data_2YMK # _entry.id 2YMK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2YMK PDBE EBI-54418 WWPDB D_1290054418 # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2YMK _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2012-10-09 _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 ? # _audit_author.name 'Zeth, K.' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal Structure and Functional Mechanism of a Human Antimicrobial Membrane Channel.' _citation.journal_abbrev Proc.Natl.Acad.Sci.USA _citation.journal_volume 110 _citation.page_first 4586 _citation.page_last ? _citation.year 2013 _citation.journal_id_ASTM PNASA6 _citation.country US _citation.journal_id_ISSN 0027-8424 _citation.journal_id_CSD 0040 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 23426625 _citation.pdbx_database_id_DOI 10.1073/PNAS.1214739110 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Song, C.' 1 primary 'Weichbrodt, C.' 2 primary 'Salnikov, E.S.' 3 primary 'Dynowski, M.' 4 primary 'Forsberg, B.O.' 5 primary 'Bechinger, B.' 6 primary 'Steinem, C.' 7 primary 'De Groot, B.L.' 8 primary 'Zachariae, U.' 9 primary 'Zeth, K.' 10 # _cell.entry_id 2YMK _cell.length_a 76.354 _cell.length_b 50.724 _cell.length_c 45.738 _cell.angle_alpha 90.00 _cell.angle_beta 117.74 _cell.angle_gamma 90.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YMK _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 # 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 DCD-1 4826.503 3 3.4.-.- ? 'PEPTIDE, RESIDUES 63-110' 'PEPTIDE OF 48 RESIDUES' 2 non-polymer syn 'ZINC ION' 65.409 6 ? ? ? ? 3 water nat water 18.015 24 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'DERMCIDIN, PREPROTEOLYSIN, SURVIVAL-PROMOTING PEPTIDE' # _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 SSLLEKGLDGAKKAVGGLGKLGKDAVEDLESVGKGAVHDVKDVLDSVL _entity_poly.pdbx_seq_one_letter_code_can SSLLEKGLDGAKKAVGGLGKLGKDAVEDLESVGKGAVHDVKDVLDSVL _entity_poly.pdbx_strand_id A,B,C _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 SER n 1 2 SER n 1 3 LEU n 1 4 LEU n 1 5 GLU n 1 6 LYS n 1 7 GLY n 1 8 LEU n 1 9 ASP n 1 10 GLY n 1 11 ALA n 1 12 LYS n 1 13 LYS n 1 14 ALA n 1 15 VAL n 1 16 GLY n 1 17 GLY n 1 18 LEU n 1 19 GLY n 1 20 LYS n 1 21 LEU n 1 22 GLY n 1 23 LYS n 1 24 ASP n 1 25 ALA n 1 26 VAL n 1 27 GLU n 1 28 ASP n 1 29 LEU n 1 30 GLU n 1 31 SER n 1 32 VAL n 1 33 GLY n 1 34 LYS n 1 35 GLY n 1 36 ALA n 1 37 VAL n 1 38 HIS n 1 39 ASP n 1 40 VAL n 1 41 LYS n 1 42 ASP n 1 43 VAL n 1 44 LEU n 1 45 ASP n 1 46 SER n 1 47 VAL n 1 48 LEU n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'HOMO SAPIENS' _pdbx_entity_src_syn.organism_common_name HUMAN _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code DCD_HUMAN _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_db_accession P81605 _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 2YMK A 1 ? 48 ? P81605 63 ? 110 ? 1 48 2 1 2YMK B 1 ? 48 ? P81605 63 ? 110 ? 1 48 3 1 2YMK C 1 ? 48 ? P81605 63 ? 110 ? 1 48 # 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 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 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 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # _exptl.entry_id 2YMK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.71 _exptl_crystal.density_percent_sol 54.56 _exptl_crystal.description NONE # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '0.2 M ZN(AC)2, 0.1 M NA-CACODYLATE, 18% PEG8000 AT PH 6.5' # _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 ? _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 1.27 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X10SA' _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X10SA _diffrn_source.pdbx_wavelength 1.27 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 2YMK _reflns.observed_criterion_sigma_I 2.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 33.00 _reflns.d_resolution_high 2.50 _reflns.number_obs 5189 _reflns.number_all ? _reflns.percent_possible_obs 98.8 _reflns.pdbx_Rmerge_I_obs 0.02 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 17.00 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 7.2 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 2.50 _reflns_shell.d_res_low 2.56 _reflns_shell.percent_possible_all 96.8 _reflns_shell.Rmerge_I_obs 0.51 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.95 _reflns_shell.pdbx_redundancy 7.1 # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 2YMK _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 5189 _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 33.79 _refine.ls_d_res_high 2.49 _refine.ls_percent_reflns_obs 98.82 _refine.ls_R_factor_obs 0.20838 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.20466 _refine.ls_R_factor_R_free 0.27384 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.6 _refine.ls_number_reflns_R_free 252 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.958 _refine.correlation_coeff_Fo_to_Fc_free 0.932 _refine.B_iso_mean 50.651 _refine.aniso_B[1][1] -50.26 _refine.aniso_B[2][2] 21.97 _refine.aniso_B[3][3] 28.29 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 42.34 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _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.' _refine.pdbx_starting_model NONE _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 0.103 _refine.pdbx_overall_ESU_R_Free 0.065 _refine.overall_SU_ML 0.245 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 24.582 _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 980 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 6 _refine_hist.number_atoms_solvent 24 _refine_hist.number_atoms_total 1010 _refine_hist.d_res_high 2.49 _refine_hist.d_res_low 33.79 # 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 0.023 0.022 ? 980 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.333 2.032 ? 1307 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 7.754 5.000 ? 137 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 29.181 29.000 ? 30 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 24.401 15.000 ? 194 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_chiral_restr 0.127 0.200 ? 160 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.020 ? 674 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? '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 0.867 1.500 ? 673 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.613 2.000 ? 1046 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 2.083 3.000 ? 307 'X-RAY DIFFRACTION' ? r_scbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it 3.784 4.500 ? 261 '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' ? # loop_ _refine_ls_restr_ncs.dom_id _refine_ls_restr_ncs.pdbx_auth_asym_id _refine_ls_restr_ncs.pdbx_number _refine_ls_restr_ncs.rms_dev_position _refine_ls_restr_ncs.weight_position _refine_ls_restr_ncs.pdbx_type _refine_ls_restr_ncs.pdbx_ens_id _refine_ls_restr_ncs.pdbx_ordinal _refine_ls_restr_ncs.pdbx_refine_id _refine_ls_restr_ncs.ncs_model_details _refine_ls_restr_ncs.rms_dev_B_iso _refine_ls_restr_ncs.weight_B_iso 1 A 318 0.38 0.50 'medium positional' 1 1 'X-RAY DIFFRACTION' ? ? ? 2 B 318 0.45 0.50 'medium positional' 1 2 'X-RAY DIFFRACTION' ? ? ? 3 C 318 0.48 0.50 'medium positional' 1 3 'X-RAY DIFFRACTION' ? ? ? 1 A 318 0.83 2.00 'medium thermal' 1 4 'X-RAY DIFFRACTION' ? ? ? 2 B 318 0.88 2.00 'medium thermal' 1 5 'X-RAY DIFFRACTION' ? ? ? 3 C 318 0.67 2.00 'medium thermal' 1 6 '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 2.493 _refine_ls_shell.d_res_low 2.558 _refine_ls_shell.number_reflns_R_work 349 _refine_ls_shell.R_factor_R_work 0.234 _refine_ls_shell.percent_reflns_obs 86.09 _refine_ls_shell.R_factor_R_free 0.267 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 10 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # loop_ _struct_ncs_dom.id _struct_ncs_dom.details _struct_ncs_dom.pdbx_ens_id 1 A 1 2 B 1 3 C 1 # loop_ _struct_ncs_dom_lim.dom_id _struct_ncs_dom_lim.beg_auth_asym_id _struct_ncs_dom_lim.beg_auth_seq_id _struct_ncs_dom_lim.end_auth_asym_id _struct_ncs_dom_lim.end_auth_seq_id _struct_ncs_dom_lim.pdbx_component_id _struct_ncs_dom_lim.pdbx_refine_code _struct_ncs_dom_lim.beg_label_asym_id _struct_ncs_dom_lim.beg_label_comp_id _struct_ncs_dom_lim.beg_label_seq_id _struct_ncs_dom_lim.beg_label_alt_id _struct_ncs_dom_lim.end_label_asym_id _struct_ncs_dom_lim.end_label_comp_id _struct_ncs_dom_lim.end_label_seq_id _struct_ncs_dom_lim.end_label_alt_id _struct_ncs_dom_lim.pdbx_ens_id _struct_ncs_dom_lim.selection_details 1 A 2 A 48 1 4 ? ? ? ? ? ? ? ? 1 ? 2 B 2 B 48 1 4 ? ? ? ? ? ? ? ? 1 ? 3 C 2 C 48 1 4 ? ? ? ? ? ? ? ? 1 ? # _struct_ncs_ens.id 1 _struct_ncs_ens.details ? # _struct.entry_id 2YMK _struct.title 'Crystal structure of the hexameric anti-microbial peptide channel dermcidin' _struct.pdbx_descriptor 'DCD-1 (E.C.3.4.-.-)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2YMK _struct_keywords.pdbx_keywords ANTIBIOTIC _struct_keywords.text 'ANTIBIOTIC, ANTI-MICROBIAL PEPTIDE CHANNEL, MEMBRANE SPANNING PEPTIDE, HUMAN EPIDERMAL SURFACE' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 1 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? I N N 2 ? J N N 3 ? K N N 3 ? L 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 LEU A 4 ? SER A 46 ? LEU A 4 SER A 46 1 ? 43 HELX_P HELX_P2 2 SER B 2 ? SER B 46 ? SER B 2 SER B 46 1 ? 45 HELX_P HELX_P3 3 SER C 2 ? VAL C 47 ? SER C 2 VAL C 47 1 ? 46 # _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 ? ? D ZN . ZN ? ? ? 1_555 A ASP 42 OD2 ? ? A ZN 1049 A ASP 42 1_555 ? ? ? ? ? ? ? 1.871 ? metalc2 metalc ? ? D ZN . ZN ? ? ? 1_555 A HIS 38 NE2 ? ? A ZN 1049 A HIS 38 1_555 ? ? ? ? ? ? ? 2.381 ? metalc3 metalc ? ? D ZN . ZN ? ? ? 1_555 B GLU 5 OE2 ? ? A ZN 1049 B GLU 5 2_556 ? ? ? ? ? ? ? 2.418 ? metalc4 metalc ? ? E ZN . ZN ? ? ? 1_555 J HOH . O ? ? A ZN 1050 A HOH 2003 1_555 ? ? ? ? ? ? ? 2.258 ? metalc5 metalc ? ? E ZN . ZN ? ? ? 1_555 A ASP 28 OD2 ? ? A ZN 1050 A ASP 28 1_555 ? ? ? ? ? ? ? 2.255 ? metalc6 metalc ? ? B ASP 9 OD2 ? ? ? 1_555 D ZN . ZN ? ? B ASP 9 A ZN 1049 2_556 ? ? ? ? ? ? ? 1.669 ? metalc7 metalc ? ? B ASP 9 OD2 ? ? ? 2_556 D ZN . ZN ? ? B ASP 9 A ZN 1049 1_555 ? ? ? ? ? ? ? 1.669 ? metalc8 metalc ? ? F ZN . ZN ? ? ? 1_555 B HIS 38 NE2 ? ? B ZN 1049 B HIS 38 1_555 ? ? ? ? ? ? ? 2.373 ? metalc9 metalc ? ? F ZN . ZN ? ? ? 1_555 B ASP 42 OD2 ? ? B ZN 1049 B ASP 42 1_555 ? ? ? ? ? ? ? 2.322 ? metalc10 metalc ? ? F ZN . ZN ? ? ? 1_555 A ASP 9 OD2 ? ? B ZN 1049 A ASP 9 2_556 ? ? ? ? ? ? ? 1.940 ? metalc11 metalc ? ? G ZN . ZN ? ? ? 1_555 K HOH . O ? ? B ZN 1050 B HOH 2009 1_555 ? ? ? ? ? ? ? 2.656 ? metalc12 metalc ? ? G ZN . ZN ? ? ? 1_555 K HOH . O ? ? B ZN 1050 B HOH 2002 1_555 ? ? ? ? ? ? ? 2.549 ? metalc13 metalc ? ? G ZN . ZN ? ? ? 1_555 B ASP 28 OD2 ? ? B ZN 1050 B ASP 28 1_555 ? ? ? ? ? ? ? 2.621 ? metalc14 metalc ? ? H ZN . ZN ? ? ? 1_555 C ASP 9 OD2 ? ? C ZN 1049 C ASP 9 2_556 ? ? ? ? ? ? ? 2.192 ? metalc15 metalc ? ? H ZN . ZN ? ? ? 1_555 C ASP 42 OD2 ? ? C ZN 1049 C ASP 42 1_555 ? ? ? ? ? ? ? 2.025 ? metalc16 metalc ? ? H ZN . ZN ? ? ? 1_555 C ASP 42 OD1 ? ? C ZN 1049 C ASP 42 1_555 ? ? ? ? ? ? ? 2.546 ? metalc17 metalc ? ? H ZN . ZN ? ? ? 1_555 C HIS 38 NE2 ? ? C ZN 1049 C HIS 38 1_555 ? ? ? ? ? ? ? 2.248 ? metalc18 metalc ? ? H ZN . ZN ? ? ? 1_555 C GLU 5 OE1 ? ? C ZN 1049 C GLU 5 2_556 ? ? ? ? ? ? ? 2.470 ? metalc19 metalc ? ? I ZN . ZN ? ? ? 1_555 L HOH . O ? ? C ZN 1050 C HOH 2005 1_555 ? ? ? ? ? ? ? 2.425 ? metalc20 metalc ? ? I ZN . ZN ? ? ? 1_555 C ASP 28 OD2 ? ? C ZN 1050 C ASP 28 1_555 ? ? ? ? ? ? ? 2.591 ? # _struct_conn_type.id metalc _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 ? ? ? ? 4 'BINDING SITE FOR RESIDUE ZN A 1049' AC2 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE ZN B 1049' AC3 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE ZN C 1049' AC4 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE ZN A 1050' AC5 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE ZN B 1050' AC6 Software ? ? ? ? 3 'BINDING SITE FOR RESIDUE ZN C 1050' # 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 4 HIS A 38 ? HIS A 38 . ? 1_555 ? 2 AC1 4 ASP A 42 ? ASP A 42 . ? 1_555 ? 3 AC1 4 GLU B 5 ? GLU B 5 . ? 2_556 ? 4 AC1 4 ASP B 9 ? ASP B 9 . ? 2_556 ? 5 AC2 4 GLU A 5 ? GLU A 5 . ? 2_556 ? 6 AC2 4 ASP A 9 ? ASP A 9 . ? 2_556 ? 7 AC2 4 HIS B 38 ? HIS B 38 . ? 1_555 ? 8 AC2 4 ASP B 42 ? ASP B 42 . ? 1_555 ? 9 AC3 4 GLU C 5 ? GLU C 5 . ? 2_556 ? 10 AC3 4 ASP C 9 ? ASP C 9 . ? 2_556 ? 11 AC3 4 HIS C 38 ? HIS C 38 . ? 1_555 ? 12 AC3 4 ASP C 42 ? ASP C 42 . ? 1_555 ? 13 AC4 5 ASP A 24 ? ASP A 24 . ? 1_555 ? 14 AC4 5 ASP A 28 ? ASP A 28 . ? 1_555 ? 15 AC4 5 HOH J . ? HOH A 2003 . ? 1_555 ? 16 AC4 5 LYS B 6 ? LYS B 6 . ? 1_554 ? 17 AC4 5 LYS B 20 ? LYS B 20 . ? 2_556 ? 18 AC5 4 ASP B 24 ? ASP B 24 . ? 1_555 ? 19 AC5 4 ASP B 28 ? ASP B 28 . ? 1_555 ? 20 AC5 4 HOH K . ? HOH B 2002 . ? 1_555 ? 21 AC5 4 HOH K . ? HOH B 2009 . ? 1_555 ? 22 AC6 3 ASP C 24 ? ASP C 24 . ? 1_555 ? 23 AC6 3 ASP C 28 ? ASP C 28 . ? 1_555 ? 24 AC6 3 HOH L . ? HOH C 2005 . ? 1_555 ? # _database_PDB_matrix.entry_id 2YMK _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 2YMK _atom_sites.fract_transf_matrix[1][1] 0.013097 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.006888 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.019715 _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] 0.024703 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O ZN # 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 SER 1 1 ? ? ? A . n A 1 2 SER 2 2 ? ? ? A . n A 1 3 LEU 3 3 3 LEU LEU A . n A 1 4 LEU 4 4 4 LEU LEU A . n A 1 5 GLU 5 5 5 GLU GLU A . n A 1 6 LYS 6 6 6 LYS LYS A . n A 1 7 GLY 7 7 7 GLY GLY A . n A 1 8 LEU 8 8 8 LEU LEU A . n A 1 9 ASP 9 9 9 ASP ASP A . n A 1 10 GLY 10 10 10 GLY GLY A . n A 1 11 ALA 11 11 11 ALA ALA A . n A 1 12 LYS 12 12 12 LYS LYS A . n A 1 13 LYS 13 13 13 LYS LYS A . n A 1 14 ALA 14 14 14 ALA ALA A . n A 1 15 VAL 15 15 15 VAL VAL A . n A 1 16 GLY 16 16 16 GLY GLY A . n A 1 17 GLY 17 17 17 GLY GLY A . n A 1 18 LEU 18 18 18 LEU LEU A . n A 1 19 GLY 19 19 19 GLY GLY A . n A 1 20 LYS 20 20 20 LYS LYS A . n A 1 21 LEU 21 21 21 LEU LEU A . n A 1 22 GLY 22 22 22 GLY GLY A . n A 1 23 LYS 23 23 23 LYS LYS A . n A 1 24 ASP 24 24 24 ASP ASP A . n A 1 25 ALA 25 25 25 ALA ALA A . n A 1 26 VAL 26 26 26 VAL VAL A . n A 1 27 GLU 27 27 27 GLU GLU A . n A 1 28 ASP 28 28 28 ASP ASP A . n A 1 29 LEU 29 29 29 LEU LEU A . n A 1 30 GLU 30 30 30 GLU GLU A . n A 1 31 SER 31 31 31 SER SER A . n A 1 32 VAL 32 32 32 VAL VAL A . n A 1 33 GLY 33 33 33 GLY GLY A . n A 1 34 LYS 34 34 34 LYS LYS A . n A 1 35 GLY 35 35 35 GLY GLY A . n A 1 36 ALA 36 36 36 ALA ALA A . n A 1 37 VAL 37 37 37 VAL VAL A . n A 1 38 HIS 38 38 38 HIS HIS A . n A 1 39 ASP 39 39 39 ASP ASP A . n A 1 40 VAL 40 40 40 VAL VAL A . n A 1 41 LYS 41 41 41 LYS LYS A . n A 1 42 ASP 42 42 42 ASP ASP A . n A 1 43 VAL 43 43 43 VAL VAL A . n A 1 44 LEU 44 44 44 LEU LEU A . n A 1 45 ASP 45 45 45 ASP ASP A . n A 1 46 SER 46 46 46 SER SER A . n A 1 47 VAL 47 47 47 VAL VAL A . n A 1 48 LEU 48 48 48 LEU LEU A . n B 1 1 SER 1 1 ? ? ? B . n B 1 2 SER 2 2 2 SER SER B . n B 1 3 LEU 3 3 3 LEU LEU B . n B 1 4 LEU 4 4 4 LEU LEU B . n B 1 5 GLU 5 5 5 GLU GLU B . n B 1 6 LYS 6 6 6 LYS LYS B . n B 1 7 GLY 7 7 7 GLY GLY B . n B 1 8 LEU 8 8 8 LEU LEU B . n B 1 9 ASP 9 9 9 ASP ASP B . n B 1 10 GLY 10 10 10 GLY GLY B . n B 1 11 ALA 11 11 11 ALA ALA B . n B 1 12 LYS 12 12 12 LYS LYS B . n B 1 13 LYS 13 13 13 LYS LYS B . n B 1 14 ALA 14 14 14 ALA ALA B . n B 1 15 VAL 15 15 15 VAL VAL B . n B 1 16 GLY 16 16 16 GLY GLY B . n B 1 17 GLY 17 17 17 GLY GLY B . n B 1 18 LEU 18 18 18 LEU LEU B . n B 1 19 GLY 19 19 19 GLY GLY B . n B 1 20 LYS 20 20 20 LYS LYS B . n B 1 21 LEU 21 21 21 LEU LEU B . n B 1 22 GLY 22 22 22 GLY GLY B . n B 1 23 LYS 23 23 23 LYS LYS B . n B 1 24 ASP 24 24 24 ASP ASP B . n B 1 25 ALA 25 25 25 ALA ALA B . n B 1 26 VAL 26 26 26 VAL VAL B . n B 1 27 GLU 27 27 27 GLU GLU B . n B 1 28 ASP 28 28 28 ASP ASP B . n B 1 29 LEU 29 29 29 LEU LEU B . n B 1 30 GLU 30 30 30 GLU GLU B . n B 1 31 SER 31 31 31 SER SER B . n B 1 32 VAL 32 32 32 VAL VAL B . n B 1 33 GLY 33 33 33 GLY GLY B . n B 1 34 LYS 34 34 34 LYS LYS B . n B 1 35 GLY 35 35 35 GLY GLY B . n B 1 36 ALA 36 36 36 ALA ALA B . n B 1 37 VAL 37 37 37 VAL VAL B . n B 1 38 HIS 38 38 38 HIS HIS B . n B 1 39 ASP 39 39 39 ASP ASP B . n B 1 40 VAL 40 40 40 VAL VAL B . n B 1 41 LYS 41 41 41 LYS LYS B . n B 1 42 ASP 42 42 42 ASP ASP B . n B 1 43 VAL 43 43 43 VAL VAL B . n B 1 44 LEU 44 44 44 LEU LEU B . n B 1 45 ASP 45 45 45 ASP ASP B . n B 1 46 SER 46 46 46 SER SER B . n B 1 47 VAL 47 47 47 VAL VAL B . n B 1 48 LEU 48 48 48 LEU LEU B . n C 1 1 SER 1 1 ? ? ? C . n C 1 2 SER 2 2 2 SER SER C . n C 1 3 LEU 3 3 3 LEU LEU C . n C 1 4 LEU 4 4 4 LEU LEU C . n C 1 5 GLU 5 5 5 GLU GLU C . n C 1 6 LYS 6 6 6 LYS LYS C . n C 1 7 GLY 7 7 7 GLY GLY C . n C 1 8 LEU 8 8 8 LEU LEU C . n C 1 9 ASP 9 9 9 ASP ASP C . n C 1 10 GLY 10 10 10 GLY GLY C . n C 1 11 ALA 11 11 11 ALA ALA C . n C 1 12 LYS 12 12 12 LYS LYS C . n C 1 13 LYS 13 13 13 LYS LYS C . n C 1 14 ALA 14 14 14 ALA ALA C . n C 1 15 VAL 15 15 15 VAL VAL C . n C 1 16 GLY 16 16 16 GLY GLY C . n C 1 17 GLY 17 17 17 GLY GLY C . n C 1 18 LEU 18 18 18 LEU LEU C . n C 1 19 GLY 19 19 19 GLY GLY C . n C 1 20 LYS 20 20 20 LYS LYS C . n C 1 21 LEU 21 21 21 LEU LEU C . n C 1 22 GLY 22 22 22 GLY GLY C . n C 1 23 LYS 23 23 23 LYS LYS C . n C 1 24 ASP 24 24 24 ASP ASP C . n C 1 25 ALA 25 25 25 ALA ALA C . n C 1 26 VAL 26 26 26 VAL VAL C . n C 1 27 GLU 27 27 27 GLU GLU C . n C 1 28 ASP 28 28 28 ASP ASP C . n C 1 29 LEU 29 29 29 LEU LEU C . n C 1 30 GLU 30 30 30 GLU GLU C . n C 1 31 SER 31 31 31 SER SER C . n C 1 32 VAL 32 32 32 VAL VAL C . n C 1 33 GLY 33 33 33 GLY GLY C . n C 1 34 LYS 34 34 34 LYS LYS C . n C 1 35 GLY 35 35 35 GLY GLY C . n C 1 36 ALA 36 36 36 ALA ALA C . n C 1 37 VAL 37 37 37 VAL VAL C . n C 1 38 HIS 38 38 38 HIS HIS C . n C 1 39 ASP 39 39 39 ASP ASP C . n C 1 40 VAL 40 40 40 VAL VAL C . n C 1 41 LYS 41 41 41 LYS LYS C . n C 1 42 ASP 42 42 42 ASP ASP C . n C 1 43 VAL 43 43 43 VAL VAL C . n C 1 44 LEU 44 44 44 LEU LEU C . n C 1 45 ASP 45 45 45 ASP ASP C . n C 1 46 SER 46 46 46 SER SER C . n C 1 47 VAL 47 47 47 VAL VAL C . n C 1 48 LEU 48 48 48 LEU LEU 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 D 2 ZN 1 1049 1049 ZN ZN A . E 2 ZN 1 1050 1050 ZN ZN A . F 2 ZN 1 1049 1049 ZN ZN B . G 2 ZN 1 1050 1050 ZN ZN B . H 2 ZN 1 1049 1049 ZN ZN C . I 2 ZN 1 1050 1050 ZN ZN C . J 3 HOH 1 2001 2001 HOH HOH A . J 3 HOH 2 2002 2002 HOH HOH A . J 3 HOH 3 2003 2003 HOH HOH A . J 3 HOH 4 2004 2004 HOH HOH A . J 3 HOH 5 2005 2005 HOH HOH A . J 3 HOH 6 2006 2006 HOH HOH A . J 3 HOH 7 2007 2007 HOH HOH A . J 3 HOH 8 2008 2008 HOH HOH A . J 3 HOH 9 2009 2009 HOH HOH A . J 3 HOH 10 2010 2010 HOH HOH A . K 3 HOH 1 2001 2001 HOH HOH B . K 3 HOH 2 2002 2002 HOH HOH B . K 3 HOH 3 2003 2003 HOH HOH B . K 3 HOH 4 2004 2004 HOH HOH B . K 3 HOH 5 2005 2005 HOH HOH B . K 3 HOH 6 2006 2006 HOH HOH B . K 3 HOH 7 2007 2007 HOH HOH B . K 3 HOH 8 2008 2008 HOH HOH B . K 3 HOH 9 2009 2009 HOH HOH B . L 3 HOH 1 2001 2001 HOH HOH C . L 3 HOH 2 2002 2002 HOH HOH C . L 3 HOH 3 2003 2003 HOH HOH C . L 3 HOH 4 2004 2004 HOH HOH C . L 3 HOH 5 2005 2005 HOH HOH C . # _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L # 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)' 9860 ? 1 MORE -423.3 ? 1 'SSA (A^2)' 17440 ? # 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_556 -x,y,-z+1 -1.0000000000 0.0000000000 0.0000000000 -21.2892119386 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 40.4812808473 # 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 OD2 ? A ASP 42 ? A ASP 42 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 NE2 ? A HIS 38 ? A HIS 38 ? 1_555 108.2 ? 2 OD2 ? A ASP 42 ? A ASP 42 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OE2 ? B GLU 5 ? B GLU 5 ? 2_556 119.5 ? 3 NE2 ? A HIS 38 ? A HIS 38 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OE2 ? B GLU 5 ? B GLU 5 ? 2_556 110.7 ? 4 OD2 ? A ASP 42 ? A ASP 42 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 1_555 139.3 ? 5 NE2 ? A HIS 38 ? A HIS 38 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 1_555 46.5 ? 6 OE2 ? B GLU 5 ? B GLU 5 ? 2_556 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 1_555 100.8 ? 7 OD2 ? A ASP 42 ? A ASP 42 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 2_556 120.3 ? 8 NE2 ? A HIS 38 ? A HIS 38 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 2_556 106.2 ? 9 OE2 ? B GLU 5 ? B GLU 5 ? 2_556 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 2_556 90.5 ? 10 OD2 ? B ASP 9 ? B ASP 9 ? 1_555 ZN ? D ZN . ? A ZN 1049 ? 1_555 OD2 ? B ASP 9 ? B ASP 9 ? 2_556 60.6 ? 11 O ? J HOH . ? A HOH 2003 ? 1_555 ZN ? E ZN . ? A ZN 1050 ? 1_555 OD2 ? A ASP 28 ? A ASP 28 ? 1_555 123.6 ? 12 NE2 ? B HIS 38 ? B HIS 38 ? 1_555 ZN ? F ZN . ? B ZN 1049 ? 1_555 OD2 ? B ASP 42 ? B ASP 42 ? 1_555 127.6 ? 13 NE2 ? B HIS 38 ? B HIS 38 ? 1_555 ZN ? F ZN . ? B ZN 1049 ? 1_555 OD2 ? A ASP 9 ? A ASP 9 ? 2_556 100.6 ? 14 OD2 ? B ASP 42 ? B ASP 42 ? 1_555 ZN ? F ZN . ? B ZN 1049 ? 1_555 OD2 ? A ASP 9 ? A ASP 9 ? 2_556 83.1 ? 15 O ? K HOH . ? B HOH 2009 ? 1_555 ZN ? G ZN . ? B ZN 1050 ? 1_555 O ? K HOH . ? B HOH 2002 ? 1_555 116.2 ? 16 O ? K HOH . ? B HOH 2009 ? 1_555 ZN ? G ZN . ? B ZN 1050 ? 1_555 OD2 ? B ASP 28 ? B ASP 28 ? 1_555 88.4 ? 17 O ? K HOH . ? B HOH 2002 ? 1_555 ZN ? G ZN . ? B ZN 1050 ? 1_555 OD2 ? B ASP 28 ? B ASP 28 ? 1_555 136.1 ? 18 OD2 ? C ASP 9 ? C ASP 9 ? 2_556 ZN ? H ZN . ? C ZN 1049 ? 1_555 OD2 ? C ASP 42 ? C ASP 42 ? 1_555 85.2 ? 19 OD2 ? C ASP 9 ? C ASP 9 ? 2_556 ZN ? H ZN . ? C ZN 1049 ? 1_555 OD1 ? C ASP 42 ? C ASP 42 ? 1_555 140.3 ? 20 OD2 ? C ASP 42 ? C ASP 42 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 OD1 ? C ASP 42 ? C ASP 42 ? 1_555 55.2 ? 21 OD2 ? C ASP 9 ? C ASP 9 ? 2_556 ZN ? H ZN . ? C ZN 1049 ? 1_555 NE2 ? C HIS 38 ? C HIS 38 ? 1_555 92.3 ? 22 OD2 ? C ASP 42 ? C ASP 42 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 NE2 ? C HIS 38 ? C HIS 38 ? 1_555 125.0 ? 23 OD1 ? C ASP 42 ? C ASP 42 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 NE2 ? C HIS 38 ? C HIS 38 ? 1_555 111.6 ? 24 OD2 ? C ASP 9 ? C ASP 9 ? 2_556 ZN ? H ZN . ? C ZN 1049 ? 1_555 OE1 ? C GLU 5 ? C GLU 5 ? 2_556 104.3 ? 25 OD2 ? C ASP 42 ? C ASP 42 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 OE1 ? C GLU 5 ? C GLU 5 ? 2_556 113.5 ? 26 OD1 ? C ASP 42 ? C ASP 42 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 OE1 ? C GLU 5 ? C GLU 5 ? 2_556 90.9 ? 27 NE2 ? C HIS 38 ? C HIS 38 ? 1_555 ZN ? H ZN . ? C ZN 1049 ? 1_555 OE1 ? C GLU 5 ? C GLU 5 ? 2_556 120.2 ? 28 O ? L HOH . ? C HOH 2005 ? 1_555 ZN ? I ZN . ? C ZN 1050 ? 1_555 OD2 ? C ASP 28 ? C ASP 28 ? 1_555 102.9 ? # 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 2012-10-17 2 'Structure model' 1 1 2013-03-06 3 'Structure model' 1 2 2013-04-03 4 'Structure model' 1 3 2013-12-25 # _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 2 'Structure model' Other 3 3 'Structure model' 'Database references' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Structure summary' # 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 -11.0071 32.4357 9.3482 0.2763 0.1843 0.1683 0.0302 -0.0804 0.0159 23.3757 0.8216 3.2015 0.9891 -7.6477 -0.1003 0.6065 -0.2339 -0.7673 0.1665 -0.4438 -0.0748 -0.2649 0.1321 -0.1627 'X-RAY DIFFRACTION' 2 ? refined -4.7870 22.6749 22.5494 0.2874 0.1588 0.2289 -0.0054 -0.0719 -0.0419 20.5597 0.7938 5.6204 0.3320 -10.1188 0.0376 1.1283 -0.3778 0.3963 0.0200 -0.5777 -0.0676 -0.9228 0.2419 -0.5505 'X-RAY DIFFRACTION' 3 ? refined -4.5679 40.2994 23.8052 0.2658 0.2085 0.1110 -0.0073 -0.1018 -0.0066 21.1139 1.4125 3.1177 -2.1127 -7.4740 0.7043 0.5495 0.7708 0.0594 -0.1240 -0.2946 -0.0900 -0.3434 -0.2392 -0.2549 # 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 3 ? ? A 48 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 B 4 ? ? B 48 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 C 3 ? ? C 48 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.5.0102 ? 1 XDS 'data reduction' . ? 2 XSCALE 'data scaling' . ? 3 SHARP phasing . ? 4 DM phasing . ? 5 BUCCANEER phasing . ? 6 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 CB _pdbx_validate_rmsd_angle.auth_asym_id_1 C _pdbx_validate_rmsd_angle.auth_comp_id_1 VAL _pdbx_validate_rmsd_angle.auth_seq_id_1 37 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CA _pdbx_validate_rmsd_angle.auth_asym_id_2 C _pdbx_validate_rmsd_angle.auth_comp_id_2 VAL _pdbx_validate_rmsd_angle.auth_seq_id_2 37 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 C _pdbx_validate_rmsd_angle.auth_asym_id_3 C _pdbx_validate_rmsd_angle.auth_comp_id_3 VAL _pdbx_validate_rmsd_angle.auth_seq_id_3 37 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 99.81 _pdbx_validate_rmsd_angle.angle_target_value 111.40 _pdbx_validate_rmsd_angle.angle_deviation -11.59 _pdbx_validate_rmsd_angle.angle_standard_deviation 1.90 _pdbx_validate_rmsd_angle.linker_flag 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 VAL A 32 ? ? -48.92 -81.08 2 1 LEU A 44 ? ? -62.14 2.26 3 1 SER A 46 ? ? -67.16 9.71 4 1 ALA B 25 ? ? -28.44 -56.61 5 1 VAL B 26 ? ? -62.17 -71.67 6 1 GLU B 27 ? ? -26.51 -48.38 7 1 VAL B 37 ? ? -46.10 -73.47 8 1 LEU C 44 ? ? -72.20 24.81 # 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 C LEU 21 ? CG ? C LEU 21 CG 2 1 Y 1 C LEU 21 ? CD1 ? C LEU 21 CD1 3 1 Y 1 C LEU 21 ? CD2 ? C LEU 21 CD2 4 1 Y 1 C LYS 41 ? CG ? C LYS 41 CG 5 1 Y 1 C LYS 41 ? CD ? C LYS 41 CD 6 1 Y 1 C LYS 41 ? CE ? C LYS 41 CE 7 1 Y 1 C LYS 41 ? NZ ? C LYS 41 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 SER 1 ? A SER 1 2 1 Y 1 A SER 2 ? A SER 2 3 1 Y 1 B SER 1 ? B SER 1 4 1 Y 1 C SER 1 ? C SER 1 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'ZINC ION' ZN 3 water HOH # loop_ _pdbx_reflns_twin.domain_id _pdbx_reflns_twin.crystal_id _pdbx_reflns_twin.diffrn_id _pdbx_reflns_twin.type _pdbx_reflns_twin.operator _pdbx_reflns_twin.fraction 1 1 1 ? 'H, K, L' 0.328 2 1 1 ? '-0.500H+0.500K+L, 0.500H-0.500K+L, 0.500H+0.5' 0.268 3 1 1 ? '-0.500H-0.500K+L, -0.500H-0.500K-L, 0.500H-0.5' 0.403 #