data_3FOD # _entry.id 3FOD # _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 3FOD pdb_00003fod 10.2210/pdb3fod/pdb RCSB RCSB050839 ? ? WWPDB D_1000050839 ? ? # 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 2009-05-19 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2024-02-21 4 'Structure model' 1 3 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' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 4 '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 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 4 '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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3FOD _pdbx_database_status.recvd_initial_deposition_date 2008-12-29 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 3DGJ 'another segment from Islet Amyloid Polypeptide (NNFGAIL)' unspecified PDB 3DG1 'another segment from Islet Amyloid Polypeptide (SSTNVG)' unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Wiltzius, J.J.W.' 1 'Sawaya, M.R.' 2 'Rajashankar, K.' 3 'Eisenberg, D.' 4 # _citation.id primary _citation.title 'Molecular mechanisms for protein-encoded inheritance.' _citation.journal_abbrev Nat.Struct.Mol.Biol. _citation.journal_volume 16 _citation.page_first 973 _citation.page_last 978 _citation.year 2009 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1545-9993 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19684598 _citation.pdbx_database_id_DOI 10.1038/nsmb.1643 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wiltzius, J.J.' 1 ? primary 'Landau, M.' 2 ? primary 'Nelson, R.' 3 ? primary 'Sawaya, M.R.' 4 ? primary 'Apostol, M.I.' 5 ? primary 'Goldschmidt, L.' 6 ? primary 'Soriaga, A.B.' 7 ? primary 'Cascio, D.' 8 ? primary 'Rajashankar, K.' 9 ? primary 'Eisenberg, D.' 10 ? # 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 'AILSST hexapeptide segment from Islet Amyloid Polypeptide' 590.668 8 ? ? 'AILSST residues 25-30' ? 2 water nat water 18.015 67 ? ? ? ? # _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 AILSST _entity_poly.pdbx_seq_one_letter_code_can AILSST _entity_poly.pdbx_strand_id A,B,C,D,E,F,G,H _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 ILE n 1 3 LEU n 1 4 SER n 1 5 SER n 1 6 THR 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 ? _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id ? _pdbx_entity_src_syn.details 'residues 25-30 (AILSST) from human Islet Amyloid Polypeptide, synthesized' # 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 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 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 # 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 1 1 ALA ALA A . n A 1 2 ILE 2 2 2 ILE ILE A . n A 1 3 LEU 3 3 3 LEU LEU A . n A 1 4 SER 4 4 4 SER SER A . n A 1 5 SER 5 5 5 SER SER A . n A 1 6 THR 6 6 6 THR THR A . n B 1 1 ALA 1 1 1 ALA ALA B . n B 1 2 ILE 2 2 2 ILE ILE B . n B 1 3 LEU 3 3 3 LEU LEU B . n B 1 4 SER 4 4 4 SER SER B . n B 1 5 SER 5 5 5 SER SER B . n B 1 6 THR 6 6 6 THR THR B . n C 1 1 ALA 1 1 1 ALA ALA C . n C 1 2 ILE 2 2 2 ILE ILE C . n C 1 3 LEU 3 3 3 LEU LEU C . n C 1 4 SER 4 4 4 SER SER C . n C 1 5 SER 5 5 5 SER SER C . n C 1 6 THR 6 6 6 THR THR C . n D 1 1 ALA 1 1 1 ALA ALA D . n D 1 2 ILE 2 2 2 ILE ILE D . n D 1 3 LEU 3 3 3 LEU LEU D . n D 1 4 SER 4 4 4 SER SER D . n D 1 5 SER 5 5 5 SER SER D . n D 1 6 THR 6 6 6 THR THR D . n E 1 1 ALA 1 1 1 ALA ALA E . n E 1 2 ILE 2 2 2 ILE ILE E . n E 1 3 LEU 3 3 3 LEU LEU E . n E 1 4 SER 4 4 4 SER SER E . n E 1 5 SER 5 5 5 SER SER E . n E 1 6 THR 6 6 6 THR THR E . n F 1 1 ALA 1 1 1 ALA ALA F . n F 1 2 ILE 2 2 2 ILE ILE F . n F 1 3 LEU 3 3 3 LEU LEU F . n F 1 4 SER 4 4 4 SER SER F . n F 1 5 SER 5 5 5 SER SER F . n F 1 6 THR 6 6 6 THR THR F . n G 1 1 ALA 1 1 1 ALA ALA G . n G 1 2 ILE 2 2 2 ILE ILE G . n G 1 3 LEU 3 3 3 LEU LEU G . n G 1 4 SER 4 4 4 SER SER G . n G 1 5 SER 5 5 5 SER SER G . n G 1 6 THR 6 6 6 THR THR G . n H 1 1 ALA 1 1 1 ALA ALA H . n H 1 2 ILE 2 2 2 ILE ILE H . n H 1 3 LEU 3 3 3 LEU LEU H . n H 1 4 SER 4 4 4 SER SER H . n H 1 5 SER 5 5 5 SER SER H . n H 1 6 THR 6 6 6 THR THR H . 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 I 2 HOH 1 7 7 HOH HOH A . I 2 HOH 2 8 8 HOH HOH A . I 2 HOH 3 9 9 HOH HOH A . I 2 HOH 4 10 10 HOH HOH A . I 2 HOH 5 11 11 HOH HOH A . I 2 HOH 6 12 1 HOH HOH A . I 2 HOH 7 13 2 HOH HOH A . I 2 HOH 8 14 3 HOH HOH A . I 2 HOH 9 15 4 HOH HOH A . I 2 HOH 10 16 5 HOH HOH A . I 2 HOH 11 17 6 HOH HOH A . J 2 HOH 1 12 12 HOH HOH B . J 2 HOH 2 13 13 HOH HOH B . J 2 HOH 3 14 14 HOH HOH B . J 2 HOH 4 15 15 HOH HOH B . J 2 HOH 5 16 16 HOH HOH B . J 2 HOH 6 17 17 HOH HOH B . J 2 HOH 7 18 18 HOH HOH B . K 2 HOH 1 19 19 HOH HOH C . K 2 HOH 2 20 20 HOH HOH C . K 2 HOH 3 21 21 HOH HOH C . K 2 HOH 4 22 22 HOH HOH C . K 2 HOH 5 23 23 HOH HOH C . K 2 HOH 6 24 24 HOH HOH C . K 2 HOH 7 25 25 HOH HOH C . K 2 HOH 8 26 26 HOH HOH C . K 2 HOH 9 27 27 HOH HOH C . K 2 HOH 10 28 28 HOH HOH C . L 2 HOH 1 29 29 HOH HOH D . L 2 HOH 2 30 30 HOH HOH D . L 2 HOH 3 31 31 HOH HOH D . L 2 HOH 4 32 32 HOH HOH D . L 2 HOH 5 33 33 HOH HOH D . M 2 HOH 1 34 34 HOH HOH E . M 2 HOH 2 35 35 HOH HOH E . M 2 HOH 3 36 36 HOH HOH E . M 2 HOH 4 37 37 HOH HOH E . M 2 HOH 5 38 38 HOH HOH E . M 2 HOH 6 39 39 HOH HOH E . M 2 HOH 7 40 40 HOH HOH E . N 2 HOH 1 41 41 HOH HOH F . N 2 HOH 2 42 42 HOH HOH F . N 2 HOH 3 43 43 HOH HOH F . N 2 HOH 4 44 44 HOH HOH F . N 2 HOH 5 45 45 HOH HOH F . N 2 HOH 6 46 46 HOH HOH F . N 2 HOH 7 47 47 HOH HOH F . N 2 HOH 8 48 48 HOH HOH F . N 2 HOH 9 49 49 HOH HOH F . N 2 HOH 10 50 50 HOH HOH F . N 2 HOH 11 51 51 HOH HOH F . O 2 HOH 1 52 52 HOH HOH G . O 2 HOH 2 53 53 HOH HOH G . O 2 HOH 3 54 54 HOH HOH G . O 2 HOH 4 55 55 HOH HOH G . O 2 HOH 5 56 56 HOH HOH G . O 2 HOH 6 57 57 HOH HOH G . O 2 HOH 7 58 58 HOH HOH G . O 2 HOH 8 59 59 HOH HOH G . O 2 HOH 9 60 60 HOH HOH G . O 2 HOH 10 61 61 HOH HOH G . O 2 HOH 11 62 62 HOH HOH G . O 2 HOH 12 63 63 HOH HOH G . P 2 HOH 1 64 64 HOH HOH H . P 2 HOH 2 65 65 HOH HOH H . P 2 HOH 3 66 66 HOH HOH H . P 2 HOH 4 67 67 HOH HOH H . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal ADSC 'data collection' Quantum ? 1 PHASER phasing . ? 2 REFMAC refinement 5.4.0066 ? 3 DENZO 'data reduction' . ? 4 SCALEPACK 'data scaling' . ? 5 # _cell.entry_id 3FOD _cell.length_a 9.542 _cell.length_b 86.654 _cell.length_c 19.482 _cell.angle_alpha 90.00 _cell.angle_beta 90.01 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _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 3FOD _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3FOD _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.70 _exptl_crystal.density_percent_sol 28.0 _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 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.9 _exptl_crystal_grow.pdbx_details 'reservoir contained 0.2M magnesium nitrate, 20% PEG3350, pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 298K' _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 2008-10-29 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9795 _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_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 24-ID-E _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.9795 # _reflns.entry_id 3FOD _reflns.observed_criterion_sigma_I 0 _reflns.observed_criterion_sigma_F 0 _reflns.d_resolution_low 43.31 _reflns.d_resolution_high 1.40 _reflns.number_obs 5268 _reflns.number_all 5268 _reflns.percent_possible_obs 84.5 _reflns.pdbx_Rmerge_I_obs 0.158 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 8 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 2.7 _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 1.40 _reflns_shell.d_res_low 1.45 _reflns_shell.percent_possible_all 85.5 _reflns_shell.Rmerge_I_obs 0.356 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2 _reflns_shell.pdbx_redundancy 2.5 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 518 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3FOD _refine.ls_number_reflns_obs 4723 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 43.0 _refine.ls_d_res_high 1.40 _refine.ls_percent_reflns_obs 84.07 _refine.ls_R_factor_obs 0.22594 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.22170 _refine.ls_R_factor_R_free 0.26542 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.8 _refine.ls_number_reflns_R_free 513 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.952 _refine.correlation_coeff_Fo_to_Fc_free 0.925 _refine.B_iso_mean 8.131 _refine.aniso_B[1][1] -1.05 _refine.aniso_B[2][2] 0.07 _refine.aniso_B[3][3] 0.99 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 'ideal beta strand' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.121 _refine.pdbx_overall_ESU_R_Free 0.118 _refine.overall_SU_ML 0.067 _refine.overall_SU_B 1.673 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 328 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 67 _refine_hist.number_atoms_total 395 _refine_hist.d_res_high 1.40 _refine_hist.d_res_low 43.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.003 0.022 ? 320 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 176 'X-RAY DIFFRACTION' ? r_angle_refined_deg 0.788 2.080 ? 432 'X-RAY DIFFRACTION' ? r_angle_other_deg 0.653 3.000 ? 456 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 3.761 5.000 ? 40 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 6.201 15.000 ? 56 'X-RAY DIFFRACTION' ? r_chiral_restr 0.055 0.200 ? 72 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.001 0.020 ? 312 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.000 0.020 ? 40 'X-RAY DIFFRACTION' ? r_mcbond_it 0.702 2.000 ? 240 'X-RAY DIFFRACTION' ? r_mcbond_other 0.180 2.000 ? 88 'X-RAY DIFFRACTION' ? r_mcangle_it 1.215 3.000 ? 384 'X-RAY DIFFRACTION' ? r_scbond_it 0.991 2.000 ? 80 'X-RAY DIFFRACTION' ? r_scangle_it 1.240 3.000 ? 48 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.400 _refine_ls_shell.d_res_low 1.436 _refine_ls_shell.number_reflns_R_work 339 _refine_ls_shell.R_factor_R_work 0.308 _refine_ls_shell.percent_reflns_obs 79.92 _refine_ls_shell.R_factor_R_free 0.349 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 39 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 3FOD _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 # _struct.entry_id 3FOD _struct.title 'AILSST segment from Islet Amyloid Polypeptide' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3FOD _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' _struct_keywords.text 'amyloid-like beta strand, PROTEIN FIBRIL' # 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 1 ? C N N 1 ? D N N 1 ? E N N 1 ? F N N 1 ? G N N 1 ? H N N 1 ? I N N 2 ? J N N 2 ? K N N 2 ? L N N 2 ? M N N 2 ? N N N 2 ? O N N 2 ? P N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3FOD _struct_ref.pdbx_db_accession 3FOD _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3FOD A 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 2 1 3FOD B 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 3 1 3FOD C 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 4 1 3FOD D 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 5 1 3FOD E 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 6 1 3FOD F 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 7 1 3FOD G 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 8 1 3FOD H 1 ? 6 ? 3FOD 1 ? 6 ? 1 6 # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_defined_assembly ? tetrameric 4 2 author_defined_assembly ? tetrameric 4 3 author_defined_assembly ? tetrameric 4 4 author_defined_assembly ? tetrameric 4 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1,2 A,B,I,J 2 1,2 C,D,K,L 3 1,2 E,F,M,N 4 1,2 G,H,O,P # 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_655 x+1,y,z 1.0000000000 0.0000000000 0.0000000000 9.5420000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 2 ? B ? 2 ? C ? 2 ? D ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? anti-parallel D 1 2 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 ILE A 2 ? SER A 5 ? ILE A 2 SER A 5 A 2 ILE B 2 ? SER B 5 ? ILE B 2 SER B 5 B 1 ILE C 2 ? SER C 5 ? ILE C 2 SER C 5 B 2 ILE D 2 ? SER D 5 ? ILE D 2 SER D 5 C 1 ILE E 2 ? SER E 5 ? ILE E 2 SER E 5 C 2 ILE F 2 ? SER F 5 ? ILE F 2 SER F 5 D 1 ILE G 2 ? SER G 5 ? ILE G 2 SER G 5 D 2 ILE H 2 ? SER H 5 ? ILE H 2 SER H 5 # 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 LEU A 3 ? N LEU A 3 O SER B 4 ? O SER B 4 B 1 2 N SER C 5 ? N SER C 5 O ILE D 2 ? O ILE D 2 C 1 2 N SER E 5 ? N SER E 5 O ILE F 2 ? O ILE F 2 D 1 2 N SER G 5 ? N SER G 5 O ILE H 2 ? O ILE H 2 # 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 HOH O O N N 14 HOH H1 H N N 15 HOH H2 H N N 16 ILE N N N N 17 ILE CA C N S 18 ILE C C N N 19 ILE O O N N 20 ILE CB C N S 21 ILE CG1 C N N 22 ILE CG2 C N N 23 ILE CD1 C N N 24 ILE OXT O N N 25 ILE H H N N 26 ILE H2 H N N 27 ILE HA H N N 28 ILE HB H N N 29 ILE HG12 H N N 30 ILE HG13 H N N 31 ILE HG21 H N N 32 ILE HG22 H N N 33 ILE HG23 H N N 34 ILE HD11 H N N 35 ILE HD12 H N N 36 ILE HD13 H N N 37 ILE HXT H N N 38 LEU N N N N 39 LEU CA C N S 40 LEU C C N N 41 LEU O O N N 42 LEU CB C N N 43 LEU CG C N N 44 LEU CD1 C N N 45 LEU CD2 C N N 46 LEU OXT O N N 47 LEU H H N N 48 LEU H2 H N N 49 LEU HA H N N 50 LEU HB2 H N N 51 LEU HB3 H N N 52 LEU HG H N N 53 LEU HD11 H N N 54 LEU HD12 H N N 55 LEU HD13 H N N 56 LEU HD21 H N N 57 LEU HD22 H N N 58 LEU HD23 H N N 59 LEU HXT H N N 60 SER N N N N 61 SER CA C N S 62 SER C C N N 63 SER O O N N 64 SER CB C N N 65 SER OG O N N 66 SER OXT O N N 67 SER H H N N 68 SER H2 H N N 69 SER HA H N N 70 SER HB2 H N N 71 SER HB3 H N N 72 SER HG H N N 73 SER HXT H N N 74 THR N N N N 75 THR CA C N S 76 THR C C N N 77 THR O O N N 78 THR CB C N R 79 THR OG1 O N N 80 THR CG2 C N N 81 THR OXT O N N 82 THR H H N N 83 THR H2 H N N 84 THR HA H N N 85 THR HB H N N 86 THR HG1 H N N 87 THR HG21 H N N 88 THR HG22 H N N 89 THR HG23 H N N 90 THR HXT H N N 91 # 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 HOH O H1 sing N N 13 HOH O H2 sing N N 14 ILE N CA sing N N 15 ILE N H sing N N 16 ILE N H2 sing N N 17 ILE CA C sing N N 18 ILE CA CB sing N N 19 ILE CA HA sing N N 20 ILE C O doub N N 21 ILE C OXT sing N N 22 ILE CB CG1 sing N N 23 ILE CB CG2 sing N N 24 ILE CB HB sing N N 25 ILE CG1 CD1 sing N N 26 ILE CG1 HG12 sing N N 27 ILE CG1 HG13 sing N N 28 ILE CG2 HG21 sing N N 29 ILE CG2 HG22 sing N N 30 ILE CG2 HG23 sing N N 31 ILE CD1 HD11 sing N N 32 ILE CD1 HD12 sing N N 33 ILE CD1 HD13 sing N N 34 ILE OXT HXT sing N N 35 LEU N CA sing N N 36 LEU N H sing N N 37 LEU N H2 sing N N 38 LEU CA C sing N N 39 LEU CA CB sing N N 40 LEU CA HA sing N N 41 LEU C O doub N N 42 LEU C OXT sing N N 43 LEU CB CG sing N N 44 LEU CB HB2 sing N N 45 LEU CB HB3 sing N N 46 LEU CG CD1 sing N N 47 LEU CG CD2 sing N N 48 LEU CG HG sing N N 49 LEU CD1 HD11 sing N N 50 LEU CD1 HD12 sing N N 51 LEU CD1 HD13 sing N N 52 LEU CD2 HD21 sing N N 53 LEU CD2 HD22 sing N N 54 LEU CD2 HD23 sing N N 55 LEU OXT HXT sing N N 56 SER N CA sing N N 57 SER N H sing N N 58 SER N H2 sing N N 59 SER CA C sing N N 60 SER CA CB sing N N 61 SER CA HA sing N N 62 SER C O doub N N 63 SER C OXT sing N N 64 SER CB OG sing N N 65 SER CB HB2 sing N N 66 SER CB HB3 sing N N 67 SER OG HG sing N N 68 SER OXT HXT sing N N 69 THR N CA sing N N 70 THR N H sing N N 71 THR N H2 sing N N 72 THR CA C sing N N 73 THR CA CB sing N N 74 THR CA HA sing N N 75 THR C O doub N N 76 THR C OXT sing N N 77 THR CB OG1 sing N N 78 THR CB CG2 sing N N 79 THR CB HB sing N N 80 THR OG1 HG1 sing N N 81 THR CG2 HG21 sing N N 82 THR CG2 HG22 sing N N 83 THR CG2 HG23 sing N N 84 THR OXT HXT sing N N 85 # _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 'ideal beta strand' # _atom_sites.entry_id 3FOD _atom_sites.fract_transf_matrix[1][1] 0.104800 _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] 0.011540 _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] 0.051329 _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_