data_3PZ7 # _entry.id 3PZ7 # _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 3PZ7 RCSB RCSB062993 WWPDB D_1000062993 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3PZ7 _pdbx_database_status.recvd_initial_deposition_date 2010-12-14 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _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 'Liu, Y.T.' 1 'Wang, J.W.' 2 'Chen, L.' 3 'Wu, J.W.' 4 # _citation.id primary _citation.title 'Molecular basis of WNT Activation via the DIX-domain protein CCD1' _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 'Liu, Y.T.' 1 primary 'Dan, Q.J.' 2 primary 'Wang, J.W.' 3 primary 'Feng, Y.G.' 4 primary 'Chen, L.' 5 primary 'Liang, J.' 6 primary 'Li, Q.X.' 7 primary 'Lin, S.C.' 8 primary 'Wang, Z.X.' 9 primary 'Wu, J.W.' 10 # _cell.entry_id 3PZ7 _cell.length_a 62.576 _cell.length_b 62.576 _cell.length_c 77.722 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3PZ7 _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _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 Dixin 10632.595 1 ? L436M 'DIX domain' ? 2 non-polymer syn 1,2-ETHANEDIOL 62.068 1 ? ? ? ? 3 water nat water 18.015 40 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Ccd1, Coiled-coil protein DIX1, DIX domain-containing protein 1' # _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 ;GPH(MSE)SSTCTKVLYFTDRSLTPF(MSE)VNIPKRLEEVTLKDFKAAIDREGNHRYHFKAMDPEFGTVKEEIFHDDDA IPGWEGKIVAWVEEDHGEN ; _entity_poly.pdbx_seq_one_letter_code_can ;GPHMSSTCTKVLYFTDRSLTPFMVNIPKRLEEVTLKDFKAAIDREGNHRYHFKAMDPEFGTVKEEIFHDDDAIPGWEGKI VAWVEEDHGEN ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLY n 1 2 PRO n 1 3 HIS n 1 4 MSE n 1 5 SER n 1 6 SER n 1 7 THR n 1 8 CYS n 1 9 THR n 1 10 LYS n 1 11 VAL n 1 12 LEU n 1 13 TYR n 1 14 PHE n 1 15 THR n 1 16 ASP n 1 17 ARG n 1 18 SER n 1 19 LEU n 1 20 THR n 1 21 PRO n 1 22 PHE n 1 23 MSE n 1 24 VAL n 1 25 ASN n 1 26 ILE n 1 27 PRO n 1 28 LYS n 1 29 ARG n 1 30 LEU n 1 31 GLU n 1 32 GLU n 1 33 VAL n 1 34 THR n 1 35 LEU n 1 36 LYS n 1 37 ASP n 1 38 PHE n 1 39 LYS n 1 40 ALA n 1 41 ALA n 1 42 ILE n 1 43 ASP n 1 44 ARG n 1 45 GLU n 1 46 GLY n 1 47 ASN n 1 48 HIS n 1 49 ARG n 1 50 TYR n 1 51 HIS n 1 52 PHE n 1 53 LYS n 1 54 ALA n 1 55 MET n 1 56 ASP n 1 57 PRO n 1 58 GLU n 1 59 PHE n 1 60 GLY n 1 61 THR n 1 62 VAL n 1 63 LYS n 1 64 GLU n 1 65 GLU n 1 66 ILE n 1 67 PHE n 1 68 HIS n 1 69 ASP n 1 70 ASP n 1 71 ASP n 1 72 ALA n 1 73 ILE n 1 74 PRO n 1 75 GLY n 1 76 TRP n 1 77 GLU n 1 78 GLY n 1 79 LYS n 1 80 ILE n 1 81 VAL n 1 82 ALA n 1 83 TRP n 1 84 VAL n 1 85 GLU n 1 86 GLU n 1 87 ASP n 1 88 HIS n 1 89 GLY n 1 90 GLU n 1 91 ASN 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 ? _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 'BL21(DE3)' _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 pGEX _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code DIXC1_HUMAN _struct_ref.pdbx_db_accession Q155Q3 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SSTCTKVLYFTDRSLTPFMVNIPKRLEEVTLKDFKAAIDREGNHRYHFKALDPEFGTVKEEIFHDDDAIPGWEGKIVAWV EEDHGEN ; _struct_ref.pdbx_align_begin 386 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3PZ7 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 5 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 91 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q155Q3 _struct_ref_seq.db_align_beg 386 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 472 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 386 _struct_ref_seq.pdbx_auth_seq_align_end 472 # 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 3PZ7 GLY A 1 ? UNP Q155Q3 ? ? 'EXPRESSION TAG' -3 1 1 3PZ7 PRO A 2 ? UNP Q155Q3 ? ? 'EXPRESSION TAG' -2 2 1 3PZ7 HIS A 3 ? UNP Q155Q3 ? ? 'EXPRESSION TAG' -1 3 1 3PZ7 MSE A 4 ? UNP Q155Q3 ? ? 'EXPRESSION TAG' 0 4 1 3PZ7 MET A 55 ? UNP Q155Q3 LEU 436 'ENGINEERED MUTATION' 436 5 # 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 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3PZ7 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.07 _exptl_crystal.density_percent_sol 40.46 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 278.0 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_details ;0.1M Sodium Cacodylate, 20% PEG 3350, 4% Ethylene Glycol, 0.2M Ammonium Acetate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 278.0K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100.0 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type ? _diffrn_detector.pdbx_collection_date 2007-12-01 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength . _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SPRING-8 BEAMLINE BL24XU' _diffrn_source.pdbx_synchrotron_site SPring-8 _diffrn_source.pdbx_synchrotron_beamline BL24XU _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 3PZ7 _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 31.581 _reflns.d_resolution_high 2.44 _reflns.number_obs 3659 _reflns.number_all 3680 _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.11 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 18.6 _reflns.B_iso_Wilson_estimate 42.6 _reflns.pdbx_redundancy 5.8 _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_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.44 _reflns_shell.d_res_low 2.53 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.608 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.6 _reflns_shell.pdbx_redundancy 5.4 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 346 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.number_possible ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.meanI_over_sigI_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3PZ7 _refine.ls_number_reflns_obs 3659 _refine.ls_number_reflns_all 3680 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.91 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 31.581 _refine.ls_d_res_high 2.441 _refine.ls_percent_reflns_obs 99.7 _refine.ls_R_factor_obs 0.2351 _refine.ls_R_factor_all 0.26 _refine.ls_R_factor_R_work 0.2334 _refine.ls_R_factor_R_free 0.2751 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.29 _refine.ls_number_reflns_R_free 157 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 39.3058 _refine.aniso_B[1][1] 2.4135 _refine.aniso_B[2][2] 2.4135 _refine.aniso_B[3][3] -4.8270 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.365 _refine.solvent_model_param_bsol 58.089 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.34 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.overall_FOM_work_R_set 0.7468 _refine.B_iso_max 81.870 _refine.B_iso_min 24.450 _refine.pdbx_overall_phase_error 28.8700 _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_diffrn_id 1 _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 706 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 4 _refine_hist.number_atoms_solvent 40 _refine_hist.number_atoms_total 750 _refine_hist.d_res_high 2.441 _refine_hist.d_res_low 31.581 # loop_ _refine_ls_restr.pdbx_refine_id _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 'X-RAY DIFFRACTION' f_bond_d 730 0.012 ? ? ? 'X-RAY DIFFRACTION' f_angle_d 985 1.481 ? ? ? 'X-RAY DIFFRACTION' f_chiral_restr 103 0.097 ? ? ? 'X-RAY DIFFRACTION' f_plane_restr 127 0.007 ? ? ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 268 22.656 ? ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used ? _refine_ls_shell.d_res_high 2.4410 _refine_ls_shell.d_res_low 2.53 _refine_ls_shell.number_reflns_R_work 3502 _refine_ls_shell.R_factor_R_work 0.2334 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.2751 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 157 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs 346 _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 3PZ7 _struct.title 'Crystal structure of Ccd1-DIX domain' _struct.pdbx_descriptor Dixin _struct.pdbx_model_details ? _struct.pdbx_CASP_flag N _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3PZ7 _struct_keywords.pdbx_keywords 'SIGNALING PROTEIN' _struct_keywords.text 'DIX domain, oligomerization, SIGNALING 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 ? # _struct_biol.id 1 _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id THR _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 34 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id ASP _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 43 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id THR _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 415 _struct_conf.end_auth_comp_id ASP _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 424 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 10 # _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 HIS 3 C ? ? ? 1_555 A MSE 4 N ? ? A HIS -1 A MSE 0 1_555 ? ? ? ? ? ? ? 1.313 ? covale2 covale ? ? A MSE 4 C ? ? ? 1_555 A SER 5 N ? ? A MSE 0 A SER 386 1_555 ? ? ? ? ? ? ? 1.322 ? covale3 covale ? ? A PHE 22 C ? ? ? 1_555 A MSE 23 N ? ? A PHE 403 A MSE 404 1_555 ? ? ? ? ? ? ? 1.315 ? covale4 covale ? ? A MSE 23 C ? ? ? 1_555 A VAL 24 N ? ? A MSE 404 A VAL 405 1_555 ? ? ? ? ? ? ? 1.323 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 5 _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 ? parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 PHE A 22 ? ILE A 26 ? PHE A 403 ILE A 407 A 2 THR A 9 ? PHE A 14 ? THR A 390 PHE A 395 A 3 LYS A 79 ? GLU A 86 ? LYS A 460 GLU A 467 A 4 HIS A 48 ? ASP A 56 ? HIS A 429 ASP A 437 A 5 GLY A 60 ? ILE A 66 ? GLY A 441 ILE A 447 # 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 O VAL A 24 ? O VAL A 405 N VAL A 11 ? N VAL A 392 A 2 3 N LEU A 12 ? N LEU A 393 O ILE A 80 ? O ILE A 461 A 3 4 O TRP A 83 ? O TRP A 464 N HIS A 51 ? N HIS A 432 A 4 5 N TYR A 50 ? N TYR A 431 O ILE A 66 ? O ILE A 447 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _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 1 _struct_site.details 'BINDING SITE FOR RESIDUE EDO A 3318' # _struct_site_gen.id 1 _struct_site_gen.site_id AC1 _struct_site_gen.pdbx_num_res 1 _struct_site_gen.label_comp_id HOH _struct_site_gen.label_asym_id C _struct_site_gen.label_seq_id . _struct_site_gen.pdbx_auth_ins_code ? _struct_site_gen.auth_comp_id HOH _struct_site_gen.auth_asym_id A _struct_site_gen.auth_seq_id 14 _struct_site_gen.label_atom_id . _struct_site_gen.label_alt_id ? _struct_site_gen.symmetry 1_555 _struct_site_gen.details ? # _database_PDB_matrix.entry_id 3PZ7 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 3PZ7 _atom_sites.fract_transf_matrix[1][1] 0.015981 _atom_sites.fract_transf_matrix[1][2] 0.009226 _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] 0.018453 _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] 0.012866 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S SE # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLY 1 -3 ? ? ? A . n A 1 2 PRO 2 -2 -2 PRO PRO A . n A 1 3 HIS 3 -1 -1 HIS HIS A . n A 1 4 MSE 4 0 0 MSE MSE A . n A 1 5 SER 5 386 386 SER SER A . n A 1 6 SER 6 387 387 SER SER A . n A 1 7 THR 7 388 388 THR THR A . n A 1 8 CYS 8 389 389 CYS CYS A . n A 1 9 THR 9 390 390 THR THR A . n A 1 10 LYS 10 391 391 LYS LYS A . n A 1 11 VAL 11 392 392 VAL VAL A . n A 1 12 LEU 12 393 393 LEU LEU A . n A 1 13 TYR 13 394 394 TYR TYR A . n A 1 14 PHE 14 395 395 PHE PHE A . n A 1 15 THR 15 396 396 THR THR A . n A 1 16 ASP 16 397 397 ASP ASP A . n A 1 17 ARG 17 398 398 ARG ARG A . n A 1 18 SER 18 399 399 SER SER A . n A 1 19 LEU 19 400 400 LEU LEU A . n A 1 20 THR 20 401 401 THR THR A . n A 1 21 PRO 21 402 402 PRO PRO A . n A 1 22 PHE 22 403 403 PHE PHE A . n A 1 23 MSE 23 404 404 MSE MSE A . n A 1 24 VAL 24 405 405 VAL VAL A . n A 1 25 ASN 25 406 406 ASN ASN A . n A 1 26 ILE 26 407 407 ILE ILE A . n A 1 27 PRO 27 408 408 PRO PRO A . n A 1 28 LYS 28 409 409 LYS LYS A . n A 1 29 ARG 29 410 410 ARG ARG A . n A 1 30 LEU 30 411 411 LEU LEU A . n A 1 31 GLU 31 412 412 GLU GLU A . n A 1 32 GLU 32 413 413 GLU GLU A . n A 1 33 VAL 33 414 414 VAL VAL A . n A 1 34 THR 34 415 415 THR THR A . n A 1 35 LEU 35 416 416 LEU LEU A . n A 1 36 LYS 36 417 417 LYS LYS A . n A 1 37 ASP 37 418 418 ASP ASP A . n A 1 38 PHE 38 419 419 PHE PHE A . n A 1 39 LYS 39 420 420 LYS LYS A . n A 1 40 ALA 40 421 421 ALA ALA A . n A 1 41 ALA 41 422 422 ALA ALA A . n A 1 42 ILE 42 423 423 ILE ILE A . n A 1 43 ASP 43 424 424 ASP ASP A . n A 1 44 ARG 44 425 425 ARG ARG A . n A 1 45 GLU 45 426 426 GLU GLU A . n A 1 46 GLY 46 427 427 GLY GLY A . n A 1 47 ASN 47 428 428 ASN ASN A . n A 1 48 HIS 48 429 429 HIS HIS A . n A 1 49 ARG 49 430 430 ARG ARG A . n A 1 50 TYR 50 431 431 TYR TYR A . n A 1 51 HIS 51 432 432 HIS HIS A . n A 1 52 PHE 52 433 433 PHE PHE A . n A 1 53 LYS 53 434 434 LYS LYS A . n A 1 54 ALA 54 435 435 ALA ALA A . n A 1 55 MET 55 436 436 MET MET A . n A 1 56 ASP 56 437 437 ASP ASP A . n A 1 57 PRO 57 438 438 PRO PRO A . n A 1 58 GLU 58 439 439 GLU GLU A . n A 1 59 PHE 59 440 440 PHE PHE A . n A 1 60 GLY 60 441 441 GLY GLY A . n A 1 61 THR 61 442 442 THR THR A . n A 1 62 VAL 62 443 443 VAL VAL A . n A 1 63 LYS 63 444 444 LYS LYS A . n A 1 64 GLU 64 445 445 GLU GLU A . n A 1 65 GLU 65 446 446 GLU GLU A . n A 1 66 ILE 66 447 447 ILE ILE A . n A 1 67 PHE 67 448 448 PHE PHE A . n A 1 68 HIS 68 449 449 HIS HIS A . n A 1 69 ASP 69 450 450 ASP ASP A . n A 1 70 ASP 70 451 451 ASP ASP A . n A 1 71 ASP 71 452 452 ASP ASP A . n A 1 72 ALA 72 453 453 ALA ALA A . n A 1 73 ILE 73 454 454 ILE ILE A . n A 1 74 PRO 74 455 455 PRO PRO A . n A 1 75 GLY 75 456 456 GLY GLY A . n A 1 76 TRP 76 457 457 TRP TRP A . n A 1 77 GLU 77 458 458 GLU GLU A . n A 1 78 GLY 78 459 459 GLY GLY A . n A 1 79 LYS 79 460 460 LYS LYS A . n A 1 80 ILE 80 461 461 ILE ILE A . n A 1 81 VAL 81 462 462 VAL VAL A . n A 1 82 ALA 82 463 463 ALA ALA A . n A 1 83 TRP 83 464 464 TRP TRP A . n A 1 84 VAL 84 465 465 VAL VAL A . n A 1 85 GLU 85 466 466 GLU GLU A . n A 1 86 GLU 86 467 467 GLU GLU A . n A 1 87 ASP 87 468 468 ASP ASP A . n A 1 88 HIS 88 469 ? ? ? A . n A 1 89 GLY 89 470 ? ? ? A . n A 1 90 GLU 90 471 ? ? ? A . n A 1 91 ASN 91 472 ? ? ? 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 MSE 4 A MSE 0 ? MET SELENOMETHIONINE 2 A MSE 23 A MSE 404 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _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 21 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id C _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 2010-12-29 2 'Structure model' 1 1 2011-07-13 # _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 ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal HKL-2000 'data collection' . ? 1 SOLVE phasing . ? 2 PHENIX refinement '(phenix.refine)' ? 3 HKL-2000 'data reduction' . ? 4 HKL-2000 'data scaling' . ? 5 # _pdbx_entry_details.entry_id 3PZ7 _pdbx_entry_details.sequence_details 'THIS SEQUENCE IS ISOFORM 2, Q155Q3-2' _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? # 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 THR A 388 ? ? -80.79 47.52 2 1 ARG A 398 ? ? -108.68 51.70 3 1 PRO A 408 ? ? -79.96 36.81 4 1 LEU A 411 ? ? 161.12 -46.49 5 1 ASP A 424 ? ? 38.28 31.80 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY -3 ? A GLY 1 2 1 Y 1 A HIS 469 ? A HIS 88 3 1 Y 1 A GLY 470 ? A GLY 89 4 1 Y 1 A GLU 471 ? A GLU 90 5 1 Y 1 A ASN 472 ? A ASN 91 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 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 EDO 1 3318 3318 EDO EDO A . C 3 HOH 1 1 1 HOH HOH A . C 3 HOH 2 2 2 HOH HOH A . C 3 HOH 3 3 3 HOH HOH A . C 3 HOH 4 4 4 HOH HOH A . C 3 HOH 5 5 5 HOH HOH A . C 3 HOH 6 6 6 HOH HOH A . C 3 HOH 7 7 7 HOH HOH A . C 3 HOH 8 8 8 HOH HOH A . C 3 HOH 9 9 9 HOH HOH A . C 3 HOH 10 10 10 HOH HOH A . C 3 HOH 11 11 11 HOH HOH A . C 3 HOH 12 12 12 HOH HOH A . C 3 HOH 13 13 13 HOH HOH A . C 3 HOH 14 14 14 HOH HOH A . C 3 HOH 15 15 15 HOH HOH A . C 3 HOH 16 16 16 HOH HOH A . C 3 HOH 17 17 17 HOH HOH A . C 3 HOH 18 18 18 HOH HOH A . C 3 HOH 19 19 19 HOH HOH A . C 3 HOH 20 20 20 HOH HOH A . C 3 HOH 21 21 21 HOH HOH A . C 3 HOH 22 22 22 HOH HOH A . C 3 HOH 23 23 23 HOH HOH A . C 3 HOH 24 24 24 HOH HOH A . C 3 HOH 25 25 25 HOH HOH A . C 3 HOH 26 26 26 HOH HOH A . C 3 HOH 27 27 27 HOH HOH A . C 3 HOH 28 28 28 HOH HOH A . C 3 HOH 29 29 29 HOH HOH A . C 3 HOH 30 30 30 HOH HOH A . C 3 HOH 31 31 31 HOH HOH A . C 3 HOH 32 32 32 HOH HOH A . C 3 HOH 33 33 33 HOH HOH A . C 3 HOH 34 34 34 HOH HOH A . C 3 HOH 35 35 35 HOH HOH A . C 3 HOH 36 36 36 HOH HOH A . C 3 HOH 37 37 37 HOH HOH A . C 3 HOH 38 38 38 HOH HOH A . C 3 HOH 39 39 39 HOH HOH A . C 3 HOH 40 40 40 HOH HOH A . #