data_5SBJ # _entry.id 5SBJ # _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 5SBJ pdb_00005sbj 10.2210/pdb5sbj/pdb WWPDB D_1001404300 ? ? # 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 2023-02-15 2 'Structure model' 1 1 2023-11-15 3 'Structure model' 1 2 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' 'Data collection' 2 3 '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 2 'Structure model' chem_comp_atom 2 2 'Structure model' chem_comp_bond 3 3 'Structure model' pdbx_initial_refinement_model # _pdbx_database_status.entry_id 5SBJ _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 2021-08-24 _pdbx_database_status.status_code_sf REL _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? # loop_ _audit_author.pdbx_ordinal _audit_author.name _audit_author.identifier_ORCID 1 'Di Costanzo, L.' 0000-0002-4795-2573 2 'La Gatta, S.' ? 3 'Pavone, V.' ? # _citation.id primary _citation.journal_abbrev 'To be published' _citation.title 'Miniaturization process reloaded - structural and functional insights from a miniaturized rubredoxin' _citation.year ? _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Chino, M.' 1 ? primary 'Di Costanzo, L.' 2 ? # 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 'METP, miniaturized rubredoxin' 2955.254 1 ? ? ? ? 2 non-polymer syn 'CADMIUM ION' 112.411 1 ? ? ? ? 3 water nat water 18.015 21 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(ACE)YCSDCGAD(AIB)SQVRGGYCTNCGAS(AIB)DRIR(NH2)' _entity_poly.pdbx_seq_one_letter_code_can XYCSDCGADASQVRGGYCTNCGASADRIRX _entity_poly.pdbx_strand_id C _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CADMIUM ION' CD 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ACE n 1 2 TYR n 1 3 CYS n 1 4 SER n 1 5 ASP n 1 6 CYS n 1 7 GLY n 1 8 ALA n 1 9 ASP n 1 10 AIB n 1 11 SER n 1 12 GLN n 1 13 VAL n 1 14 ARG n 1 15 GLY n 1 16 GLY n 1 17 TYR n 1 18 CYS n 1 19 THR n 1 20 ASN n 1 21 CYS n 1 22 GLY n 1 23 ALA n 1 24 SER n 1 25 AIB n 1 26 ASP n 1 27 ARG n 1 28 ILE n 1 29 ARG n 1 30 NH2 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 1 _pdbx_entity_src_syn.pdbx_end_seq_num 30 _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details 'chemically synthesized' # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ACE non-polymer . 'ACETYL GROUP' ? 'C2 H4 O' 44.053 AIB 'L-peptide linking' n 'ALPHA-AMINOISOBUTYRIC ACID' ? 'C4 H9 N O2' 103.120 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 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CD non-polymer . 'CADMIUM ION' ? 'Cd 2' 112.411 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 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 ACE 1 0 1 ACE ACE C . n A 1 2 TYR 2 1 2 TYR TYR C . n A 1 3 CYS 3 2 3 CYS CYS C . n A 1 4 SER 4 3 4 SER SER C . n A 1 5 ASP 5 4 5 ASP ASP C . n A 1 6 CYS 6 5 6 CYS CYS C . n A 1 7 GLY 7 6 7 GLY GLY C . n A 1 8 ALA 8 7 8 ALA ALA C . n A 1 9 ASP 9 8 9 ASP ASP C . n A 1 10 AIB 10 9 10 AIB AIB C . n A 1 11 SER 11 10 11 SER SER C . n A 1 12 GLN 12 11 12 GLN GLN C . n A 1 13 VAL 13 12 13 VAL VAL C . n A 1 14 ARG 14 13 14 ARG ARG C . n A 1 15 GLY 15 14 15 GLY GLY C . n A 1 16 GLY 16 15 16 GLY GLY C . n A 1 17 TYR 17 16 17 TYR TYR C . n A 1 18 CYS 18 17 18 CYS CYS C . n A 1 19 THR 19 18 19 THR THR C . n A 1 20 ASN 20 19 20 ASN ASN C . n A 1 21 CYS 21 20 21 CYS CYS C . n A 1 22 GLY 22 21 22 GLY GLY C . n A 1 23 ALA 23 22 23 ALA ALA C . n A 1 24 SER 24 23 24 SER SER C . n A 1 25 AIB 25 24 25 AIB AIB C . n A 1 26 ASP 26 25 26 ASP ASP C . n A 1 27 ARG 27 26 27 ARG ARG C . n A 1 28 ILE 28 27 28 ILE ILE C . n A 1 29 ARG 29 28 29 ARG ARG C . n A 1 30 NH2 30 29 30 NH2 NH2 C . 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 CD 1 101 1 CD CD C . C 3 HOH 1 201 11 HOH HOH C . C 3 HOH 2 202 12 HOH HOH C . C 3 HOH 3 203 6 HOH HOH C . C 3 HOH 4 204 2 HOH HOH C . C 3 HOH 5 205 15 HOH HOH C . C 3 HOH 6 206 20 HOH HOH C . C 3 HOH 7 207 19 HOH HOH C . C 3 HOH 8 208 18 HOH HOH C . C 3 HOH 9 209 13 HOH HOH C . C 3 HOH 10 210 5 HOH HOH C . C 3 HOH 11 211 3 HOH HOH C . C 3 HOH 12 212 14 HOH HOH C . C 3 HOH 13 213 21 HOH HOH C . C 3 HOH 14 214 1 HOH HOH C . C 3 HOH 15 215 17 HOH HOH C . C 3 HOH 16 216 9 HOH HOH C . C 3 HOH 17 217 4 HOH HOH C . C 3 HOH 18 218 7 HOH HOH C . C 3 HOH 19 219 8 HOH HOH C . C 3 HOH 20 220 16 HOH HOH C . C 3 HOH 21 221 10 HOH HOH C . # 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 PHENIX 1.16_3549 ? package 'Paul D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 PDB_EXTRACT 3.27 'Oct. 31, 2020' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 XDS . ? ? ? ? 'data reduction' ? ? ? 4 XDS . ? ? ? ? 'data scaling' ? ? ? 5 PHENIX . ? ? ? ? phasing ? ? ? # _cell.length_a 37.070 _cell.length_b 56.654 _cell.length_c 19.331 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 5SBJ _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.entry_id 5SBJ _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 # _exptl.crystals_number 1 _exptl.entry_id 5SBJ _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.72 _exptl_crystal.density_percent_sol 28.37 _exptl_crystal.description ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.temp 300 _exptl_crystal_grow.pdbx_details '0.1 M HEPES, 1.4 M sodium citrate tribasic dihydrate' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.crystal_id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.pdbx_serial_crystal_experiment ? # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'DECTRIS PILATUS 2M' _diffrn_detector.pdbx_collection_date 2020-12-24 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator GRAPHITE _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.000 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ELETTRA BEAMLINE 5.2R' _diffrn_source.pdbx_wavelength_list 1.000 _diffrn_source.pdbx_synchrotron_site ELETTRA _diffrn_source.pdbx_synchrotron_beamline 5.2R _diffrn_source.pdbx_wavelength ? # _reflns.B_iso_Wilson_estimate ? _reflns.Friedel_coverage ? _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.d_resolution_high 1.01 _reflns.d_resolution_low 31.02 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.details ? _reflns.entry_id 5SBJ _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.number_all ? _reflns.number_gt ? _reflns.number_obs 19836 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3 _reflns.pdbx_CC_half 0.996 _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rmerge_I_obs 0.123 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_Rrim_I_all 0.160 _reflns.pdbx_Rsym_value ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_chi_squared ? _reflns.pdbx_d_opt ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 3.95 _reflns.pdbx_number_measured_all ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_ordinal 1 _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy 2.15 _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_signal_type ? _reflns.percent_possible_obs 95.7 _reflns.phase_calculation_details ? _reflns.threshold_expression ? # _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.Rmerge_I_obs ? _reflns_shell.d_res_high 1.01 _reflns_shell.d_res_low 1.07 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_sigI_obs 0.07 _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_gt ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_gt ? _reflns_shell.number_unique_obs 3171 _reflns_shell.pdbx_CC_half 0.053 _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_percent_possible_anomalous ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy 2.00 _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_rejects ? _reflns_shell.percent_possible_all 94.4 _reflns_shell.percent_possible_gt ? _reflns_shell.percent_possible_obs ? # _refine.entry_id 5SBJ _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_d_res_high 1.2800 _refine.ls_d_res_low 31.0200 _refine.pdbx_ls_sigma_F 1.340 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 98.7500 _refine.ls_number_reflns_obs 5466 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.ls_matrix_type ? _refine.pdbx_R_Free_selection_details ? _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1521 _refine.ls_R_factor_R_work 0.1511 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.1703 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 5.0500 _refine.ls_number_reflns_R_free 276 _refine.ls_number_reflns_R_work 5190 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 15.3847 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] ? _refine.aniso_B[2][2] ? _refine.aniso_B[3][3] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][3] ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.1200 _refine.overall_SU_B ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 'Rosetta, computational model' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 60.340 _refine.B_iso_min 8.180 _refine.pdbx_overall_phase_error 13.6100 _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_R_factor_R_free_error_details ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.2800 _refine_hist.d_res_low 31.0200 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 21 _refine_hist.number_atoms_total 226 _refine_hist.pdbx_number_residues_total 30 _refine_hist.pdbx_B_iso_mean_ligand 10.73 _refine_hist.pdbx_B_iso_mean_solvent 23.90 _refine_hist.pdbx_number_atoms_protein 204 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.R_factor_obs 1.2802 1.6130 2 99.0000 2535 . 0.2243 0.2294 . 142 0.0000 2677 . 'X-RAY DIFFRACTION' . 1.6130 31.0288 2 99.0000 2655 . 0.1296 0.1517 . 134 0.0000 2789 . 'X-RAY DIFFRACTION' . # _struct.entry_id 5SBJ _struct.pdbx_CASP_flag ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_details ? _struct.pdbx_model_type_details ? _struct.title 'The crystal structure of METP in complex with Cd at a resolution of 1.29 A.' # _struct_keywords.entry_id 5SBJ _struct_keywords.text 'de novo protein' _struct_keywords.pdbx_keywords '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 2 ? C N N 3 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 5SBJ _struct_ref.pdbx_db_accession 5SBJ _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 5SBJ _struct_ref_seq.pdbx_strand_id C _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 30 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 5SBJ _struct_ref_seq.db_align_beg 0 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 29 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 0 _struct_ref_seq.pdbx_auth_seq_align_end 29 # _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # 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 AA1 ASP A 9 ? SER A 11 ? ASP C 8 SER C 10 5 ? 3 HELX_P HELX_P2 AA2 SER A 24 ? ASP A 26 ? SER C 23 ASP C 25 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A ACE 1 C ? ? ? 1_555 A TYR 2 N ? ? C ACE 0 C TYR 1 1_555 ? ? ? ? ? ? ? 1.342 ? ? covale2 covale both ? A ASP 9 C ? ? ? 1_555 A AIB 10 N ? ? C ASP 8 C AIB 9 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale3 covale both ? A AIB 10 C ? ? ? 1_555 A SER 11 N ? ? C AIB 9 C SER 10 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale4 covale both ? A SER 24 C ? ? ? 1_555 A AIB 25 N ? ? C SER 23 C AIB 24 1_555 ? ? ? ? ? ? ? 1.325 ? ? covale5 covale both ? A AIB 25 C ? ? ? 1_555 A ASP 26 N ? ? C AIB 24 C ASP 25 1_555 ? ? ? ? ? ? ? 1.350 ? ? covale6 covale both ? A ARG 29 C ? ? ? 1_555 A NH2 30 N A ? C ARG 28 C NH2 29 1_555 ? ? ? ? ? ? ? 1.324 ? ? metalc1 metalc ? ? A CYS 3 SG ? ? ? 1_555 B CD . CD ? ? C CYS 2 C CD 101 1_555 ? ? ? ? ? ? ? 2.500 ? ? metalc2 metalc ? ? A CYS 6 SG ? ? ? 1_555 B CD . CD ? ? C CYS 5 C CD 101 1_555 ? ? ? ? ? ? ? 2.505 ? ? metalc3 metalc ? ? A CYS 18 SG ? ? ? 1_555 B CD . CD ? ? C CYS 17 C CD 101 1_555 ? ? ? ? ? ? ? 2.551 ? ? metalc4 metalc ? ? A CYS 21 SG ? ? ? 1_555 B CD . CD ? ? C CYS 20 C CD 101 1_555 ? ? ? ? ? ? ? 2.520 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 SG ? A CYS 3 ? C CYS 2 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 6 ? C CYS 5 ? 1_555 113.5 ? 2 SG ? A CYS 3 ? C CYS 2 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 18 ? C CYS 17 ? 1_555 110.5 ? 3 SG ? A CYS 6 ? C CYS 5 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 18 ? C CYS 17 ? 1_555 104.1 ? 4 SG ? A CYS 3 ? C CYS 2 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 21 ? C CYS 20 ? 1_555 107.8 ? 5 SG ? A CYS 6 ? C CYS 5 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 21 ? C CYS 20 ? 1_555 111.7 ? 6 SG ? A CYS 18 ? C CYS 17 ? 1_555 CD ? B CD . ? C CD 101 ? 1_555 SG ? A CYS 21 ? C CYS 20 ? 1_555 109.2 ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 2 ? AA2 ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA2 1 2 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 TYR A 2 ? CYS A 3 ? TYR C 1 CYS C 2 AA1 2 ILE A 28 ? ARG A 29 ? ILE C 27 ARG C 28 AA2 1 VAL A 13 ? ARG A 14 ? VAL C 12 ARG C 13 AA2 2 TYR A 17 ? CYS A 18 ? TYR C 16 CYS C 17 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N TYR A 2 ? N TYR C 1 O ARG A 29 ? O ARG C 28 AA2 1 2 N ARG A 14 ? N ARG C 13 O TYR A 17 ? O TYR C 16 # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 CB _pdbx_validate_rmsd_bond.auth_asym_id_1 C _pdbx_validate_rmsd_bond.auth_comp_id_1 ASP _pdbx_validate_rmsd_bond.auth_seq_id_1 25 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 B _pdbx_validate_rmsd_bond.auth_atom_id_2 CG _pdbx_validate_rmsd_bond.auth_asym_id_2 C _pdbx_validate_rmsd_bond.auth_comp_id_2 ASP _pdbx_validate_rmsd_bond.auth_seq_id_2 25 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 B _pdbx_validate_rmsd_bond.bond_value 1.750 _pdbx_validate_rmsd_bond.bond_target_value 1.513 _pdbx_validate_rmsd_bond.bond_deviation 0.237 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.021 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CB C ASP 25 ? B CG C ASP 25 ? B OD1 C ASP 25 ? B 82.43 118.30 -35.87 0.90 N 2 1 CB C ASP 25 ? B CG C ASP 25 ? B OD2 C ASP 25 ? B 150.31 118.30 32.01 0.90 N # _pdbx_entry_details.entry_id 5SBJ _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest Y # 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 ACE C C N N 1 ACE O O N N 2 ACE CH3 C N N 3 ACE H H N N 4 ACE H1 H N N 5 ACE H2 H N N 6 ACE H3 H N N 7 AIB N N N N 8 AIB CA C N N 9 AIB C C N N 10 AIB O O N N 11 AIB OXT O N N 12 AIB CB1 C N N 13 AIB CB2 C N N 14 AIB H H N N 15 AIB H2 H N N 16 AIB HXT H N N 17 AIB HB11 H N N 18 AIB HB12 H N N 19 AIB HB13 H N N 20 AIB HB21 H N N 21 AIB HB22 H N N 22 AIB HB23 H N N 23 ALA N N N N 24 ALA CA C N S 25 ALA C C N N 26 ALA O O N N 27 ALA CB C N N 28 ALA OXT O N N 29 ALA H H N N 30 ALA H2 H N N 31 ALA HA H N N 32 ALA HB1 H N N 33 ALA HB2 H N N 34 ALA HB3 H N N 35 ALA HXT H N N 36 ARG N N N N 37 ARG CA C N S 38 ARG C C N N 39 ARG O O N N 40 ARG CB C N N 41 ARG CG C N N 42 ARG CD C N N 43 ARG NE N N N 44 ARG CZ C N N 45 ARG NH1 N N N 46 ARG NH2 N N N 47 ARG OXT O N N 48 ARG H H N N 49 ARG H2 H N N 50 ARG HA H N N 51 ARG HB2 H N N 52 ARG HB3 H N N 53 ARG HG2 H N N 54 ARG HG3 H N N 55 ARG HD2 H N N 56 ARG HD3 H N N 57 ARG HE H N N 58 ARG HH11 H N N 59 ARG HH12 H N N 60 ARG HH21 H N N 61 ARG HH22 H N N 62 ARG HXT H N N 63 ASN N N N N 64 ASN CA C N S 65 ASN C C N N 66 ASN O O N N 67 ASN CB C N N 68 ASN CG C N N 69 ASN OD1 O N N 70 ASN ND2 N N N 71 ASN OXT O N N 72 ASN H H N N 73 ASN H2 H N N 74 ASN HA H N N 75 ASN HB2 H N N 76 ASN HB3 H N N 77 ASN HD21 H N N 78 ASN HD22 H N N 79 ASN HXT H N N 80 ASP N N N N 81 ASP CA C N S 82 ASP C C N N 83 ASP O O N N 84 ASP CB C N N 85 ASP CG C N N 86 ASP OD1 O N N 87 ASP OD2 O N N 88 ASP OXT O N N 89 ASP H H N N 90 ASP H2 H N N 91 ASP HA H N N 92 ASP HB2 H N N 93 ASP HB3 H N N 94 ASP HD2 H N N 95 ASP HXT H N N 96 CD CD CD N N 97 CYS N N N N 98 CYS CA C N R 99 CYS C C N N 100 CYS O O N N 101 CYS CB C N N 102 CYS SG S N N 103 CYS OXT O N N 104 CYS H H N N 105 CYS H2 H N N 106 CYS HA H N N 107 CYS HB2 H N N 108 CYS HB3 H N N 109 CYS HG H N N 110 CYS HXT H N N 111 GLN N N N N 112 GLN CA C N S 113 GLN C C N N 114 GLN O O N N 115 GLN CB C N N 116 GLN CG C N N 117 GLN CD C N N 118 GLN OE1 O N N 119 GLN NE2 N N N 120 GLN OXT O N N 121 GLN H H N N 122 GLN H2 H N N 123 GLN HA H N N 124 GLN HB2 H N N 125 GLN HB3 H N N 126 GLN HG2 H N N 127 GLN HG3 H N N 128 GLN HE21 H N N 129 GLN HE22 H N N 130 GLN HXT H N N 131 GLY N N N N 132 GLY CA C N N 133 GLY C C N N 134 GLY O O N N 135 GLY OXT O N N 136 GLY H H N N 137 GLY H2 H N N 138 GLY HA2 H N N 139 GLY HA3 H N N 140 GLY HXT H N N 141 HOH O O N N 142 HOH H1 H N N 143 HOH H2 H N N 144 ILE N N N N 145 ILE CA C N S 146 ILE C C N N 147 ILE O O N N 148 ILE CB C N S 149 ILE CG1 C N N 150 ILE CG2 C N N 151 ILE CD1 C N N 152 ILE OXT O N N 153 ILE H H N N 154 ILE H2 H N N 155 ILE HA H N N 156 ILE HB H N N 157 ILE HG12 H N N 158 ILE HG13 H N N 159 ILE HG21 H N N 160 ILE HG22 H N N 161 ILE HG23 H N N 162 ILE HD11 H N N 163 ILE HD12 H N N 164 ILE HD13 H N N 165 ILE HXT H N N 166 NH2 N N N N 167 NH2 HN1 H N N 168 NH2 HN2 H N N 169 SER N N N N 170 SER CA C N S 171 SER C C N N 172 SER O O N N 173 SER CB C N N 174 SER OG O N N 175 SER OXT O N N 176 SER H H N N 177 SER H2 H N N 178 SER HA H N N 179 SER HB2 H N N 180 SER HB3 H N N 181 SER HG H N N 182 SER HXT H N N 183 THR N N N N 184 THR CA C N S 185 THR C C N N 186 THR O O N N 187 THR CB C N R 188 THR OG1 O N N 189 THR CG2 C N N 190 THR OXT O N N 191 THR H H N N 192 THR H2 H N N 193 THR HA H N N 194 THR HB H N N 195 THR HG1 H N N 196 THR HG21 H N N 197 THR HG22 H N N 198 THR HG23 H N N 199 THR HXT H N N 200 TYR N N N N 201 TYR CA C N S 202 TYR C C N N 203 TYR O O N N 204 TYR CB C N N 205 TYR CG C Y N 206 TYR CD1 C Y N 207 TYR CD2 C Y N 208 TYR CE1 C Y N 209 TYR CE2 C Y N 210 TYR CZ C Y N 211 TYR OH O N N 212 TYR OXT O N N 213 TYR H H N N 214 TYR H2 H N N 215 TYR HA H N N 216 TYR HB2 H N N 217 TYR HB3 H N N 218 TYR HD1 H N N 219 TYR HD2 H N N 220 TYR HE1 H N N 221 TYR HE2 H N N 222 TYR HH H N N 223 TYR HXT H N N 224 VAL N N N N 225 VAL CA C N S 226 VAL C C N N 227 VAL O O N N 228 VAL CB C N N 229 VAL CG1 C N N 230 VAL CG2 C N N 231 VAL OXT O N N 232 VAL H H N N 233 VAL H2 H N N 234 VAL HA H N N 235 VAL HB H N N 236 VAL HG11 H N N 237 VAL HG12 H N N 238 VAL HG13 H N N 239 VAL HG21 H N N 240 VAL HG22 H N N 241 VAL HG23 H N N 242 VAL HXT H N N 243 # 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 ACE C O doub N N 1 ACE C CH3 sing N N 2 ACE C H sing N N 3 ACE CH3 H1 sing N N 4 ACE CH3 H2 sing N N 5 ACE CH3 H3 sing N N 6 AIB N CA sing N N 7 AIB N H sing N N 8 AIB N H2 sing N N 9 AIB CA C sing N N 10 AIB CA CB1 sing N N 11 AIB CA CB2 sing N N 12 AIB C O doub N N 13 AIB C OXT sing N N 14 AIB OXT HXT sing N N 15 AIB CB1 HB11 sing N N 16 AIB CB1 HB12 sing N N 17 AIB CB1 HB13 sing N N 18 AIB CB2 HB21 sing N N 19 AIB CB2 HB22 sing N N 20 AIB CB2 HB23 sing N N 21 ALA N CA sing N N 22 ALA N H sing N N 23 ALA N H2 sing N N 24 ALA CA C sing N N 25 ALA CA CB sing N N 26 ALA CA HA sing N N 27 ALA C O doub N N 28 ALA C OXT sing N N 29 ALA CB HB1 sing N N 30 ALA CB HB2 sing N N 31 ALA CB HB3 sing N N 32 ALA OXT HXT sing N N 33 ARG N CA sing N N 34 ARG N H sing N N 35 ARG N H2 sing N N 36 ARG CA C sing N N 37 ARG CA CB sing N N 38 ARG CA HA sing N N 39 ARG C O doub N N 40 ARG C OXT sing N N 41 ARG CB CG sing N N 42 ARG CB HB2 sing N N 43 ARG CB HB3 sing N N 44 ARG CG CD sing N N 45 ARG CG HG2 sing N N 46 ARG CG HG3 sing N N 47 ARG CD NE sing N N 48 ARG CD HD2 sing N N 49 ARG CD HD3 sing N N 50 ARG NE CZ sing N N 51 ARG NE HE sing N N 52 ARG CZ NH1 sing N N 53 ARG CZ NH2 doub N N 54 ARG NH1 HH11 sing N N 55 ARG NH1 HH12 sing N N 56 ARG NH2 HH21 sing N N 57 ARG NH2 HH22 sing N N 58 ARG OXT HXT sing N N 59 ASN N CA sing N N 60 ASN N H sing N N 61 ASN N H2 sing N N 62 ASN CA C sing N N 63 ASN CA CB sing N N 64 ASN CA HA sing N N 65 ASN C O doub N N 66 ASN C OXT sing N N 67 ASN CB CG sing N N 68 ASN CB HB2 sing N N 69 ASN CB HB3 sing N N 70 ASN CG OD1 doub N N 71 ASN CG ND2 sing N N 72 ASN ND2 HD21 sing N N 73 ASN ND2 HD22 sing N N 74 ASN OXT HXT sing N N 75 ASP N CA sing N N 76 ASP N H sing N N 77 ASP N H2 sing N N 78 ASP CA C sing N N 79 ASP CA CB sing N N 80 ASP CA HA sing N N 81 ASP C O doub N N 82 ASP C OXT sing N N 83 ASP CB CG sing N N 84 ASP CB HB2 sing N N 85 ASP CB HB3 sing N N 86 ASP CG OD1 doub N N 87 ASP CG OD2 sing N N 88 ASP OD2 HD2 sing N N 89 ASP OXT HXT sing N N 90 CYS N CA sing N N 91 CYS N H sing N N 92 CYS N H2 sing N N 93 CYS CA C sing N N 94 CYS CA CB sing N N 95 CYS CA HA sing N N 96 CYS C O doub N N 97 CYS C OXT sing N N 98 CYS CB SG sing N N 99 CYS CB HB2 sing N N 100 CYS CB HB3 sing N N 101 CYS SG HG sing N N 102 CYS OXT HXT sing N N 103 GLN N CA sing N N 104 GLN N H sing N N 105 GLN N H2 sing N N 106 GLN CA C sing N N 107 GLN CA CB sing N N 108 GLN CA HA sing N N 109 GLN C O doub N N 110 GLN C OXT sing N N 111 GLN CB CG sing N N 112 GLN CB HB2 sing N N 113 GLN CB HB3 sing N N 114 GLN CG CD sing N N 115 GLN CG HG2 sing N N 116 GLN CG HG3 sing N N 117 GLN CD OE1 doub N N 118 GLN CD NE2 sing N N 119 GLN NE2 HE21 sing N N 120 GLN NE2 HE22 sing N N 121 GLN OXT HXT sing N N 122 GLY N CA sing N N 123 GLY N H sing N N 124 GLY N H2 sing N N 125 GLY CA C sing N N 126 GLY CA HA2 sing N N 127 GLY CA HA3 sing N N 128 GLY C O doub N N 129 GLY C OXT sing N N 130 GLY OXT HXT sing N N 131 HOH O H1 sing N N 132 HOH O H2 sing N N 133 ILE N CA sing N N 134 ILE N H sing N N 135 ILE N H2 sing N N 136 ILE CA C sing N N 137 ILE CA CB sing N N 138 ILE CA HA sing N N 139 ILE C O doub N N 140 ILE C OXT sing N N 141 ILE CB CG1 sing N N 142 ILE CB CG2 sing N N 143 ILE CB HB sing N N 144 ILE CG1 CD1 sing N N 145 ILE CG1 HG12 sing N N 146 ILE CG1 HG13 sing N N 147 ILE CG2 HG21 sing N N 148 ILE CG2 HG22 sing N N 149 ILE CG2 HG23 sing N N 150 ILE CD1 HD11 sing N N 151 ILE CD1 HD12 sing N N 152 ILE CD1 HD13 sing N N 153 ILE OXT HXT sing N N 154 NH2 N HN1 sing N N 155 NH2 N HN2 sing N N 156 SER N CA sing N N 157 SER N H sing N N 158 SER N H2 sing N N 159 SER CA C sing N N 160 SER CA CB sing N N 161 SER CA HA sing N N 162 SER C O doub N N 163 SER C OXT sing N N 164 SER CB OG sing N N 165 SER CB HB2 sing N N 166 SER CB HB3 sing N N 167 SER OG HG sing N N 168 SER OXT HXT sing N N 169 THR N CA sing N N 170 THR N H sing N N 171 THR N H2 sing N N 172 THR CA C sing N N 173 THR CA CB sing N N 174 THR CA HA sing N N 175 THR C O doub N N 176 THR C OXT sing N N 177 THR CB OG1 sing N N 178 THR CB CG2 sing N N 179 THR CB HB sing N N 180 THR OG1 HG1 sing N N 181 THR CG2 HG21 sing N N 182 THR CG2 HG22 sing N N 183 THR CG2 HG23 sing N N 184 THR OXT HXT sing N N 185 TYR N CA sing N N 186 TYR N H sing N N 187 TYR N H2 sing N N 188 TYR CA C sing N N 189 TYR CA CB sing N N 190 TYR CA HA sing N N 191 TYR C O doub N N 192 TYR C OXT sing N N 193 TYR CB CG sing N N 194 TYR CB HB2 sing N N 195 TYR CB HB3 sing N N 196 TYR CG CD1 doub Y N 197 TYR CG CD2 sing Y N 198 TYR CD1 CE1 sing Y N 199 TYR CD1 HD1 sing N N 200 TYR CD2 CE2 doub Y N 201 TYR CD2 HD2 sing N N 202 TYR CE1 CZ doub Y N 203 TYR CE1 HE1 sing N N 204 TYR CE2 CZ sing Y N 205 TYR CE2 HE2 sing N N 206 TYR CZ OH sing N N 207 TYR OH HH sing N N 208 TYR OXT HXT sing N N 209 VAL N CA sing N N 210 VAL N H sing N N 211 VAL N H2 sing N N 212 VAL CA C sing N N 213 VAL CA CB sing N N 214 VAL CA HA sing N N 215 VAL C O doub N N 216 VAL C OXT sing N N 217 VAL CB CG1 sing N N 218 VAL CB CG2 sing N N 219 VAL CB HB sing N N 220 VAL CG1 HG11 sing N N 221 VAL CG1 HG12 sing N N 222 VAL CG1 HG13 sing N N 223 VAL CG2 HG21 sing N N 224 VAL CG2 HG22 sing N N 225 VAL CG2 HG23 sing N N 226 VAL OXT HXT sing N N 227 # _pdbx_deposit_group.group_id G_1002191 _pdbx_deposit_group.group_description 'Crystal structures of METP in complex with different metals' _pdbx_deposit_group.group_title 'Structural insights from a miniaturized rubredoxin' _pdbx_deposit_group.group_type undefined # _pdbx_entity_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id CD _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id CD _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # _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 ? _pdbx_initial_refinement_model.details 'Rosetta, computational model' # _atom_sites.entry_id 5SBJ _atom_sites.fract_transf_matrix[1][1] 0.026976 _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] 0.017651 _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] 0.051730 _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 CD H N O S # loop_