data_6GBI # _entry.id 6GBI # _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 6GBI WWPDB D_1200009703 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6GBI _pdbx_database_status.recvd_initial_deposition_date 2018-04-14 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Zhao, Y.' 1 0000-0001-8916-8552 'Jones, E.Y.' 2 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country NE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'FEBS Lett.' _citation.journal_id_ASTM FEBLAL _citation.journal_id_CSD 0165 _citation.journal_id_ISSN 1873-3468 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 592 _citation.language ? _citation.page_first 3152 _citation.page_last 3162 _citation.title 'Structure of the Wnt signaling enhancer LYPD6 and its interactions with the Wnt coreceptor LRP6.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/1873-3468.13212 _citation.pdbx_database_id_PubMed 30069874 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Zhao, Y.' 1 ? primary 'Ren, J.' 2 ? primary 'Lu, W.' 3 ? primary 'Harlos, K.' 4 ? primary 'Jones, E.Y.' 5 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 90.000 _cell.angle_gamma_esd ? _cell.entry_id 6GBI _cell.details ? _cell.formula_units_Z ? _cell.length_a 61.980 _cell.length_a_esd ? _cell.length_b 61.980 _cell.length_b_esd ? _cell.length_c 68.550 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GBI _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' _symmetry.pdbx_full_space_group_name_H-M ? # 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 'Ly6/PLAUR domain-containing protein 6' 11710.120 1 ? ? ? ? 2 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 1 ? ? ? ? 3 non-polymer syn GLYCEROL 92.094 2 ? ? ? ? 4 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 5 water nat water 18.015 93 ? ? ? ? # _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 ;ETGFKCFTCEKAADNYECNRWAPDIYCPRETRYCYTQHTMEVTGNSISVTKRCVPLEECLSTGCRDSEHEGHKVCTSCCE GNICNLPLPRNETDATFAGTLEVL ; _entity_poly.pdbx_seq_one_letter_code_can ;ETGFKCFTCEKAADNYECNRWAPDIYCPRETRYCYTQHTMEVTGNSISVTKRCVPLEECLSTGCRDSEHEGHKVCTSCCE GNICNLPLPRNETDATFAGTLEVL ; _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 GLU n 1 2 THR n 1 3 GLY n 1 4 PHE n 1 5 LYS n 1 6 CYS n 1 7 PHE n 1 8 THR n 1 9 CYS n 1 10 GLU n 1 11 LYS n 1 12 ALA n 1 13 ALA n 1 14 ASP n 1 15 ASN n 1 16 TYR n 1 17 GLU n 1 18 CYS n 1 19 ASN n 1 20 ARG n 1 21 TRP n 1 22 ALA n 1 23 PRO n 1 24 ASP n 1 25 ILE n 1 26 TYR n 1 27 CYS n 1 28 PRO n 1 29 ARG n 1 30 GLU n 1 31 THR n 1 32 ARG n 1 33 TYR n 1 34 CYS n 1 35 TYR n 1 36 THR n 1 37 GLN n 1 38 HIS n 1 39 THR n 1 40 MET n 1 41 GLU n 1 42 VAL n 1 43 THR n 1 44 GLY n 1 45 ASN n 1 46 SER n 1 47 ILE n 1 48 SER n 1 49 VAL n 1 50 THR n 1 51 LYS n 1 52 ARG n 1 53 CYS n 1 54 VAL n 1 55 PRO n 1 56 LEU n 1 57 GLU n 1 58 GLU n 1 59 CYS n 1 60 LEU n 1 61 SER n 1 62 THR n 1 63 GLY n 1 64 CYS n 1 65 ARG n 1 66 ASP n 1 67 SER n 1 68 GLU n 1 69 HIS n 1 70 GLU n 1 71 GLY n 1 72 HIS n 1 73 LYS n 1 74 VAL n 1 75 CYS n 1 76 THR n 1 77 SER n 1 78 CYS n 1 79 CYS n 1 80 GLU n 1 81 GLY n 1 82 ASN n 1 83 ILE n 1 84 CYS n 1 85 ASN n 1 86 LEU n 1 87 PRO n 1 88 LEU n 1 89 PRO n 1 90 ARG n 1 91 ASN n 1 92 GLU n 1 93 THR n 1 94 ASP n 1 95 ALA n 1 96 THR n 1 97 PHE n 1 98 ALA n 1 99 GLY n 1 100 THR n 1 101 LEU n 1 102 GLU n 1 103 VAL n 1 104 LEU 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 104 _entity_src_gen.gene_src_common_name Human _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'LYPD6, UNQ3023/PRO9821' _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 'Mammalian expression vector pCI-NEO-FLAG-SMNdelta3,4,5,6,7' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 1842709 _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 'Mammalian expression vector pCI-NEO-FLAG-SMNdelta3,4,5,6,7' _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 LYPD6_HUMAN _struct_ref.pdbx_db_accession Q86Y78 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;GFKCFTCEKAADNYECNRWAPDIYCPRETRYCYTQHTMEVTGNSISVTKRCVPLEECLSTGCRDSEHEGHKVCTSCCEGN ICNLPLPRNETDATFA ; _struct_ref.pdbx_align_begin 46 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6GBI _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 98 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q86Y78 _struct_ref_seq.db_align_beg 46 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 141 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 46 _struct_ref_seq.pdbx_auth_seq_align_end 141 # 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 6GBI GLU A 1 ? UNP Q86Y78 ? ? 'expression tag' 44 1 1 6GBI THR A 2 ? UNP Q86Y78 ? ? 'expression tag' 45 2 1 6GBI GLY A 99 ? UNP Q86Y78 ? ? 'expression tag' 142 3 1 6GBI THR A 100 ? UNP Q86Y78 ? ? 'expression tag' 143 4 1 6GBI LEU A 101 ? UNP Q86Y78 ? ? 'expression tag' 144 5 1 6GBI GLU A 102 ? UNP Q86Y78 ? ? 'expression tag' 145 6 1 6GBI VAL A 103 ? UNP Q86Y78 ? ? 'expression tag' 146 7 1 6GBI LEU A 104 ? UNP Q86Y78 ? ? 'expression tag' 147 8 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 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.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6GBI _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.81 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 56.24 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 300 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;0.1 Tris-HCl 2M Ammonium Sulphate ; _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS PILATUS 300K' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-02-01 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _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.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'DIAMOND BEAMLINE I03' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.979 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline I03 _diffrn_source.pdbx_synchrotron_site Diamond # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6GBI _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.25 _reflns.d_resolution_low 50 _reflns.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.number_all ? _reflns.number_obs 37608 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 100 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 12.3 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 31.2 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 1.25 _reflns_shell.d_res_low 1.28 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all ? _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] -0.5900 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][2] -0.5900 _refine.aniso_B[2][3] 0.0000 _refine.aniso_B[3][3] 1.1700 _refine.B_iso_max 61.550 _refine.B_iso_mean 21.8540 _refine.B_iso_min 11.760 _refine.correlation_coeff_Fo_to_Fc 0.9690 _refine.correlation_coeff_Fo_to_Fc_free 0.9690 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6GBI _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.2500 _refine.ls_d_res_low 45.9700 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 35666 _refine.ls_number_reflns_R_free 1877 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.9400 _refine.ls_percent_reflns_R_free 5.0000 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1623 _refine.ls_R_factor_R_free 0.1646 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.1621 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.0380 _refine.pdbx_overall_ESU_R_Free 0.0340 _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 1.0070 _refine.overall_SU_ML 0.0200 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.2500 _refine_hist.d_res_low 45.9700 _refine_hist.pdbx_number_atoms_ligand 36 _refine_hist.number_atoms_solvent 93 _refine_hist.number_atoms_total 938 _refine_hist.pdbx_number_residues_total 104 _refine_hist.pdbx_B_iso_mean_ligand 34.38 _refine_hist.pdbx_B_iso_mean_solvent 30.54 _refine_hist.pdbx_number_atoms_protein 809 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.005 0.019 871 ? r_bond_refined_d ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 736 ? r_bond_other_d ? ? 'X-RAY DIFFRACTION' ? 1.164 1.988 1186 ? r_angle_refined_deg ? ? 'X-RAY DIFFRACTION' ? 1.047 3.000 1727 ? r_angle_other_deg ? ? 'X-RAY DIFFRACTION' ? 6.539 5.000 105 ? r_dihedral_angle_1_deg ? ? 'X-RAY DIFFRACTION' ? 40.317 24.390 41 ? r_dihedral_angle_2_deg ? ? 'X-RAY DIFFRACTION' ? 11.490 15.000 138 ? r_dihedral_angle_3_deg ? ? 'X-RAY DIFFRACTION' ? 12.278 15.000 6 ? r_dihedral_angle_4_deg ? ? 'X-RAY DIFFRACTION' ? 0.067 0.200 133 ? r_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.004 0.021 950 ? r_gen_planes_refined ? ? 'X-RAY DIFFRACTION' ? 0.001 0.020 167 ? r_gen_planes_other ? ? 'X-RAY DIFFRACTION' ? 0.802 3.000 1607 ? r_rigid_bond_restr ? ? 'X-RAY DIFFRACTION' ? 16.274 5.000 56 ? r_sphericity_free ? ? 'X-RAY DIFFRACTION' ? 8.614 5.000 1624 ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 1.2500 _refine_ls_shell.d_res_low 1.2820 _refine_ls_shell.number_reflns_all 2710 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 134 _refine_ls_shell.number_reflns_R_work 2576 _refine_ls_shell.percent_reflns_obs 100.0000 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.2000 _refine_ls_shell.R_factor_R_free_error 0.0000 _refine_ls_shell.R_factor_R_work 0.1740 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 6GBI _struct.title 'Wnt signalling' _struct.pdbx_descriptor 'Ly6/PLAUR domain-containing protein 6' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6GBI _struct_keywords.text 'Wnt, STRUCTURAL PROTEIN' _struct_keywords.pdbx_keywords 'STRUCTURAL 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 3 ? D N N 3 ? E N N 4 ? F N N 4 ? G N N 5 ? # 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 AA1 ASP A 14 ? TRP A 21 ? ASP A 57 TRP A 64 1 ? 8 HELX_P HELX_P2 AA2 PRO A 55 ? LEU A 60 ? PRO A 98 LEU A 103 5 ? 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 6 SG ? ? ? 1_555 A CYS 34 SG ? ? A CYS 49 A CYS 77 1_555 ? ? ? ? ? ? ? 2.035 ? ? disulf2 disulf ? ? A CYS 9 SG ? ? ? 1_555 A CYS 18 SG ? ? A CYS 52 A CYS 61 1_555 ? ? ? ? ? ? ? 2.048 ? ? disulf3 disulf ? ? A CYS 27 SG ? ? ? 1_555 A CYS 53 SG ? ? A CYS 70 A CYS 96 1_555 ? ? ? ? ? ? ? 2.068 ? ? disulf4 disulf ? ? A CYS 59 SG ? ? ? 1_555 A CYS 78 SG ? ? A CYS 102 A CYS 121 1_555 ? ? ? ? ? ? ? 2.037 ? ? disulf5 disulf ? ? A CYS 64 SG ? ? ? 1_555 A CYS 75 SG ? ? A CYS 107 A CYS 118 1_555 ? ? ? ? ? ? ? 2.050 ? ? disulf6 disulf ? ? A CYS 79 SG ? ? ? 1_555 A CYS 84 SG ? ? A CYS 122 A CYS 127 1_555 ? ? ? ? ? ? ? 2.042 ? ? covale1 covale one ? A ASN 91 ND2 ? ? ? 1_555 B NAG . C1 ? ? A ASN 134 A NAG 201 1_555 ? ? ? ? ? ? ? 1.443 ? N-Glycosylation # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 5 ? AA2 ? 5 ? # 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 AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA1 4 5 ? anti-parallel AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? anti-parallel AA2 4 5 ? 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 AA1 1 CYS A 9 ? ALA A 12 ? CYS A 52 ALA A 55 AA1 2 SER A 46 ? VAL A 54 ? SER A 89 VAL A 97 AA1 3 TYR A 33 ? GLU A 41 ? TYR A 76 GLU A 84 AA1 4 HIS A 72 ? CYS A 79 ? HIS A 115 CYS A 122 AA1 5 GLY A 63 ? ASP A 66 ? GLY A 106 ASP A 109 AA2 1 CYS A 9 ? ALA A 12 ? CYS A 52 ALA A 55 AA2 2 SER A 46 ? VAL A 54 ? SER A 89 VAL A 97 AA2 3 TYR A 33 ? GLU A 41 ? TYR A 76 GLU A 84 AA2 4 HIS A 72 ? CYS A 79 ? HIS A 115 CYS A 122 AA2 5 PHE A 97 ? ALA A 98 ? PHE A 140 ALA A 141 # 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 AA1 1 2 N ALA A 12 ? N ALA A 55 O VAL A 49 ? O VAL A 92 AA1 2 3 O ARG A 52 ? O ARG A 95 N TYR A 35 ? N TYR A 78 AA1 3 4 N HIS A 38 ? N HIS A 81 O CYS A 75 ? O CYS A 118 AA1 4 5 O THR A 76 ? O THR A 119 N GLY A 63 ? N GLY A 106 AA2 1 2 N ALA A 12 ? N ALA A 55 O VAL A 49 ? O VAL A 92 AA2 2 3 O ARG A 52 ? O ARG A 95 N TYR A 35 ? N TYR A 78 AA2 3 4 N HIS A 38 ? N HIS A 81 O CYS A 75 ? O CYS A 118 AA2 4 5 N CYS A 78 ? N CYS A 121 O ALA A 98 ? O ALA A 141 # _atom_sites.entry_id 6GBI _atom_sites.fract_transf_matrix[1][1] 0.016134 _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] 0.016134 _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] 0.014588 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # 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 GLU 1 44 44 GLU GLU A . n A 1 2 THR 2 45 45 THR THR A . n A 1 3 GLY 3 46 46 GLY GLY A . n A 1 4 PHE 4 47 47 PHE PHE A . n A 1 5 LYS 5 48 48 LYS LYS A . n A 1 6 CYS 6 49 49 CYS CYS A . n A 1 7 PHE 7 50 50 PHE PHE A . n A 1 8 THR 8 51 51 THR THR A . n A 1 9 CYS 9 52 52 CYS CYS A . n A 1 10 GLU 10 53 53 GLU GLU A . n A 1 11 LYS 11 54 54 LYS LYS A . n A 1 12 ALA 12 55 55 ALA ALA A . n A 1 13 ALA 13 56 56 ALA ALA A . n A 1 14 ASP 14 57 57 ASP ASP A . n A 1 15 ASN 15 58 58 ASN ASN A . n A 1 16 TYR 16 59 59 TYR TYR A . n A 1 17 GLU 17 60 60 GLU GLU A . n A 1 18 CYS 18 61 61 CYS CYS A . n A 1 19 ASN 19 62 62 ASN ASN A . n A 1 20 ARG 20 63 63 ARG ARG A . n A 1 21 TRP 21 64 64 TRP TRP A . n A 1 22 ALA 22 65 65 ALA ALA A . n A 1 23 PRO 23 66 66 PRO PRO A . n A 1 24 ASP 24 67 67 ASP ASP A . n A 1 25 ILE 25 68 68 ILE ILE A . n A 1 26 TYR 26 69 69 TYR TYR A . n A 1 27 CYS 27 70 70 CYS CYS A . n A 1 28 PRO 28 71 71 PRO PRO A . n A 1 29 ARG 29 72 72 ARG ARG A . n A 1 30 GLU 30 73 73 GLU GLU A . n A 1 31 THR 31 74 74 THR THR A . n A 1 32 ARG 32 75 75 ARG ARG A . n A 1 33 TYR 33 76 76 TYR TYR A . n A 1 34 CYS 34 77 77 CYS CYS A . n A 1 35 TYR 35 78 78 TYR TYR A . n A 1 36 THR 36 79 79 THR THR A . n A 1 37 GLN 37 80 80 GLN GLN A . n A 1 38 HIS 38 81 81 HIS HIS A . n A 1 39 THR 39 82 82 THR THR A . n A 1 40 MET 40 83 83 MET MET A . n A 1 41 GLU 41 84 84 GLU GLU A . n A 1 42 VAL 42 85 85 VAL VAL A . n A 1 43 THR 43 86 86 THR THR A . n A 1 44 GLY 44 87 87 GLY GLY A . n A 1 45 ASN 45 88 88 ASN ASN A . n A 1 46 SER 46 89 89 SER SER A . n A 1 47 ILE 47 90 90 ILE ILE A . n A 1 48 SER 48 91 91 SER SER A . n A 1 49 VAL 49 92 92 VAL VAL A . n A 1 50 THR 50 93 93 THR THR A . n A 1 51 LYS 51 94 94 LYS LYS A . n A 1 52 ARG 52 95 95 ARG ARG A . n A 1 53 CYS 53 96 96 CYS CYS A . n A 1 54 VAL 54 97 97 VAL VAL A . n A 1 55 PRO 55 98 98 PRO PRO A . n A 1 56 LEU 56 99 99 LEU LEU A . n A 1 57 GLU 57 100 100 GLU GLU A . n A 1 58 GLU 58 101 101 GLU GLU A . n A 1 59 CYS 59 102 102 CYS CYS A . n A 1 60 LEU 60 103 103 LEU LEU A . n A 1 61 SER 61 104 104 SER SER A . n A 1 62 THR 62 105 105 THR THR A . n A 1 63 GLY 63 106 106 GLY GLY A . n A 1 64 CYS 64 107 107 CYS CYS A . n A 1 65 ARG 65 108 108 ARG ARG A . n A 1 66 ASP 66 109 109 ASP ASP A . n A 1 67 SER 67 110 110 SER SER A . n A 1 68 GLU 68 111 111 GLU GLU A . n A 1 69 HIS 69 112 112 HIS HIS A . n A 1 70 GLU 70 113 113 GLU GLU A . n A 1 71 GLY 71 114 114 GLY GLY A . n A 1 72 HIS 72 115 115 HIS HIS A . n A 1 73 LYS 73 116 116 LYS LYS A . n A 1 74 VAL 74 117 117 VAL VAL A . n A 1 75 CYS 75 118 118 CYS CYS A . n A 1 76 THR 76 119 119 THR THR A . n A 1 77 SER 77 120 120 SER SER A . n A 1 78 CYS 78 121 121 CYS CYS A . n A 1 79 CYS 79 122 122 CYS CYS A . n A 1 80 GLU 80 123 123 GLU GLU A . n A 1 81 GLY 81 124 124 GLY GLY A . n A 1 82 ASN 82 125 125 ASN ASN A . n A 1 83 ILE 83 126 126 ILE ILE A . n A 1 84 CYS 84 127 127 CYS CYS A . n A 1 85 ASN 85 128 128 ASN ASN A . n A 1 86 LEU 86 129 129 LEU LEU A . n A 1 87 PRO 87 130 130 PRO PRO A . n A 1 88 LEU 88 131 131 LEU LEU A . n A 1 89 PRO 89 132 132 PRO PRO A . n A 1 90 ARG 90 133 133 ARG ARG A . n A 1 91 ASN 91 134 134 ASN ASN A . n A 1 92 GLU 92 135 135 GLU GLU A . n A 1 93 THR 93 136 136 THR THR A . n A 1 94 ASP 94 137 137 ASP ASP A . n A 1 95 ALA 95 138 138 ALA ALA A . n A 1 96 THR 96 139 139 THR THR A . n A 1 97 PHE 97 140 140 PHE PHE A . n A 1 98 ALA 98 141 141 ALA ALA A . n A 1 99 GLY 99 142 142 GLY GLY A . n A 1 100 THR 100 143 143 THR THR A . n A 1 101 LEU 101 144 144 LEU LEU A . n A 1 102 GLU 102 145 145 GLU GLU A . n A 1 103 VAL 103 146 146 VAL VAL A . n A 1 104 LEU 104 147 147 LEU LEU 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 1 201 151 NAG NAG A . C 3 GOL 1 202 161 GOL GOL A . D 3 GOL 1 203 162 GOL GOL A . E 4 SO4 1 204 171 SO4 SO4 A . F 4 SO4 1 205 172 SO4 SO4 A . G 5 HOH 1 301 234 HOH HOH A . G 5 HOH 2 302 188 HOH HOH A . G 5 HOH 3 303 316 HOH HOH A . G 5 HOH 4 304 202 HOH HOH A . G 5 HOH 5 305 242 HOH HOH A . G 5 HOH 6 306 201 HOH HOH A . G 5 HOH 7 307 199 HOH HOH A . G 5 HOH 8 308 198 HOH HOH A . G 5 HOH 9 309 200 HOH HOH A . G 5 HOH 10 310 215 HOH HOH A . G 5 HOH 11 311 240 HOH HOH A . G 5 HOH 12 312 205 HOH HOH A . G 5 HOH 13 313 297 HOH HOH A . G 5 HOH 14 314 236 HOH HOH A . G 5 HOH 15 315 220 HOH HOH A . G 5 HOH 16 316 197 HOH HOH A . G 5 HOH 17 317 309 HOH HOH A . G 5 HOH 18 318 306 HOH HOH A . G 5 HOH 19 319 190 HOH HOH A . G 5 HOH 20 320 278 HOH HOH A . G 5 HOH 21 321 183 HOH HOH A . G 5 HOH 22 322 187 HOH HOH A . G 5 HOH 23 323 182 HOH HOH A . G 5 HOH 24 324 181 HOH HOH A . G 5 HOH 25 325 244 HOH HOH A . G 5 HOH 26 326 213 HOH HOH A . G 5 HOH 27 327 305 HOH HOH A . G 5 HOH 28 328 302 HOH HOH A . G 5 HOH 29 329 225 HOH HOH A . G 5 HOH 30 330 196 HOH HOH A . G 5 HOH 31 331 219 HOH HOH A . G 5 HOH 32 332 312 HOH HOH A . G 5 HOH 33 333 185 HOH HOH A . G 5 HOH 34 334 195 HOH HOH A . G 5 HOH 35 335 307 HOH HOH A . G 5 HOH 36 336 308 HOH HOH A . G 5 HOH 37 337 184 HOH HOH A . G 5 HOH 38 338 246 HOH HOH A . G 5 HOH 39 339 204 HOH HOH A . G 5 HOH 40 340 210 HOH HOH A . G 5 HOH 41 341 313 HOH HOH A . G 5 HOH 42 342 251 HOH HOH A . G 5 HOH 43 343 304 HOH HOH A . G 5 HOH 44 344 237 HOH HOH A . G 5 HOH 45 345 231 HOH HOH A . G 5 HOH 46 346 186 HOH HOH A . G 5 HOH 47 347 203 HOH HOH A . G 5 HOH 48 348 299 HOH HOH A . G 5 HOH 49 349 216 HOH HOH A . G 5 HOH 50 350 214 HOH HOH A . G 5 HOH 51 351 193 HOH HOH A . G 5 HOH 52 352 314 HOH HOH A . G 5 HOH 53 353 311 HOH HOH A . G 5 HOH 54 354 289 HOH HOH A . G 5 HOH 55 355 208 HOH HOH A . G 5 HOH 56 356 296 HOH HOH A . G 5 HOH 57 357 206 HOH HOH A . G 5 HOH 58 358 212 HOH HOH A . G 5 HOH 59 359 222 HOH HOH A . G 5 HOH 60 360 207 HOH HOH A . G 5 HOH 61 361 243 HOH HOH A . G 5 HOH 62 362 191 HOH HOH A . G 5 HOH 63 363 221 HOH HOH A . G 5 HOH 64 364 248 HOH HOH A . G 5 HOH 65 365 227 HOH HOH A . G 5 HOH 66 366 255 HOH HOH A . G 5 HOH 67 367 228 HOH HOH A . G 5 HOH 68 368 241 HOH HOH A . G 5 HOH 69 369 194 HOH HOH A . G 5 HOH 70 370 189 HOH HOH A . G 5 HOH 71 371 256 HOH HOH A . G 5 HOH 72 372 260 HOH HOH A . G 5 HOH 73 373 224 HOH HOH A . G 5 HOH 74 374 300 HOH HOH A . G 5 HOH 75 375 303 HOH HOH A . G 5 HOH 76 376 263 HOH HOH A . G 5 HOH 77 377 192 HOH HOH A . G 5 HOH 78 378 217 HOH HOH A . G 5 HOH 79 379 232 HOH HOH A . G 5 HOH 80 380 301 HOH HOH A . G 5 HOH 81 381 223 HOH HOH A . G 5 HOH 82 382 274 HOH HOH A . G 5 HOH 83 383 264 HOH HOH A . G 5 HOH 84 384 226 HOH HOH A . G 5 HOH 85 385 298 HOH HOH A . G 5 HOH 86 386 310 HOH HOH A . G 5 HOH 87 387 229 HOH HOH A . G 5 HOH 88 388 245 HOH HOH A . G 5 HOH 89 389 295 HOH HOH A . G 5 HOH 90 390 259 HOH HOH A . G 5 HOH 91 391 315 HOH HOH A . G 5 HOH 92 392 262 HOH HOH A . G 5 HOH 93 393 291 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 980 ? 1 MORE -24 ? 1 'SSA (A^2)' 6980 ? # _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 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id A _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 377 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id G _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # 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 2018-08-15 2 'Structure model' 1 1 2018-10-03 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' 'Data collection' 2 2 'Structure model' 'Database references' 3 3 'Structure model' 'Data collection' 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 2 'Structure model' citation 2 3 'Structure model' chem_comp 3 3 'Structure model' entity 4 3 'Structure model' pdbx_chem_comp_identifier 5 3 'Structure model' pdbx_entity_nonpoly 6 3 'Structure model' struct_conn 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 2 'Structure model' '_citation.journal_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 2 'Structure model' '_citation.title' 5 3 'Structure model' '_chem_comp.name' 6 3 'Structure model' '_chem_comp.type' 7 3 'Structure model' '_entity.pdbx_description' 8 3 'Structure model' '_pdbx_entity_nonpoly.name' 9 3 'Structure model' '_struct_conn.pdbx_role' # _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 24.1599 _pdbx_refine_tls.origin_y 52.6364 _pdbx_refine_tls.origin_z 24.9349 _pdbx_refine_tls.T[1][1] 0.0019 _pdbx_refine_tls.T[2][2] 0.0009 _pdbx_refine_tls.T[3][3] 0.0020 _pdbx_refine_tls.T[1][2] 0.0002 _pdbx_refine_tls.T[1][3] 0.0013 _pdbx_refine_tls.T[2][3] -0.0002 _pdbx_refine_tls.L[1][1] 0.2959 _pdbx_refine_tls.L[2][2] 0.1806 _pdbx_refine_tls.L[3][3] 0.1369 _pdbx_refine_tls.L[1][2] 0.0517 _pdbx_refine_tls.L[1][3] 0.1918 _pdbx_refine_tls.L[2][3] 0.0100 _pdbx_refine_tls.S[1][1] 0.0032 _pdbx_refine_tls.S[2][2] -0.0039 _pdbx_refine_tls.S[3][3] 0.0007 _pdbx_refine_tls.S[1][2] 0.0024 _pdbx_refine_tls.S[1][3] 0.0060 _pdbx_refine_tls.S[2][3] 0.0008 _pdbx_refine_tls.S[2][1] 0.0006 _pdbx_refine_tls.S[3][1] 0.0012 _pdbx_refine_tls.S[3][2] 0.0042 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 44 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 147 _pdbx_refine_tls_group.selection_details ? _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? # loop_ _phasing.method SAD MR # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DENZO ? ? ? . 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? xia2 ? ? ? . 2 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? SHARP ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? RESOLVE ? ? ? . 5 ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0189 6 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.24 7 # 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 ILE A 126 ? ? 39.40 42.44 2 1 ASN A 128 ? ? -92.82 45.55 # _pdbx_distant_solvent_atoms.id 1 _pdbx_distant_solvent_atoms.PDB_model_num 1 _pdbx_distant_solvent_atoms.auth_atom_id O _pdbx_distant_solvent_atoms.label_alt_id ? _pdbx_distant_solvent_atoms.auth_asym_id A _pdbx_distant_solvent_atoms.auth_comp_id HOH _pdbx_distant_solvent_atoms.auth_seq_id 393 _pdbx_distant_solvent_atoms.PDB_ins_code ? _pdbx_distant_solvent_atoms.neighbor_macromolecule_distance 5.98 _pdbx_distant_solvent_atoms.neighbor_ligand_distance . # _pdbx_audit_support.funding_organization 'Medical Research Council (United Kingdom)' _pdbx_audit_support.country 'United Kingdom' _pdbx_audit_support.grant_number MR/M000141/1 _pdbx_audit_support.ordinal 1 # 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 GLYCEROL GOL 4 'SULFATE ION' SO4 5 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #