data_6AGI # _model_server_result.job_id IIBMYjJjoSpdfdlZ5ikHtw _model_server_result.datetime_utc '2025-03-13 17:47:39' _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 6agi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":602}' # _entry.id 6AGI # _exptl.entry_id 6AGI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 5 _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 6AGI _cell.length_a 67.387 _cell.length_b 77.177 _cell.length_c 172.669 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6AGI _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G 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 metalc ? metalc1 A OD1 ASP 115 A ASP 245 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc2 A OD1 ASP 117 A ASP 247 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.792 ? metalc ? metalc3 A OD2 ASP 117 A ASP 247 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.068 ? metalc ? metalc4 A OD1 ASN 119 A ASN 249 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc5 A O MET 121 A MET 251 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc6 A OE1 GLU 126 A GLU 256 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc7 A OE2 GLU 126 A GLU 256 1_555 C CA CA . A CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc8 A OD1 ASP 353 A ASP 483 1_555 D CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc9 A OD1 ASP 357 A ASP 487 1_555 D CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.687 ? metalc ? metalc10 A OD2 ASP 357 A ASP 487 1_555 D CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.1 ? metalc ? metalc11 A O GLN 359 A GLN 489 1_555 D CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc12 A OE1 GLU 364 A GLU 494 1_555 D CA CA . A CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc13 B OD1 ASP 115 B ASP 245 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? metalc ? metalc14 B OD1 ASP 117 B ASP 247 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc15 B OD2 ASP 117 B ASP 247 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? metalc ? metalc16 B OD1 ASN 119 B ASN 249 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc17 B O MET 121 B MET 251 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? metalc ? metalc18 B OE1 GLU 126 B GLU 256 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? metalc ? metalc19 B OE2 GLU 126 B GLU 256 1_555 F CA CA . B CA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc20 B OD1 ASP 353 B ASP 483 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc21 B OD1 ASP 355 B ASP 485 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc22 B OD2 ASP 355 B ASP 485 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc23 B OD1 ASP 357 B ASP 487 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc24 B OD2 ASP 357 B ASP 487 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? metalc ? metalc25 B O GLN 359 B GLN 489 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc26 B OE2 GLU 364 B GLU 494 1_555 G CA CA . B CA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6AGI _atom_sites.fract_transf_matrix[1][1] 0.01484 _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] 0.012957 _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] 0.005791 _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 2 CA A 1 601 1 CA CA . D 2 CA A 1 602 2 CA CA . E 2 CA A 1 603 5 CA CA . F 2 CA B 1 601 3 CA CA . G 2 CA B 1 602 4 CA CA . H 3 IMD B 1 603 1 IMD IMD . I 4 HOH A 1 701 22 HOH HOH . I 4 HOH A 2 702 40 HOH HOH . I 4 HOH A 3 703 14 HOH HOH . I 4 HOH A 4 704 15 HOH HOH . I 4 HOH A 5 705 10 HOH HOH . I 4 HOH A 6 706 25 HOH HOH . I 4 HOH A 7 707 1 HOH HOH . I 4 HOH A 8 708 16 HOH HOH . I 4 HOH A 9 709 2 HOH HOH . I 4 HOH A 10 710 30 HOH HOH . I 4 HOH A 11 711 20 HOH HOH . I 4 HOH A 12 712 19 HOH HOH . I 4 HOH A 13 713 36 HOH HOH . I 4 HOH A 14 714 44 HOH HOH . I 4 HOH A 15 715 54 HOH HOH . I 4 HOH A 16 716 60 HOH HOH . I 4 HOH A 17 717 37 HOH HOH . I 4 HOH A 18 718 35 HOH HOH . I 4 HOH A 19 719 51 HOH HOH . I 4 HOH A 20 720 62 HOH HOH . I 4 HOH A 21 721 48 HOH HOH . I 4 HOH A 22 722 61 HOH HOH . I 4 HOH A 23 723 29 HOH HOH . I 4 HOH A 24 724 31 HOH HOH . I 4 HOH A 25 725 47 HOH HOH . I 4 HOH A 26 726 50 HOH HOH . I 4 HOH A 27 727 57 HOH HOH . J 4 HOH B 1 701 13 HOH HOH . J 4 HOH B 2 702 8 HOH HOH . J 4 HOH B 3 703 21 HOH HOH . J 4 HOH B 4 704 3 HOH HOH . J 4 HOH B 5 705 38 HOH HOH . J 4 HOH B 6 706 17 HOH HOH . J 4 HOH B 7 707 27 HOH HOH . J 4 HOH B 8 708 5 HOH HOH . J 4 HOH B 9 709 26 HOH HOH . J 4 HOH B 10 710 7 HOH HOH . J 4 HOH B 11 711 9 HOH HOH . J 4 HOH B 12 712 42 HOH HOH . J 4 HOH B 13 713 12 HOH HOH . J 4 HOH B 14 714 6 HOH HOH . J 4 HOH B 15 715 4 HOH HOH . J 4 HOH B 16 716 41 HOH HOH . J 4 HOH B 17 717 69 HOH HOH . J 4 HOH B 18 718 64 HOH HOH . J 4 HOH B 19 719 45 HOH HOH . J 4 HOH B 20 720 66 HOH HOH . J 4 HOH B 21 721 52 HOH HOH . J 4 HOH B 22 722 23 HOH HOH . J 4 HOH B 23 723 67 HOH HOH . J 4 HOH B 24 724 33 HOH HOH . J 4 HOH B 25 725 65 HOH HOH . J 4 HOH B 26 726 63 HOH HOH . J 4 HOH B 27 727 32 HOH HOH . J 4 HOH B 28 728 11 HOH HOH . J 4 HOH B 29 729 68 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _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 2 _atom_site.Cartn_x 13.285 _atom_site.Cartn_y 29.985 _atom_site.Cartn_z 41.052 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 43.28 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 602 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #