data_3S0R # _entry.id 3S0R # _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 3S0R pdb_00003s0r 10.2210/pdb3s0r/pdb RCSB RCSB065615 ? ? WWPDB D_1000065615 ? ? # 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 2011-06-15 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-08-17 4 'Structure model' 1 3 2024-02-28 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' 'Source and taxonomy' 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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 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.status_code REL _pdbx_database_status.entry_id 3S0R _pdbx_database_status.recvd_initial_deposition_date 2011-05-13 _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.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Acharya, R.' 1 'Grigoryan, G.' 2 'Kim, Y.H.' 3 'DeGrado, W.F.' 4 # _citation.id primary _citation.title 'Computational design of virus-like protein assemblies on carbon nanotube surfaces.' _citation.journal_abbrev Science _citation.journal_volume 332 _citation.page_first 1071 _citation.page_last 1076 _citation.year 2011 _citation.journal_id_ASTM SCIEAS _citation.country US _citation.journal_id_ISSN 0036-8075 _citation.journal_id_CSD 0038 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21617073 _citation.pdbx_database_id_DOI 10.1126/science.1198841 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Grigoryan, G.' 1 ? primary 'Kim, Y.H.' 2 ? primary 'Acharya, R.' 3 ? primary 'Axelrod, K.' 4 ? primary 'Jain, R.M.' 5 ? primary 'Willis, L.' 6 ? primary 'Drndic, M.' 7 ? primary 'Kikkawa, J.M.' 8 ? primary 'DeGrado, W.F.' 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 'De novo designed Helical Assembly' 3188.565 2 ? ? ? ? 2 water nat water 18.015 18 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'HexCoil-Ala helical Assembly' # _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 AEAESALEYAQQALEKAQLALQAARQALKA _entity_poly.pdbx_seq_one_letter_code_can AEAESALEYAQQALEKAQLALQAARQALKA _entity_poly.pdbx_strand_id A,B _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 GLU n 1 3 ALA n 1 4 GLU n 1 5 SER n 1 6 ALA n 1 7 LEU n 1 8 GLU n 1 9 TYR n 1 10 ALA n 1 11 GLN n 1 12 GLN n 1 13 ALA n 1 14 LEU n 1 15 GLU n 1 16 LYS n 1 17 ALA n 1 18 GLN n 1 19 LEU n 1 20 ALA n 1 21 LEU n 1 22 GLN n 1 23 ALA n 1 24 ALA n 1 25 ARG n 1 26 GLN n 1 27 ALA n 1 28 LEU n 1 29 LYS n 1 30 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 'artificial gene' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 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 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 # 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 GLU 2 2 2 GLU GLU A . n A 1 3 ALA 3 3 3 ALA ALA A . n A 1 4 GLU 4 4 4 GLU GLU A . n A 1 5 SER 5 5 5 SER SER A . n A 1 6 ALA 6 6 6 ALA ALA A . n A 1 7 LEU 7 7 7 LEU LEU A . n A 1 8 GLU 8 8 8 GLU GLU A . n A 1 9 TYR 9 9 9 TYR TYR A . n A 1 10 ALA 10 10 10 ALA ALA A . n A 1 11 GLN 11 11 11 GLN GLN A . n A 1 12 GLN 12 12 12 GLN GLN A . n A 1 13 ALA 13 13 13 ALA ALA A . n A 1 14 LEU 14 14 14 LEU LEU A . n A 1 15 GLU 15 15 15 GLU GLU A . n A 1 16 LYS 16 16 16 LYS LYS A . n A 1 17 ALA 17 17 17 ALA ALA A . n A 1 18 GLN 18 18 18 GLN GLN A . n A 1 19 LEU 19 19 19 LEU LEU A . n A 1 20 ALA 20 20 20 ALA ALA A . n A 1 21 LEU 21 21 21 LEU LEU A . n A 1 22 GLN 22 22 22 GLN GLN A . n A 1 23 ALA 23 23 23 ALA ALA A . n A 1 24 ALA 24 24 24 ALA ALA A . n A 1 25 ARG 25 25 25 ARG ARG A . n A 1 26 GLN 26 26 26 GLN GLN A . n A 1 27 ALA 27 27 27 ALA ALA A . n A 1 28 LEU 28 28 28 LEU LEU A . n A 1 29 LYS 29 29 29 LYS LYS A . n A 1 30 ALA 30 30 30 ALA ALA A . n B 1 1 ALA 1 1 1 ALA ALA B . n B 1 2 GLU 2 2 2 GLU GLU B . n B 1 3 ALA 3 3 3 ALA ALA B . n B 1 4 GLU 4 4 4 GLU GLU B . n B 1 5 SER 5 5 5 SER SER B . n B 1 6 ALA 6 6 6 ALA ALA B . n B 1 7 LEU 7 7 7 LEU LEU B . n B 1 8 GLU 8 8 8 GLU GLU B . n B 1 9 TYR 9 9 9 TYR TYR B . n B 1 10 ALA 10 10 10 ALA ALA B . n B 1 11 GLN 11 11 11 GLN GLN B . n B 1 12 GLN 12 12 12 GLN GLN B . n B 1 13 ALA 13 13 13 ALA ALA B . n B 1 14 LEU 14 14 14 LEU LEU B . n B 1 15 GLU 15 15 15 GLU GLU B . n B 1 16 LYS 16 16 16 LYS LYS B . n B 1 17 ALA 17 17 17 ALA ALA B . n B 1 18 GLN 18 18 18 GLN GLN B . n B 1 19 LEU 19 19 19 LEU LEU B . n B 1 20 ALA 20 20 20 ALA ALA B . n B 1 21 LEU 21 21 21 LEU LEU B . n B 1 22 GLN 22 22 22 GLN GLN B . n B 1 23 ALA 23 23 23 ALA ALA B . n B 1 24 ALA 24 24 24 ALA ALA B . n B 1 25 ARG 25 25 25 ARG ARG B . n B 1 26 GLN 26 26 26 GLN GLN B . n B 1 27 ALA 27 27 27 ALA ALA B . n B 1 28 LEU 28 28 28 LEU LEU B . n B 1 29 LYS 29 29 29 LYS LYS B . n B 1 30 ALA 30 30 30 ALA ALA B . 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 C 2 HOH 1 31 1 HOH HOH A . C 2 HOH 2 32 5 HOH HOH A . C 2 HOH 3 33 9 HOH HOH A . C 2 HOH 4 34 10 HOH HOH A . C 2 HOH 5 35 11 HOH HOH A . C 2 HOH 6 36 12 HOH HOH A . C 2 HOH 7 37 13 HOH HOH A . C 2 HOH 8 38 15 HOH HOH A . C 2 HOH 9 39 19 HOH HOH A . D 2 HOH 1 31 2 HOH HOH B . D 2 HOH 2 32 3 HOH HOH B . D 2 HOH 3 33 4 HOH HOH B . D 2 HOH 4 34 6 HOH HOH B . D 2 HOH 5 35 7 HOH HOH B . D 2 HOH 6 36 14 HOH HOH B . D 2 HOH 7 37 16 HOH HOH B . D 2 HOH 8 38 18 HOH HOH B . D 2 HOH 9 39 20 HOH HOH B . # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal MAR345dtb 'data collection' . ? 1 PHASER phasing . ? 2 PHENIX refinement '(phenix.refine: 1.5_2)' ? 3 MOSFLM 'data reduction' . ? 4 SCALA 'data scaling' . ? 5 # _cell.entry_id 3S0R _cell.length_a 45.529 _cell.length_b 45.529 _cell.length_c 93.293 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _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 3S0R _symmetry.space_group_name_H-M 'I 41' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3S0R _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.79 _exptl_crystal.density_percent_sol 67.55 _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 291 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pdbx_details ;The 2 uL drop consisted of a 1:1 v/v mixture of 5 mg/mL protein solution (in 20 mM sodium phosphate, pH 7.5, 100 mM NaCl) and reservoir solution (75 mM HEPES sodium, pH 7.5, 0.6 M sodium phosphate monobasic monohydrate, 0.6 M potassium phosphate monobasic, 25% v/v glycerol) , 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 'IMAGE PLATE' _diffrn_detector.type 'MAR scanner 300 mm plate' _diffrn_detector.pdbx_collection_date 2010-05-21 _diffrn_detector.details mirrors # _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 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type RIGAKU _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_wavelength 1.5418 _diffrn_source.pdbx_wavelength_list ? # _reflns.entry_id 3S0R _reflns.observed_criterion_sigma_I 3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 18.888 _reflns.d_resolution_high 2.44 _reflns.number_obs 3479 _reflns.number_all 3501 _reflns.percent_possible_obs 89.5 _reflns.pdbx_Rmerge_I_obs 0.067 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 20.5 _reflns.B_iso_Wilson_estimate 38.2 _reflns.pdbx_redundancy 7.4 _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_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.44 _reflns_shell.d_res_low 2.57 _reflns_shell.percent_possible_all 81.8 _reflns_shell.Rmerge_I_obs 0.168 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 10.8 _reflns_shell.pdbx_redundancy 7.1 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 434 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3S0R _refine.ls_number_reflns_obs 3479 _refine.ls_number_reflns_all 3492 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 2.07 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 18.888 _refine.ls_d_res_high 2.453 _refine.ls_percent_reflns_obs 99.63 _refine.ls_R_factor_obs 0.2529 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2472 _refine.ls_R_factor_R_free 0.2752 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.03 _refine.ls_number_reflns_R_free 314 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 28.2 _refine.aniso_B[1][1] 2.2633 _refine.aniso_B[2][2] 2.2633 _refine.aniso_B[3][3] -4.5266 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] -0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.500 _refine.solvent_model_param_bsol 78.950 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model '30-residue polyalanine alpha helix' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values TWIN_LSQ_F _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML . _refine.pdbx_overall_phase_error 30.11 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _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_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _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 446 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 18 _refine_hist.number_atoms_total 464 _refine_hist.d_res_high 2.453 _refine_hist.d_res_low 18.888 # 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_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 0.007 ? ? 446 ? 'X-RAY DIFFRACTION' f_angle_d 1.155 ? ? 598 ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 20.094 ? ? 164 ? 'X-RAY DIFFRACTION' f_chiral_restr 0.059 ? ? 70 ? 'X-RAY DIFFRACTION' f_plane_restr 0.003 ? ? 80 ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _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 2 2.4572 3.0900 1556 0.2594 91.00 0.2676 . . 158 . . . . 'X-RAY DIFFRACTION' 2 3.0900 13.7564 1585 0.2430 91.00 0.2859 . . 156 . . . . 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 3S0R _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 3S0R _struct.title 'Crystal Structure of De novo Designed helical assembly protein' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3S0R _struct_keywords.pdbx_keywords 'DE NOVO PROTEIN' _struct_keywords.text 'Interacts with Single Walled Nanotube (SWNT), DE NOVO PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3S0R _struct_ref.pdbx_db_accession 3S0R _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code AEAESALEYAQQALEKAQLALQAARQALKA _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 3S0R A 1 ? 30 ? 3S0R 1 ? 30 ? 1 30 2 1 3S0R B 1 ? 30 ? 3S0R 1 ? 30 ? 1 30 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 5020 ? 1 MORE -47 ? 1 'SSA (A^2)' 6790 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D # 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' 6_655 -x+1,-y,z -1.0000000000 0.0000000000 0.0000000000 45.5290000000 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_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLU A 2 ? ALA A 30 ? GLU A 2 ALA A 30 1 ? 29 HELX_P HELX_P2 2 ALA B 1 ? LYS B 29 ? ALA B 1 LYS B 29 1 ? 29 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id GLU _pdbx_validate_torsion.auth_asym_id B _pdbx_validate_torsion.auth_seq_id 2 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -38.34 _pdbx_validate_torsion.psi -80.68 # 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 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 GLN N N N N 41 GLN CA C N S 42 GLN C C N N 43 GLN O O N N 44 GLN CB C N N 45 GLN CG C N N 46 GLN CD C N N 47 GLN OE1 O N N 48 GLN NE2 N N N 49 GLN OXT O N N 50 GLN H H N N 51 GLN H2 H N N 52 GLN HA H N N 53 GLN HB2 H N N 54 GLN HB3 H N N 55 GLN HG2 H N N 56 GLN HG3 H N N 57 GLN HE21 H N N 58 GLN HE22 H N N 59 GLN HXT H N N 60 GLU N N N N 61 GLU CA C N S 62 GLU C C N N 63 GLU O O N N 64 GLU CB C N N 65 GLU CG C N N 66 GLU CD C N N 67 GLU OE1 O N N 68 GLU OE2 O N N 69 GLU OXT O N N 70 GLU H H N N 71 GLU H2 H N N 72 GLU HA H N N 73 GLU HB2 H N N 74 GLU HB3 H N N 75 GLU HG2 H N N 76 GLU HG3 H N N 77 GLU HE2 H N N 78 GLU HXT H N N 79 HOH O O N N 80 HOH H1 H N N 81 HOH H2 H N N 82 LEU N N N N 83 LEU CA C N S 84 LEU C C N N 85 LEU O O N N 86 LEU CB C N N 87 LEU CG C N N 88 LEU CD1 C N N 89 LEU CD2 C N N 90 LEU OXT O N N 91 LEU H H N N 92 LEU H2 H N N 93 LEU HA H N N 94 LEU HB2 H N N 95 LEU HB3 H N N 96 LEU HG H N N 97 LEU HD11 H N N 98 LEU HD12 H N N 99 LEU HD13 H N N 100 LEU HD21 H N N 101 LEU HD22 H N N 102 LEU HD23 H N N 103 LEU HXT H N N 104 LYS N N N N 105 LYS CA C N S 106 LYS C C N N 107 LYS O O N N 108 LYS CB C N N 109 LYS CG C N N 110 LYS CD C N N 111 LYS CE C N N 112 LYS NZ N N N 113 LYS OXT O N N 114 LYS H H N N 115 LYS H2 H N N 116 LYS HA H N N 117 LYS HB2 H N N 118 LYS HB3 H N N 119 LYS HG2 H N N 120 LYS HG3 H N N 121 LYS HD2 H N N 122 LYS HD3 H N N 123 LYS HE2 H N N 124 LYS HE3 H N N 125 LYS HZ1 H N N 126 LYS HZ2 H N N 127 LYS HZ3 H N N 128 LYS HXT H N N 129 SER N N N N 130 SER CA C N S 131 SER C C N N 132 SER O O N N 133 SER CB C N N 134 SER OG O N N 135 SER OXT O N N 136 SER H H N N 137 SER H2 H N N 138 SER HA H N N 139 SER HB2 H N N 140 SER HB3 H N N 141 SER HG H N N 142 SER HXT H N N 143 TYR N N N N 144 TYR CA C N S 145 TYR C C N N 146 TYR O O N N 147 TYR CB C N N 148 TYR CG C Y N 149 TYR CD1 C Y N 150 TYR CD2 C Y N 151 TYR CE1 C Y N 152 TYR CE2 C Y N 153 TYR CZ C Y N 154 TYR OH O N N 155 TYR OXT O N N 156 TYR H H N N 157 TYR H2 H N N 158 TYR HA H N N 159 TYR HB2 H N N 160 TYR HB3 H N N 161 TYR HD1 H N N 162 TYR HD2 H N N 163 TYR HE1 H N N 164 TYR HE2 H N N 165 TYR HH H N N 166 TYR HXT H N N 167 # 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 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 GLN N CA sing N N 39 GLN N H sing N N 40 GLN N H2 sing N N 41 GLN CA C sing N N 42 GLN CA CB sing N N 43 GLN CA HA sing N N 44 GLN C O doub N N 45 GLN C OXT sing N N 46 GLN CB CG sing N N 47 GLN CB HB2 sing N N 48 GLN CB HB3 sing N N 49 GLN CG CD sing N N 50 GLN CG HG2 sing N N 51 GLN CG HG3 sing N N 52 GLN CD OE1 doub N N 53 GLN CD NE2 sing N N 54 GLN NE2 HE21 sing N N 55 GLN NE2 HE22 sing N N 56 GLN OXT HXT sing N N 57 GLU N CA sing N N 58 GLU N H sing N N 59 GLU N H2 sing N N 60 GLU CA C sing N N 61 GLU CA CB sing N N 62 GLU CA HA sing N N 63 GLU C O doub N N 64 GLU C OXT sing N N 65 GLU CB CG sing N N 66 GLU CB HB2 sing N N 67 GLU CB HB3 sing N N 68 GLU CG CD sing N N 69 GLU CG HG2 sing N N 70 GLU CG HG3 sing N N 71 GLU CD OE1 doub N N 72 GLU CD OE2 sing N N 73 GLU OE2 HE2 sing N N 74 GLU OXT HXT sing N N 75 HOH O H1 sing N N 76 HOH O H2 sing N N 77 LEU N CA sing N N 78 LEU N H sing N N 79 LEU N H2 sing N N 80 LEU CA C sing N N 81 LEU CA CB sing N N 82 LEU CA HA sing N N 83 LEU C O doub N N 84 LEU C OXT sing N N 85 LEU CB CG sing N N 86 LEU CB HB2 sing N N 87 LEU CB HB3 sing N N 88 LEU CG CD1 sing N N 89 LEU CG CD2 sing N N 90 LEU CG HG sing N N 91 LEU CD1 HD11 sing N N 92 LEU CD1 HD12 sing N N 93 LEU CD1 HD13 sing N N 94 LEU CD2 HD21 sing N N 95 LEU CD2 HD22 sing N N 96 LEU CD2 HD23 sing N N 97 LEU OXT HXT sing N N 98 LYS N CA sing N N 99 LYS N H sing N N 100 LYS N H2 sing N N 101 LYS CA C sing N N 102 LYS CA CB sing N N 103 LYS CA HA sing N N 104 LYS C O doub N N 105 LYS C OXT sing N N 106 LYS CB CG sing N N 107 LYS CB HB2 sing N N 108 LYS CB HB3 sing N N 109 LYS CG CD sing N N 110 LYS CG HG2 sing N N 111 LYS CG HG3 sing N N 112 LYS CD CE sing N N 113 LYS CD HD2 sing N N 114 LYS CD HD3 sing N N 115 LYS CE NZ sing N N 116 LYS CE HE2 sing N N 117 LYS CE HE3 sing N N 118 LYS NZ HZ1 sing N N 119 LYS NZ HZ2 sing N N 120 LYS NZ HZ3 sing N N 121 LYS OXT HXT sing N N 122 SER N CA sing N N 123 SER N H sing N N 124 SER N H2 sing N N 125 SER CA C sing N N 126 SER CA CB sing N N 127 SER CA HA sing N N 128 SER C O doub N N 129 SER C OXT sing N N 130 SER CB OG sing N N 131 SER CB HB2 sing N N 132 SER CB HB3 sing N N 133 SER OG HG sing N N 134 SER OXT HXT sing N N 135 TYR N CA sing N N 136 TYR N H sing N N 137 TYR N H2 sing N N 138 TYR CA C sing N N 139 TYR CA CB sing N N 140 TYR CA HA sing N N 141 TYR C O doub N N 142 TYR C OXT sing N N 143 TYR CB CG sing N N 144 TYR CB HB2 sing N N 145 TYR CB HB3 sing N N 146 TYR CG CD1 doub Y N 147 TYR CG CD2 sing Y N 148 TYR CD1 CE1 sing Y N 149 TYR CD1 HD1 sing N N 150 TYR CD2 CE2 doub Y N 151 TYR CD2 HD2 sing N N 152 TYR CE1 CZ doub Y N 153 TYR CE1 HE1 sing N N 154 TYR CE2 CZ sing Y N 155 TYR CE2 HE2 sing N N 156 TYR CZ OH sing N N 157 TYR OH HH sing N N 158 TYR OXT HXT sing N N 159 # _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 '30-residue polyalanine alpha helix' # _pdbx_reflns_twin.domain_id 1 _pdbx_reflns_twin.crystal_id 1 _pdbx_reflns_twin.diffrn_id 1 _pdbx_reflns_twin.fraction 0.499 _pdbx_reflns_twin.operator h,-k,-l _pdbx_reflns_twin.type ? _pdbx_reflns_twin.mean_F_square_over_mean_F2 ? _pdbx_reflns_twin.mean_I2_over_mean_I_square ? # _atom_sites.entry_id 3S0R _atom_sites.fract_transf_matrix[1][1] 0.021964 _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] 0.021964 _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] 0.010719 _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_