data_2BDX # _model_server_result.job_id t2sZobhvEqXcbC2rGILkXw _model_server_result.datetime_utc '2024-11-26 05:31:20' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 2bdx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 2BDX # _exptl.entry_id 2BDX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 2BDX _cell.length_a 99.978 _cell.length_b 99.978 _cell.length_c 62.949 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2BDX _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 B C DAL 1 B DAL 1 1_555 B N LEU 2 B LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale2 B N DAL 1 B DAL 1 1_555 B C MAA 7 B MAA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale3 B C LEU 2 B LEU 2 1_555 B N ACB 3 B ACB 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale4 B CG ACB 3 B ACB 3 1_555 B N ALA 4 B ALA 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 B C ALA 4 B ALA 4 1_555 B N 1ZN 5 B 1ZN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale6 B C 1ZN 5 B 1ZN 5 1_555 B N FGA 6 B FGA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale7 B CD FGA 6 B FGA 6 1_555 B N MAA 7 B MAA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? metalc ? metalc1 A OD2 ASP 64 A ASP 64 1_555 D MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc2 A NE2 HIS 66 A HIS 66 1_555 D MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc3 A OD2 ASP 92 A ASP 92 1_555 C MN MN . A MN 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc4 A OD2 ASP 92 A ASP 92 1_555 D MN MN . A MN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc5 A OD1 ASN 124 A ASN 124 1_555 C MN MN . A MN 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc6 A NE2 HIS 173 A HIS 173 1_555 C MN MN . A MN 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc7 A ND1 HIS 248 A HIS 248 1_555 C MN MN . A MN 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc8 C MN MN . A MN 400 1_555 E O HOH . A HOH 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? metalc ? metalc9 D MN MN . A MN 401 1_555 E O HOH . A HOH 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc10 D MN MN . A MN 401 1_555 E O HOH . A HOH 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 2BDX _atom_sites.fract_transf_matrix[1][1] 0.01 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01589 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code C 3 MN A 1 400 400 MN MN . D 3 MN A 1 401 401 MN MN . E 4 HOH A 1 507 507 HOH HOH . E 4 HOH A 2 508 508 HOH HOH . E 4 HOH A 3 509 509 HOH HOH . E 4 HOH A 4 510 510 HOH HOH . E 4 HOH A 5 511 511 HOH HOH . E 4 HOH A 6 512 512 HOH HOH . E 4 HOH A 7 513 513 HOH HOH . E 4 HOH A 8 514 514 HOH HOH . E 4 HOH A 9 515 515 HOH HOH . E 4 HOH A 10 516 516 HOH HOH . E 4 HOH A 11 517 517 HOH HOH . E 4 HOH A 12 518 518 HOH HOH . E 4 HOH A 13 519 519 HOH HOH . E 4 HOH A 14 520 520 HOH HOH . E 4 HOH A 15 521 521 HOH HOH . E 4 HOH A 16 522 522 HOH HOH . E 4 HOH A 17 523 523 HOH HOH . E 4 HOH A 18 524 524 HOH HOH . E 4 HOH A 19 525 525 HOH HOH . E 4 HOH A 20 526 526 HOH HOH . E 4 HOH A 21 527 527 HOH HOH . E 4 HOH A 22 528 528 HOH HOH . E 4 HOH A 23 529 529 HOH HOH . E 4 HOH A 24 530 530 HOH HOH . E 4 HOH A 25 531 531 HOH HOH . E 4 HOH A 26 532 532 HOH HOH . E 4 HOH A 27 533 533 HOH HOH . E 4 HOH A 28 534 534 HOH HOH . E 4 HOH A 29 535 535 HOH HOH . E 4 HOH A 30 536 536 HOH HOH . E 4 HOH A 31 537 537 HOH HOH . E 4 HOH A 32 538 538 HOH HOH . E 4 HOH A 33 539 539 HOH HOH . E 4 HOH A 34 540 540 HOH HOH . E 4 HOH A 35 541 541 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 3 _atom_site.Cartn_x -18.964 _atom_site.Cartn_y 52.809 _atom_site.Cartn_z 18.899 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 18.62 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #