data_4IKD # _entry.id 4IKD # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4IKD RCSB RCSB076861 WWPDB D_1000076861 # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 4IKB _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.entry_id 4IKD _pdbx_database_status.status_code REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2012-12-26 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Xu, J.' 1 'Xu, T.' 2 'Liu, J.' 3 # _citation.id primary _citation.title ;Structure of Sorting Nexin 11 (SNX11) Reveals a Novel Extended PX Domain (PXe Domain) Critical for the Inhibition of Sorting Nexin 10 (SNX10) Induced Vacuolation ; _citation.journal_abbrev 'to be published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Xu, J.' 1 primary 'Xu, T.' 2 primary 'Liu, J.' 3 # _cell.length_a 40.120 _cell.length_b 62.400 _cell.length_c 66.060 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 4IKD _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _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.space_group_name_H-M 'P 21 21 21' _symmetry.entry_id 4IKD _symmetry.Int_Tables_number 19 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _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 'Sorting nexin-11' 20203.820 1 ? ? 'UNP residues 7-170' ? 2 non-polymer syn 'CHLORIDE ION' 35.453 3 ? ? ? ? 3 non-polymer syn 'SODIUM ION' 22.990 4 ? ? ? ? 4 water nat water 18.015 158 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;MSENQEQEEVITVRVQDPRVQNEGSWNSYVDY(MLY)IFLHTNS(MLY)AFTA(MLY)TSCVRRRYREFVWLR(MLY)QL QRNAGLVPVPELPGKSTFFGTSDEFIE(MLY)RRQGLQHFLE(MLY)VLQSVVLLSDSQLHLFLQSQLSVPEIEACVQGR STMTVSDAILRYAMSNCGWAQEERQSSSLEHHHHHH ; _entity_poly.pdbx_seq_one_letter_code_can ;MSENQEQEEVITVRVQDPRVQNEGSWNSYVDYKIFLHTNSKAFTAKTSCVRRRYREFVWLRKQLQRNAGLVPVPELPGKS TFFGTSDEFIEKRRQGLQHFLEKVLQSVVLLSDSQLHLFLQSQLSVPEIEACVQGRSTMTVSDAILRYAMSNCGWAQEER QSSSLEHHHHHH ; _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 MET n 1 2 SER n 1 3 GLU n 1 4 ASN n 1 5 GLN n 1 6 GLU n 1 7 GLN n 1 8 GLU n 1 9 GLU n 1 10 VAL n 1 11 ILE n 1 12 THR n 1 13 VAL n 1 14 ARG n 1 15 VAL n 1 16 GLN n 1 17 ASP n 1 18 PRO n 1 19 ARG n 1 20 VAL n 1 21 GLN n 1 22 ASN n 1 23 GLU n 1 24 GLY n 1 25 SER n 1 26 TRP n 1 27 ASN n 1 28 SER n 1 29 TYR n 1 30 VAL n 1 31 ASP n 1 32 TYR n 1 33 MLY n 1 34 ILE n 1 35 PHE n 1 36 LEU n 1 37 HIS n 1 38 THR n 1 39 ASN n 1 40 SER n 1 41 MLY n 1 42 ALA n 1 43 PHE n 1 44 THR n 1 45 ALA n 1 46 MLY n 1 47 THR n 1 48 SER n 1 49 CYS n 1 50 VAL n 1 51 ARG n 1 52 ARG n 1 53 ARG n 1 54 TYR n 1 55 ARG n 1 56 GLU n 1 57 PHE n 1 58 VAL n 1 59 TRP n 1 60 LEU n 1 61 ARG n 1 62 MLY n 1 63 GLN n 1 64 LEU n 1 65 GLN n 1 66 ARG n 1 67 ASN n 1 68 ALA n 1 69 GLY n 1 70 LEU n 1 71 VAL n 1 72 PRO n 1 73 VAL n 1 74 PRO n 1 75 GLU n 1 76 LEU n 1 77 PRO n 1 78 GLY n 1 79 LYS n 1 80 SER n 1 81 THR n 1 82 PHE n 1 83 PHE n 1 84 GLY n 1 85 THR n 1 86 SER n 1 87 ASP n 1 88 GLU n 1 89 PHE n 1 90 ILE n 1 91 GLU n 1 92 MLY n 1 93 ARG n 1 94 ARG n 1 95 GLN n 1 96 GLY n 1 97 LEU n 1 98 GLN n 1 99 HIS n 1 100 PHE n 1 101 LEU n 1 102 GLU n 1 103 MLY n 1 104 VAL n 1 105 LEU n 1 106 GLN n 1 107 SER n 1 108 VAL n 1 109 VAL n 1 110 LEU n 1 111 LEU n 1 112 SER n 1 113 ASP n 1 114 SER n 1 115 GLN n 1 116 LEU n 1 117 HIS n 1 118 LEU n 1 119 PHE n 1 120 LEU n 1 121 GLN n 1 122 SER n 1 123 GLN n 1 124 LEU n 1 125 SER n 1 126 VAL n 1 127 PRO n 1 128 GLU n 1 129 ILE n 1 130 GLU n 1 131 ALA n 1 132 CYS n 1 133 VAL n 1 134 GLN n 1 135 GLY n 1 136 ARG n 1 137 SER n 1 138 THR n 1 139 MET n 1 140 THR n 1 141 VAL n 1 142 SER n 1 143 ASP n 1 144 ALA n 1 145 ILE n 1 146 LEU n 1 147 ARG n 1 148 TYR n 1 149 ALA n 1 150 MET n 1 151 SER n 1 152 ASN n 1 153 CYS n 1 154 GLY n 1 155 TRP n 1 156 ALA n 1 157 GLN n 1 158 GLU n 1 159 GLU n 1 160 ARG n 1 161 GLN n 1 162 SER n 1 163 SER n 1 164 SER n 1 165 LEU n 1 166 GLU n 1 167 HIS n 1 168 HIS n 1 169 HIS n 1 170 HIS n 1 171 HIS n 1 172 HIS 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 SNX11 _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 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SNX11_HUMAN _struct_ref.pdbx_db_accession Q9Y5W9 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MSENQEQEEVITVRVQDPRVQNEGSWNSYVDYKIFLHTNSKAFTAKTSCVRRRYREFVWLRKQLQRNAGLVPVPELPGKS TFFGTSDEFIEKRRQGLQHFLEKVLQSVVLLSDSQLHLFLQSQLSVPEIEACVQGRSTMTVSDAILRYAMSNCGWAQEER QSSS ; _struct_ref.pdbx_align_begin 7 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4IKD _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 164 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9Y5W9 _struct_ref_seq.db_align_beg 7 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 170 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 7 _struct_ref_seq.pdbx_auth_seq_align_end 170 # 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 4IKD LEU A 165 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 171 1 1 4IKD GLU A 166 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 172 2 1 4IKD HIS A 167 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 173 3 1 4IKD HIS A 168 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 174 4 1 4IKD HIS A 169 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 175 5 1 4IKD HIS A 170 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 176 6 1 4IKD HIS A 171 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 177 7 1 4IKD HIS A 172 ? UNP Q9Y5W9 ? ? 'EXPRESSION TAG' 178 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 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MLY 'L-peptide linking' n N-DIMETHYL-LYSINE ? 'C8 H18 N2 O2' 174.241 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 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.crystals_number 1 _exptl.entry_id 4IKD _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity 0.280 _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 2.05 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 39.89 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION' _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pdbx_details '0.1M HEPES pH 7.5, 20% PEG 8000, vapor diffusion, temperature 293K' _exptl_crystal_grow.temp_details ? _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 'MARMOSAIC 225 mm CCD' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9791 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRF BEAMLINE BL17U' _diffrn_source.pdbx_wavelength_list 0.9791 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRF _diffrn_source.pdbx_synchrotron_beamline BL17U # _reflns.entry_id 4IKD _reflns.d_resolution_high 1.600 _reflns.d_resolution_low 45.362 _reflns.number_all 22474 _reflns.number_obs 22474 _reflns.pdbx_netI_over_sigmaI 7.200 _reflns.pdbx_Rsym_value 0.123 _reflns.pdbx_redundancy 4.200 _reflns.percent_possible_obs 99.700 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.pdbx_Rmerge_I_obs ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.pdbx_rejects _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.meanI_over_sigI_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.600 1.690 ? 13827 ? ? 0.521 1.400 0.521 ? 4.200 ? 2.800 ? 3254 ? ? 0.598 ? 99.800 0.598 0.288 1 1 1.690 1.790 ? 13056 ? ? 0.358 2.000 0.358 ? 4.300 ? 3.800 ? 3049 ? ? 0.410 ? 99.900 0.410 0.196 2 1 1.790 1.910 ? 12382 ? ? 0.230 3.100 0.230 ? 4.300 ? 5.300 ? 2891 ? ? 0.263 ? 100.000 0.263 0.126 3 1 1.910 2.070 ? 11510 ? ? 0.161 4.100 0.161 ? 4.300 ? 7.000 ? 2689 ? ? 0.185 ? 99.900 0.185 0.088 4 1 2.070 2.260 ? 10607 ? ? 0.134 4.500 0.134 ? 4.300 ? 8.500 ? 2495 ? ? 0.154 ? 100.000 0.154 0.074 5 1 2.260 2.530 ? 9607 ? ? 0.121 4.900 0.121 ? 4.200 ? 9.500 ? 2270 ? ? 0.139 ? 100.000 0.139 0.067 6 1 2.530 2.920 ? 8399 ? ? 0.120 4.600 0.120 ? 4.200 ? 10.300 ? 2016 ? ? 0.137 ? 99.900 0.137 0.066 7 1 2.920 3.580 ? 6944 ? ? 0.119 4.500 0.119 ? 4.100 ? 11.200 ? 1693 ? ? 0.136 ? 99.000 0.136 0.065 8 1 3.580 5.060 ? 5241 ? ? 0.099 5.600 0.099 ? 3.900 ? 11.600 ? 1356 ? ? 0.115 ? 98.900 0.115 0.057 9 1 5.060 34.291 ? 2871 ? ? 0.102 5.200 0.102 ? 3.800 ? 11.300 ? 761 ? ? 0.120 ? 95.000 0.120 0.061 10 1 # _refine.entry_id 4IKD _refine.ls_d_res_high 1.6000 _refine.ls_d_res_low 34.2900 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.0300 _refine.ls_number_reflns_obs 22322 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES: REFINED INDIVIDUALLY' _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1885 _refine.ls_R_factor_R_work 0.1860 _refine.ls_wR_factor_R_work 0.2013 _refine.ls_R_factor_R_free 0.2374 _refine.ls_wR_factor_R_free 0.2509 _refine.ls_percent_reflns_R_free 5.1000 _refine.ls_number_reflns_R_free 1142 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 24.3801 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.3500 _refine.aniso_B[2][2] 0.7600 _refine.aniso_B[3][3] -0.4100 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9570 _refine.correlation_coeff_Fo_to_Fc_free 0.9210 _refine.overall_SU_R_Cruickshank_DPI 0.0925 _refine.overall_SU_R_free 0.1008 _refine.pdbx_overall_ESU_R 0.0920 _refine.pdbx_overall_ESU_R_Free 0.1010 _refine.overall_SU_ML 0.0590 _refine.overall_SU_B 1.6360 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.2000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.8703 _refine.B_iso_max 76.680 _refine.B_iso_min 9.890 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.500 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1214 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 7 _refine_hist.number_atoms_solvent 158 _refine_hist.number_atoms_total 1379 _refine_hist.d_res_high 1.6000 _refine_hist.d_res_low 34.2900 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id r_bond_refined_d 1299 0.015 0.019 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 910 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 1771 1.751 1.978 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 2212 0.965 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 167 5.835 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 66 31.183 23.182 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 216 15.095 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 14 15.037 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 203 0.112 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 1440 0.009 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 283 0.001 0.020 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 1.6000 _refine_ls_shell.d_res_low 1.6410 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 99.6700 _refine_ls_shell.number_reflns_R_work 1425 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2760 _refine_ls_shell.R_factor_R_free 0.3320 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 66 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 1491 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 4IKD _struct.title 'Crystal structure of SNX11 PX domain' _struct.pdbx_descriptor 'Sorting nexin-11' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4IKD _struct_keywords.text 'SNX11, PX domain, PROTEIN TRANSPORT' _struct_keywords.pdbx_keywords 'PROTEIN TRANSPORT' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 2 ? E N N 3 ? F N N 3 ? G N N 3 ? H N N 3 ? I N N 4 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 TYR A 54 ? ALA A 68 ? TYR A 60 ALA A 74 1 ? 15 HELX_P HELX_P2 2 THR A 85 ? LEU A 105 ? THR A 91 LEU A 111 1 ? 21 HELX_P HELX_P3 3 SER A 107 ? SER A 112 ? SER A 113 SER A 118 1 ? 6 HELX_P HELX_P4 4 ASP A 113 ? SER A 122 ? ASP A 119 SER A 128 1 ? 10 HELX_P HELX_P5 5 SER A 125 ? GLN A 134 ? SER A 131 GLN A 140 1 ? 10 HELX_P HELX_P6 6 THR A 140 ? SER A 151 ? THR A 146 SER A 157 1 ? 12 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale1 covale ? ? A TYR 32 C ? ? ? 1_555 A MLY 33 N ? ? A TYR 38 A MLY 39 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale ? ? A MLY 33 C ? ? ? 1_555 A ILE 34 N ? ? A MLY 39 A ILE 40 1_555 ? ? ? ? ? ? ? 1.339 ? covale3 covale ? ? A SER 40 C ? ? ? 1_555 A MLY 41 N ? ? A SER 46 A MLY 47 1_555 ? ? ? ? ? ? ? 1.337 ? covale4 covale ? ? A MLY 41 C ? ? ? 1_555 A ALA 42 N ? ? A MLY 47 A ALA 48 1_555 ? ? ? ? ? ? ? 1.334 ? covale5 covale ? ? A ALA 45 C ? ? ? 1_555 A MLY 46 N ? ? A ALA 51 A MLY 52 1_555 ? ? ? ? ? ? ? 1.321 ? covale6 covale ? ? A MLY 46 C ? ? ? 1_555 A THR 47 N ? ? A MLY 52 A THR 53 1_555 ? ? ? ? ? ? ? 1.316 ? covale7 covale ? ? A ARG 61 C ? ? ? 1_555 A MLY 62 N ? ? A ARG 67 A MLY 68 1_555 ? ? ? ? ? ? ? 1.328 ? covale8 covale ? ? A MLY 62 C ? ? ? 1_555 A GLN 63 N ? ? A MLY 68 A GLN 69 1_555 ? ? ? ? ? ? ? 1.327 ? covale9 covale ? ? A GLU 91 C ? ? ? 1_555 A MLY 92 N ? ? A GLU 97 A MLY 98 1_555 ? ? ? ? ? ? ? 1.316 ? covale10 covale ? ? A MLY 92 C ? ? ? 1_555 A ARG 93 N ? ? A MLY 98 A ARG 99 1_555 ? ? ? ? ? ? ? 1.333 ? covale11 covale ? ? A GLU 102 C ? ? ? 1_555 A MLY 103 N ? ? A GLU 108 A MLY 109 1_555 ? ? ? ? ? ? ? 1.315 ? covale12 covale ? ? A MLY 103 C ? ? ? 1_555 A VAL 104 N ? ? A MLY 109 A VAL 110 1_555 ? ? ? ? ? ? ? 1.325 ? metalc1 metalc ? ? E NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 204 A HOH 325 1_555 ? ? ? ? ? ? ? 2.542 ? metalc2 metalc ? ? G NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 206 A HOH 316 1_555 ? ? ? ? ? ? ? 2.594 ? metalc3 metalc ? ? F NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 205 A HOH 357 1_555 ? ? ? ? ? ? ? 2.648 ? metalc4 metalc ? ? H NA . NA ? ? ? 1_555 I HOH . O ? ? A NA 207 A HOH 331 1_555 ? ? ? ? ? ? ? 2.988 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 ILE A 11 ? GLN A 21 ? ILE A 17 GLN A 27 A 2 TYR A 29 ? THR A 38 ? TYR A 35 THR A 44 A 3 THR A 47 ? ARG A 53 ? THR A 53 ARG A 59 # 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 GLN A 21 ? N GLN A 27 O TYR A 29 ? O TYR A 35 A 2 3 N ILE A 34 ? N ILE A 40 O VAL A 50 ? O VAL A 56 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE CL A 201' AC2 Software ? ? ? ? 2 'BINDING SITE FOR RESIDUE CL A 202' AC3 Software ? ? ? ? 1 'BINDING SITE FOR RESIDUE CL A 203' AC4 Software ? ? ? ? 2 'BINDING SITE FOR RESIDUE NA A 204' AC5 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE NA A 205' AC6 Software ? ? ? ? 3 'BINDING SITE FOR RESIDUE NA A 206' AC7 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE NA A 207' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 ALA A 42 ? ALA A 48 . ? 1_555 ? 2 AC1 4 THR A 44 ? THR A 50 . ? 1_555 ? 3 AC1 4 HIS A 117 ? HIS A 123 . ? 1_555 ? 4 AC1 4 HOH I . ? HOH A 425 . ? 1_555 ? 5 AC2 2 PRO A 74 ? PRO A 80 . ? 1_555 ? 6 AC2 2 GLU A 75 ? GLU A 81 . ? 1_555 ? 7 AC3 1 GLN A 16 ? GLN A 22 . ? 1_555 ? 8 AC4 2 MET A 150 ? MET A 156 . ? 1_555 ? 9 AC4 2 HOH I . ? HOH A 325 . ? 1_555 ? 10 AC5 4 MET A 139 ? MET A 145 . ? 4_545 ? 11 AC5 4 ARG A 147 ? ARG A 153 . ? 4_545 ? 12 AC5 4 NA G . ? NA A 206 . ? 4_545 ? 13 AC5 4 HOH I . ? HOH A 357 . ? 1_555 ? 14 AC6 3 MET A 139 ? MET A 145 . ? 1_555 ? 15 AC6 3 NA F . ? NA A 205 . ? 4_445 ? 16 AC6 3 HOH I . ? HOH A 316 . ? 1_555 ? 17 AC7 4 GLN A 5 ? GLN A 11 . ? 1_455 ? 18 AC7 4 ILE A 90 ? ILE A 96 . ? 1_555 ? 19 AC7 4 HOH I . ? HOH A 331 . ? 1_555 ? 20 AC7 4 HOH I . ? HOH A 446 . ? 1_455 ? # _atom_sites.entry_id 4IKD _atom_sites.fract_transf_matrix[1][1] 0.024925 _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] 0.016026 _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] 0.015138 _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 CL N NA 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 MET 1 7 ? ? ? A . n A 1 2 SER 2 8 ? ? ? A . n A 1 3 GLU 3 9 ? ? ? A . n A 1 4 ASN 4 10 ? ? ? A . n A 1 5 GLN 5 11 11 GLN GLN A . n A 1 6 GLU 6 12 12 GLU GLU A . n A 1 7 GLN 7 13 13 GLN GLN A . n A 1 8 GLU 8 14 14 GLU GLU A . n A 1 9 GLU 9 15 15 GLU GLU A . n A 1 10 VAL 10 16 16 VAL VAL A . n A 1 11 ILE 11 17 17 ILE ILE A . n A 1 12 THR 12 18 18 THR THR A . n A 1 13 VAL 13 19 19 VAL VAL A . n A 1 14 ARG 14 20 20 ARG ARG A . n A 1 15 VAL 15 21 21 VAL VAL A . n A 1 16 GLN 16 22 22 GLN GLN A . n A 1 17 ASP 17 23 23 ASP ASP A . n A 1 18 PRO 18 24 24 PRO PRO A . n A 1 19 ARG 19 25 25 ARG ARG A . n A 1 20 VAL 20 26 26 VAL VAL A . n A 1 21 GLN 21 27 27 GLN GLN A . n A 1 22 ASN 22 28 28 ASN ASN A . n A 1 23 GLU 23 29 29 GLU GLU A . n A 1 24 GLY 24 30 30 GLY GLY A . n A 1 25 SER 25 31 31 SER SER A . n A 1 26 TRP 26 32 32 TRP TRP A . n A 1 27 ASN 27 33 33 ASN ASN A . n A 1 28 SER 28 34 34 SER SER A . n A 1 29 TYR 29 35 35 TYR TYR A . n A 1 30 VAL 30 36 36 VAL VAL A . n A 1 31 ASP 31 37 37 ASP ASP A . n A 1 32 TYR 32 38 38 TYR TYR A . n A 1 33 MLY 33 39 39 MLY MLY A . n A 1 34 ILE 34 40 40 ILE ILE A . n A 1 35 PHE 35 41 41 PHE PHE A . n A 1 36 LEU 36 42 42 LEU LEU A . n A 1 37 HIS 37 43 43 HIS HIS A . n A 1 38 THR 38 44 44 THR THR A . n A 1 39 ASN 39 45 45 ASN ASN A . n A 1 40 SER 40 46 46 SER SER A . n A 1 41 MLY 41 47 47 MLY MLY A . n A 1 42 ALA 42 48 48 ALA ALA A . n A 1 43 PHE 43 49 49 PHE PHE A . n A 1 44 THR 44 50 50 THR THR A . n A 1 45 ALA 45 51 51 ALA ALA A . n A 1 46 MLY 46 52 52 MLY MLY A . n A 1 47 THR 47 53 53 THR THR A . n A 1 48 SER 48 54 54 SER SER A . n A 1 49 CYS 49 55 55 CYS CYS A . n A 1 50 VAL 50 56 56 VAL VAL A . n A 1 51 ARG 51 57 57 ARG ARG A . n A 1 52 ARG 52 58 58 ARG ARG A . n A 1 53 ARG 53 59 59 ARG ARG A . n A 1 54 TYR 54 60 60 TYR TYR A . n A 1 55 ARG 55 61 61 ARG ARG A . n A 1 56 GLU 56 62 62 GLU GLU A . n A 1 57 PHE 57 63 63 PHE PHE A . n A 1 58 VAL 58 64 64 VAL VAL A . n A 1 59 TRP 59 65 65 TRP TRP A . n A 1 60 LEU 60 66 66 LEU LEU A . n A 1 61 ARG 61 67 67 ARG ARG A . n A 1 62 MLY 62 68 68 MLY MLY A . n A 1 63 GLN 63 69 69 GLN GLN A . n A 1 64 LEU 64 70 70 LEU LEU A . n A 1 65 GLN 65 71 71 GLN GLN A . n A 1 66 ARG 66 72 72 ARG ARG A . n A 1 67 ASN 67 73 73 ASN ASN A . n A 1 68 ALA 68 74 74 ALA ALA A . n A 1 69 GLY 69 75 75 GLY GLY A . n A 1 70 LEU 70 76 76 LEU LEU A . n A 1 71 VAL 71 77 77 VAL VAL A . n A 1 72 PRO 72 78 78 PRO PRO A . n A 1 73 VAL 73 79 79 VAL VAL A . n A 1 74 PRO 74 80 80 PRO PRO A . n A 1 75 GLU 75 81 81 GLU GLU A . n A 1 76 LEU 76 82 82 LEU LEU A . n A 1 77 PRO 77 83 83 PRO PRO A . n A 1 78 GLY 78 84 84 GLY GLY A . n A 1 79 LYS 79 85 ? ? ? A . n A 1 80 SER 80 86 ? ? ? A . n A 1 81 THR 81 87 87 THR THR A . n A 1 82 PHE 82 88 88 PHE PHE A . n A 1 83 PHE 83 89 89 PHE PHE A . n A 1 84 GLY 84 90 90 GLY GLY A . n A 1 85 THR 85 91 91 THR THR A . n A 1 86 SER 86 92 92 SER SER A . n A 1 87 ASP 87 93 93 ASP ASP A . n A 1 88 GLU 88 94 94 GLU GLU A . n A 1 89 PHE 89 95 95 PHE PHE A . n A 1 90 ILE 90 96 96 ILE ILE A . n A 1 91 GLU 91 97 97 GLU GLU A . n A 1 92 MLY 92 98 98 MLY MLY A . n A 1 93 ARG 93 99 99 ARG ARG A . n A 1 94 ARG 94 100 100 ARG ARG A . n A 1 95 GLN 95 101 101 GLN GLN A . n A 1 96 GLY 96 102 102 GLY GLY A . n A 1 97 LEU 97 103 103 LEU LEU A . n A 1 98 GLN 98 104 104 GLN GLN A . n A 1 99 HIS 99 105 105 HIS HIS A . n A 1 100 PHE 100 106 106 PHE PHE A . n A 1 101 LEU 101 107 107 LEU LEU A . n A 1 102 GLU 102 108 108 GLU GLU A . n A 1 103 MLY 103 109 109 MLY MLY A . n A 1 104 VAL 104 110 110 VAL VAL A . n A 1 105 LEU 105 111 111 LEU LEU A . n A 1 106 GLN 106 112 112 GLN GLN A . n A 1 107 SER 107 113 113 SER SER A . n A 1 108 VAL 108 114 114 VAL VAL A . n A 1 109 VAL 109 115 115 VAL VAL A . n A 1 110 LEU 110 116 116 LEU LEU A . n A 1 111 LEU 111 117 117 LEU LEU A . n A 1 112 SER 112 118 118 SER SER A . n A 1 113 ASP 113 119 119 ASP ASP A . n A 1 114 SER 114 120 120 SER SER A . n A 1 115 GLN 115 121 121 GLN GLN A . n A 1 116 LEU 116 122 122 LEU LEU A . n A 1 117 HIS 117 123 123 HIS HIS A . n A 1 118 LEU 118 124 124 LEU LEU A . n A 1 119 PHE 119 125 125 PHE PHE A . n A 1 120 LEU 120 126 126 LEU LEU A . n A 1 121 GLN 121 127 127 GLN GLN A . n A 1 122 SER 122 128 128 SER SER A . n A 1 123 GLN 123 129 129 GLN GLN A . n A 1 124 LEU 124 130 130 LEU LEU A . n A 1 125 SER 125 131 131 SER SER A . n A 1 126 VAL 126 132 132 VAL VAL A . n A 1 127 PRO 127 133 133 PRO PRO A . n A 1 128 GLU 128 134 134 GLU GLU A . n A 1 129 ILE 129 135 135 ILE ILE A . n A 1 130 GLU 130 136 136 GLU GLU A . n A 1 131 ALA 131 137 137 ALA ALA A . n A 1 132 CYS 132 138 138 CYS CYS A . n A 1 133 VAL 133 139 139 VAL VAL A . n A 1 134 GLN 134 140 140 GLN GLN A . n A 1 135 GLY 135 141 141 GLY GLY A . n A 1 136 ARG 136 142 142 ARG ARG A . n A 1 137 SER 137 143 143 SER SER A . n A 1 138 THR 138 144 144 THR THR A . n A 1 139 MET 139 145 145 MET MET A . n A 1 140 THR 140 146 146 THR THR A . n A 1 141 VAL 141 147 147 VAL VAL A . n A 1 142 SER 142 148 148 SER SER A . n A 1 143 ASP 143 149 149 ASP ASP A . n A 1 144 ALA 144 150 150 ALA ALA A . n A 1 145 ILE 145 151 151 ILE ILE A . n A 1 146 LEU 146 152 152 LEU LEU A . n A 1 147 ARG 147 153 153 ARG ARG A . n A 1 148 TYR 148 154 154 TYR TYR A . n A 1 149 ALA 149 155 155 ALA ALA A . n A 1 150 MET 150 156 156 MET MET A . n A 1 151 SER 151 157 157 SER SER A . n A 1 152 ASN 152 158 158 ASN ASN A . n A 1 153 CYS 153 159 159 CYS CYS A . n A 1 154 GLY 154 160 160 GLY GLY A . n A 1 155 TRP 155 161 ? ? ? A . n A 1 156 ALA 156 162 ? ? ? A . n A 1 157 GLN 157 163 ? ? ? A . n A 1 158 GLU 158 164 ? ? ? A . n A 1 159 GLU 159 165 ? ? ? A . n A 1 160 ARG 160 166 ? ? ? A . n A 1 161 GLN 161 167 ? ? ? A . n A 1 162 SER 162 168 ? ? ? A . n A 1 163 SER 163 169 ? ? ? A . n A 1 164 SER 164 170 ? ? ? A . n A 1 165 LEU 165 171 ? ? ? A . n A 1 166 GLU 166 172 ? ? ? A . n A 1 167 HIS 167 173 ? ? ? A . n A 1 168 HIS 168 174 ? ? ? A . n A 1 169 HIS 169 175 ? ? ? A . n A 1 170 HIS 170 176 ? ? ? A . n A 1 171 HIS 171 177 ? ? ? A . n A 1 172 HIS 172 178 ? ? ? A . n # 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 MLY 33 A MLY 39 ? LYS N-DIMETHYL-LYSINE 2 A MLY 41 A MLY 47 ? LYS N-DIMETHYL-LYSINE 3 A MLY 46 A MLY 52 ? LYS N-DIMETHYL-LYSINE 4 A MLY 62 A MLY 68 ? LYS N-DIMETHYL-LYSINE 5 A MLY 92 A MLY 98 ? LYS N-DIMETHYL-LYSINE 6 A MLY 103 A MLY 109 ? LYS N-DIMETHYL-LYSINE # _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,H,I # _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_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2013-04-24 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # _phasing.method MR # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 SCALA 3.3.20 2011/05/18 other 'Phil R. Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/scala.html Fortran_77 ? 2 MOLREP . ? program 'Alexei Vaguine' alexei@ysbl.york.ac.uk phasing http://www.ccp4.ac.uk/dist/html/molrep.html Fortran_77 ? 3 REFMAC . ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 4 PDB_EXTRACT 3.11 'April 22, 2011' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A HOH 379 ? ? O A HOH 426 ? ? 1.99 2 1 OE1 A GLN 121 ? ? O A HOH 448 ? ? 2.03 3 1 OE1 A GLU 94 ? ? O A HOH 355 ? ? 2.11 # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 NE A ARG 57 ? ? CZ A ARG 57 ? ? NH1 A ARG 57 ? ? 124.55 120.30 4.25 0.50 N 2 1 NE A ARG 57 ? ? CZ A ARG 57 ? ? NH2 A ARG 57 ? ? 116.09 120.30 -4.21 0.50 N 3 1 NE A ARG 99 ? ? CZ A ARG 99 ? ? NH2 A ARG 99 ? ? 117.21 120.30 -3.09 0.50 N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 33 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -95.36 _pdbx_validate_torsion.psi 30.57 # 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 MET 7 ? A MET 1 2 1 Y 1 A SER 8 ? A SER 2 3 1 Y 1 A GLU 9 ? A GLU 3 4 1 Y 1 A ASN 10 ? A ASN 4 5 1 Y 1 A LYS 85 ? A LYS 79 6 1 Y 1 A SER 86 ? A SER 80 7 1 Y 1 A TRP 161 ? A TRP 155 8 1 Y 1 A ALA 162 ? A ALA 156 9 1 Y 1 A GLN 163 ? A GLN 157 10 1 Y 1 A GLU 164 ? A GLU 158 11 1 Y 1 A GLU 165 ? A GLU 159 12 1 Y 1 A ARG 166 ? A ARG 160 13 1 Y 1 A GLN 167 ? A GLN 161 14 1 Y 1 A SER 168 ? A SER 162 15 1 Y 1 A SER 169 ? A SER 163 16 1 Y 1 A SER 170 ? A SER 164 17 1 Y 1 A LEU 171 ? A LEU 165 18 1 Y 1 A GLU 172 ? A GLU 166 19 1 Y 1 A HIS 173 ? A HIS 167 20 1 Y 1 A HIS 174 ? A HIS 168 21 1 Y 1 A HIS 175 ? A HIS 169 22 1 Y 1 A HIS 176 ? A HIS 170 23 1 Y 1 A HIS 177 ? A HIS 171 24 1 Y 1 A HIS 178 ? A HIS 172 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 'SODIUM ION' NA 4 water HOH # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 CL 1 201 1 CL CL A . C 2 CL 1 202 2 CL CL A . D 2 CL 1 203 3 CL CL A . E 3 NA 1 204 4 NA NA A . F 3 NA 1 205 5 NA NA A . G 3 NA 1 206 6 NA NA A . H 3 NA 1 207 7 NA NA A . I 4 HOH 1 301 1 HOH HOH A . I 4 HOH 2 302 2 HOH HOH A . I 4 HOH 3 303 5 HOH HOH A . I 4 HOH 4 304 6 HOH HOH A . I 4 HOH 5 305 7 HOH HOH A . I 4 HOH 6 306 8 HOH HOH A . I 4 HOH 7 307 9 HOH HOH A . I 4 HOH 8 308 10 HOH HOH A . I 4 HOH 9 309 11 HOH HOH A . I 4 HOH 10 310 12 HOH HOH A . I 4 HOH 11 311 13 HOH HOH A . I 4 HOH 12 312 14 HOH HOH A . I 4 HOH 13 313 15 HOH HOH A . I 4 HOH 14 314 16 HOH HOH A . I 4 HOH 15 315 17 HOH HOH A . I 4 HOH 16 316 18 HOH HOH A . I 4 HOH 17 317 19 HOH HOH A . I 4 HOH 18 318 20 HOH HOH A . I 4 HOH 19 319 21 HOH HOH A . I 4 HOH 20 320 22 HOH HOH A . I 4 HOH 21 321 23 HOH HOH A . I 4 HOH 22 322 24 HOH HOH A . I 4 HOH 23 323 25 HOH HOH A . I 4 HOH 24 324 27 HOH HOH A . I 4 HOH 25 325 28 HOH HOH A . I 4 HOH 26 326 29 HOH HOH A . I 4 HOH 27 327 30 HOH HOH A . I 4 HOH 28 328 31 HOH HOH A . I 4 HOH 29 329 32 HOH HOH A . I 4 HOH 30 330 33 HOH HOH A . I 4 HOH 31 331 34 HOH HOH A . I 4 HOH 32 332 35 HOH HOH A . I 4 HOH 33 333 37 HOH HOH A . I 4 HOH 34 334 38 HOH HOH A . I 4 HOH 35 335 39 HOH HOH A . I 4 HOH 36 336 40 HOH HOH A . I 4 HOH 37 337 41 HOH HOH A . I 4 HOH 38 338 42 HOH HOH A . I 4 HOH 39 339 43 HOH HOH A . I 4 HOH 40 340 44 HOH HOH A . I 4 HOH 41 341 45 HOH HOH A . I 4 HOH 42 342 46 HOH HOH A . I 4 HOH 43 343 47 HOH HOH A . I 4 HOH 44 344 49 HOH HOH A . I 4 HOH 45 345 50 HOH HOH A . I 4 HOH 46 346 51 HOH HOH A . I 4 HOH 47 347 52 HOH HOH A . I 4 HOH 48 348 53 HOH HOH A . I 4 HOH 49 349 54 HOH HOH A . I 4 HOH 50 350 55 HOH HOH A . I 4 HOH 51 351 56 HOH HOH A . I 4 HOH 52 352 58 HOH HOH A . I 4 HOH 53 353 59 HOH HOH A . I 4 HOH 54 354 60 HOH HOH A . I 4 HOH 55 355 62 HOH HOH A . I 4 HOH 56 356 64 HOH HOH A . I 4 HOH 57 357 65 HOH HOH A . I 4 HOH 58 358 66 HOH HOH A . I 4 HOH 59 359 67 HOH HOH A . I 4 HOH 60 360 68 HOH HOH A . I 4 HOH 61 361 69 HOH HOH A . I 4 HOH 62 362 70 HOH HOH A . I 4 HOH 63 363 71 HOH HOH A . I 4 HOH 64 364 72 HOH HOH A . I 4 HOH 65 365 73 HOH HOH A . I 4 HOH 66 366 74 HOH HOH A . I 4 HOH 67 367 75 HOH HOH A . I 4 HOH 68 368 76 HOH HOH A . I 4 HOH 69 369 77 HOH HOH A . I 4 HOH 70 370 78 HOH HOH A . I 4 HOH 71 371 80 HOH HOH A . I 4 HOH 72 372 81 HOH HOH A . I 4 HOH 73 373 82 HOH HOH A . I 4 HOH 74 374 83 HOH HOH A . I 4 HOH 75 375 84 HOH HOH A . I 4 HOH 76 376 85 HOH HOH A . I 4 HOH 77 377 86 HOH HOH A . I 4 HOH 78 378 87 HOH HOH A . I 4 HOH 79 379 89 HOH HOH A . I 4 HOH 80 380 90 HOH HOH A . I 4 HOH 81 381 91 HOH HOH A . I 4 HOH 82 382 92 HOH HOH A . I 4 HOH 83 383 93 HOH HOH A . I 4 HOH 84 384 94 HOH HOH A . I 4 HOH 85 385 95 HOH HOH A . I 4 HOH 86 386 96 HOH HOH A . I 4 HOH 87 387 97 HOH HOH A . I 4 HOH 88 388 98 HOH HOH A . I 4 HOH 89 389 99 HOH HOH A . I 4 HOH 90 390 100 HOH HOH A . I 4 HOH 91 391 101 HOH HOH A . I 4 HOH 92 392 102 HOH HOH A . I 4 HOH 93 393 103 HOH HOH A . I 4 HOH 94 394 104 HOH HOH A . I 4 HOH 95 395 105 HOH HOH A . I 4 HOH 96 396 106 HOH HOH A . I 4 HOH 97 397 107 HOH HOH A . I 4 HOH 98 398 108 HOH HOH A . I 4 HOH 99 399 109 HOH HOH A . I 4 HOH 100 400 110 HOH HOH A . I 4 HOH 101 401 111 HOH HOH A . I 4 HOH 102 402 113 HOH HOH A . I 4 HOH 103 403 115 HOH HOH A . I 4 HOH 104 404 116 HOH HOH A . I 4 HOH 105 405 118 HOH HOH A . I 4 HOH 106 406 119 HOH HOH A . I 4 HOH 107 407 120 HOH HOH A . I 4 HOH 108 408 122 HOH HOH A . I 4 HOH 109 409 124 HOH HOH A . I 4 HOH 110 410 125 HOH HOH A . I 4 HOH 111 411 126 HOH HOH A . I 4 HOH 112 412 128 HOH HOH A . I 4 HOH 113 413 129 HOH HOH A . I 4 HOH 114 414 130 HOH HOH A . I 4 HOH 115 415 131 HOH HOH A . I 4 HOH 116 416 132 HOH HOH A . I 4 HOH 117 417 134 HOH HOH A . I 4 HOH 118 418 135 HOH HOH A . I 4 HOH 119 419 137 HOH HOH A . I 4 HOH 120 420 140 HOH HOH A . I 4 HOH 121 421 141 HOH HOH A . I 4 HOH 122 422 143 HOH HOH A . I 4 HOH 123 423 144 HOH HOH A . I 4 HOH 124 424 145 HOH HOH A . I 4 HOH 125 425 146 HOH HOH A . I 4 HOH 126 426 147 HOH HOH A . I 4 HOH 127 427 148 HOH HOH A . I 4 HOH 128 428 151 HOH HOH A . I 4 HOH 129 429 152 HOH HOH A . I 4 HOH 130 430 153 HOH HOH A . I 4 HOH 131 431 154 HOH HOH A . I 4 HOH 132 432 155 HOH HOH A . I 4 HOH 133 433 156 HOH HOH A . I 4 HOH 134 434 157 HOH HOH A . I 4 HOH 135 435 158 HOH HOH A . I 4 HOH 136 436 159 HOH HOH A . I 4 HOH 137 437 160 HOH HOH A . I 4 HOH 138 438 161 HOH HOH A . I 4 HOH 139 439 162 HOH HOH A . I 4 HOH 140 440 163 HOH HOH A . I 4 HOH 141 441 164 HOH HOH A . I 4 HOH 142 442 165 HOH HOH A . I 4 HOH 143 443 166 HOH HOH A . I 4 HOH 144 444 168 HOH HOH A . I 4 HOH 145 445 169 HOH HOH A . I 4 HOH 146 446 170 HOH HOH A . I 4 HOH 147 447 171 HOH HOH A . I 4 HOH 148 448 172 HOH HOH A . I 4 HOH 149 449 173 HOH HOH A . I 4 HOH 150 450 175 HOH HOH A . I 4 HOH 151 451 179 HOH HOH A . I 4 HOH 152 452 180 HOH HOH A . I 4 HOH 153 453 181 HOH HOH A . I 4 HOH 154 454 182 HOH HOH A . I 4 HOH 155 455 183 HOH HOH A . I 4 HOH 156 456 184 HOH HOH A . I 4 HOH 157 457 185 HOH HOH A . I 4 HOH 158 458 186 HOH HOH A . #