data_4NIO # _entry.id 4NIO # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 4NIO pdb_00004nio 10.2210/pdb4nio/pdb RCSB RCSB083251 ? ? WWPDB D_1000083251 ? ? # 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 2013-12-04 2 'Structure model' 1 1 2014-01-22 3 'Structure model' 1 2 2017-11-22 4 'Structure model' 1 3 2024-02-28 # _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' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' # 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 4 'Structure model' struct_ref_seq_dif # 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' 3 4 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_database_status.entry_id 4NIO _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 2013-11-06 _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_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 4NIN 'A different segment (residues 101-107) from the same protein, human SOD.' unspecified PDB 4NIP . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Sievers, S.A.' 1 'Sawaya, M.R.' 2 'Eisenberg, D.' 3 'Ivanova, M.I.' 4 # _citation.id primary _citation.title 'Aggregation-triggering segments of SOD1 fibril formation support a common pathway for familial and sporadic ALS.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 111 _citation.page_first 197 _citation.page_last 201 _citation.year 2014 _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 24344300 _citation.pdbx_database_id_DOI 10.1073/pnas.1320786110 # 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 'Guenther, E.L.' 3 ? primary 'Johnson, L.M.' 4 ? primary 'Winkler, D.D.' 5 ? primary 'Galaleldeen, A.' 6 ? primary 'Sawaya, M.R.' 7 ? primary 'Hart, P.J.' 8 ? primary 'Eisenberg, D.S.' 9 ? # 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 'GVTGIAQ segment from Superoxide dismutase [Cu-Zn]' 644.718 1 ? I149T 'UNP Residues 148-154' ? 2 water nat water 18.015 4 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Superoxide dismutase 1, hSod1' # _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 GVTGIAQ _entity_poly.pdbx_seq_one_letter_code_can GVTGIAQ _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 VAL n 1 3 THR n 1 4 GLY n 1 5 ILE n 1 6 ALA n 1 7 GLN 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 ? # 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 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 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 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 GLY 1 1 1 GLY GLY A . n A 1 2 VAL 2 2 2 VAL VAL A . n A 1 3 THR 3 3 3 THR THR A . n A 1 4 GLY 4 4 4 GLY GLY A . n A 1 5 ILE 5 5 5 ILE ILE A . n A 1 6 ALA 6 6 6 ALA ALA A . n A 1 7 GLN 7 7 7 GLN GLN 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 1 HOH HOH A . B 2 HOH 2 102 2 HOH HOH A . B 2 HOH 3 103 3 HOH HOH A . B 2 HOH 4 104 4 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 . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 PHASER 2.1.4 'Wed Jun 24 14:00:05 2009' 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 3.11 'April 22, 2011' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? # _cell.length_a 47.787 _cell.length_b 4.787 _cell.length_c 17.687 _cell.angle_alpha 90.000 _cell.angle_beta 109.390 _cell.angle_gamma 90.000 _cell.entry_id 4NIO _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 4NIO _symmetry.Int_Tables_number 5 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 4NIO _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.48 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 16.89 _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 4.5 _exptl_crystal_grow.temp 298 _exptl_crystal_grow.pdbx_details '0.1 M sodium acetate pH 4.5, 0.7 M hexanediol, vapor diffusion, hanging drop, temperature 298K' _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 2011-03-03 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator 'cryogenically-cooled single crystal Si(220)' _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 0.9792 _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 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 24-ID-E # _reflns.entry_id 4NIO _reflns.d_resolution_high 1.300 _reflns.d_resolution_low 100.000 _reflns.number_obs 1053 _reflns.pdbx_Rmerge_I_obs 0.128 _reflns.pdbx_netI_over_sigmaI 11.000 _reflns.pdbx_chi_squared 1.042 _reflns.pdbx_redundancy 4.300 _reflns.percent_possible_obs 95.700 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3.0 _reflns.number_all 1053 _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate 14.7 _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_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 1.300 1.350 ? ? ? 0.269 ? ? 1.014 2.400 ? 84 81.600 1 1 1.350 1.400 ? ? ? 0.311 ? ? 1.058 2.700 ? 95 92.200 2 1 1.400 1.460 ? ? ? 0.285 ? ? 1.012 3.200 ? 100 96.200 3 1 1.460 1.540 ? ? ? 0.353 ? ? 1.064 3.700 ? 111 94.100 4 1 1.540 1.640 ? ? ? 0.262 ? ? 1.099 4.300 ? 107 95.500 5 1 1.640 1.760 ? ? ? 0.211 ? ? 1.029 5.200 ? 91 100.000 6 1 1.760 1.940 ? ? ? 0.176 ? ? 1.019 5.400 ? 102 99.000 7 1 1.940 2.220 ? ? ? 0.145 ? ? 1.034 5.400 ? 128 100.000 8 1 2.220 2.800 ? ? ? 0.129 ? ? 1.064 5.100 ? 102 99.000 9 1 2.800 100.000 ? ? ? 0.093 ? ? 1.023 5.000 ? 133 98.500 10 1 # _refine.entry_id 4NIO _refine.ls_d_res_high 1.3000 _refine.ls_d_res_low 22.5400 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 95.9000 _refine.ls_number_reflns_obs 1053 _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 ? _refine.ls_R_factor_obs 0.2051 _refine.ls_R_factor_R_work 0.2018 _refine.ls_wR_factor_R_work 0.2221 _refine.ls_R_factor_R_free 0.2332 _refine.ls_wR_factor_R_free 0.2247 _refine.ls_percent_reflns_R_free 11.0000 _refine.ls_number_reflns_R_free 116 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 9.1706 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.0900 _refine.aniso_B[2][2] -0.2400 _refine.aniso_B[3][3] 0.6400 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.4600 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9590 _refine.correlation_coeff_Fo_to_Fc_free 0.9480 _refine.overall_SU_R_Cruickshank_DPI 0.0712 _refine.overall_SU_R_free 0.0731 _refine.pdbx_overall_ESU_R 0.0710 _refine.pdbx_overall_ESU_R_Free 0.0730 _refine.overall_SU_ML 0.0520 _refine.overall_SU_B 1.3900 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.4000 _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 ? _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 0.7612 _refine.B_iso_max 31.560 _refine.B_iso_min 5.330 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _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 45 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 4 _refine_hist.number_atoms_total 49 _refine_hist.d_res_high 1.3000 _refine_hist.d_res_low 22.5400 # 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 44 0.004 0.022 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 24 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 59 1.064 1.986 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 61 0.611 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 6 5.920 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 1 45.167 30.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 6 3.500 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 8 0.063 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 50 0.002 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 6 0.000 0.020 ? ? 'X-RAY DIFFRACTION' r_mcbond_it 33 0.534 1.500 ? ? 'X-RAY DIFFRACTION' r_mcbond_other 15 0.071 1.500 ? ? 'X-RAY DIFFRACTION' r_mcangle_it 51 0.894 2.000 ? ? 'X-RAY DIFFRACTION' r_scbond_it 11 0.640 3.000 ? ? 'X-RAY DIFFRACTION' r_scangle_it 8 1.261 4.500 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 1.3010 _refine_ls_shell.d_res_low 1.3350 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 81.6900 _refine_ls_shell.number_reflns_R_work 51 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2360 _refine_ls_shell.R_factor_R_free 0.5390 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 7 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 58 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 4NIO _struct.title ;GVTGIAQ segment 147-153 from Human Superoxide Dismutase with I149T mutation associated with a familial form of amyotrophic lateral sclerosis ; _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4NIO _struct_keywords.text 'steric zipper, cross-beta spine, amyloid fiber, 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 SODC_HUMAN _struct_ref.pdbx_db_accession P00441 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code GVIGIAQ _struct_ref.pdbx_align_begin 148 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4NIO _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 P00441 _struct_ref_seq.db_align_beg 148 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 154 _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 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 4NIO _struct_ref_seq_dif.mon_id THR _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 3 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code P00441 _struct_ref_seq_dif.db_mon_id ILE _struct_ref_seq_dif.pdbx_seq_db_seq_num 150 _struct_ref_seq_dif.details 'engineered mutation' _struct_ref_seq_dif.pdbx_auth_seq_num 3 _struct_ref_seq_dif.pdbx_ordinal 1 # _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_545 x,y-1,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -4.7870000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 1_535 x,y-2,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 -9.5740000000 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 4.7870000000 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 9.5740000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 6 'crystal symmetry operation' 4_555 -x+1/2,y+1/2,-z -1.0000000000 0.0000000000 0.0000000000 23.8935000000 0.0000000000 1.0000000000 0.0000000000 2.3935000000 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 23.8935000000 0.0000000000 1.0000000000 0.0000000000 -2.3935000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 8 'crystal symmetry operation' 4_535 -x+1/2,y-3/2,-z -1.0000000000 0.0000000000 0.0000000000 23.8935000000 0.0000000000 1.0000000000 0.0000000000 -7.1805000000 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 23.8935000000 0.0000000000 1.0000000000 0.0000000000 7.1805000000 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 23.8935000000 0.0000000000 1.0000000000 0.0000000000 11.9675000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 # _struct_biol.id 1 _struct_biol.details ;biological unit is a pair of beta-sheets. One sheet is composed of symmetry operators X,Y,Z; X,Y-1,Z; X,Y+1,Z; X,Y-2,Z; X,Y+2,Z, etc.: the opposing sheet is composed of symmetry operators 1/2-x,1/2+y,-z; 1/2-x,-1/2+y,-z; 1/2-x, 3/2+y,-z; 1/2-x,-3/2+y,-z; 1/2-x, 5/2+y,-z, etc. ; # _pdbx_phasing_MR.entry_id 4NIO _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 16.680 _pdbx_phasing_MR.d_res_high_translation 1.600 _pdbx_phasing_MR.d_res_low_translation 16.680 _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 GLN N N N N 14 GLN CA C N S 15 GLN C C N N 16 GLN O O N N 17 GLN CB C N N 18 GLN CG C N N 19 GLN CD C N N 20 GLN OE1 O N N 21 GLN NE2 N N N 22 GLN OXT O N N 23 GLN H H N N 24 GLN H2 H N N 25 GLN HA H N N 26 GLN HB2 H N N 27 GLN HB3 H N N 28 GLN HG2 H N N 29 GLN HG3 H N N 30 GLN HE21 H N N 31 GLN HE22 H N N 32 GLN HXT H N N 33 GLY N N N N 34 GLY CA C N N 35 GLY C C N N 36 GLY O O N N 37 GLY OXT O N N 38 GLY H H N N 39 GLY H2 H N N 40 GLY HA2 H N N 41 GLY HA3 H N N 42 GLY HXT H N N 43 HOH O O N N 44 HOH H1 H N N 45 HOH H2 H N N 46 ILE N N N N 47 ILE CA C N S 48 ILE C C N N 49 ILE O O N N 50 ILE CB C N S 51 ILE CG1 C N N 52 ILE CG2 C N N 53 ILE CD1 C N N 54 ILE OXT O N N 55 ILE H H N N 56 ILE H2 H N N 57 ILE HA H N N 58 ILE HB H N N 59 ILE HG12 H N N 60 ILE HG13 H N N 61 ILE HG21 H N N 62 ILE HG22 H N N 63 ILE HG23 H N N 64 ILE HD11 H N N 65 ILE HD12 H N N 66 ILE HD13 H N N 67 ILE HXT H N N 68 THR N N N N 69 THR CA C N S 70 THR C C N N 71 THR O O N N 72 THR CB C N R 73 THR OG1 O N N 74 THR CG2 C N N 75 THR OXT O N N 76 THR H H N N 77 THR H2 H N N 78 THR HA H N N 79 THR HB H N N 80 THR HG1 H N N 81 THR HG21 H N N 82 THR HG22 H N N 83 THR HG23 H N N 84 THR HXT H N N 85 VAL N N N N 86 VAL CA C N S 87 VAL C C N N 88 VAL O O N N 89 VAL CB C N N 90 VAL CG1 C N N 91 VAL CG2 C N N 92 VAL OXT O N N 93 VAL H H N N 94 VAL H2 H N N 95 VAL HA H N N 96 VAL HB H N N 97 VAL HG11 H N N 98 VAL HG12 H N N 99 VAL HG13 H N N 100 VAL HG21 H N N 101 VAL HG22 H N N 102 VAL HG23 H N N 103 VAL HXT H N N 104 # 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 GLN N CA sing N N 13 GLN N H sing N N 14 GLN N H2 sing N N 15 GLN CA C sing N N 16 GLN CA CB sing N N 17 GLN CA HA sing N N 18 GLN C O doub N N 19 GLN C OXT sing N N 20 GLN CB CG sing N N 21 GLN CB HB2 sing N N 22 GLN CB HB3 sing N N 23 GLN CG CD sing N N 24 GLN CG HG2 sing N N 25 GLN CG HG3 sing N N 26 GLN CD OE1 doub N N 27 GLN CD NE2 sing N N 28 GLN NE2 HE21 sing N N 29 GLN NE2 HE22 sing N N 30 GLN OXT HXT sing N N 31 GLY N CA sing N N 32 GLY N H sing N N 33 GLY N H2 sing N N 34 GLY CA C sing N N 35 GLY CA HA2 sing N N 36 GLY CA HA3 sing N N 37 GLY C O doub N N 38 GLY C OXT sing N N 39 GLY OXT HXT sing N N 40 HOH O H1 sing N N 41 HOH O H2 sing N N 42 ILE N CA sing N N 43 ILE N H sing N N 44 ILE N H2 sing N N 45 ILE CA C sing N N 46 ILE CA CB sing N N 47 ILE CA HA sing N N 48 ILE C O doub N N 49 ILE C OXT sing N N 50 ILE CB CG1 sing N N 51 ILE CB CG2 sing N N 52 ILE CB HB sing N N 53 ILE CG1 CD1 sing N N 54 ILE CG1 HG12 sing N N 55 ILE CG1 HG13 sing N N 56 ILE CG2 HG21 sing N N 57 ILE CG2 HG22 sing N N 58 ILE CG2 HG23 sing N N 59 ILE CD1 HD11 sing N N 60 ILE CD1 HD12 sing N N 61 ILE CD1 HD13 sing N N 62 ILE OXT HXT sing N N 63 THR N CA sing N N 64 THR N H sing N N 65 THR N H2 sing N N 66 THR CA C sing N N 67 THR CA CB sing N N 68 THR CA HA sing N N 69 THR C O doub N N 70 THR C OXT sing N N 71 THR CB OG1 sing N N 72 THR CB CG2 sing N N 73 THR CB HB sing N N 74 THR OG1 HG1 sing N N 75 THR CG2 HG21 sing N N 76 THR CG2 HG22 sing N N 77 THR CG2 HG23 sing N N 78 THR OXT HXT sing N N 79 VAL N CA sing N N 80 VAL N H sing N N 81 VAL N H2 sing N N 82 VAL CA C sing N N 83 VAL CA CB sing N N 84 VAL CA HA sing N N 85 VAL C O doub N N 86 VAL C OXT sing N N 87 VAL CB CG1 sing N N 88 VAL CB CG2 sing N N 89 VAL CB HB sing N N 90 VAL CG1 HG11 sing N N 91 VAL CG1 HG12 sing N N 92 VAL CG1 HG13 sing N N 93 VAL CG2 HG21 sing N N 94 VAL CG2 HG22 sing N N 95 VAL CG2 HG23 sing N N 96 VAL OXT HXT sing N N 97 # _atom_sites.entry_id 4NIO _atom_sites.fract_transf_matrix[1][1] 0.020926 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.007366 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.208899 _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] 0.059939 _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 ? -0.048 1.354 6.437 1.00 7.31 ? 1 GLY A N 1 ATOM 2 C CA . GLY A 1 1 ? 1.013 0.382 6.828 1.00 6.60 ? 1 GLY A CA 1 ATOM 3 C C . GLY A 1 1 ? 2.360 1.060 6.991 1.00 6.39 ? 1 GLY A C 1 ATOM 4 O O . GLY A 1 1 ? 2.458 2.285 6.909 1.00 6.51 ? 1 GLY A O 1 ATOM 5 N N . VAL A 1 2 ? 3.394 0.255 7.234 1.00 6.00 ? 2 VAL A N 1 ATOM 6 C CA . VAL A 1 2 ? 4.760 0.745 7.386 1.00 6.00 ? 2 VAL A CA 1 ATOM 7 C C . VAL A 1 2 ? 5.621 0.126 6.298 1.00 6.05 ? 2 VAL A C 1 ATOM 8 O O . VAL A 1 2 ? 5.647 -1.091 6.149 1.00 6.45 ? 2 VAL A O 1 ATOM 9 C CB . VAL A 1 2 ? 5.339 0.387 8.769 1.00 5.98 ? 2 VAL A CB 1 ATOM 10 C CG1 . VAL A 1 2 ? 6.790 0.841 8.880 1.00 6.21 ? 2 VAL A CG1 1 ATOM 11 C CG2 . VAL A 1 2 ? 4.492 1.011 9.871 1.00 6.01 ? 2 VAL A CG2 1 ATOM 12 N N . THR A 1 3 ? 6.311 0.967 5.533 1.00 6.09 ? 3 THR A N 1 ATOM 13 C CA . THR A 1 3 ? 7.126 0.507 4.415 1.00 6.14 ? 3 THR A CA 1 ATOM 14 C C . THR A 1 3 ? 8.478 1.185 4.483 1.00 5.82 ? 3 THR A C 1 ATOM 15 O O . THR A 1 3 ? 8.548 2.409 4.555 1.00 6.12 ? 3 THR A O 1 ATOM 16 C CB . THR A 1 3 ? 6.467 0.847 3.067 1.00 6.29 ? 3 THR A CB 1 ATOM 17 O OG1 . THR A 1 3 ? 5.121 0.361 3.053 1.00 7.13 ? 3 THR A OG1 1 ATOM 18 C CG2 . THR A 1 3 ? 7.245 0.226 1.913 1.00 6.31 ? 3 THR A CG2 1 ATOM 19 N N . GLY A 1 4 ? 9.553 0.405 4.452 1.00 5.67 ? 4 GLY A N 1 ATOM 20 C CA . GLY A 1 4 ? 10.879 0.984 4.574 1.00 5.68 ? 4 GLY A CA 1 ATOM 21 C C . GLY A 1 4 ? 11.996 0.261 3.857 1.00 5.62 ? 4 GLY A C 1 ATOM 22 O O . GLY A 1 4 ? 11.978 -0.958 3.718 1.00 5.33 ? 4 GLY A O 1 ATOM 23 N N . ILE A 1 5 ? 12.971 1.041 3.398 1.00 5.78 ? 5 ILE A N 1 ATOM 24 C CA . ILE A 1 5 ? 14.254 0.521 2.943 1.00 6.07 ? 5 ILE A CA 1 ATOM 25 C C . ILE A 1 5 ? 15.335 1.158 3.815 1.00 6.46 ? 5 ILE A C 1 ATOM 26 O O . ILE A 1 5 ? 15.420 2.384 3.912 1.00 6.03 ? 5 ILE A O 1 ATOM 27 C CB . ILE A 1 5 ? 14.531 0.847 1.460 1.00 6.09 ? 5 ILE A CB 1 ATOM 28 C CG1 . ILE A 1 5 ? 13.425 0.276 0.572 1.00 6.40 ? 5 ILE A CG1 1 ATOM 29 C CG2 . ILE A 1 5 ? 15.888 0.285 1.035 1.00 5.96 ? 5 ILE A CG2 1 ATOM 30 C CD1 . ILE A 1 5 ? 13.605 0.568 -0.913 1.00 6.47 ? 5 ILE A CD1 1 ATOM 31 N N . ALA A 1 6 ? 16.136 0.316 4.461 1.00 7.05 ? 6 ALA A N 1 ATOM 32 C CA . ALA A 1 6 ? 17.240 0.770 5.294 1.00 8.07 ? 6 ALA A CA 1 ATOM 33 C C . ALA A 1 6 ? 18.544 0.243 4.713 1.00 9.05 ? 6 ALA A C 1 ATOM 34 O O . ALA A 1 6 ? 18.709 -0.966 4.557 1.00 9.53 ? 6 ALA A O 1 ATOM 35 C CB . ALA A 1 6 ? 17.056 0.277 6.716 1.00 7.94 ? 6 ALA A CB 1 ATOM 36 N N . GLN A 1 7 ? 19.457 1.157 4.384 1.00 10.42 ? 7 GLN A N 1 ATOM 37 C CA . GLN A 1 7 ? 20.748 0.810 3.788 1.00 11.49 ? 7 GLN A CA 1 ATOM 38 C C . GLN A 1 7 ? 21.888 1.404 4.599 1.00 12.21 ? 7 GLN A C 1 ATOM 39 O O . GLN A 1 7 ? 22.989 0.851 4.624 1.00 13.18 ? 7 GLN A O 1 ATOM 40 C CB . GLN A 1 7 ? 20.826 1.330 2.355 1.00 11.50 ? 7 GLN A CB 1 ATOM 41 C CG . GLN A 1 7 ? 19.796 0.714 1.438 1.00 12.17 ? 7 GLN A CG 1 ATOM 42 C CD . GLN A 1 7 ? 19.797 1.317 0.050 1.00 13.21 ? 7 GLN A CD 1 ATOM 43 O OE1 . GLN A 1 7 ? 19.834 2.537 -0.116 1.00 14.51 ? 7 GLN A OE1 1 ATOM 44 N NE2 . GLN A 1 7 ? 19.740 0.460 -0.960 1.00 13.85 ? 7 GLN A NE2 1 ATOM 45 O OXT . GLN A 1 7 ? 21.738 2.451 5.232 1.00 13.04 ? 7 GLN A OXT 1 HETATM 46 O O . HOH B 2 . ? 3.686 2.543 3.929 1.00 13.42 ? 101 HOH A O 1 HETATM 47 O O . HOH B 2 . ? 24.991 4.112 3.939 1.00 31.56 ? 102 HOH A O 1 HETATM 48 O O . HOH B 2 . ? 24.426 3.148 1.611 1.00 22.81 ? 103 HOH A O 1 HETATM 49 O O . HOH B 2 . ? 19.747 2.651 7.306 1.00 29.38 ? 104 HOH A O 1 #