data_2ONV # _entry.id 2ONV # _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 2ONV pdb_00002onv 10.2210/pdb2onv/pdb RCSB RCSB041367 ? ? WWPDB D_1000041367 ? ? # 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 2007-02-06 2 'Structure model' 1 1 2008-05-01 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2017-10-18 5 'Structure model' 1 4 2023-12-27 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' 'Version format compliance' 2 3 'Structure model' 'Version format compliance' 3 4 'Structure model' 'Refinement description' 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 4 'Structure model' software 2 5 'Structure model' chem_comp_atom 3 5 'Structure model' chem_comp_bond 4 5 'Structure model' database_2 5 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 2ONV _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-01-24 _pdbx_database_status.status_code REL _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 ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Sambashivan, S.' 1 'Sawaya, M.R.' 2 'Eisenberg, D.' 3 # _citation.id primary _citation.title 'Atomic structures of amyloid cross-beta spines reveal varied steric zippers.' _citation.journal_abbrev Nature _citation.journal_volume 447 _citation.page_first 453 _citation.page_last 457 _citation.year 2007 _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 17468747 _citation.pdbx_database_id_DOI 10.1038/nature05695 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sawaya, M.R.' 1 ? primary 'Sambashivan, S.' 2 ? primary 'Nelson, R.' 3 ? primary 'Ivanova, M.I.' 4 ? primary 'Sievers, S.A.' 5 ? primary 'Apostol, M.I.' 6 ? primary 'Thompson, M.J.' 7 ? primary 'Balbirnie, M.' 8 ? primary 'Wiltzius, J.J.' 9 ? primary 'McFarlane, H.T.' 10 ? primary 'Madsen, A.O.' 11 ? primary 'Riekel, C.' 12 ? primary 'Eisenberg, D.' 13 ? # 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 ;amyloid-fibril forming peptide GGVVIA derived from the Alzheimer's amyloid Abeta ; 514.616 1 ? ? 'residues 37-42' ? 2 water nat water 18.015 3 ? ? ? ? # _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 GGVVIA _entity_poly.pdbx_seq_one_letter_code_can GGVVIA _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 GLY n 1 2 GLY n 1 3 VAL n 1 4 VAL n 1 5 ILE n 1 6 ALA 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 'Peptide was commercially synthesized by CSBio.' # 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 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 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 GLY 1 1 1 GLY GLY A . n A 1 2 GLY 2 2 2 GLY GLY A . n A 1 3 VAL 3 3 3 VAL VAL A . n A 1 4 VAL 4 4 4 VAL VAL A . n A 1 5 ILE 5 5 5 ILE ILE A . n A 1 6 ALA 6 6 6 ALA ALA 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 10 10 HOH HOH A . B 2 HOH 2 11 11 HOH HOH A . B 2 HOH 3 12 12 HOH HOH A . # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal DENZO . ? package 'Zbyszek Otwinowski' zbyszek@mix.swmed.edu 'data reduction' http://www.lnls.br/infra/linhasluz/denzo-hkl.htm ? ? 1 SCALEPACK . ? package 'Zbyszek Otwinowski' zbyszek@mix.swmed.edu 'data scaling' http://www.lnls.br/infra/linhasluz/denzo-hkl.htm ? ? 2 PHASER . ? other 'R. J. Read' cimr-phaser@lists.cam.ac.uk phasing http://www-structmed.cimr.cam.ac.uk/phaser/ ? ? 3 REFMAC . ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 4 PDB_EXTRACT 2.000 'April. 3, 2006' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 5 # _cell.length_a 16.760 _cell.length_b 41.134 _cell.length_c 4.789 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 2ONV _cell.pdbx_unique_axis ? _cell.Z_PDB 4 _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.space_group_name_H-M 'P 21 21 2' _symmetry.entry_id 2ONV _symmetry.Int_Tables_number 18 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 2ONV _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.60 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 23.31 _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 ? _exptl_crystal_grow.temp 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details ;Peptide concentration: 15.0 mg/ml, Peptide:reservoir:additive ratio 5:4:1, Reservoir: 2.0M Ammonium sulfate, Additive: 3.0% 0.1M hexamine cobalt (III) chloride , VAPOR DIFFUSION, HANGING DROP, temperature 291K ; _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 'MAR CCD 165 mm' _diffrn_detector.pdbx_collection_date 2005-12-17 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _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 0.9466 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID13' _diffrn_source.pdbx_wavelength 0.9466 _diffrn_source.pdbx_wavelength_list ? _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID13 # _reflns.entry_id 2ONV _reflns.d_resolution_high 1.600 _reflns.d_resolution_low 90.000 _reflns.number_obs 532 _reflns.pdbx_Rmerge_I_obs 0.192 _reflns.pdbx_netI_over_sigmaI 12.600 _reflns.pdbx_chi_squared 1.085 _reflns.pdbx_redundancy 4.500 _reflns.percent_possible_obs 96.700 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate 15.962 _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 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 1.60 _reflns_shell.d_res_low 1.72 _reflns_shell.number_measured_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_unique_obs ? _reflns_shell.Rmerge_I_obs 0.42 _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared 1.102 _reflns_shell.pdbx_redundancy 4.90 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 87 _reflns_shell.percent_possible_all 96.70 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 2ONV _refine.ls_d_res_high 1.610 _refine.ls_d_res_low 20.570 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 96.440 _refine.ls_number_reflns_obs 515 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.ls_R_factor_obs 0.235 _refine.ls_R_factor_R_work 0.228 _refine.ls_R_factor_R_free 0.299 _refine.ls_percent_reflns_R_free 9.900 _refine.ls_number_reflns_R_free 51 _refine.B_iso_mean 9.990 _refine.aniso_B[1][1] 0.700 _refine.aniso_B[2][2] 0.890 _refine.aniso_B[3][3] -1.590 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.957 _refine.correlation_coeff_Fo_to_Fc_free 0.852 _refine.pdbx_overall_ESU_R 0.137 _refine.pdbx_overall_ESU_R_Free 0.146 _refine.overall_SU_ML 0.136 _refine.overall_SU_B 4.479 _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.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 'Extended beta strand GGVVIA' _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _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 36 _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 39 _refine_hist.d_res_high 1.610 _refine_hist.d_res_low 20.570 # 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 35 0.012 0.023 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 18 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 47 1.859 2.040 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 46 1.041 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5 8.031 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 4 1.738 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 7 0.084 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 39 0.004 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 5 0.000 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 1 0.026 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 12 0.182 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 17 0.158 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 19 0.078 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 2 0.352 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 4 0.160 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 8 0.273 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 3 0.148 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 35 1.388 1.500 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 13 0.137 1.500 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 43 1.773 2.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 7 0.651 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 4 0.890 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.610 _refine_ls_shell.d_res_low 1.653 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 88.460 _refine_ls_shell.number_reflns_R_work 22 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.324 _refine_ls_shell.R_factor_R_free 0.007 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 1 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs 23 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2ONV _struct.title ;Crystal Structure of the amyloid-fibril forming peptide GGVVIA derived from the Alzheimer's amyloid Abeta (Abeta37-42). ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2ONV _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' _struct_keywords.text 'steric zipper, beta sheets, 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.entity_id 1 _struct_ref.db_name PDB _struct_ref.db_code 2ONV _struct_ref.pdbx_db_accession 2ONV _struct_ref.pdbx_db_isoform ? _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2ONV _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 6 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 2ONV _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 6 _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 6 # _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_556 x,y,z+1 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 4.7890000000 3 'crystal symmetry operation' 4_555 x+1/2,-y+1/2,-z 1.0000000000 0.0000000000 0.0000000000 8.3800000000 0.0000000000 -1.0000000000 0.0000000000 20.5670000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 4 'crystal symmetry operation' 4_556 x+1/2,-y+1/2,-z+1 1.0000000000 0.0000000000 0.0000000000 8.3800000000 0.0000000000 -1.0000000000 0.0000000000 20.5670000000 0.0000000000 0.0000000000 -1.0000000000 4.7890000000 # _struct_biol.id 1 _struct_biol.details ;The biological unit is a pair of sheets. Beta strands within the sheet are generated by unit cell translations along the z-axis. The second sheet in the pair of sheets is generated by applying the symmetry operator x+1/2, -y+1/2, -z. Within the second sheet also, beta strands are generated by unit cell translations along the z-axis. ; _struct_biol.pdbx_parent_biol_id ? # 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 ILE N N N N 27 ILE CA C N S 28 ILE C C N N 29 ILE O O N N 30 ILE CB C N S 31 ILE CG1 C N N 32 ILE CG2 C N N 33 ILE CD1 C N N 34 ILE OXT O N N 35 ILE H H N N 36 ILE H2 H N N 37 ILE HA H N N 38 ILE HB H N N 39 ILE HG12 H N N 40 ILE HG13 H N N 41 ILE HG21 H N N 42 ILE HG22 H N N 43 ILE HG23 H N N 44 ILE HD11 H N N 45 ILE HD12 H N N 46 ILE HD13 H N N 47 ILE HXT H N N 48 VAL N N N N 49 VAL CA C N S 50 VAL C C N N 51 VAL O O N N 52 VAL CB C N N 53 VAL CG1 C N N 54 VAL CG2 C N N 55 VAL OXT O N N 56 VAL H H N N 57 VAL H2 H N N 58 VAL HA H N N 59 VAL HB H N N 60 VAL HG11 H N N 61 VAL HG12 H N N 62 VAL HG13 H N N 63 VAL HG21 H N N 64 VAL HG22 H N N 65 VAL HG23 H N N 66 VAL HXT H N N 67 # 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 ILE N CA sing N N 24 ILE N H sing N N 25 ILE N H2 sing N N 26 ILE CA C sing N N 27 ILE CA CB sing N N 28 ILE CA HA sing N N 29 ILE C O doub N N 30 ILE C OXT sing N N 31 ILE CB CG1 sing N N 32 ILE CB CG2 sing N N 33 ILE CB HB sing N N 34 ILE CG1 CD1 sing N N 35 ILE CG1 HG12 sing N N 36 ILE CG1 HG13 sing N N 37 ILE CG2 HG21 sing N N 38 ILE CG2 HG22 sing N N 39 ILE CG2 HG23 sing N N 40 ILE CD1 HD11 sing N N 41 ILE CD1 HD12 sing N N 42 ILE CD1 HD13 sing N N 43 ILE OXT HXT sing N N 44 VAL N CA sing N N 45 VAL N H sing N N 46 VAL N H2 sing N N 47 VAL CA C sing N N 48 VAL CA CB sing N N 49 VAL CA HA sing N N 50 VAL C O doub N N 51 VAL C OXT sing N N 52 VAL CB CG1 sing N N 53 VAL CB CG2 sing N N 54 VAL CB HB sing N N 55 VAL CG1 HG11 sing N N 56 VAL CG1 HG12 sing N N 57 VAL CG1 HG13 sing N N 58 VAL CG2 HG21 sing N N 59 VAL CG2 HG22 sing N N 60 VAL CG2 HG23 sing N N 61 VAL OXT HXT sing N N 62 # _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 'geometrically idealized b-strands' # _atom_sites.entry_id 2ONV _atom_sites.fract_transf_matrix[1][1] 0.059666 _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] 0.024311 _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] 0.208812 _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 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 . GLY A 1 1 ? 5.448 0.358 1.477 1.00 18.56 ? 1 GLY A N 1 ATOM 2 C CA . GLY A 1 1 ? 4.157 0.926 0.945 1.00 17.31 ? 1 GLY A CA 1 ATOM 3 C C . GLY A 1 1 ? 3.737 2.186 1.662 1.00 16.09 ? 1 GLY A C 1 ATOM 4 O O . GLY A 1 1 ? 3.868 2.279 2.864 1.00 16.40 ? 1 GLY A O 1 ATOM 5 N N . GLY A 1 2 ? 3.207 3.162 0.941 1.00 15.02 ? 2 GLY A N 1 ATOM 6 C CA . GLY A 1 2 ? 2.730 4.337 1.617 1.00 14.02 ? 2 GLY A CA 1 ATOM 7 C C . GLY A 1 2 ? 1.999 5.394 0.838 1.00 12.72 ? 2 GLY A C 1 ATOM 8 O O . GLY A 1 2 ? 1.902 5.342 -0.396 1.00 12.12 ? 2 GLY A O 1 ATOM 9 N N . VAL A 1 3 ? 1.495 6.360 1.598 1.00 12.11 ? 3 VAL A N 1 ATOM 10 C CA . VAL A 1 3 ? 0.791 7.514 1.052 1.00 11.77 ? 3 VAL A CA 1 ATOM 11 C C . VAL A 1 3 ? 1.365 8.757 1.681 1.00 11.03 ? 3 VAL A C 1 ATOM 12 O O . VAL A 1 3 ? 1.525 8.803 2.880 1.00 10.12 ? 3 VAL A O 1 ATOM 13 C CB . VAL A 1 3 ? -0.729 7.438 1.336 1.00 11.80 ? 3 VAL A CB 1 ATOM 14 C CG1 . VAL A 1 3 ? -1.425 8.689 0.835 1.00 13.07 ? 3 VAL A CG1 1 ATOM 15 C CG2 . VAL A 1 3 ? -1.320 6.222 0.674 1.00 11.62 ? 3 VAL A CG2 1 ATOM 16 N N . VAL A 1 4 ? 1.671 9.753 0.867 1.00 11.08 ? 4 VAL A N 1 ATOM 17 C CA . VAL A 1 4 ? 2.143 11.055 1.346 1.00 11.44 ? 4 VAL A CA 1 ATOM 18 C C . VAL A 1 4 ? 1.308 12.152 0.692 1.00 11.61 ? 4 VAL A C 1 ATOM 19 O O . VAL A 1 4 ? 1.212 12.202 -0.526 1.00 11.10 ? 4 VAL A O 1 ATOM 20 C CB . VAL A 1 4 ? 3.623 11.320 0.965 1.00 11.07 ? 4 VAL A CB 1 ATOM 21 C CG1 . VAL A 1 4 ? 4.028 12.705 1.382 1.00 11.04 ? 4 VAL A CG1 1 ATOM 22 C CG2 . VAL A 1 4 ? 4.527 10.283 1.574 1.00 10.05 ? 4 VAL A CG2 1 ATOM 23 N N . ILE A 1 5 ? 0.709 13.017 1.511 1.00 12.73 ? 5 ILE A N 1 ATOM 24 C CA . ILE A 1 5 ? 0.160 14.284 1.048 1.00 13.44 ? 5 ILE A CA 1 ATOM 25 C C . ILE A 1 5 ? 1.007 15.395 1.685 1.00 13.70 ? 5 ILE A C 1 ATOM 26 O O . ILE A 1 5 ? 0.991 15.571 2.888 1.00 12.38 ? 5 ILE A O 1 ATOM 27 C CB . ILE A 1 5 ? -1.350 14.448 1.361 1.00 13.51 ? 5 ILE A CB 1 ATOM 28 C CG1 . ILE A 1 5 ? -2.164 13.296 0.765 1.00 13.74 ? 5 ILE A CG1 1 ATOM 29 C CG2 . ILE A 1 5 ? -1.854 15.781 0.775 1.00 13.55 ? 5 ILE A CG2 1 ATOM 30 C CD1 . ILE A 1 5 ? -3.668 13.402 1.046 1.00 13.28 ? 5 ILE A CD1 1 ATOM 31 N N . ALA A 1 6 ? 1.795 16.092 0.870 1.00 15.80 ? 6 ALA A N 1 ATOM 32 C CA . ALA A 1 6 ? 2.762 17.082 1.380 1.00 17.00 ? 6 ALA A CA 1 ATOM 33 C C . ALA A 1 6 ? 2.953 18.283 0.461 1.00 19.11 ? 6 ALA A C 1 ATOM 34 O O . ALA A 1 6 ? 3.980 18.962 0.539 1.00 21.56 ? 6 ALA A O 1 ATOM 35 C CB . ALA A 1 6 ? 4.114 16.422 1.647 1.00 17.80 ? 6 ALA A CB 1 ATOM 36 O OXT . ALA A 1 6 ? 2.120 18.667 -0.362 1.00 21.05 ? 6 ALA A OXT 1 HETATM 37 O O . HOH B 2 . ? -0.641 19.120 -1.740 1.00 33.62 ? 10 HOH A O 1 HETATM 38 O O . HOH B 2 . ? 7.563 19.494 1.368 1.00 39.76 ? 11 HOH A O 1 HETATM 39 O O . HOH B 2 . ? 6.415 18.823 -0.451 1.00 49.35 ? 12 HOH A O 1 #