data_3HYD # _entry.id 3HYD # _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 3HYD pdb_00003hyd 10.2210/pdb3hyd/pdb RCSB RCSB053733 ? ? WWPDB D_1000053733 ? ? # 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 2009-10-06 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-01 4 'Structure model' 1 3 2024-02-21 5 'Structure model' 1 4 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' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 5 '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' software 2 4 'Structure model' chem_comp_atom 3 4 'Structure model' chem_comp_bond 4 4 'Structure model' database_2 5 5 '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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.entry_id 3HYD _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 2009-06-22 _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.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 2OMQ _pdbx_database_related.details 'Residues 12-17 from the insulin B-chain.' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ivanova, M.I.' 1 'Sawaya, M.R.' 2 'Eisenberg, D.' 3 # _citation.id primary _citation.title 'Molecular basis for insulin fibril assembly.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 106 _citation.page_first 18990 _citation.page_last 18995 _citation.year 2009 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 19864624 _citation.pdbx_database_id_DOI 10.1073/pnas.0910080106 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ivanova, M.I.' 1 ? primary 'Sievers, S.A.' 2 ? primary 'Sawaya, M.R.' 3 ? primary 'Wall, J.S.' 4 ? primary 'Eisenberg, D.' 5 ? # 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 Insulin 819.985 1 ? ? 'UNP residues 34-41 of chain B' ? 2 water nat water 18.015 3 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Insulin B chain' # _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 LVEALYL _entity_poly.pdbx_seq_one_letter_code_can LVEALYL _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 LEU n 1 2 VAL n 1 3 GLU n 1 4 ALA n 1 5 LEU n 1 6 TYR n 1 7 LEU n # 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 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 HOH non-polymer . WATER ? 'H2 O' 18.015 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 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 LEU 1 1 1 LEU LEU A . n A 1 2 VAL 2 2 2 VAL VAL A . n A 1 3 GLU 3 3 3 GLU GLU A . n A 1 4 ALA 4 4 4 ALA ALA A . n A 1 5 LEU 5 5 5 LEU LEU A . n A 1 6 TYR 6 6 6 TYR TYR A . n A 1 7 LEU 7 7 7 LEU LEU A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 8 1 HOH HOH A . B 2 HOH 2 9 2 HOH HOH A . B 2 HOH 3 10 3 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 DENZO . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? package 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 PHASER 1.3.2 'Wed Feb 15 11:59:26 2006' program 'Randy J. Read' cimr-phaser@lists.cam.ac.uk phasing http://www-structmed.cimr.cam.ac.uk/phaser/ ? ? 4 REFMAC . ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 5 PDB_EXTRACT 3.005 'June 11, 2008' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? # _cell.length_a 49.478 _cell.length_b 4.838 _cell.length_c 19.442 _cell.angle_alpha 90.000 _cell.angle_beta 96.650 _cell.angle_gamma 90.000 _cell.entry_id 3HYD _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 'C 1 2 1' _symmetry.entry_id 3HYD _symmetry.Int_Tables_number 5 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 2 _exptl.entry_id 3HYD _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews ? _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol ? _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 5.5 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details '20% MPD, 0.1M sodium citrate pH 5.5, vapor diffusion, hanging drop, temperature 298K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # loop_ _diffrn.id _diffrn.ambient_temp _diffrn.ambient_temp_details _diffrn.crystal_id 1 100 ? 1 2 100 ? 1 # loop_ _diffrn_detector.diffrn_id _diffrn_detector.detector _diffrn_detector.type _diffrn_detector.pdbx_collection_date _diffrn_detector.details 1 CCD 'MARMOSAIC 225 mm CCD' 2006-11-19 ? 2 CCD 'MARMOSAIC 225 mm CCD' 2006-11-19 ? # loop_ _diffrn_radiation.diffrn_id _diffrn_radiation.pdbx_diffrn_protocol _diffrn_radiation.monochromator _diffrn_radiation.wavelength_id _diffrn_radiation.pdbx_monochromatic_or_laue_m_l _diffrn_radiation.pdbx_scattering_type 1 'SINGLE WAVELENGTH' ? 1 M x-ray 2 'SINGLE WAVELENGTH' ? 1 M x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97645 _diffrn_radiation_wavelength.wt 1.0 # loop_ _diffrn_source.diffrn_id _diffrn_source.source _diffrn_source.type _diffrn_source.pdbx_wavelength _diffrn_source.pdbx_wavelength_list _diffrn_source.pdbx_synchrotron_site _diffrn_source.pdbx_synchrotron_beamline 1 SYNCHROTRON 'SLS BEAMLINE X10SA' ? 0.97645 SLS X10SA 2 SYNCHROTRON 'SLS BEAMLINE X10SA' ? 0.97645 SLS X10SA # _reflns.entry_id 3HYD _reflns.d_resolution_high 1.000 _reflns.d_resolution_low 90.000 _reflns.number_obs 2647 _reflns.pdbx_Rmerge_I_obs 0.184 _reflns.pdbx_netI_over_sigmaI 7.152 _reflns.pdbx_chi_squared 1.034 _reflns.pdbx_redundancy 5.000 _reflns.percent_possible_obs 95.100 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3 _reflns.number_all 2647 _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate 6.6 _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_diffrn_id 1,2 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.00 _reflns_shell.d_res_low 1.08 _reflns_shell.number_measured_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_unique_obs ? _reflns_shell.Rmerge_I_obs 0.361 _reflns_shell.meanI_over_sigI_obs 3.26 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 1.042 _reflns_shell.pdbx_redundancy 3.70 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 433 _reflns_shell.percent_possible_all 84.70 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3HYD _refine.ls_d_res_high 1.000 _refine.ls_d_res_low 16.140 _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 95.110 _refine.ls_number_reflns_obs 2644 _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 0.149 _refine.ls_R_factor_obs 0.149 _refine.ls_R_factor_R_work 0.146 _refine.ls_wR_factor_R_work 0.158 _refine.ls_R_factor_R_free 0.180 _refine.ls_wR_factor_R_free 0.196 _refine.ls_percent_reflns_R_free 9.400 _refine.ls_number_reflns_R_free 248 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 6.558 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.040 _refine.aniso_B[2][2] -0.550 _refine.aniso_B[3][3] 0.450 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] -0.280 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.966 _refine.correlation_coeff_Fo_to_Fc_free 0.961 _refine.overall_SU_R_Cruickshank_DPI 0.030 _refine.overall_SU_R_free 0.032 _refine.pdbx_overall_ESU_R 0.030 _refine.pdbx_overall_ESU_R_Free 0.032 _refine.overall_SU_ML 0.019 _refine.overall_SU_B 0.849 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.400 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 'an idealized beta strand' _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 0.878 _refine.B_iso_max 29.45 _refine.B_iso_min 2.75 _refine.occupancy_max 1.00 _refine.occupancy_min 0.50 _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_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 133 _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 136 _refine_hist.d_res_high 1.000 _refine_hist.d_res_low 16.140 # 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_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 65 0.015 0.023 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 69 0.005 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 90 1.790 2.122 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 158 0.851 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 8 7.471 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 3 23.570 26.667 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 12 10.059 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 12 0.147 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 69 0.006 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 11 0.000 0.020 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 38 2.258 2.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 17 0.821 2.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 61 3.043 3.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 27 3.713 2.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 28 5.334 3.000 ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 134 2.469 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_free 3 15.407 3.000 ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded 133 3.708 3.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.00 _refine_ls_shell.d_res_low 1.118 _refine_ls_shell.pdbx_total_number_of_bins_used 5 _refine_ls_shell.percent_reflns_obs 88.450 _refine_ls_shell.number_reflns_R_work 583 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.232 _refine_ls_shell.R_factor_R_free 0.338 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 68 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 651 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3HYD _struct.title 'LVEALYL peptide derived from human insulin chain B, residues 11-17' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3HYD _struct_keywords.text ;amyloid-like protofibril, Carbohydrate metabolism, Cleavage on pair of basic residues, Diabetes mellitus, Disease mutation, Disulfide bond, Glucose metabolism, Hormone, Pharmaceutical, Secreted, PROTEIN FIBRIL ; _struct_keywords.pdbx_keywords '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 2 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code INS_HUMAN _struct_ref.pdbx_db_accession P01308 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code LVEALYL _struct_ref.pdbx_align_begin 35 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3HYD _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 7 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P01308 _struct_ref_seq.db_align_beg 35 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 41 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 7 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 _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_565 x,y+1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4.8380000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 4_556 -x+1/2,y+1/2,-z+1 -1.0000000000 0.0000000000 0.0000000000 22.4875388674 0.0000000000 1.0000000000 0.0000000000 2.4190000000 0.0000000000 0.0000000000 -1.0000000000 19.3111958917 4 'crystal symmetry operation' 4_566 -x+1/2,y+3/2,-z+1 -1.0000000000 0.0000000000 0.0000000000 22.4875388674 0.0000000000 1.0000000000 0.0000000000 7.2570000000 0.0000000000 0.0000000000 -1.0000000000 19.3111958917 # _struct_biol.id 1 _struct_biol.details ;THE BIOLOGICAL UNIT IS A INDEFINITELY LONG PAIR OF SHEETS (A PROTOFIBRIL). ONE SHEET FORMED BY CHAIN A AND CRYSTALLOGRAPHIC TRANSLATIONS ALONG THE B CELL DIMENSION (E.G. X,Y,Z AND X,Y+1,Z). THE SECOND SHEET IS CONSTRUCTED FROM 1/2-X,1/2+Y,1-Z AND CRYSTALLOGRAPHIC TRANSLATIONS ALONG THE B CELL DIMENSION (E.G. 1/2-X,3/2+Y,1-Z). ; # _pdbx_phasing_MR.entry_id 3HYD _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 1.600 _pdbx_phasing_MR.d_res_low_rotation 19.330 _pdbx_phasing_MR.d_res_high_translation 1.600 _pdbx_phasing_MR.d_res_low_translation 19.330 _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 GLU N N N N 14 GLU CA C N S 15 GLU C C N N 16 GLU O O N N 17 GLU CB C N N 18 GLU CG C N N 19 GLU CD C N N 20 GLU OE1 O N N 21 GLU OE2 O N N 22 GLU OXT O N N 23 GLU H H N N 24 GLU H2 H N N 25 GLU HA H N N 26 GLU HB2 H N N 27 GLU HB3 H N N 28 GLU HG2 H N N 29 GLU HG3 H N N 30 GLU HE2 H N N 31 GLU HXT H N N 32 HOH O O N N 33 HOH H1 H N N 34 HOH H2 H N N 35 LEU N N N N 36 LEU CA C N S 37 LEU C C N N 38 LEU O O N N 39 LEU CB C N N 40 LEU CG C N N 41 LEU CD1 C N N 42 LEU CD2 C N N 43 LEU OXT O N N 44 LEU H H N N 45 LEU H2 H N N 46 LEU HA H N N 47 LEU HB2 H N N 48 LEU HB3 H N N 49 LEU HG H N N 50 LEU HD11 H N N 51 LEU HD12 H N N 52 LEU HD13 H N N 53 LEU HD21 H N N 54 LEU HD22 H N N 55 LEU HD23 H N N 56 LEU HXT H N N 57 TYR N N N N 58 TYR CA C N S 59 TYR C C N N 60 TYR O O N N 61 TYR CB C N N 62 TYR CG C Y N 63 TYR CD1 C Y N 64 TYR CD2 C Y N 65 TYR CE1 C Y N 66 TYR CE2 C Y N 67 TYR CZ C Y N 68 TYR OH O N N 69 TYR OXT O N N 70 TYR H H N N 71 TYR H2 H N N 72 TYR HA H N N 73 TYR HB2 H N N 74 TYR HB3 H N N 75 TYR HD1 H N N 76 TYR HD2 H N N 77 TYR HE1 H N N 78 TYR HE2 H N N 79 TYR HH H N N 80 TYR HXT H N N 81 VAL N N N N 82 VAL CA C N S 83 VAL C C N N 84 VAL O O N N 85 VAL CB C N N 86 VAL CG1 C N N 87 VAL CG2 C N N 88 VAL OXT O N N 89 VAL H H N N 90 VAL H2 H N N 91 VAL HA H N N 92 VAL HB H N N 93 VAL HG11 H N N 94 VAL HG12 H N N 95 VAL HG13 H N N 96 VAL HG21 H N N 97 VAL HG22 H N N 98 VAL HG23 H N N 99 VAL HXT H N N 100 # 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 GLU N CA sing N N 13 GLU N H sing N N 14 GLU N H2 sing N N 15 GLU CA C sing N N 16 GLU CA CB sing N N 17 GLU CA HA sing N N 18 GLU C O doub N N 19 GLU C OXT sing N N 20 GLU CB CG sing N N 21 GLU CB HB2 sing N N 22 GLU CB HB3 sing N N 23 GLU CG CD sing N N 24 GLU CG HG2 sing N N 25 GLU CG HG3 sing N N 26 GLU CD OE1 doub N N 27 GLU CD OE2 sing N N 28 GLU OE2 HE2 sing N N 29 GLU OXT HXT sing N N 30 HOH O H1 sing N N 31 HOH O H2 sing N N 32 LEU N CA sing N N 33 LEU N H sing N N 34 LEU N H2 sing N N 35 LEU CA C sing N N 36 LEU CA CB sing N N 37 LEU CA HA sing N N 38 LEU C O doub N N 39 LEU C OXT sing N N 40 LEU CB CG sing N N 41 LEU CB HB2 sing N N 42 LEU CB HB3 sing N N 43 LEU CG CD1 sing N N 44 LEU CG CD2 sing N N 45 LEU CG HG sing N N 46 LEU CD1 HD11 sing N N 47 LEU CD1 HD12 sing N N 48 LEU CD1 HD13 sing N N 49 LEU CD2 HD21 sing N N 50 LEU CD2 HD22 sing N N 51 LEU CD2 HD23 sing N N 52 LEU OXT HXT sing N N 53 TYR N CA sing N N 54 TYR N H sing N N 55 TYR N H2 sing N N 56 TYR CA C sing N N 57 TYR CA CB sing N N 58 TYR CA HA sing N N 59 TYR C O doub N N 60 TYR C OXT sing N N 61 TYR CB CG sing N N 62 TYR CB HB2 sing N N 63 TYR CB HB3 sing N N 64 TYR CG CD1 doub Y N 65 TYR CG CD2 sing Y N 66 TYR CD1 CE1 sing Y N 67 TYR CD1 HD1 sing N N 68 TYR CD2 CE2 doub Y N 69 TYR CD2 HD2 sing N N 70 TYR CE1 CZ doub Y N 71 TYR CE1 HE1 sing N N 72 TYR CE2 CZ sing Y N 73 TYR CE2 HE2 sing N N 74 TYR CZ OH sing N N 75 TYR OH HH sing N N 76 TYR OXT HXT sing N N 77 VAL N CA sing N N 78 VAL N H sing N N 79 VAL N H2 sing N N 80 VAL CA C sing N N 81 VAL CA CB sing N N 82 VAL CA HA sing N N 83 VAL C O doub N N 84 VAL C OXT sing N N 85 VAL CB CG1 sing N N 86 VAL CB CG2 sing N N 87 VAL CB HB sing N N 88 VAL CG1 HG11 sing N N 89 VAL CG1 HG12 sing N N 90 VAL CG1 HG13 sing N N 91 VAL CG2 HG21 sing N N 92 VAL CG2 HG22 sing N N 93 VAL CG2 HG23 sing N N 94 VAL OXT HXT sing N N 95 # _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 'an idealized beta strand' # _atom_sites.entry_id 3HYD _atom_sites.fract_transf_matrix[1][1] 0.020211 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002357 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.206697 _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] 0.051784 _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 H N O # loop_