data_4CV7 # _entry.id 4CV7 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.308 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4CV7 PDBE EBI-60107 WWPDB D_1290060107 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 4CV7 _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2014-03-24 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Geerds, C.' 1 'Niemann, H.H.' 2 # _citation.id primary _citation.title ;Structure of Rhodococcus Equi Virulence-Associated Protein B (Vapb) Reveals an Eight-Stranded Antiparallel [Beta]-Barrel Consisting of Two Greek-Key Motifs ; _citation.journal_abbrev 'Acta Crystallogr.,Sect.F' _citation.journal_volume 70 _citation.page_first 866 _citation.page_last ? _citation.year 2014 _citation.journal_id_ASTM ? _citation.country DK _citation.journal_id_ISSN 1744-3091 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 25005079 _citation.pdbx_database_id_DOI 10.1107/S2053230X14009911 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Geerds, C.' 1 ? primary 'Wohlmann, J.' 2 ? primary 'Haas, A.' 3 ? primary 'Niemann, H.H.' 4 ? # _cell.entry_id 4CV7 _cell.length_a 83.820 _cell.length_b 83.820 _cell.length_c 49.130 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4CV7 _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 # 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 'VIRULENCE ASSOCIATED PROTEIN VAPB' 12091.158 1 ? ? 'RESIDUES 36-197' ;RESIDUES 36-197 WERE EXPRESSED WITH AN N- TERMINAL HIS6 TAG. THE PROTEIN WAS DIGESTED WITH PROTEINASE K AND PURIFIED. THE N-TERMINUS WAS VERIFIED BY EDMAN DEGRADATION. ; 2 non-polymer syn 'COBALT (II) ION' 58.933 2 ? ? ? ? 3 water nat water 18.015 107 ? ? ? ? # _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 ;EQEQQYDVHGNVISAAVYQKFHVYGPEDMVFDGDAGGLTIPGAGAFWGTLFTSDLQRLYKDTVSFQYNALGTYLNINFFD SSGGFLGHIQAGAVSAVVGVGGGSGSWHNWEVA ; _entity_poly.pdbx_seq_one_letter_code_can ;EQEQQYDVHGNVISAAVYQKFHVYGPEDMVFDGDAGGLTIPGAGAFWGTLFTSDLQRLYKDTVSFQYNALGTYLNINFFD SSGGFLGHIQAGAVSAVVGVGGGSGSWHNWEVA ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLU n 1 2 GLN n 1 3 GLU n 1 4 GLN n 1 5 GLN n 1 6 TYR n 1 7 ASP n 1 8 VAL n 1 9 HIS n 1 10 GLY n 1 11 ASN n 1 12 VAL n 1 13 ILE n 1 14 SER n 1 15 ALA n 1 16 ALA n 1 17 VAL n 1 18 TYR n 1 19 GLN n 1 20 LYS n 1 21 PHE n 1 22 HIS n 1 23 VAL n 1 24 TYR n 1 25 GLY n 1 26 PRO n 1 27 GLU n 1 28 ASP n 1 29 MET n 1 30 VAL n 1 31 PHE n 1 32 ASP n 1 33 GLY n 1 34 ASP n 1 35 ALA n 1 36 GLY n 1 37 GLY n 1 38 LEU n 1 39 THR n 1 40 ILE n 1 41 PRO n 1 42 GLY n 1 43 ALA n 1 44 GLY n 1 45 ALA n 1 46 PHE n 1 47 TRP n 1 48 GLY n 1 49 THR n 1 50 LEU n 1 51 PHE n 1 52 THR n 1 53 SER n 1 54 ASP n 1 55 LEU n 1 56 GLN n 1 57 ARG n 1 58 LEU n 1 59 TYR n 1 60 LYS n 1 61 ASP n 1 62 THR n 1 63 VAL n 1 64 SER n 1 65 PHE n 1 66 GLN n 1 67 TYR n 1 68 ASN n 1 69 ALA n 1 70 LEU n 1 71 GLY n 1 72 THR n 1 73 TYR n 1 74 LEU n 1 75 ASN n 1 76 ILE n 1 77 ASN n 1 78 PHE n 1 79 PHE n 1 80 ASP n 1 81 SER n 1 82 SER n 1 83 GLY n 1 84 GLY n 1 85 PHE n 1 86 LEU n 1 87 GLY n 1 88 HIS n 1 89 ILE n 1 90 GLN n 1 91 ALA n 1 92 GLY n 1 93 ALA n 1 94 VAL n 1 95 SER n 1 96 ALA n 1 97 VAL n 1 98 VAL n 1 99 GLY n 1 100 VAL n 1 101 GLY n 1 102 GLY n 1 103 GLY n 1 104 SER n 1 105 GLY n 1 106 SER n 1 107 TRP n 1 108 HIS n 1 109 ASN n 1 110 TRP n 1 111 GLU n 1 112 VAL n 1 113 ALA 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 ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'PAM 1593' _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 'RHODOCOCCUS EQUI' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 43767 _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 469008 _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 'BL21(DE3)' _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 'PETITE N-HIS KAN' _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code B4F366_COREQ _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_db_accession B4F366 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4CV7 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 113 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession B4F366 _struct_ref_seq.db_align_beg 85 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 197 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 85 _struct_ref_seq.pdbx_auth_seq_align_end 197 # 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 CO non-polymer . 'COBALT (II) ION' ? 'Co 2' 58.933 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 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 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 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.entry_id 4CV7 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.79 _exptl_crystal.density_percent_sol 56 _exptl_crystal.description ;STRUCTURE WAS SOLVED WITH A DIFFERENT DATA SET COLLECTED AT 1.5418 ANGSTROM ON AN AGILENT SUPERNOVA SEALED TUBE DIFFRACTOMETER WITH ATLAS CCD. ; # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;SITTING DROP VAPOUR DIFFUSION AT 293 K WITH 1 UL PROTEIN (10 MG/ML) PLUS 0.5 UL RESERVOIR SOLUTION CONSISTING OF 0.01 M COCL2, 0.1 M NA-ACETATE, PH 4.6, AND 1.0 M HEXANEDIOL (JCSG CORE II CONDITION G4). ; # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.pdbx_collection_date 2012-11-30 _diffrn_detector.details ? # _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 0.91985 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID29' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID29 _diffrn_source.pdbx_wavelength 0.91985 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 4CV7 _reflns.observed_criterion_sigma_I -3.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 50.00 _reflns.d_resolution_high 1.40 _reflns.number_obs 20584 _reflns.number_all ? _reflns.percent_possible_obs 100.0 _reflns.pdbx_Rmerge_I_obs 0.10 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 26.90 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 37 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.40 _reflns_shell.d_res_low 1.44 _reflns_shell.percent_possible_all 100.0 _reflns_shell.Rmerge_I_obs 1.26 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.67 _reflns_shell.pdbx_redundancy 29 # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 4CV7 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 18526 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 50.00 _refine.ls_d_res_high 1.40 _refine.ls_percent_reflns_obs 99.95 _refine.ls_R_factor_obs 0.17252 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.16972 _refine.ls_R_factor_R_free 0.19854 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 9.9 _refine.ls_number_reflns_R_free 2030 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.965 _refine.correlation_coeff_Fo_to_Fc_free 0.958 _refine.B_iso_mean 20.913 _refine.aniso_B[1][1] 0.29 _refine.aniso_B[2][2] 0.29 _refine.aniso_B[3][3] -0.92 _refine.aniso_B[1][2] 0.14 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES WITH TLS ADDED' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.066 _refine.pdbx_overall_ESU_R_Free 0.068 _refine.overall_SU_ML 0.044 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 2.252 _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_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 840 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 2 _refine_hist.number_atoms_solvent 107 _refine_hist.number_atoms_total 949 _refine_hist.d_res_high 1.40 _refine_hist.d_res_low 50.00 # 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_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.024 0.019 ? 949 'X-RAY DIFFRACTION' ? r_bond_other_d 0.001 0.020 ? 848 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.234 1.898 ? 1307 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.039 3.000 ? 1947 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.155 0.200 ? 138 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.015 0.020 ? 1169 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 252 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1.141 0.812 ? 487 'X-RAY DIFFRACTION' ? r_mcbond_other 1.139 0.809 ? 486 'X-RAY DIFFRACTION' ? r_mcangle_it 1.675 1.214 ? 614 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 1.618 0.979 ? 461 'X-RAY DIFFRACTION' ? r_scbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.400 _refine_ls_shell.d_res_low 1.436 _refine_ls_shell.number_reflns_R_work 1345 _refine_ls_shell.R_factor_R_work 0.227 _refine_ls_shell.percent_reflns_obs 99.87 _refine_ls_shell.R_factor_R_free 0.269 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 147 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 4CV7 _struct.title 'Crystal structure of Rhodococcus equi VapB' _struct.pdbx_descriptor 'VIRULENCE ASSOCIATED PROTEIN VAPB' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4CV7 _struct_keywords.pdbx_keywords TOXIN _struct_keywords.text 'VIRULENCE ASSOCIATED PROTEIN, EIGHT-STRANDED ANTIPARALLEL BETA-BARREL, B-BARREL, GREEK KEY MOTIF, TOXIN' # 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 2 ? D N N 3 ? # _struct_biol.id 1 # 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 PRO A 26 ? ASP A 28 ? PRO A 110 ASP A 112 5 ? 3 HELX_P HELX_P2 2 ASP A 54 ? THR A 62 ? ASP A 138 THR A 146 1 ? 9 # _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 metalc1 metalc ? ? B CO . CO ? ? ? 1_555 A HIS 22 NE2 ? ? A CO 1198 A HIS 106 1_555 ? ? ? ? ? ? ? 2.208 ? metalc2 metalc ? ? B CO . CO ? ? ? 1_555 D HOH . O ? ? A CO 1198 A HOH 2025 1_555 ? ? ? ? ? ? ? 2.803 ? metalc3 metalc ? ? C CO . CO ? ? ? 1_555 D HOH . O ? ? A CO 1199 A HOH 2103 1_555 ? ? ? ? ? ? ? 2.505 ? metalc4 metalc ? ? C CO . CO ? ? ? 1_555 D HOH . O ? ? A CO 1199 A HOH 2037 1_555 ? ? ? ? ? ? ? 1.847 ? metalc5 metalc ? ? C CO . CO ? ? ? 1_555 D HOH . O ? ? A CO 1199 A HOH 2107 1_555 ? ? ? ? ? ? ? 2.174 ? metalc6 metalc ? ? C CO . CO ? ? ? 1_555 D HOH . O ? ? A CO 1199 A HOH 2035 1_555 ? ? ? ? ? ? ? 1.794 ? # _struct_conn_type.id metalc _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id AA _struct_sheet.type ? _struct_sheet.number_strands 9 _struct_sheet.details ? # 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 AA 1 2 ? anti-parallel AA 2 3 ? anti-parallel AA 3 4 ? anti-parallel AA 4 5 ? anti-parallel AA 5 6 ? anti-parallel AA 6 7 ? anti-parallel AA 7 8 ? anti-parallel AA 8 9 ? 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 AA 1 GLN A 4 ? ALA A 15 ? GLN A 88 ALA A 99 AA 2 GLY A 42 ? THR A 52 ? GLY A 126 THR A 136 AA 3 PHE A 85 ? ALA A 91 ? PHE A 169 ALA A 175 AA 4 LEU A 74 ? PHE A 79 ? LEU A 158 PHE A 163 AA 5 SER A 64 ? ASN A 68 ? SER A 148 ASN A 152 AA 6 VAL A 100 ? HIS A 108 ? VAL A 184 HIS A 192 AA 7 MET A 29 ? GLY A 37 ? MET A 113 GLY A 121 AA 8 TYR A 18 ? GLY A 25 ? TYR A 102 GLY A 109 AA 9 GLN A 4 ? ALA A 15 ? GLN A 88 ALA A 99 # 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 AA 1 2 N SER A 14 ? N SER A 98 O GLY A 42 ? O GLY A 126 AA 2 3 N PHE A 51 ? N PHE A 135 O HIS A 88 ? O HIS A 172 AA 3 4 N ALA A 91 ? N ALA A 175 O LEU A 74 ? O LEU A 158 AA 4 5 N PHE A 79 ? N PHE A 163 O SER A 64 ? O SER A 148 AA 5 6 N TYR A 67 ? N TYR A 151 O GLY A 101 ? O GLY A 185 AA 6 7 N HIS A 108 ? N HIS A 192 O VAL A 30 ? O VAL A 114 AA 7 8 N ALA A 35 ? N ALA A 119 O GLN A 19 ? O GLN A 103 AA 8 9 N TYR A 24 ? N TYR A 108 O HIS A 9 ? O HIS A 93 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 3 'BINDING SITE FOR RESIDUE CO A 1198' AC2 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE CO A 1199' # 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 3 HIS A 22 ? HIS A 106 . ? 1_555 ? 2 AC1 3 ASP A 32 ? ASP A 116 . ? 1_555 ? 3 AC1 3 HOH D . ? HOH A 2025 . ? 1_555 ? 4 AC2 5 ASP A 34 ? ASP A 118 . ? 1_555 ? 5 AC2 5 HOH D . ? HOH A 2035 . ? 1_555 ? 6 AC2 5 HOH D . ? HOH A 2037 . ? 1_555 ? 7 AC2 5 HOH D . ? HOH A 2103 . ? 1_555 ? 8 AC2 5 HOH D . ? HOH A 2107 . ? 1_555 ? # _database_PDB_matrix.entry_id 4CV7 _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 # _atom_sites.entry_id 4CV7 _atom_sites.fract_transf_matrix[1][1] 0.011930 _atom_sites.fract_transf_matrix[1][2] 0.006888 _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] 0.013776 _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] 0.020354 _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 CO N O S # 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 GLU 1 85 ? ? ? A . n A 1 2 GLN 2 86 ? ? ? A . n A 1 3 GLU 3 87 87 GLU GLU A . n A 1 4 GLN 4 88 88 GLN GLN A . n A 1 5 GLN 5 89 89 GLN GLN A . n A 1 6 TYR 6 90 90 TYR TYR A . n A 1 7 ASP 7 91 91 ASP ASP A . n A 1 8 VAL 8 92 92 VAL VAL A . n A 1 9 HIS 9 93 93 HIS HIS A . n A 1 10 GLY 10 94 94 GLY GLY A . n A 1 11 ASN 11 95 95 ASN ASN A . n A 1 12 VAL 12 96 96 VAL VAL A . n A 1 13 ILE 13 97 97 ILE ILE A . n A 1 14 SER 14 98 98 SER SER A . n A 1 15 ALA 15 99 99 ALA ALA A . n A 1 16 ALA 16 100 100 ALA ALA A . n A 1 17 VAL 17 101 101 VAL VAL A . n A 1 18 TYR 18 102 102 TYR TYR A . n A 1 19 GLN 19 103 103 GLN GLN A . n A 1 20 LYS 20 104 104 LYS LYS A . n A 1 21 PHE 21 105 105 PHE PHE A . n A 1 22 HIS 22 106 106 HIS HIS A . n A 1 23 VAL 23 107 107 VAL VAL A . n A 1 24 TYR 24 108 108 TYR TYR A . n A 1 25 GLY 25 109 109 GLY GLY A . n A 1 26 PRO 26 110 110 PRO PRO A . n A 1 27 GLU 27 111 111 GLU GLU A . n A 1 28 ASP 28 112 112 ASP ASP A . n A 1 29 MET 29 113 113 MET MET A . n A 1 30 VAL 30 114 114 VAL VAL A . n A 1 31 PHE 31 115 115 PHE PHE A . n A 1 32 ASP 32 116 116 ASP ASP A . n A 1 33 GLY 33 117 117 GLY GLY A . n A 1 34 ASP 34 118 118 ASP ASP A . n A 1 35 ALA 35 119 119 ALA ALA A . n A 1 36 GLY 36 120 120 GLY GLY A . n A 1 37 GLY 37 121 121 GLY GLY A . n A 1 38 LEU 38 122 122 LEU LEU A . n A 1 39 THR 39 123 123 THR THR A . n A 1 40 ILE 40 124 124 ILE ILE A . n A 1 41 PRO 41 125 125 PRO PRO A . n A 1 42 GLY 42 126 126 GLY GLY A . n A 1 43 ALA 43 127 127 ALA ALA A . n A 1 44 GLY 44 128 128 GLY GLY A . n A 1 45 ALA 45 129 129 ALA ALA A . n A 1 46 PHE 46 130 130 PHE PHE A . n A 1 47 TRP 47 131 131 TRP TRP A . n A 1 48 GLY 48 132 132 GLY GLY A . n A 1 49 THR 49 133 133 THR THR A . n A 1 50 LEU 50 134 134 LEU LEU A . n A 1 51 PHE 51 135 135 PHE PHE A . n A 1 52 THR 52 136 136 THR THR A . n A 1 53 SER 53 137 137 SER SER A . n A 1 54 ASP 54 138 138 ASP ASP A . n A 1 55 LEU 55 139 139 LEU LEU A . n A 1 56 GLN 56 140 140 GLN GLN A . n A 1 57 ARG 57 141 141 ARG ARG A . n A 1 58 LEU 58 142 142 LEU LEU A . n A 1 59 TYR 59 143 143 TYR TYR A . n A 1 60 LYS 60 144 144 LYS LYS A . n A 1 61 ASP 61 145 145 ASP ASP A . n A 1 62 THR 62 146 146 THR THR A . n A 1 63 VAL 63 147 147 VAL VAL A . n A 1 64 SER 64 148 148 SER SER A . n A 1 65 PHE 65 149 149 PHE PHE A . n A 1 66 GLN 66 150 150 GLN GLN A . n A 1 67 TYR 67 151 151 TYR TYR A . n A 1 68 ASN 68 152 152 ASN ASN A . n A 1 69 ALA 69 153 153 ALA ALA A . n A 1 70 LEU 70 154 154 LEU LEU A . n A 1 71 GLY 71 155 155 GLY GLY A . n A 1 72 THR 72 156 156 THR THR A . n A 1 73 TYR 73 157 157 TYR TYR A . n A 1 74 LEU 74 158 158 LEU LEU A . n A 1 75 ASN 75 159 159 ASN ASN A . n A 1 76 ILE 76 160 160 ILE ILE A . n A 1 77 ASN 77 161 161 ASN ASN A . n A 1 78 PHE 78 162 162 PHE PHE A . n A 1 79 PHE 79 163 163 PHE PHE A . n A 1 80 ASP 80 164 164 ASP ASP A . n A 1 81 SER 81 165 165 SER SER A . n A 1 82 SER 82 166 166 SER SER A . n A 1 83 GLY 83 167 167 GLY GLY A . n A 1 84 GLY 84 168 168 GLY GLY A . n A 1 85 PHE 85 169 169 PHE PHE A . n A 1 86 LEU 86 170 170 LEU LEU A . n A 1 87 GLY 87 171 171 GLY GLY A . n A 1 88 HIS 88 172 172 HIS HIS A . n A 1 89 ILE 89 173 173 ILE ILE A . n A 1 90 GLN 90 174 174 GLN GLN A . n A 1 91 ALA 91 175 175 ALA ALA A . n A 1 92 GLY 92 176 176 GLY GLY A . n A 1 93 ALA 93 177 177 ALA ALA A . n A 1 94 VAL 94 178 178 VAL VAL A . n A 1 95 SER 95 179 179 SER SER A . n A 1 96 ALA 96 180 180 ALA ALA A . n A 1 97 VAL 97 181 181 VAL VAL A . n A 1 98 VAL 98 182 182 VAL VAL A . n A 1 99 GLY 99 183 183 GLY GLY A . n A 1 100 VAL 100 184 184 VAL VAL A . n A 1 101 GLY 101 185 185 GLY GLY A . n A 1 102 GLY 102 186 186 GLY GLY A . n A 1 103 GLY 103 187 187 GLY GLY A . n A 1 104 SER 104 188 188 SER SER A . n A 1 105 GLY 105 189 189 GLY GLY A . n A 1 106 SER 106 190 190 SER SER A . n A 1 107 TRP 107 191 191 TRP TRP A . n A 1 108 HIS 108 192 192 HIS HIS A . n A 1 109 ASN 109 193 193 ASN ASN A . n A 1 110 TRP 110 194 194 TRP TRP A . n A 1 111 GLU 111 195 195 GLU GLU A . n A 1 112 VAL 112 196 196 VAL VAL A . n A 1 113 ALA 113 197 197 ALA ALA A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 CO 1 1198 1198 CO CO A . C 2 CO 1 1199 1199 CO CO A . D 3 HOH 1 2001 2001 HOH HOH A . D 3 HOH 2 2002 2002 HOH HOH A . D 3 HOH 3 2003 2003 HOH HOH A . D 3 HOH 4 2004 2004 HOH HOH A . D 3 HOH 5 2005 2005 HOH HOH A . D 3 HOH 6 2006 2006 HOH HOH A . D 3 HOH 7 2007 2007 HOH HOH A . D 3 HOH 8 2008 2008 HOH HOH A . D 3 HOH 9 2009 2009 HOH HOH A . D 3 HOH 10 2010 2010 HOH HOH A . D 3 HOH 11 2011 2011 HOH HOH A . D 3 HOH 12 2012 2012 HOH HOH A . D 3 HOH 13 2013 2013 HOH HOH A . D 3 HOH 14 2014 2014 HOH HOH A . D 3 HOH 15 2015 2015 HOH HOH A . D 3 HOH 16 2016 2016 HOH HOH A . D 3 HOH 17 2017 2017 HOH HOH A . D 3 HOH 18 2018 2018 HOH HOH A . D 3 HOH 19 2019 2019 HOH HOH A . D 3 HOH 20 2020 2020 HOH HOH A . D 3 HOH 21 2021 2021 HOH HOH A . D 3 HOH 22 2022 2022 HOH HOH A . D 3 HOH 23 2023 2023 HOH HOH A . D 3 HOH 24 2024 2024 HOH HOH A . D 3 HOH 25 2025 2025 HOH HOH A . D 3 HOH 26 2026 2026 HOH HOH A . D 3 HOH 27 2027 2027 HOH HOH A . D 3 HOH 28 2028 2028 HOH HOH A . D 3 HOH 29 2029 2029 HOH HOH A . D 3 HOH 30 2030 2030 HOH HOH A . D 3 HOH 31 2031 2031 HOH HOH A . D 3 HOH 32 2032 2032 HOH HOH A . D 3 HOH 33 2033 2033 HOH HOH A . D 3 HOH 34 2034 2034 HOH HOH A . D 3 HOH 35 2035 2035 HOH HOH A . D 3 HOH 36 2036 2036 HOH HOH A . D 3 HOH 37 2037 2037 HOH HOH A . D 3 HOH 38 2038 2038 HOH HOH A . D 3 HOH 39 2039 2039 HOH HOH A . D 3 HOH 40 2040 2040 HOH HOH A . D 3 HOH 41 2041 2041 HOH HOH A . D 3 HOH 42 2042 2042 HOH HOH A . D 3 HOH 43 2043 2043 HOH HOH A . D 3 HOH 44 2044 2044 HOH HOH A . D 3 HOH 45 2045 2045 HOH HOH A . D 3 HOH 46 2046 2046 HOH HOH A . D 3 HOH 47 2047 2047 HOH HOH A . D 3 HOH 48 2048 2048 HOH HOH A . D 3 HOH 49 2049 2049 HOH HOH A . D 3 HOH 50 2050 2050 HOH HOH A . D 3 HOH 51 2051 2051 HOH HOH A . D 3 HOH 52 2052 2052 HOH HOH A . D 3 HOH 53 2053 2053 HOH HOH A . D 3 HOH 54 2054 2054 HOH HOH A . D 3 HOH 55 2055 2055 HOH HOH A . D 3 HOH 56 2056 2056 HOH HOH A . D 3 HOH 57 2057 2057 HOH HOH A . D 3 HOH 58 2058 2058 HOH HOH A . D 3 HOH 59 2059 2059 HOH HOH A . D 3 HOH 60 2060 2060 HOH HOH A . D 3 HOH 61 2061 2061 HOH HOH A . D 3 HOH 62 2062 2062 HOH HOH A . D 3 HOH 63 2063 2063 HOH HOH A . D 3 HOH 64 2064 2064 HOH HOH A . D 3 HOH 65 2065 2065 HOH HOH A . D 3 HOH 66 2066 2066 HOH HOH A . D 3 HOH 67 2067 2067 HOH HOH A . D 3 HOH 68 2068 2068 HOH HOH A . D 3 HOH 69 2069 2069 HOH HOH A . D 3 HOH 70 2070 2070 HOH HOH A . D 3 HOH 71 2071 2071 HOH HOH A . D 3 HOH 72 2072 2072 HOH HOH A . D 3 HOH 73 2073 2073 HOH HOH A . D 3 HOH 74 2074 2074 HOH HOH A . D 3 HOH 75 2075 2075 HOH HOH A . D 3 HOH 76 2076 2076 HOH HOH A . D 3 HOH 77 2077 2077 HOH HOH A . D 3 HOH 78 2078 2078 HOH HOH A . D 3 HOH 79 2079 2079 HOH HOH A . D 3 HOH 80 2080 2080 HOH HOH A . D 3 HOH 81 2081 2081 HOH HOH A . D 3 HOH 82 2082 2082 HOH HOH A . D 3 HOH 83 2083 2083 HOH HOH A . D 3 HOH 84 2084 2084 HOH HOH A . D 3 HOH 85 2085 2085 HOH HOH A . D 3 HOH 86 2086 2086 HOH HOH A . D 3 HOH 87 2087 2087 HOH HOH A . D 3 HOH 88 2088 2088 HOH HOH A . D 3 HOH 89 2089 2089 HOH HOH A . D 3 HOH 90 2090 2090 HOH HOH A . D 3 HOH 91 2091 2091 HOH HOH A . D 3 HOH 92 2092 2092 HOH HOH A . D 3 HOH 93 2093 2093 HOH HOH A . D 3 HOH 94 2094 2094 HOH HOH A . D 3 HOH 95 2095 2095 HOH HOH A . D 3 HOH 96 2096 2096 HOH HOH A . D 3 HOH 97 2097 2097 HOH HOH A . D 3 HOH 98 2098 2098 HOH HOH A . D 3 HOH 99 2099 2099 HOH HOH A . D 3 HOH 100 2100 2100 HOH HOH A . D 3 HOH 101 2101 2101 HOH HOH A . D 3 HOH 102 2102 2102 HOH HOH A . D 3 HOH 103 2103 2103 HOH HOH A . D 3 HOH 104 2104 2104 HOH HOH A . D 3 HOH 105 2105 2105 HOH HOH A . D 3 HOH 106 2106 2106 HOH HOH A . D 3 HOH 107 2107 2107 HOH HOH A . # _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,D # _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_ _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 NE2 ? A HIS 22 ? A HIS 106 ? 1_555 CO ? B CO . ? A CO 1198 ? 1_555 O ? D HOH . ? A HOH 2025 ? 1_555 77.6 ? 2 O ? D HOH . ? A HOH 2103 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2037 ? 1_555 88.3 ? 3 O ? D HOH . ? A HOH 2103 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2107 ? 1_555 95.1 ? 4 O ? D HOH . ? A HOH 2037 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2107 ? 1_555 88.5 ? 5 O ? D HOH . ? A HOH 2103 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2035 ? 1_555 89.0 ? 6 O ? D HOH . ? A HOH 2037 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2035 ? 1_555 88.3 ? 7 O ? D HOH . ? A HOH 2107 ? 1_555 CO ? C CO . ? A CO 1199 ? 1_555 O ? D HOH . ? A HOH 2035 ? 1_555 174.7 ? # 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 2014-04-02 2 'Structure model' 1 1 2014-07-09 3 'Structure model' 1 2 2014-07-23 4 'Structure model' 1 3 2019-03-06 5 'Structure model' 1 4 2019-05-08 # _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 ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Database references' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Experimental preparation' 5 4 'Structure model' Other 6 5 'Structure model' 'Data collection' 7 5 'Structure model' 'Experimental preparation' # 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' exptl_crystal_grow 2 4 'Structure model' pdbx_database_proc 3 4 'Structure model' pdbx_database_status 4 5 'Structure model' exptl_crystal_grow # 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' '_exptl_crystal_grow.temp' 2 4 'Structure model' '_pdbx_database_status.recvd_author_approval' 3 5 'Structure model' '_exptl_crystal_grow.method' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 12.1760 11.7280 19.0010 0.0804 0.0975 0.1545 -0.0123 -0.0517 -0.0380 8.9395 7.3508 17.9817 1.0838 -7.9584 -0.9160 0.1642 0.0900 -0.1094 0.3048 -0.1610 0.4807 0.4356 -0.3205 -0.0032 'X-RAY DIFFRACTION' 2 ? refined 26.1380 22.8200 10.3280 0.1682 0.1230 0.1014 0.0427 -0.0205 -0.0101 25.5995 7.1793 0.0626 12.2764 0.5931 0.3374 -0.0292 0.1721 -0.0937 -0.3190 -0.0267 -0.0041 -0.0541 0.0055 0.0559 'X-RAY DIFFRACTION' 3 ? refined 31.6900 26.9190 14.9790 0.1700 0.1012 0.1042 -0.0012 0.0588 -0.0069 14.4406 2.6146 0.9956 0.5104 -0.8660 1.4765 0.2440 -0.0935 0.1805 -0.2679 -0.1130 -0.0740 -0.2478 -0.0341 -0.1311 'X-RAY DIFFRACTION' 4 ? refined 13.6080 23.0420 14.5690 0.1198 0.1260 0.0830 0.0713 -0.0376 -0.0188 6.8432 2.2452 7.1527 -0.9502 -5.7626 1.8648 0.3554 0.4657 -0.0500 -0.1572 -0.2137 0.0831 -0.2965 -0.5823 -0.1417 'X-RAY DIFFRACTION' 5 ? refined 24.4080 27.0170 17.9060 0.1640 0.1063 0.1110 0.0210 0.0474 0.0059 18.6127 1.8419 0.4192 -0.0901 2.3473 0.4390 0.1535 0.1742 0.0613 -0.1938 -0.1223 -0.0155 -0.0557 -0.0010 -0.0311 'X-RAY DIFFRACTION' 6 ? refined 38.5550 21.6210 12.4500 0.2373 0.1424 0.1198 0.0401 0.0821 -0.0181 9.3862 0.7443 36.9236 -2.1487 4.4183 -3.8791 -0.0626 0.3059 -0.0691 -0.1171 -0.1573 0.0022 1.3992 0.6439 0.2200 'X-RAY DIFFRACTION' 7 ? refined 23.7080 17.1880 7.9620 0.2789 0.1961 0.1548 0.1011 -0.0271 -0.0358 9.9778 13.6937 0.4960 11.6853 2.2211 2.6044 -0.3760 0.3380 -0.0877 -0.4892 0.3817 -0.0909 -0.0997 0.0689 -0.0057 'X-RAY DIFFRACTION' 8 ? refined 17.6600 19.9500 23.8330 0.0753 0.0613 0.0749 0.0121 -0.0098 0.0079 2.5979 1.8732 1.4774 -0.1949 0.2017 0.9701 0.0481 0.0074 -0.0348 -0.0292 -0.0729 0.1233 -0.0555 -0.1447 0.0248 'X-RAY DIFFRACTION' 9 ? refined 30.6530 10.8850 16.6230 0.0525 0.0202 0.0480 0.0103 0.0053 -0.0162 4.0111 11.1135 10.9728 -1.7306 1.3655 6.0414 0.0905 -0.0365 0.1386 -0.1415 0.0427 -0.1568 0.2395 0.0869 -0.1331 'X-RAY DIFFRACTION' 10 ? refined 25.8760 16.8930 20.8310 0.1100 0.0825 0.1086 0.0024 -0.0169 0.0042 1.7640 1.8583 1.3249 -1.2922 -1.0721 1.4638 0.0750 0.0355 -0.0319 -0.1060 0.0040 0.0228 -0.1271 0.0069 -0.0790 'X-RAY DIFFRACTION' 11 ? refined 22.3710 26.5440 21.0110 0.1409 0.0839 0.0640 0.0163 0.0206 0.0112 9.0730 2.0561 0.9787 -1.5546 2.3997 0.2458 0.0911 0.0775 0.1318 -0.1506 -0.0962 -0.0257 -0.1396 -0.0178 0.0051 'X-RAY DIFFRACTION' 12 ? refined 11.8590 34.1140 14.7680 0.1062 0.1149 0.1255 0.0698 -0.0122 0.0580 33.6086 39.4838 16.4137 -26.9184 21.7682 -11.0007 0.2382 1.2515 1.4086 -1.0514 -1.0972 -1.2612 -0.1372 0.7934 0.8591 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 87 ? ? A 91 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 92 ? ? A 99 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 100 ? ? A 106 ? ? ? ? 'X-RAY DIFFRACTION' 4 4 A 107 ? ? A 113 ? ? ? ? 'X-RAY DIFFRACTION' 5 5 A 114 ? ? A 120 ? ? ? ? 'X-RAY DIFFRACTION' 6 6 A 121 ? ? A 127 ? ? ? ? 'X-RAY DIFFRACTION' 7 7 A 128 ? ? A 131 ? ? ? ? 'X-RAY DIFFRACTION' 8 8 A 132 ? ? A 151 ? ? ? ? 'X-RAY DIFFRACTION' 9 9 A 152 ? ? A 159 ? ? ? ? 'X-RAY DIFFRACTION' 10 10 A 160 ? ? A 184 ? ? ? ? 'X-RAY DIFFRACTION' 11 11 A 185 ? ? A 192 ? ? ? ? 'X-RAY DIFFRACTION' 12 12 A 193 ? ? A 197 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.8.0069 ? 1 XDS 'data reduction' . ? 2 XSCALE 'data scaling' . ? 3 SHELXD phasing . ? 4 # _pdbx_database_remark.id 700 _pdbx_database_remark.text ; SHEET DETERMINATION METHOD: DSSP THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS ARE IDENTICAL. ; # _pdbx_entry_details.entry_id 4CV7 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ;COBALT ION (CO): FROM CRYSTALLIZATION COCKTAIL THAT CONTAINED 0.01 M COCL2 ; _pdbx_entry_details.sequence_details ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 CE1 _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 TYR _pdbx_validate_rmsd_bond.auth_seq_id_1 102 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 CZ _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 TYR _pdbx_validate_rmsd_bond.auth_seq_id_2 102 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.484 _pdbx_validate_rmsd_bond.bond_target_value 1.381 _pdbx_validate_rmsd_bond.bond_deviation 0.103 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.013 _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 A ASP 91 ? ? CG A ASP 91 ? ? OD2 A ASP 91 ? ? 112.30 118.30 -6.00 0.90 N 2 1 CB A ASP 116 ? A CG A ASP 116 ? A OD1 A ASP 116 ? A 125.03 118.30 6.73 0.90 N 3 1 NE A ARG 141 ? ? CZ A ARG 141 ? ? NH2 A ARG 141 ? ? 116.04 120.30 -4.26 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 ALA A 100 ? A 43.87 -115.38 2 1 ALA A 100 ? B 89.02 -73.30 # loop_ _pdbx_validate_peptide_omega.id _pdbx_validate_peptide_omega.PDB_model_num _pdbx_validate_peptide_omega.auth_comp_id_1 _pdbx_validate_peptide_omega.auth_asym_id_1 _pdbx_validate_peptide_omega.auth_seq_id_1 _pdbx_validate_peptide_omega.PDB_ins_code_1 _pdbx_validate_peptide_omega.label_alt_id_1 _pdbx_validate_peptide_omega.auth_comp_id_2 _pdbx_validate_peptide_omega.auth_asym_id_2 _pdbx_validate_peptide_omega.auth_seq_id_2 _pdbx_validate_peptide_omega.PDB_ins_code_2 _pdbx_validate_peptide_omega.label_alt_id_2 _pdbx_validate_peptide_omega.omega 1 1 VAL A 182 ? A GLY A 183 ? A 80.82 2 1 GLY A 183 ? A VAL A 184 ? A 128.14 # _pdbx_validate_planes.id 1 _pdbx_validate_planes.PDB_model_num 1 _pdbx_validate_planes.auth_comp_id GLN _pdbx_validate_planes.auth_asym_id A _pdbx_validate_planes.auth_seq_id 150 _pdbx_validate_planes.PDB_ins_code ? _pdbx_validate_planes.label_alt_id ? _pdbx_validate_planes.rmsd 0.074 _pdbx_validate_planes.type 'SIDE CHAIN' # 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 GLU 85 ? A GLU 1 2 1 Y 1 A GLN 86 ? A GLN 2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'COBALT (II) ION' CO 3 water HOH #