data_3SB3 # _entry.id 3SB3 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.365 _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 3SB3 pdb_00003sb3 10.2210/pdb3sb3/pdb RCSB RCSB065986 ? ? WWPDB D_1000065986 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type TargetDB 416839 . unspecified PDB 3NRF 'Crystal structure of an ApaG protein (PA1934) from PSEUDOMONAS AERUGINOSA at 1.50 A resolution - C-centered orthorhombic form' unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3SB3 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2011-06-03 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal structure of an ApaG protein (PA1934) from PSEUDOMONAS AERUGINOSA at 1.83 A resolution' _citation.journal_abbrev 'To be published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _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 ? # _citation_author.citation_id primary _citation_author.name 'Joint Center for Structural Genomics (JCSG)' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _cell.entry_id 3SB3 _cell.length_a 66.080 _cell.length_b 66.080 _cell.length_c 50.538 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 3SB3 _symmetry.Int_Tables_number 90 _symmetry.space_group_name_H-M 'P 4 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # 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 man 'ApaG protein' 11196.344 1 ? ? ? ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 3 water nat water 18.015 77 ? ? ? ? # _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 ;GAAPDAV(MSE)VFARQGDKGSVSVGDKHFRTQAFKVRLVNAAKSEISLKNSCLVAQSAAGQSFRLDTVDEELTADTLKP GASVEGDAIFASEDDAVYGASLVRLSDRCK ; _entity_poly.pdbx_seq_one_letter_code_can ;GAAPDAVMVFARQGDKGSVSVGDKHFRTQAFKVRLVNAAKSEISLKNSCLVAQSAAGQSFRLDTVDEELTADTLKPGASV EGDAIFASEDDAVYGASLVRLSDRCK ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 416839 # 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 ALA n 1 3 ALA n 1 4 PRO n 1 5 ASP n 1 6 ALA n 1 7 VAL n 1 8 MSE n 1 9 VAL n 1 10 PHE n 1 11 ALA n 1 12 ARG n 1 13 GLN n 1 14 GLY n 1 15 ASP n 1 16 LYS n 1 17 GLY n 1 18 SER n 1 19 VAL n 1 20 SER n 1 21 VAL n 1 22 GLY n 1 23 ASP n 1 24 LYS n 1 25 HIS n 1 26 PHE n 1 27 ARG n 1 28 THR n 1 29 GLN n 1 30 ALA n 1 31 PHE n 1 32 LYS n 1 33 VAL n 1 34 ARG n 1 35 LEU n 1 36 VAL n 1 37 ASN n 1 38 ALA n 1 39 ALA n 1 40 LYS n 1 41 SER n 1 42 GLU n 1 43 ILE n 1 44 SER n 1 45 LEU n 1 46 LYS n 1 47 ASN n 1 48 SER n 1 49 CYS n 1 50 LEU n 1 51 VAL n 1 52 ALA n 1 53 GLN n 1 54 SER n 1 55 ALA n 1 56 ALA n 1 57 GLY n 1 58 GLN n 1 59 SER n 1 60 PHE n 1 61 ARG n 1 62 LEU n 1 63 ASP n 1 64 THR n 1 65 VAL n 1 66 ASP n 1 67 GLU n 1 68 GLU n 1 69 LEU n 1 70 THR n 1 71 ALA n 1 72 ASP n 1 73 THR n 1 74 LEU n 1 75 LYS n 1 76 PRO n 1 77 GLY n 1 78 ALA n 1 79 SER n 1 80 VAL n 1 81 GLU n 1 82 GLY n 1 83 ASP n 1 84 ALA n 1 85 ILE n 1 86 PHE n 1 87 ALA n 1 88 SER n 1 89 GLU n 1 90 ASP n 1 91 ASP n 1 92 ALA n 1 93 VAL n 1 94 TYR n 1 95 GLY n 1 96 ALA n 1 97 SER n 1 98 LEU n 1 99 VAL n 1 100 ARG n 1 101 LEU n 1 102 SER n 1 103 ASP n 1 104 ARG n 1 105 CYS n 1 106 LYS n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene PA1934 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Pseudomonas aeruginosa' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 287 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia Coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain HK100 _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type Plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name SpeedET _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9I2H0_PSEAE _struct_ref.pdbx_db_accession Q9I2H0 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;AAPDAVMVFARQGDKGSVSVGDKHFRTQAFKVRLVNAAKSEISLKNSCLVAQSAAGQSFRLDTVDEELTADTLKPGASVE GDAIFASEDDAVYGASLVRLSDRCK ; _struct_ref.pdbx_align_begin 22 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3SB3 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 106 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9I2H0 _struct_ref_seq.db_align_beg 22 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 126 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 22 _struct_ref_seq.pdbx_auth_seq_align_end 126 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3SB3 _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _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 Q9I2H0 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 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 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 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 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 # _exptl.crystals_number 1 _exptl.method 'X-RAY DIFFRACTION' _exptl.entry_id 3SB3 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.46 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 50.08 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details '0.2M MgCl2, 30.00% PEG-400, 0.1M TRIS pH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K' _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 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'double crystal monochromator' _diffrn_detector.pdbx_collection_date 2010-05-12 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'double crystal' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.91837 1.0 2 0.97936 1.0 3 0.97920 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL9-2 _diffrn_source.type 'SSRL BEAMLINE BL9-2' _diffrn_source.pdbx_wavelength_list 0.91837,0.97936,0.97920 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 3SB3 _reflns.d_resolution_high 1.83 _reflns.d_resolution_low 29.552 _reflns.number_obs 10313 _reflns.pdbx_Rmerge_I_obs 0.052 _reflns.pdbx_netI_over_sigmaI 18.070 _reflns.percent_possible_obs 99.300 _reflns.B_iso_Wilson_estimate 27.998 _reflns.observed_criterion_sigma_I -3.000 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_redundancy 7.69 _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 # 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 1.830 1.900 7786 ? 1910 0.790 1.86 ? ? ? ? ? 94.500 1 1 1.900 1.970 7237 ? 1720 0.546 2.8 ? ? ? ? ? 99.800 2 1 1.970 2.060 7989 ? 1887 0.324 4.7 ? ? ? ? ? 99.900 3 1 2.060 2.170 8144 ? 1929 0.243 6.3 ? ? ? ? ? 99.800 4 1 2.170 2.310 8206 ? 1943 0.171 8.6 ? ? ? ? ? 99.800 5 1 2.310 2.480 7582 ? 1781 0.132 11.4 ? ? ? ? ? 99.900 6 1 2.480 2.730 8098 ? 1898 0.086 16.0 ? ? ? ? ? 100.000 7 1 2.730 3.130 8255 ? 1930 0.048 26.5 ? ? ? ? ? 99.900 8 1 3.130 3.930 7935 ? 1867 0.027 44.3 ? ? ? ? ? 100.000 9 1 3.930 ? 8061 ? 1910 0.021 56.9 ? ? ? ? ? 99.400 10 1 # _refine.entry_id 3SB3 _refine.ls_d_res_high 1.8300 _refine.ls_d_res_low 29.552 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.6100 _refine.ls_number_reflns_obs 10296 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 3 .A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION 4.SOLVENT MOLECULES WERE EXCLUDED FROM THE ASSIGNMENT OF THE TLS GROUPS. 5. BASED ON FIT TO ELECTRON DENSITY, A PHOSPHATE (PO4) HAS BEEN MODELED AT A SPECIAL POSITION NEAR THE SIDECHAINS OF ARG 124 AND ARG 120. HOWEVER, THIS ASSIGNMENT OF ELECTRON DENSITY TO A PHOSPHATE IS TENTATIVE. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1888 _refine.ls_R_factor_R_work 0.1872 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2227 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.8000 _refine.ls_number_reflns_R_free 497 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 30.2006 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.2200 _refine.aniso_B[2][2] -0.2200 _refine.aniso_B[3][3] 0.4400 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9610 _refine.correlation_coeff_Fo_to_Fc_free 0.9420 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.1220 _refine.overall_SU_ML 0.0810 _refine.overall_SU_B 5.1990 _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 MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 60.720 _refine.B_iso_min 16.470 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.500 _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_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 730 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 5 _refine_hist.number_atoms_solvent 77 _refine_hist.number_atoms_total 812 _refine_hist.d_res_high 1.8300 _refine_hist.d_res_low 29.552 # 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 782 0.019 0.022 ? ? 'X-RAY DIFFRACTION' r_bond_other_d 507 0.003 0.020 ? ? 'X-RAY DIFFRACTION' r_angle_refined_deg 1068 1.666 1.956 ? ? 'X-RAY DIFFRACTION' r_angle_other_deg 1243 0.978 3.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_1_deg 112 5.848 5.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_2_deg 34 33.768 24.412 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_3_deg 127 14.061 15.000 ? ? 'X-RAY DIFFRACTION' r_dihedral_angle_4_deg 6 20.415 15.000 ? ? 'X-RAY DIFFRACTION' r_chiral_restr 127 0.108 0.200 ? ? 'X-RAY DIFFRACTION' r_gen_planes_refined 913 0.007 0.020 ? ? 'X-RAY DIFFRACTION' r_gen_planes_other 161 0.001 0.020 ? ? 'X-RAY DIFFRACTION' r_mcbond_it 519 1.098 1.500 ? ? 'X-RAY DIFFRACTION' r_mcbond_other 214 0.329 1.500 ? ? 'X-RAY DIFFRACTION' r_mcangle_it 831 1.894 2.000 ? ? 'X-RAY DIFFRACTION' r_scbond_it 263 3.092 3.000 ? ? 'X-RAY DIFFRACTION' r_scangle_it 232 5.304 4.500 ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 1.8310 _refine_ls_shell.d_res_low 1.8790 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 96.7800 _refine_ls_shell.number_reflns_R_work 671 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.2660 _refine_ls_shell.R_factor_R_free 0.2700 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 50 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 721 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3SB3 _struct.title 'Crystal structure of an apag protein (PA1934) from pseudomonas aeruginosa pao1 at 1.83 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text 'Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, UNKNOWN FUNCTION' _struct_keywords.pdbx_keywords 'Structural Genomics, Unknown Function' _struct_keywords.entry_id 3SB3 # 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_biol.id 1 _struct_biol.details ;ANALYTICAL SIZE EXCLUSION CHROMATOGRAPHY PROVIDES SUPPORTING EVIDENCE THAT THE TETRAMER IS A SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. ; # 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 67 ? ALA A 71 ? GLU A 87 ALA A 91 5 ? 5 HELX_P HELX_P2 2 ASP A 91 ? ALA A 96 ? ASP A 111 ALA A 116 5 ? 6 # _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 disulf1 disulf ? ? A CYS 49 SG ? ? ? 1_555 A CYS 105 SG ? ? A CYS 69 A CYS 125 1_555 ? ? ? ? ? ? ? 2.149 ? ? covale1 covale both ? A VAL 7 C ? ? ? 1_555 A MSE 8 N ? ? A VAL 27 A MSE 28 1_555 ? ? ? ? ? ? ? 1.324 ? ? covale2 covale both ? A MSE 8 C ? ? ? 1_555 A VAL 9 N ? ? A MSE 28 A VAL 29 1_555 ? ? ? ? ? ? ? 1.332 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 6 ? B ? 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 A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel B 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 A 1 MSE A 8 ? VAL A 21 ? MSE A 28 VAL A 41 A 2 LYS A 24 ? VAL A 36 ? LYS A 44 VAL A 56 A 3 SER A 79 ? SER A 88 ? SER A 99 SER A 108 A 4 SER A 59 ? VAL A 65 ? SER A 79 VAL A 85 A 5 CYS A 49 ? GLN A 53 ? CYS A 69 GLN A 73 A 6 LEU A 98 ? SER A 102 ? LEU A 118 SER A 122 B 1 ILE A 43 ? SER A 44 ? ILE A 63 SER A 64 B 2 THR A 73 ? LEU A 74 ? THR A 93 LEU A 94 # 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 A 1 2 N GLY A 14 ? N GLY A 34 O ALA A 30 ? O ALA A 50 A 2 3 N VAL A 33 ? N VAL A 53 O GLY A 82 ? O GLY A 102 A 3 4 O ILE A 85 ? O ILE A 105 N THR A 64 ? N THR A 84 A 4 5 O PHE A 60 ? O PHE A 80 N ALA A 52 ? N ALA A 72 A 5 6 N CYS A 49 ? N CYS A 69 O SER A 102 ? O SER A 122 B 1 2 N ILE A 43 ? N ILE A 63 O LEU A 74 ? O LEU A 94 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id PO4 _struct_site.pdbx_auth_seq_id 127 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 6 _struct_site.details 'BINDING SITE FOR RESIDUE PO4 A 127' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 ARG A 100 ? ARG A 120 . ? 1_555 ? 2 AC1 6 ARG A 100 ? ARG A 120 . ? 7_556 ? 3 AC1 6 SER A 102 ? SER A 122 . ? 7_556 ? 4 AC1 6 SER A 102 ? SER A 122 . ? 1_555 ? 5 AC1 6 ARG A 104 ? ARG A 124 . ? 1_555 ? 6 AC1 6 ARG A 104 ? ARG A 124 . ? 7_556 ? # _atom_sites.entry_id 3SB3 _atom_sites.fract_transf_matrix[1][1] 0.015133 _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] 0.015133 _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] 0.019787 _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 P S SE # 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 0 ? ? ? A . n A 1 2 ALA 2 22 ? ? ? A . n A 1 3 ALA 3 23 ? ? ? A . n A 1 4 PRO 4 24 ? ? ? A . n A 1 5 ASP 5 25 25 ASP ASP A . n A 1 6 ALA 6 26 26 ALA ALA A . n A 1 7 VAL 7 27 27 VAL VAL A . n A 1 8 MSE 8 28 28 MSE MSE A . n A 1 9 VAL 9 29 29 VAL VAL A . n A 1 10 PHE 10 30 30 PHE PHE A . n A 1 11 ALA 11 31 31 ALA ALA A . n A 1 12 ARG 12 32 32 ARG ARG A . n A 1 13 GLN 13 33 33 GLN GLN A . n A 1 14 GLY 14 34 34 GLY GLY A . n A 1 15 ASP 15 35 35 ASP ASP A . n A 1 16 LYS 16 36 36 LYS LYS A . n A 1 17 GLY 17 37 37 GLY GLY A . n A 1 18 SER 18 38 38 SER SER A . n A 1 19 VAL 19 39 39 VAL VAL A . n A 1 20 SER 20 40 40 SER SER A . n A 1 21 VAL 21 41 41 VAL VAL A . n A 1 22 GLY 22 42 42 GLY GLY A . n A 1 23 ASP 23 43 43 ASP ASP A . n A 1 24 LYS 24 44 44 LYS LYS A . n A 1 25 HIS 25 45 45 HIS HIS A . n A 1 26 PHE 26 46 46 PHE PHE A . n A 1 27 ARG 27 47 47 ARG ARG A . n A 1 28 THR 28 48 48 THR THR A . n A 1 29 GLN 29 49 49 GLN GLN A . n A 1 30 ALA 30 50 50 ALA ALA A . n A 1 31 PHE 31 51 51 PHE PHE A . n A 1 32 LYS 32 52 52 LYS LYS A . n A 1 33 VAL 33 53 53 VAL VAL A . n A 1 34 ARG 34 54 54 ARG ARG A . n A 1 35 LEU 35 55 55 LEU LEU A . n A 1 36 VAL 36 56 56 VAL VAL A . n A 1 37 ASN 37 57 57 ASN ASN A . n A 1 38 ALA 38 58 58 ALA ALA A . n A 1 39 ALA 39 59 59 ALA ALA A . n A 1 40 LYS 40 60 60 LYS LYS A . n A 1 41 SER 41 61 61 SER SER A . n A 1 42 GLU 42 62 62 GLU GLU A . n A 1 43 ILE 43 63 63 ILE ILE A . n A 1 44 SER 44 64 64 SER SER A . n A 1 45 LEU 45 65 65 LEU LEU A . n A 1 46 LYS 46 66 66 LYS LYS A . n A 1 47 ASN 47 67 67 ASN ASN A . n A 1 48 SER 48 68 68 SER SER A . n A 1 49 CYS 49 69 69 CYS CYS A . n A 1 50 LEU 50 70 70 LEU LEU A . n A 1 51 VAL 51 71 71 VAL VAL A . n A 1 52 ALA 52 72 72 ALA ALA A . n A 1 53 GLN 53 73 73 GLN GLN A . n A 1 54 SER 54 74 74 SER SER A . n A 1 55 ALA 55 75 75 ALA ALA A . n A 1 56 ALA 56 76 76 ALA ALA A . n A 1 57 GLY 57 77 77 GLY GLY A . n A 1 58 GLN 58 78 78 GLN GLN A . n A 1 59 SER 59 79 79 SER SER A . n A 1 60 PHE 60 80 80 PHE PHE A . n A 1 61 ARG 61 81 81 ARG ARG A . n A 1 62 LEU 62 82 82 LEU LEU A . n A 1 63 ASP 63 83 83 ASP ASP A . n A 1 64 THR 64 84 84 THR THR A . n A 1 65 VAL 65 85 85 VAL VAL A . n A 1 66 ASP 66 86 86 ASP ASP A . n A 1 67 GLU 67 87 87 GLU GLU A . n A 1 68 GLU 68 88 88 GLU GLU A . n A 1 69 LEU 69 89 89 LEU LEU A . n A 1 70 THR 70 90 90 THR THR A . n A 1 71 ALA 71 91 91 ALA ALA A . n A 1 72 ASP 72 92 92 ASP ASP A . n A 1 73 THR 73 93 93 THR THR A . n A 1 74 LEU 74 94 94 LEU LEU A . n A 1 75 LYS 75 95 95 LYS LYS A . n A 1 76 PRO 76 96 96 PRO PRO A . n A 1 77 GLY 77 97 97 GLY GLY A . n A 1 78 ALA 78 98 98 ALA ALA A . n A 1 79 SER 79 99 99 SER SER A . n A 1 80 VAL 80 100 100 VAL VAL A . n A 1 81 GLU 81 101 101 GLU GLU A . n A 1 82 GLY 82 102 102 GLY GLY A . n A 1 83 ASP 83 103 103 ASP ASP A . n A 1 84 ALA 84 104 104 ALA ALA A . n A 1 85 ILE 85 105 105 ILE ILE A . n A 1 86 PHE 86 106 106 PHE PHE A . n A 1 87 ALA 87 107 107 ALA ALA A . n A 1 88 SER 88 108 108 SER SER A . n A 1 89 GLU 89 109 109 GLU GLU A . n A 1 90 ASP 90 110 110 ASP ASP A . n A 1 91 ASP 91 111 111 ASP ASP A . n A 1 92 ALA 92 112 112 ALA ALA A . n A 1 93 VAL 93 113 113 VAL VAL A . n A 1 94 TYR 94 114 114 TYR TYR A . n A 1 95 GLY 95 115 115 GLY GLY A . n A 1 96 ALA 96 116 116 ALA ALA A . n A 1 97 SER 97 117 117 SER SER A . n A 1 98 LEU 98 118 118 LEU LEU A . n A 1 99 VAL 99 119 119 VAL VAL A . n A 1 100 ARG 100 120 120 ARG ARG A . n A 1 101 LEU 101 121 121 LEU LEU A . n A 1 102 SER 102 122 122 SER SER A . n A 1 103 ASP 103 123 123 ASP ASP A . n A 1 104 ARG 104 124 124 ARG ARG A . n A 1 105 CYS 105 125 125 CYS CYS A . n A 1 106 LYS 106 126 ? ? ? A . n # _pdbx_SG_project.project_name PSI:Biology _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # 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 PO4 1 127 127 PO4 PO4 A . C 3 HOH 1 128 128 HOH HOH A . C 3 HOH 2 129 129 HOH HOH A . C 3 HOH 3 130 130 HOH HOH A . C 3 HOH 4 131 131 HOH HOH A . C 3 HOH 5 132 132 HOH HOH A . C 3 HOH 6 133 133 HOH HOH A . C 3 HOH 7 134 134 HOH HOH A . C 3 HOH 8 135 135 HOH HOH A . C 3 HOH 9 136 136 HOH HOH A . C 3 HOH 10 137 137 HOH HOH A . C 3 HOH 11 138 138 HOH HOH A . C 3 HOH 12 139 139 HOH HOH A . C 3 HOH 13 140 140 HOH HOH A . C 3 HOH 14 141 141 HOH HOH A . C 3 HOH 15 142 142 HOH HOH A . C 3 HOH 16 143 143 HOH HOH A . C 3 HOH 17 144 144 HOH HOH A . C 3 HOH 18 145 145 HOH HOH A . C 3 HOH 19 146 146 HOH HOH A . C 3 HOH 20 147 147 HOH HOH A . C 3 HOH 21 148 148 HOH HOH A . C 3 HOH 22 149 149 HOH HOH A . C 3 HOH 23 150 150 HOH HOH A . C 3 HOH 24 151 151 HOH HOH A . C 3 HOH 25 152 152 HOH HOH A . C 3 HOH 26 153 153 HOH HOH A . C 3 HOH 27 154 154 HOH HOH A . C 3 HOH 28 155 155 HOH HOH A . C 3 HOH 29 156 156 HOH HOH A . C 3 HOH 30 157 157 HOH HOH A . C 3 HOH 31 158 158 HOH HOH A . C 3 HOH 32 159 159 HOH HOH A . C 3 HOH 33 160 160 HOH HOH A . C 3 HOH 34 161 161 HOH HOH A . C 3 HOH 35 162 162 HOH HOH A . C 3 HOH 36 163 163 HOH HOH A . C 3 HOH 37 164 164 HOH HOH A . C 3 HOH 38 165 165 HOH HOH A . C 3 HOH 39 166 166 HOH HOH A . C 3 HOH 40 167 167 HOH HOH A . C 3 HOH 41 168 168 HOH HOH A . C 3 HOH 42 169 169 HOH HOH A . C 3 HOH 43 170 170 HOH HOH A . C 3 HOH 44 171 171 HOH HOH A . C 3 HOH 45 172 172 HOH HOH A . C 3 HOH 46 173 173 HOH HOH A . C 3 HOH 47 174 174 HOH HOH A . C 3 HOH 48 175 175 HOH HOH A . C 3 HOH 49 176 176 HOH HOH A . C 3 HOH 50 177 177 HOH HOH A . C 3 HOH 51 178 178 HOH HOH A . C 3 HOH 52 179 179 HOH HOH A . C 3 HOH 53 180 180 HOH HOH A . C 3 HOH 54 181 181 HOH HOH A . C 3 HOH 55 182 182 HOH HOH A . C 3 HOH 56 183 183 HOH HOH A . C 3 HOH 57 184 184 HOH HOH A . C 3 HOH 58 185 185 HOH HOH A . C 3 HOH 59 186 186 HOH HOH A . C 3 HOH 60 187 187 HOH HOH A . C 3 HOH 61 188 188 HOH HOH A . C 3 HOH 62 189 189 HOH HOH A . C 3 HOH 63 190 190 HOH HOH A . C 3 HOH 64 191 191 HOH HOH A . C 3 HOH 65 192 192 HOH HOH A . C 3 HOH 66 193 193 HOH HOH A . C 3 HOH 67 194 194 HOH HOH A . C 3 HOH 68 195 195 HOH HOH A . C 3 HOH 69 196 196 HOH HOH A . C 3 HOH 70 197 197 HOH HOH A . C 3 HOH 71 198 198 HOH HOH A . C 3 HOH 72 199 199 HOH HOH A . C 3 HOH 73 200 200 HOH HOH A . C 3 HOH 74 201 201 HOH HOH A . C 3 HOH 75 202 202 HOH HOH A . C 3 HOH 76 203 203 HOH HOH A . C 3 HOH 77 204 204 HOH HOH A . # _pdbx_struct_mod_residue.id 1 _pdbx_struct_mod_residue.label_asym_id A _pdbx_struct_mod_residue.label_comp_id MSE _pdbx_struct_mod_residue.label_seq_id 8 _pdbx_struct_mod_residue.auth_asym_id A _pdbx_struct_mod_residue.auth_comp_id MSE _pdbx_struct_mod_residue.auth_seq_id 28 _pdbx_struct_mod_residue.PDB_ins_code ? _pdbx_struct_mod_residue.parent_comp_id MET _pdbx_struct_mod_residue.details SELENOMETHIONINE # _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 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 _pdbx_struct_assembly_gen.asym_id_list A,B,C # 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)' 5110 ? 1 MORE -29 ? 1 'SSA (A^2)' 20230 ? # 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' 2_655 -x+1,-y,z -1.0000000000 0.0000000000 0.0000000000 66.0800000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 3_545 -y+1/2,x-1/2,z 0.0000000000 -1.0000000000 0.0000000000 33.0400000000 1.0000000000 0.0000000000 0.0000000000 -33.0400000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4 'crystal symmetry operation' 4_555 y+1/2,-x+1/2,z 0.0000000000 1.0000000000 0.0000000000 33.0400000000 -1.0000000000 0.0000000000 0.0000000000 33.0400000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A PO4 127 ? B PO4 . 2 1 A PO4 127 ? B PO4 . # 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 2011-06-29 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-11-16 4 'Structure model' 1 3 2017-10-25 5 'Structure model' 1 4 2018-01-24 6 'Structure model' 1 5 2023-02-01 # _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' 'Structure summary' 3 4 'Structure model' 'Author supporting evidence' 4 4 'Structure model' 'Refinement description' 5 5 'Structure model' 'Database references' 6 6 'Structure model' 'Database references' 7 6 'Structure model' 'Derived calculations' # 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' pdbx_struct_assembly_auth_evidence 2 4 'Structure model' software 3 5 'Structure model' citation_author 4 6 'Structure model' database_2 5 6 'Structure model' pdbx_struct_special_symmetry 6 6 'Structure model' struct_conn 7 6 'Structure model' struct_ref_seq_dif 8 6 'Structure model' struct_site # 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' '_software.classification' 2 4 'Structure model' '_software.name' 3 5 'Structure model' '_citation_author.name' 4 6 'Structure model' '_database_2.pdbx_DOI' 5 6 'Structure model' '_database_2.pdbx_database_accession' 6 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 7 6 'Structure model' '_struct_ref_seq_dif.details' 8 6 'Structure model' '_struct_site.pdbx_auth_asym_id' 9 6 'Structure model' '_struct_site.pdbx_auth_comp_id' 10 6 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 29.3913 _pdbx_refine_tls.origin_y 19.1675 _pdbx_refine_tls.origin_z 15.1368 _pdbx_refine_tls.T[1][1] 0.0352 _pdbx_refine_tls.T[2][2] 0.0281 _pdbx_refine_tls.T[3][3] 0.0488 _pdbx_refine_tls.T[1][2] 0.0101 _pdbx_refine_tls.T[1][3] 0.0001 _pdbx_refine_tls.T[2][3] 0.0032 _pdbx_refine_tls.L[1][1] 1.7539 _pdbx_refine_tls.L[2][2] 0.0267 _pdbx_refine_tls.L[3][3] 0.4807 _pdbx_refine_tls.L[1][2] -0.6452 _pdbx_refine_tls.L[1][3] -0.2102 _pdbx_refine_tls.L[2][3] 0.2994 _pdbx_refine_tls.S[1][1] 0.0568 _pdbx_refine_tls.S[2][2] -0.0448 _pdbx_refine_tls.S[3][3] -0.0120 _pdbx_refine_tls.S[1][2] 0.1491 _pdbx_refine_tls.S[1][3] 0.0185 _pdbx_refine_tls.S[2][3] -0.0611 _pdbx_refine_tls.S[2][1] 0.0473 _pdbx_refine_tls.S[3][1] -0.0751 _pdbx_refine_tls.S[3][2] -0.0616 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 25 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 125 _pdbx_refine_tls_group.selection_details ? _pdbx_refine_tls_group.beg_label_asym_id . _pdbx_refine_tls_group.beg_label_seq_id . _pdbx_refine_tls_group.end_label_asym_id . _pdbx_refine_tls_group.end_label_seq_id . _pdbx_refine_tls_group.selection ? # _phasing.method MAD # 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 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 2 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 SHELX . ? package 'George M. Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 4 SHARP . ? package 'Eric de La Fortelle' sharp-develop@globalphasing.com phasing http://www.globalphasing.com/sharp/ ? ? 5 XSCALE 'January 30, 2009' ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html ? ? 6 REFMAC 5.5.0110 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 7 XDS . ? ? ? ? 'data reduction' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? # _pdbx_entry_details.entry_id 3SB3 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS CONSTRUCT (RESIDUES 22-126) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE ; _pdbx_entry_details.has_ligand_of_interest ? # 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 A ASP 103 ? ? CG A ASP 103 ? ? OD1 A ASP 103 ? ? 124.80 118.30 6.50 0.90 N 2 1 NE A ARG 120 ? ? CZ A ARG 120 ? ? NH1 A ARG 120 ? ? 123.97 120.30 3.67 0.50 N 3 1 NE A ARG 120 ? ? CZ A ARG 120 ? ? NH2 A ARG 120 ? ? 117.26 120.30 -3.04 0.50 N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ASP A 110 ? ? -91.44 -157.57 2 1 ARG A 124 ? ? -104.26 77.46 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A ASP 25 ? CG ? A ASP 5 CG 2 1 Y 1 A ASP 25 ? OD1 ? A ASP 5 OD1 3 1 Y 1 A ASP 25 ? OD2 ? A ASP 5 OD2 4 1 Y 1 A LYS 52 ? CD ? A LYS 32 CD 5 1 Y 1 A LYS 52 ? CE ? A LYS 32 CE 6 1 Y 1 A LYS 52 ? NZ ? A LYS 32 NZ 7 1 Y 1 A ARG 54 ? CZ ? A ARG 34 CZ 8 1 Y 1 A ARG 54 ? NH1 ? A ARG 34 NH1 9 1 Y 1 A ARG 54 ? NH2 ? A ARG 34 NH2 10 1 Y 1 A LYS 60 ? CD ? A LYS 40 CD 11 1 Y 1 A LYS 60 ? CE ? A LYS 40 CE 12 1 Y 1 A LYS 60 ? NZ ? A LYS 40 NZ 13 1 Y 1 A LYS 66 ? CE ? A LYS 46 CE 14 1 Y 1 A LYS 66 ? NZ ? A LYS 46 NZ 15 1 Y 1 A GLU 87 ? CG ? A GLU 67 CG 16 1 Y 1 A GLU 87 ? CD ? A GLU 67 CD 17 1 Y 1 A GLU 87 ? OE1 ? A GLU 67 OE1 18 1 Y 1 A GLU 87 ? OE2 ? A GLU 67 OE2 19 1 Y 1 A LYS 95 ? CE ? A LYS 75 CE 20 1 Y 1 A LYS 95 ? NZ ? A LYS 75 NZ # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY 0 ? A GLY 1 2 1 Y 1 A ALA 22 ? A ALA 2 3 1 Y 1 A ALA 23 ? A ALA 3 4 1 Y 1 A PRO 24 ? A PRO 4 5 1 Y 1 A LYS 126 ? A LYS 106 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #