data_4RIK # _entry.id 4RIK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.389 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 4RIK pdb_00004rik 10.2210/pdb4rik/pdb RCSB RCSB087389 ? ? WWPDB D_1000087389 ? ? # 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 2015-08-26 2 'Structure model' 1 1 2015-09-09 3 'Structure model' 1 2 2015-09-23 4 'Structure model' 1 3 2015-10-07 5 'Structure model' 1 4 2024-02-28 6 'Structure model' 1 5 2024-04-03 # _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_details.details ? # 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' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Database references' 4 5 'Structure model' 'Data collection' 5 5 'Structure model' 'Database references' 6 6 'Structure model' 'Refinement description' # 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 5 'Structure model' chem_comp_atom 2 5 'Structure model' chem_comp_bond 3 5 'Structure model' database_2 4 6 'Structure model' pdbx_initial_refinement_model # 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 5 'Structure model' '_database_2.pdbx_DOI' 2 5 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.entry_id 4RIK _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2014-10-06 _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.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 'Guenther, E.L.' 1 'Sawaya, M.R.' 2 'Ivanova, M.' 3 'Eisenberg, D.S.' 4 # _citation.id primary _citation.title 'Structure of the toxic core of alpha-synuclein from invisible crystals.' _citation.journal_abbrev Nature _citation.journal_volume 525 _citation.page_first 486 _citation.page_last 490 _citation.year 2015 _citation.journal_id_ASTM NATUAS _citation.country UK _citation.journal_id_ISSN 0028-0836 _citation.journal_id_CSD 0006 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 26352473 _citation.pdbx_database_id_DOI 10.1038/nature15368 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Rodriguez, J.A.' 1 ? primary 'Ivanova, M.I.' 2 ? primary 'Sawaya, M.R.' 3 ? primary 'Cascio, D.' 4 ? primary 'Reyes, F.E.' 5 ? primary 'Shi, D.' 6 ? primary 'Sangwan, S.' 7 ? primary 'Guenther, E.L.' 8 ? primary 'Johnson, L.M.' 9 ? primary 'Zhang, M.' 10 ? primary 'Jiang, L.' 11 ? primary 'Arbing, M.A.' 12 ? primary 'Nannenga, B.L.' 13 ? primary 'Hattne, J.' 14 ? primary 'Whitelegge, J.' 15 ? primary 'Brewster, A.S.' 16 ? primary 'Messerschmidt, M.' 17 ? primary 'Boutet, S.' 18 ? primary 'Sauter, N.K.' 19 ? primary 'Gonen, T.' 20 ? primary 'Eisenberg, D.S.' 21 ? # 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 syn Alpha-synuclein 815.953 1 ? ? ? ? 2 water nat water 18.015 3 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Non-A beta component of AD amyloid, Non-A4 component of amyloid precursor, NACP' # _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 AVVTGVTAV _entity_poly.pdbx_seq_one_letter_code_can AVVTGVTAV _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ALA n 1 2 VAL n 1 3 VAL n 1 4 THR n 1 5 GLY n 1 6 VAL n 1 7 THR n 1 8 ALA n 1 9 VAL n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details 'Synthetic peptide AVVTGVTAV corresponding to segment 69-77 of human alpha-synuclein' # 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 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HOH non-polymer . WATER ? 'H2 O' 18.015 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # 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 ALA 1 69 1 ALA ALA A . n A 1 2 VAL 2 70 2 VAL VAL A . n A 1 3 VAL 3 71 3 VAL VAL A . n A 1 4 THR 4 72 4 THR THR A . n A 1 5 GLY 5 73 5 GLY GLY A . n A 1 6 VAL 6 74 6 VAL VAL A . n A 1 7 THR 7 75 7 THR THR A . n A 1 8 ALA 8 76 8 ALA ALA A . n A 1 9 VAL 9 77 9 VAL VAL 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 HOH 1 101 11 HOH HOH A . B 2 HOH 2 102 12 HOH HOH A . B 2 HOH 3 103 13 HOH HOH A . # 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 SCALEPACK . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 2 PHASER 2.5.6 'Tue May 20 11:52:06 2014' program 'Randy J. Read' cimr-phaser@lists.cam.ac.uk phasing http://www-structmed.cimr.cam.ac.uk/phaser/ ? ? 3 REFMAC 5.0 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 4 PDB_EXTRACT 3.15 'July. 29, 2014' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 5 DENZO . ? ? ? ? 'data reduction' ? ? ? # _cell.entry_id 4RIK _cell.length_a 61.864 _cell.length_b 4.799 _cell.length_c 17.263 _cell.angle_alpha 90.00 _cell.angle_beta 104.13 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 4RIK _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 4RIK _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.52 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 19.22 _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.pH 4.6 _exptl_crystal_grow.temp 273 _exptl_crystal_grow.pdbx_details '0.9M Ammonium Phosphate, 0.1M Sodium Acetate, pH 4.6, vapor diffusion, hanging drop, temperature 273K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.pdbx_collection_date 2011-08-23 _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 'APS BEAMLINE 24-ID-E' _diffrn_source.pdbx_wavelength_list 0.9791 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 24-ID-E # _reflns.d_resolution_high 1.850 _reflns.d_resolution_low 100.000 _reflns.number_obs 521 _reflns.pdbx_Rmerge_I_obs 0.117 _reflns.pdbx_netI_over_sigmaI 11.100 _reflns.pdbx_chi_squared 0.961 _reflns.pdbx_redundancy 4.100 _reflns.percent_possible_obs 97.700 _reflns.entry_id 4RIK _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3 _reflns.number_all 521 _reflns.pdbx_Rsym_value ? _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_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.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.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.850 1.920 ? ? ? 0.248 ? ? 1.020 4.000 ? 43 97.700 1 1 1.920 1.990 ? ? ? 0.290 ? ? 1.073 4.200 ? 53 96.400 2 1 1.990 2.080 ? ? ? 0.261 ? ? 1.350 4.000 ? 46 100.000 3 1 2.080 2.190 ? ? ? 0.209 ? ? 0.884 4.600 ? 57 98.300 4 1 2.190 2.330 ? ? ? 0.179 ? ? 1.293 4.200 ? 52 100.000 5 1 2.330 2.510 ? ? ? 0.202 ? ? 0.933 4.400 ? 53 89.800 6 1 2.510 2.760 ? ? ? 0.125 ? ? 0.764 4.100 ? 40 100.000 7 1 2.760 3.160 ? ? ? 0.099 ? ? 0.805 4.000 ? 54 100.000 8 1 3.160 3.990 ? ? ? 0.083 ? ? 0.818 4.400 ? 57 96.600 9 1 3.990 100.000 ? ? ? 0.075 ? ? 0.733 3.500 ? 66 100.000 10 1 # _refine.entry_id 4RIK _refine.ls_d_res_high 1.8540 _refine.ls_d_res_low 30.0000 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 97.9300 _refine.ls_number_reflns_obs 470 _refine.ls_number_reflns_all 470 _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 0.1802 _refine.ls_R_factor_obs 0.1802 _refine.ls_R_factor_R_work 0.1758 _refine.ls_wR_factor_R_work 0.1900 _refine.ls_R_factor_R_free 0.2211 _refine.ls_wR_factor_R_free 0.2360 _refine.ls_percent_reflns_R_free 9.8000 _refine.ls_number_reflns_R_free 51 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 17.3410 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.2300 _refine.aniso_B[2][2] -0.0200 _refine.aniso_B[3][3] 0.2500 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -0.0600 _refine.aniso_B[2][3] -0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9780 _refine.correlation_coeff_Fo_to_Fc_free 0.9610 _refine.overall_SU_R_Cruickshank_DPI 0.1735 _refine.overall_SU_R_free 0.1526 _refine.pdbx_overall_ESU_R 0.1730 _refine.pdbx_overall_ESU_R_Free 0.1530 _refine.overall_SU_ML 0.1120 _refine.overall_SU_B 4.0610 _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 'poly alanine' _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 0.7300 _refine.B_iso_max 53.100 _refine.B_iso_min 6.250 _refine.pdbx_overall_phase_error ? _refine.occupancy_max ? _refine.occupancy_min ? _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 57 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 3 _refine_hist.number_atoms_total 60 _refine_hist.d_res_high 1.8540 _refine_hist.d_res_low 30.0000 # 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 56 0.005 0.020 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 63 0.011 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 78 1.123 1.965 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 141 0.602 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 8 8.198 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 6 5.082 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 14 0.049 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 60 0.002 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 8 0.000 0.020 ? ? 'X-RAY DIFFRACTION' r_mcbond_it 35 5.852 1.475 ? ? 'X-RAY DIFFRACTION' r_mcbond_other 34 5.851 1.364 ? ? 'X-RAY DIFFRACTION' r_mcangle_it 42 8.406 2.046 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 1.8540 _refine_ls_shell.d_res_low 2.0720 _refine_ls_shell.pdbx_total_number_of_bins_used 5 _refine_ls_shell.percent_reflns_obs 98.5600 _refine_ls_shell.number_reflns_R_work 125 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2480 _refine_ls_shell.R_factor_R_free 0.2860 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 12 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 137 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 4RIK _struct.title ;Amyloid forming segment, AVVTGVTAV, from the NAC domain of Parkinson's disease protein alpha-synuclein, residues 69-77 ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4RIK _struct_keywords.text ;Amyloid, alpha-synuclein, Parkinson's Disease, Toxic Core, NAC, Lipid Binding Protein ; _struct_keywords.pdbx_keywords 'LIPID BINDING 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SYUA_HUMAN _struct_ref.pdbx_db_accession P37840 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code AVVTGVTAV _struct_ref.pdbx_align_begin 69 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4RIK _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 9 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P37840 _struct_ref_seq.db_align_beg 69 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 77 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 69 _struct_ref_seq.pdbx_auth_seq_align_end 77 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8,9,10 _pdbx_struct_assembly_gen.asym_id_list A,B # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 1_535 x,y-2,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -9.5980000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 1_545 x,y-1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -4.7990000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4 'crystal symmetry operation' 1_565 x,y+1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4.7990000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 5 'crystal symmetry operation' 1_575 x,y+2,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 9.5980000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 6 'crystal symmetry operation' 4_535 -x+1/2,y-3/2,-z -1.0000000000 0.0000000000 0.0000000000 30.9320000000 0.0000000000 1.0000000000 0.0000000000 -7.1985000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 7 'crystal symmetry operation' 4_545 -x+1/2,y-1/2,-z -1.0000000000 0.0000000000 0.0000000000 30.9320000000 0.0000000000 1.0000000000 0.0000000000 -2.3995000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 8 'crystal symmetry operation' 4_555 -x+1/2,y+1/2,-z -1.0000000000 0.0000000000 0.0000000000 30.9320000000 0.0000000000 1.0000000000 0.0000000000 2.3995000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 9 'crystal symmetry operation' 4_565 -x+1/2,y+3/2,-z -1.0000000000 0.0000000000 0.0000000000 30.9320000000 0.0000000000 1.0000000000 0.0000000000 7.1985000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 10 'crystal symmetry operation' 4_575 -x+1/2,y+5/2,-z -1.0000000000 0.0000000000 0.0000000000 30.9320000000 0.0000000000 1.0000000000 0.0000000000 11.9975000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # _struct_biol.id 1 _struct_biol.details ;The biological unit is a pair of beta-sheets. One sheet is composed of chain A and unit cell translations along the b dimension (for example, x,y+1,z, etc.). The other sheet is composed of the symmetry mate -x+1/2,y+1/2,-z+1, and its unit cell translations along b (for example, -x+1/2,y+3/2,-z+1, etc.). ; # _pdbx_phasing_MR.entry_id 4RIK _pdbx_phasing_MR.method_rotation ? _pdbx_phasing_MR.method_translation ? _pdbx_phasing_MR.model_details 'Phaser MODE: MR_AUTO' _pdbx_phasing_MR.R_factor ? _pdbx_phasing_MR.R_rigid_body ? _pdbx_phasing_MR.correlation_coeff_Fo_to_Fc ? _pdbx_phasing_MR.correlation_coeff_Io_to_Ic ? _pdbx_phasing_MR.d_res_high_rotation ? _pdbx_phasing_MR.d_res_low_rotation ? _pdbx_phasing_MR.d_res_high_translation ? _pdbx_phasing_MR.d_res_low_translation ? _pdbx_phasing_MR.packing ? _pdbx_phasing_MR.reflns_percent_rotation ? _pdbx_phasing_MR.reflns_percent_translation ? _pdbx_phasing_MR.sigma_F_rotation ? _pdbx_phasing_MR.sigma_F_translation ? _pdbx_phasing_MR.sigma_I_rotation ? _pdbx_phasing_MR.sigma_I_translation ? # _phasing.method MR # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 GLY N N N N 14 GLY CA C N N 15 GLY C C N N 16 GLY O O N N 17 GLY OXT O N N 18 GLY H H N N 19 GLY H2 H N N 20 GLY HA2 H N N 21 GLY HA3 H N N 22 GLY HXT H N N 23 HOH O O N N 24 HOH H1 H N N 25 HOH H2 H N N 26 THR N N N N 27 THR CA C N S 28 THR C C N N 29 THR O O N N 30 THR CB C N R 31 THR OG1 O N N 32 THR CG2 C N N 33 THR OXT O N N 34 THR H H N N 35 THR H2 H N N 36 THR HA H N N 37 THR HB H N N 38 THR HG1 H N N 39 THR HG21 H N N 40 THR HG22 H N N 41 THR HG23 H N N 42 THR HXT H N N 43 VAL N N N N 44 VAL CA C N S 45 VAL C C N N 46 VAL O O N N 47 VAL CB C N N 48 VAL CG1 C N N 49 VAL CG2 C N N 50 VAL OXT O N N 51 VAL H H N N 52 VAL H2 H N N 53 VAL HA H N N 54 VAL HB H N N 55 VAL HG11 H N N 56 VAL HG12 H N N 57 VAL HG13 H N N 58 VAL HG21 H N N 59 VAL HG22 H N N 60 VAL HG23 H N N 61 VAL HXT H N N 62 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 GLY N CA sing N N 13 GLY N H sing N N 14 GLY N H2 sing N N 15 GLY CA C sing N N 16 GLY CA HA2 sing N N 17 GLY CA HA3 sing N N 18 GLY C O doub N N 19 GLY C OXT sing N N 20 GLY OXT HXT sing N N 21 HOH O H1 sing N N 22 HOH O H2 sing N N 23 THR N CA sing N N 24 THR N H sing N N 25 THR N H2 sing N N 26 THR CA C sing N N 27 THR CA CB sing N N 28 THR CA HA sing N N 29 THR C O doub N N 30 THR C OXT sing N N 31 THR CB OG1 sing N N 32 THR CB CG2 sing N N 33 THR CB HB sing N N 34 THR OG1 HG1 sing N N 35 THR CG2 HG21 sing N N 36 THR CG2 HG22 sing N N 37 THR CG2 HG23 sing N N 38 THR OXT HXT sing N N 39 VAL N CA sing N N 40 VAL N H sing N N 41 VAL N H2 sing N N 42 VAL CA C sing N N 43 VAL CA CB sing N N 44 VAL CA HA sing N N 45 VAL C O doub N N 46 VAL C OXT sing N N 47 VAL CB CG1 sing N N 48 VAL CB CG2 sing N N 49 VAL CB HB sing N N 50 VAL CG1 HG11 sing N N 51 VAL CG1 HG12 sing N N 52 VAL CG1 HG13 sing N N 53 VAL CG2 HG21 sing N N 54 VAL CG2 HG22 sing N N 55 VAL CG2 HG23 sing N N 56 VAL OXT HXT sing N N 57 # _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'in silico model' _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.details 'a geometrically ideal b-strand composed of nine alanine residues.' # _atom_sites.entry_id 4RIK _atom_sites.fract_transf_matrix[1][1] 0.016164 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.004069 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.208377 _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] 0.059735 _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 # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num ATOM 1 N N . ALA A 1 1 ? -0.680 2.523 5.381 1.00 28.77 ? 69 ALA A N 1 ATOM 2 C CA . ALA A 1 1 ? 0.589 1.813 5.066 1.00 28.43 ? 69 ALA A CA 1 ATOM 3 C C . ALA A 1 1 ? 1.764 2.487 5.768 1.00 21.47 ? 69 ALA A C 1 ATOM 4 O O . ALA A 1 1 ? 1.820 3.711 5.850 1.00 22.33 ? 69 ALA A O 1 ATOM 5 C CB . ALA A 1 1 ? 0.815 1.789 3.562 1.00 26.87 ? 69 ALA A CB 1 ATOM 6 N N . VAL A 1 2 ? 2.687 1.680 6.282 1.00 13.12 ? 70 VAL A N 1 ATOM 7 C CA . VAL A 1 2 ? 3.962 2.172 6.783 1.00 8.98 ? 70 VAL A CA 1 ATOM 8 C C . VAL A 1 2 ? 5.051 1.584 5.879 1.00 8.72 ? 70 VAL A C 1 ATOM 9 O O . VAL A 1 2 ? 5.220 0.365 5.814 1.00 11.45 ? 70 VAL A O 1 ATOM 10 C CB . VAL A 1 2 ? 4.169 1.780 8.263 1.00 11.00 ? 70 VAL A CB 1 ATOM 11 C CG1 . VAL A 1 2 ? 5.503 2.292 8.785 1.00 12.41 ? 70 VAL A CG1 1 ATOM 12 C CG2 . VAL A 1 2 ? 3.022 2.321 9.106 1.00 13.90 ? 70 VAL A CG2 1 ATOM 13 N N . VAL A 1 3 ? 5.757 2.452 5.158 1.00 8.02 ? 71 VAL A N 1 ATOM 14 C CA . VAL A 1 3 ? 6.739 2.018 4.165 1.00 8.28 ? 71 VAL A CA 1 ATOM 15 C C . VAL A 1 3 ? 8.093 2.645 4.501 1.00 7.52 ? 71 VAL A C 1 ATOM 16 O O . VAL A 1 3 ? 8.209 3.862 4.579 1.00 10.28 ? 71 VAL A O 1 ATOM 17 C CB . VAL A 1 3 ? 6.289 2.410 2.741 1.00 11.37 ? 71 VAL A CB 1 ATOM 18 C CG1 . VAL A 1 3 ? 7.238 1.854 1.699 1.00 12.64 ? 71 VAL A CG1 1 ATOM 19 C CG2 . VAL A 1 3 ? 4.875 1.908 2.472 1.00 14.84 ? 71 VAL A CG2 1 ATOM 20 N N . THR A 1 4 ? 9.104 1.802 4.701 1.00 8.07 ? 72 THR A N 1 ATOM 21 C CA . THR A 1 4 ? 10.408 2.231 5.194 1.00 10.44 ? 72 THR A CA 1 ATOM 22 C C . THR A 1 4 ? 11.524 1.627 4.337 1.00 8.59 ? 72 THR A C 1 ATOM 23 O O . THR A 1 4 ? 11.648 0.401 4.257 1.00 9.91 ? 72 THR A O 1 ATOM 24 C CB . THR A 1 4 ? 10.584 1.794 6.668 1.00 15.07 ? 72 THR A CB 1 ATOM 25 O OG1 . THR A 1 4 ? 9.501 2.318 7.454 1.00 17.37 ? 72 THR A OG1 1 ATOM 26 C CG2 . THR A 1 4 ? 11.908 2.279 7.238 1.00 19.69 ? 72 THR A CG2 1 ATOM 27 N N . GLY A 1 5 ? 12.331 2.483 3.709 1.00 8.09 ? 73 GLY A N 1 ATOM 28 C CA . GLY A 1 5 ? 13.451 2.045 2.867 1.00 9.41 ? 73 GLY A CA 1 ATOM 29 C C . GLY A 1 5 ? 14.796 2.615 3.299 1.00 8.16 ? 73 GLY A C 1 ATOM 30 O O . GLY A 1 5 ? 14.932 3.825 3.467 1.00 9.01 ? 73 GLY A O 1 ATOM 31 N N . VAL A 1 6 ? 15.785 1.742 3.485 1.00 7.87 ? 74 VAL A N 1 ATOM 32 C CA . VAL A 1 6 ? 17.133 2.158 3.886 1.00 8.38 ? 74 VAL A CA 1 ATOM 33 C C . VAL A 1 6 ? 18.162 1.555 2.939 1.00 6.25 ? 74 VAL A C 1 ATOM 34 O O . VAL A 1 6 ? 18.215 0.341 2.757 1.00 10.19 ? 74 VAL A O 1 ATOM 35 C CB . VAL A 1 6 ? 17.463 1.739 5.342 1.00 10.05 ? 74 VAL A CB 1 ATOM 36 C CG1 . VAL A 1 6 ? 18.853 2.211 5.734 1.00 11.69 ? 74 VAL A CG1 1 ATOM 37 C CG2 . VAL A 1 6 ? 16.442 2.315 6.305 1.00 13.08 ? 74 VAL A CG2 1 ATOM 38 N N . THR A 1 7 ? 18.976 2.418 2.342 1.00 7.19 ? 75 THR A N 1 ATOM 39 C CA . THR A 1 7 ? 20.052 1.996 1.455 1.00 10.10 ? 75 THR A CA 1 ATOM 40 C C . THR A 1 7 ? 21.365 2.612 1.962 1.00 8.77 ? 75 THR A C 1 ATOM 41 O O . THR A 1 7 ? 21.473 3.832 2.097 1.00 11.09 ? 75 THR A O 1 ATOM 42 C CB . THR A 1 7 ? 19.761 2.424 0.001 1.00 14.98 ? 75 THR A CB 1 ATOM 43 O OG1 . THR A 1 7 ? 18.432 2.014 -0.368 1.00 13.14 ? 75 THR A OG1 1 ATOM 44 C CG2 . THR A 1 7 ? 20.773 1.805 -0.960 1.00 13.20 ? 75 THR A CG2 1 ATOM 45 N N . ALA A 1 8 ? 22.359 1.773 2.246 1.00 14.70 ? 76 ALA A N 1 ATOM 46 C CA . ALA A 1 8 ? 23.568 2.239 2.928 1.00 14.29 ? 76 ALA A CA 1 ATOM 47 C C . ALA A 1 8 ? 24.846 1.589 2.416 1.00 20.18 ? 76 ALA A C 1 ATOM 48 O O . ALA A 1 8 ? 24.878 0.399 2.111 1.00 26.99 ? 76 ALA A O 1 ATOM 49 C CB . ALA A 1 8 ? 23.434 2.003 4.427 1.00 18.38 ? 76 ALA A CB 1 ATOM 50 N N . VAL A 1 9 ? 25.902 2.387 2.337 1.00 25.48 ? 77 VAL A N 1 ATOM 51 C CA . VAL A 1 9 ? 27.263 1.872 2.183 1.00 52.50 ? 77 VAL A CA 1 ATOM 52 C C . VAL A 1 9 ? 28.130 2.504 3.272 1.00 53.10 ? 77 VAL A C 1 ATOM 53 O O . VAL A 1 9 ? 27.937 3.660 3.653 1.00 42.20 ? 77 VAL A O 1 ATOM 54 C CB . VAL A 1 9 ? 27.846 2.138 0.774 1.00 34.68 ? 77 VAL A CB 1 ATOM 55 C CG1 . VAL A 1 9 ? 27.773 3.607 0.417 1.00 38.77 ? 77 VAL A CG1 1 ATOM 56 C CG2 . VAL A 1 9 ? 29.287 1.651 0.677 1.00 38.12 ? 77 VAL A CG2 1 ATOM 57 O OXT . VAL A 1 9 ? 29.028 1.870 3.821 1.00 47.04 ? 77 VAL A OXT 1 HETATM 58 O O . HOH B 2 . ? 7.984 0.027 7.363 1.00 26.42 ? 101 HOH A O 1 HETATM 59 O O . HOH B 2 . ? 16.232 4.030 0.445 1.00 21.64 ? 102 HOH A O 1 HETATM 60 O O . HOH B 2 . ? 26.811 3.562 6.302 1.00 34.92 ? 103 HOH A O 1 #