN GLN A . n A 1 57 LYS 57 76 76 LYS LYS A . n A 1 58 ILE 58 77 77 ILE ILE A . n A 1 59 CYS 59 78 78 CYS CYS A . n A 1 60 PRO 60 79 79 PRO PRO A . n A 1 61 ARG 61 80 80 ARG ARG A . n A 1 62 LEU 62 81 81 LEU LEU A . n A 1 63 TYR 63 82 82 TYR TYR A . n A 1 64 THR 64 83 83 THR THR A . n A 1 65 GLY 65 84 84 GLY GLY A . n A 1 66 PRO 66 85 85 PRO PRO A . n A 1 67 ASN 67 86 86 ASN ASN A . n A 1 68 THR 68 87 87 THR THR A . n A 1 69 GLN 69 88 88 GLN GLN A . n A 1 70 ALA 70 89 89 ALA ALA A . n A 1 71 CYS 71 90 90 CYS CYS A . n A 1 72 CYS 72 91 91 CYS CYS A . n A 1 73 SER 73 92 92 SER SER A . n A 1 74 ALA 74 93 93 ALA ALA A . n A 1 75 LYS 75 94 94 LYS LYS A . n A 1 76 GLN 76 95 95 GLN GLN A . n A 1 77 LEU 77 96 96 LEU LEU A . n A 1 78 VAL 78 97 97 VAL VAL A . n A 1 79 SER 79 98 98 SER SER A . n A 1 80 LEU 80 99 99 LEU LEU A . n A 1 81 GLU 81 100 100 GLU GLU A . n A 1 82 ALA 82 101 101 ALA ALA A . n A 1 83 SER 83 102 102 SER SER A . n A 1 84 LEU 84 103 103 LEU LEU A . n A 1 85 SER 85 104 104 SER SER A . n A 1 86 ILE 86 105 105 ILE ILE A . n A 1 87 THR 87 106 106 THR THR A . n A 1 88 LYS 88 107 107 LYS LYS A . n A 1 89 ALA 89 108 108 ALA ALA A . n A 1 90 LEU 90 109 109 LEU LEU A . n A 1 91 LEU 91 110 110 LEU LEU A . n A 1 92 THR 92 111 111 THR THR A . n A 1 93 ARG 93 112 112 ARG ARG A . n A 1 94 CYS 94 113 113 CYS CYS A . n A 1 95 PRO 95 114 114 PRO PRO A . n A 1 96 ALA 96 115 115 ALA ALA A . n A 1 97 CYS 97 116 116 CYS CYS A . n A 1 98 SER 98 117 117 SER SER A . n A 1 99 ASP 99 118 118 ASP ASP A . n A 1 100 ASN 100 119 119 ASN ASN A . n A 1 101 PHE 101 120 120 PHE PHE A . n A 1 102 VAL 102 121 121 VAL VAL A . n A 1 103 ASN 103 122 122 ASN ASN A . n A 1 104 LEU 104 123 123 LEU LEU A . n A 1 105 HIS 105 124 124 HIS HIS A . n A 1 106 CYS 106 125 125 CYS CYS A . n A 1 107 HIS 107 126 126 HIS HIS A . n A 1 108 ASN 108 127 127 ASN ASN A . n A 1 109 THR 109 128 128 THR THR A . n A 1 110 CYS 110 129 129 CYS CYS A . n A 1 111 SER 111 130 130 SER SER A . n A 1 112 PRO 112 131 131 PRO PRO A . n A 1 113 ASN 113 132 132 ASN ASN A . n A 1 114 GLN 114 133 133 GLN GLN A . n A 1 115 SER 115 134 134 SER SER A . n A 1 116 LEU 116 135 135 LEU LEU A . n A 1 117 PHE 117 136 136 PHE PHE A . n A 1 118 ILE 118 137 137 ILE ILE A . n A 1 119 ASN 119 138 138 ASN ASN A . n A 1 120 VAL 120 139 139 VAL VAL A . n A 1 121 THR 121 140 140 THR THR A . n A 1 122 ARG 122 141 141 ARG ARG A . n A 1 123 VAL 123 142 142 VAL VAL A . n A 1 124 ALA 124 143 143 ALA ALA A . n A 1 125 GLN 125 144 144 GLN GLN A . n A 1 126 LEU 126 145 145 LEU LEU A . n A 1 127 GLY 127 146 146 GLY GLY A . n A 1 128 ALA 128 147 147 ALA ALA A . n A 1 129 GLY 129 148 148 GLY GLY A . n A 1 130 GLN 130 149 149 GLN GLN A . n A 1 131 LEU 131 150 150 LEU LEU A . n A 1 132 PRO 132 151 151 PRO PRO A . n A 1 133 ALA 133 152 152 ALA ALA A . n A 1 134 VAL 134 153 153 VAL VAL A . n A 1 135 VAL 135 154 154 VAL VAL A . n A 1 136 ALA 136 155 155 ALA ALA A . n A 1 137 TYR 137 156 156 TYR TYR A . n A 1 138 GLU 138 157 157 GLU GLU A . n A 1 139 ALA 139 158 158 ALA ALA A . n A 1 140 PHE 140 159 159 PHE PHE A . n A 1 141 TYR 141 160 160 TYR TYR A . n A 1 142 GLN 142 161 161 GLN GLN A . n A 1 143 HIS 143 162 162 HIS HIS A . n A 1 144 SER 144 163 163 SER SER A . n A 1 145 PHE 145 164 164 PHE PHE A . n A 1 146 ALA 146 165 165 ALA ALA A . n A 1 147 GLU 147 166 166 GLU GLU A . n A 1 148 GLN 148 167 167 GLN GLN A . n A 1 149 SER 149 168 168 SER SER A . n A 1 150 TYR 150 169 169 TYR TYR A . n A 1 151 ASP 151 170 170 ASP ASP A . n A 1 152 SER 152 171 171 SER SER A . n A 1 153 CYS 153 172 172 CYS CYS A . n A 1 154 SER 154 173 173 SER SER A . n A 1 155 ARG 155 174 174 ARG ARG A . n A 1 156 VAL 156 175 175 VAL VAL A . n A 1 157 ARG 157 176 176 ARG ARG A . n A 1 158 VAL 158 177 177 VAL VAL A . n A 1 159 PRO 159 178 178 PRO PRO A . n A 1 160 ALA 160 179 179 ALA ALA A . n A 1 161 ALA 161 180 180 ALA ALA A . n A 1 162 ALA 162 181 181 ALA ALA A . n A 1 163 THR 163 182 182 THR THR A . n A 1 164 LEU 164 183 183 LEU LEU A . n A 1 165 ALA 165 184 184 ALA ALA A . n A 1 166 VAL 166 185 185 VAL VAL A . n A 1 167 GLY 167 186 186 GLY GLY A . n A 1 168 THR 168 187 187 THR THR A . n A 1 169 MET 169 188 188 MET MET A . n A 1 170 CYS 170 189 189 CYS CYS A . n A 1 171 GLY 171 190 190 GLY GLY A . n A 1 172 VAL 172 191 191 VAL VAL A . n A 1 173 TYR 173 192 192 TYR TYR A . n A 1 174 GLY 174 193 193 GLY GLY A . n A 1 175 SER 175 194 194 SER SER A . n A 1 176 ALA 176 195 195 ALA ALA A . n A 1 177 LEU 177 196 196 LEU LEU A . n A 1 178 CYS 178 197 197 CYS CYS A . n A 1 179 ASN 179 198 198 ASN ASN A . n A 1 180 ALA 180 199 199 ALA ALA A . n A 1 181 GLN 181 200 200 GLN GLN A . n A 1 182 ARG 182 201 201 ARG ARG A . n A 1 183 TRP 183 202 202 TRP TRP A . n A 1 184 LEU 184 203 203 LEU LEU A . n A 1 185 ASN 185 204 204 ASN ASN A . n A 1 186 PHE 186 205 205 PHE PHE A . n A 1 187 GLN 187 206 206 GLN GLN A . n A 1 188 GLY 188 207 207 GLY GLY A . n A 1 189 ASP 189 208 208 ASP ASP A . n A 1 190 THR 190 209 209 THR THR A . n A 1 191 GLY 191 210 210 GLY GLY A . n A 1 192 ASN 192 211 211 ASN ASN A . n A 1 193 GLY 193 212 212 GLY GLY A . n A 1 194 LEU 194 213 213 LEU LEU A . n A 1 195 ALA 195 214 214 ALA ALA A . n A 1 196 PRO 196 215 215 PRO PRO A . n A 1 197 LEU 197 216 216 LEU LEU A . n A 1 198 ASP 198 217 217 ASP ASP A . n A 1 199 ILE 199 218 218 ILE ILE A . n A 1 200 THR 200 219 219 THR THR A . n A 1 201 PHE 201 220 220 PHE PHE A . n A 1 202 HIS 202 221 221 HIS HIS A . n A 1 203 LEU 203 222 222 LEU LEU A . n A 1 204 LEU 204 223 223 LEU LEU A . n A 1 205 GLU 205 224 224 GLU GLU A . n A 1 206 PRO 206 225 225 PRO PRO A . n A 1 207 GLY 207 226 226 GLY GLY A . n A 1 208 GLN 208 227 227 GLN GLN A . n A 1 209 ALA 209 228 228 ALA ALA A . n A 1 210 VAL 210 229 229 VAL VAL A . n A 1 211 GLY 211 230 230 GLY GLY A . n A 1 212 SER 212 231 231 SER SER A . n A 1 213 GLY 213 232 232 GLY GLY A . n A 1 214 ILE 214 233 233 ILE ILE A . n A 1 215 GLN 215 234 234 GLN GLN A . n A 1 216 PRO 216 235 235 PRO PRO A . n A 1 217 LEU 217 236 236 LEU LEU A . n A 1 218 ASN 218 237 237 ASN ASN A . n A 1 219 GLU 219 238 238 GLU GLU A . n A 1 220 GLY 220 239 239 GLY GLY A . n A 1 221 VAL 221 240 240 VAL VAL A . n A 1 222 ALA 222 241 241 ALA ALA A . n A 1 223 ARG 223 242 242 ARG ARG A . n A 1 224 CYS 224 243 243 CYS CYS A . n A 1 225 ASN 225 244 244 ASN ASN A . n A 1 226 GLU 226 245 245 GLU GLU A . n A 1 227 SER 227 246 246 SER SER A . n A 1 228 GLN 228 247 247 GLN GLN A . n A 1 229 GLY 229 248 248 GLY GLY A . n A 1 230 ASP 230 249 249 ASP ASP A . n A 1 231 ASP 231 250 250 ASP ASP A . n A 1 232 VAL 232 251 251 VAL VAL A . n A 1 233 ALA 233 252 252 ALA ALA A . n A 1 234 THR 234 253 253 THR THR A . n A 1 235 CYS 235 254 254 CYS CYS A . n A 1 236 SER 236 255 255 SER SER A . n A 1 237 CYS 237 256 256 CYS CYS A . n A 1 238 GLN 238 257 257 GLN GLN A . n A 1 239 ASP 239 258 258 ASP ASP A . n A 1 240 CYS 240 259 259 CYS CYS A . n A 1 241 ALA 241 260 260 ALA ALA A . n A 1 242 ALA 242 261 261 ALA ALA A . n A 1 243 SER 243 262 262 SER SER A . n A 1 244 CYS 244 263 263 CYS CYS A . n A 1 245 PRO 245 264 264 PRO PRO A . n A 1 246 ALA 246 265 265 ALA ALA A . n A 1 247 ILE 247 266 ? ? ? A . n A 1 248 ALA 248 267 ? ? ? A . n A 1 249 ARG 249 268 ? ? ? A . n A 1 250 PRO 250 269 ? ? ? A . n A 1 251 GLN 251 270 ? ? ? A . n A 1 252 ALA 252 271 ? ? ? A . n A 1 253 LEU 253 272 ? ? ? A . n A 1 254 ASP 254 273 ? ? ? A . n A 1 255 SER 255 274 ? ? ? A . n A 1 256 THR 256 275 ? ? ? A . n A 1 257 PHE 257 276 ? ? ? A . n A 1 258 TYR 258 277 ? ? ? A . n A 1 259 LEU 259 278 ? ? ? A . n A 1 260 GLY 260 279 ? ? ? A . n A 1 261 GLN 261 280 ? ? ? A . n A 1 262 MET 262 281 ? ? ? A . n A 1 263 PRO 263 282 ? ? ? A . n A 1 264 GLY 264 283 ? ? ? A . n A 1 265 SER 265 284 ? ? ? 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 1 1 NAG NAG A . C 2 NAG 1 2 2 NAG NAG 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 ASN 35 A ASN 54 ? ASN 'GLYCOSYLATION SITE' 2 A ASN 119 A ASN 138 ? ASN 'GLYCOSYLATION SITE' # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2011-05-11 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 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 3 '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' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' chem_comp 2 3 'Structure model' entity 3 3 'Structure model' pdbx_chem_comp_identifier 4 3 'Structure model' pdbx_entity_nonpoly 5 3 'Structure model' struct_conn 6 3 'Structure model' struct_ref_seq_dif 7 3 'Structure model' struct_site 8 3 '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 3 'Structure model' '_chem_comp.name' 2 3 'Structure model' '_chem_comp.type' 3 3 'Structure model' '_entity.pdbx_description' 4 3 'Structure model' '_pdbx_entity_nonpoly.name' 5 3 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 3 'Structure model' '_struct_conn.pdbx_role' 7 3 'Structure model' '_struct_conn.ptnr1_auth_comp_id' 8 3 'Structure model' '_struct_conn.ptnr1_auth_seq_id' 9 3 'Structure model' '_struct_conn.ptnr1_label_asym_id' 10 3 'Structure model' '_struct_conn.ptnr1_label_atom_id' 11 3 'Structure model' '_struct_conn.ptnr1_label_comp_id' 12 3 'Structure model' '_struct_conn.ptnr1_label_seq_id' 13 3 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 14 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 15 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 16 3 'Structure model' '_struct_conn.ptnr2_label_atom_id' 17 3 'Structure model' '_struct_conn.ptnr2_label_comp_id' 18 3 'Structure model' '_struct_conn.ptnr2_label_seq_id' 19 3 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x -16.1191 _pdbx_refine_tls.origin_y -24.7626 _pdbx_refine_tls.origin_z -11.6831 _pdbx_refine_tls.T[1][1] 0.0690 _pdbx_refine_tls.T[2][2] 0.1545 _pdbx_refine_tls.T[3][3] 0.0772 _pdbx_refine_tls.T[1][2] -0.0186 _pdbx_refine_tls.T[1][3] -0.0028 _pdbx_refine_tls.T[2][3] -0.0086 _pdbx_refine_tls.L[1][1] 1.2302 _pdbx_refine_tls.L[2][2] 2.0551 _pdbx_refine_tls.L[3][3] 1.6015 _pdbx_refine_tls.L[1][2] 0.2696 _pdbx_refine_tls.L[1][3] -0.0121 _pdbx_refine_tls.L[2][3] -0.7454 _pdbx_refine_tls.S[1][1] -0.0735 _pdbx_refine_tls.S[1][2] 0.0946 _pdbx_refine_tls.S[1][3] 0.0211 _pdbx_refine_tls.S[2][1] -0.2176 _pdbx_refine_tls.S[2][2] 0.0704 _pdbx_refine_tls.S[2][3] 0.0500 _pdbx_refine_tls.S[3][1] 0.0192 _pdbx_refine_tls.S[3][2] -0.0511 _pdbx_refine_tls.S[3][3] 0.0030 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 22 ? ? A 265 ? ? ? ? 'X-RAY DIFFRACTION' 2 1 A 1 ? ? A 2 ? ? ? ? # _software.name REFMAC _software.classification refinement _software.version 5.3.0037 _software.citation_id ? _software.pdbx_ordinal 1 # 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 ASP A 37 ? ? 72.33 176.32 2 1 SER A 59 ? ? -162.66 81.87 3 1 PRO A 131 ? ? -69.01 1.22 4 1 PRO A 178 ? ? -33.85 125.74 5 1 PRO A 225 ? ? -39.03 -37.83 6 1 VAL A 251 ? ? 60.69 61.40 # 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 20 ? A GLY 1 2 1 Y 1 A ALA 21 ? A ALA 2 3 1 Y 1 A ILE 266 ? A ILE 247 4 1 Y 1 A ALA 267 ? A ALA 248 5 1 Y 1 A ARG 268 ? A ARG 249 6 1 Y 1 A PRO 269 ? A PRO 250 7 1 Y 1 A GLN 270 ? A GLN 251 8 1 Y 1 A ALA 271 ? A ALA 252 9 1 Y 1 A LEU 272 ? A LEU 253 10 1 Y 1 A ASP 273 ? A ASP 254 11 1 Y 1 A SER 274 ? A SER 255 12 1 Y 1 A THR 275 ? A THR 256 13 1 Y 1 A PHE 276 ? A PHE 257 14 1 Y 1 A TYR 277 ? A TYR 258 15 1 Y 1 A LEU 278 ? A LEU 259 16 1 Y 1 A GLY 279 ? A GLY 260 17 1 Y 1 A GLN 280 ? A GLN 261 18 1 Y 1 A MET 281 ? A MET 262 19 1 Y 1 A PRO 282 ? A PRO 263 20 1 Y 1 A GLY 283 ? A GLY 264 21 1 Y 1 A SER 284 ? A SER 265 # 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 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name 2-acetamido-2-deoxy-beta-D-glucopyranose _pdbx_entity_nonpoly.comp_id NAG #