data_5IKA
#
_model_server_result.job_id            6Jz1QZLXJXVkodpdEoJPRQ 
_model_server_result.datetime_utc      '2024-11-02 21:37:08' 
_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          5ika 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":604}' 
#
_entry.id    5IKA 
#
_exptl.entry_id    5IKA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              173.943 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            DIPHOSPHATE 
_entity.pdbx_number_of_molecules    1 
_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            5IKA 
_cell.length_a            126.07 
_cell.length_b            126.07 
_cell.length_c            123.39 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IKA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 303 A ASP 301 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc2 A OD2 ASP 303 A ASP 301 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc3 A OD1 ASP 307 A ASP 305 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc4 A OD2 ASP 307 A ASP 305 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.906 ? 
metalc ? metalc5 A OD2 ASP 307 A ASP 305 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc6 A OD1 ASP 446 A ASP 444 1_555 B MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
metalc ? metalc7 A OE2 GLU 454 A GLU 452 1_555 B MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
metalc ? metalc8 B MG MG . A MG 601 1_555 E O4 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc9 B MG MG . A MG 601 1_555 E O5 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc10 B MG MG . A MG 601 1_555 F O HOH . A HOH 727 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? 
metalc ? metalc11 C MG MG . A MG 602 1_555 E O7 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc12 C MG MG . A MG 602 1_555 F O HOH . A HOH 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc13 D MG MG . A MG 603 1_555 E O2 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
metalc ? metalc14 D MG MG . A MG 603 1_555 E O4 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? 
metalc ? metalc15 D MG MG . A MG 603 1_555 E O7 DPO . A DPO 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? 
metalc ? metalc16 D MG MG . A MG 603 1_555 F O HOH . A HOH 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? 
metalc ? metalc17 D MG MG . A MG 603 1_555 F O HOH . A HOH 743 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? 
#
_chem_comp.formula           'O7 P2 -4' 
_chem_comp.formula_weight    173.943 
_chem_comp.id                DPO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              DIPHOSPHATE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
P1 O1 DPO doub 83 n n 
P1 O2 DPO sing 84 n n 
P1 O3 DPO sing 85 n n 
P1 O4 DPO sing 86 n n 
O4 P2 DPO sing 87 n n 
P2 O5 DPO doub 88 n n 
P2 O6 DPO sing 89 n n 
P2 O7 DPO sing 90 n n 
#
_atom_sites.entry_id                     5IKA 
_atom_sites.fract_transf_matrix[1][1]    0.007932 
_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]    0.007932 
_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]    0.008104 
_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
B 2 MG A 1 601 1 MG MG . 
C 2 MG A 1 602 2 MG MG . 
D 2 MG A 1 603 3 MG MG . 
E 3 DPO A 1 604 600 DPO DPO . 
F 4 HOH A 1 701 45 HOH HOH . 
F 4 HOH A 2 702 32 HOH HOH . 
F 4 HOH A 3 703 12 HOH HOH . 
F 4 HOH A 4 704 61 HOH HOH . 
F 4 HOH A 5 705 65 HOH HOH . 
F 4 HOH A 6 706 19 HOH HOH . 
F 4 HOH A 7 707 7 HOH HOH . 
F 4 HOH A 8 708 8 HOH HOH . 
F 4 HOH A 9 709 9 HOH HOH . 
F 4 HOH A 10 710 66 HOH HOH . 
F 4 HOH A 11 711 55 HOH HOH . 
F 4 HOH A 12 712 1 HOH HOH . 
F 4 HOH A 13 713 11 HOH HOH . 
F 4 HOH A 14 714 42 HOH HOH . 
F 4 HOH A 15 715 22 HOH HOH . 
F 4 HOH A 16 716 15 HOH HOH . 
F 4 HOH A 17 717 46 HOH HOH . 
F 4 HOH A 18 718 27 HOH HOH . 
F 4 HOH A 19 719 5 HOH HOH . 
F 4 HOH A 20 720 56 HOH HOH . 
F 4 HOH A 21 721 17 HOH HOH . 
F 4 HOH A 22 722 63 HOH HOH . 
F 4 HOH A 23 723 28 HOH HOH . 
F 4 HOH A 24 724 24 HOH HOH . 
F 4 HOH A 25 725 72 HOH HOH . 
F 4 HOH A 26 726 58 HOH HOH . 
F 4 HOH A 27 727 62 HOH HOH . 
F 4 HOH A 28 728 3 HOH HOH . 
F 4 HOH A 29 729 33 HOH HOH . 
F 4 HOH A 30 730 18 HOH HOH . 
F 4 HOH A 31 731 10 HOH HOH . 
F 4 HOH A 32 732 35 HOH HOH . 
F 4 HOH A 33 733 53 HOH HOH . 
F 4 HOH A 34 734 25 HOH HOH . 
F 4 HOH A 35 735 20 HOH HOH . 
F 4 HOH A 36 736 23 HOH HOH . 
F 4 HOH A 37 737 73 HOH HOH . 
F 4 HOH A 38 738 14 HOH HOH . 
F 4 HOH A 39 739 49 HOH HOH . 
F 4 HOH A 40 740 6 HOH HOH . 
F 4 HOH A 41 741 34 HOH HOH . 
F 4 HOH A 42 742 48 HOH HOH . 
F 4 HOH A 43 743 44 HOH HOH . 
F 4 HOH A 44 744 2 HOH HOH . 
F 4 HOH A 45 745 29 HOH HOH . 
F 4 HOH A 46 746 31 HOH HOH . 
F 4 HOH A 47 747 13 HOH HOH . 
F 4 HOH A 48 748 37 HOH HOH . 
F 4 HOH A 49 749 70 HOH HOH . 
F 4 HOH A 50 750 30 HOH HOH . 
F 4 HOH A 51 751 41 HOH HOH . 
F 4 HOH A 52 752 54 HOH HOH . 
F 4 HOH A 53 753 64 HOH HOH . 
F 4 HOH A 54 754 4 HOH HOH . 
F 4 HOH A 55 755 16 HOH HOH . 
F 4 HOH A 56 756 39 HOH HOH . 
F 4 HOH A 57 757 26 HOH HOH . 
F 4 HOH A 58 758 60 HOH HOH . 
F 4 HOH A 59 759 50 HOH HOH . 
F 4 HOH A 60 760 21 HOH HOH . 
F 4 HOH A 61 761 71 HOH HOH . 
F 4 HOH A 62 762 69 HOH HOH . 
F 4 HOH A 63 763 51 HOH HOH . 
F 4 HOH A 64 764 67 HOH HOH . 
F 4 HOH A 65 765 52 HOH HOH . 
F 4 HOH A 66 766 40 HOH HOH . 
F 4 HOH A 67 767 47 HOH HOH . 
F 4 HOH A 68 768 57 HOH HOH . 
F 4 HOH A 69 769 59 HOH HOH . 
F 4 HOH A 70 770 68 HOH HOH . 
F 4 HOH A 71 771 36 HOH HOH . 
F 4 HOH A 72 772 38 HOH HOH . 
F 4 HOH A 73 773 43 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 P P1 DPO . . . E 3 22.823 80.716 10.711 1 94.33 ? P1 DPO 604 A 1 
HETATM 2 O O1 DPO . . . E 3 23.555 80.244 9.476 1 93.23 ? O1 DPO 604 A 1 
HETATM 3 O O2 DPO . . . E 3 21.31 80.741 10.593 1 102.99 ? O2 DPO 604 A 1 
HETATM 4 O O3 DPO . . . E 3 23.331 80.17 12.028 1 84.93 ? O3 DPO 604 A 1 
HETATM 5 O O4 DPO . . . E 3 23.174 82.288 10.621 1 266.61 ? O4 DPO 604 A 1 
HETATM 6 P P2 DPO . . . E 3 23.885 83.313 11.651 1 90.69 ? P2 DPO 604 A 1 
HETATM 7 O O5 DPO . . . E 3 24.925 83.875 10.708 1 90.61 ? O5 DPO 604 A 1 
HETATM 8 O O6 DPO . . . E 3 24.487 82.617 12.841 1 89.58 ? O6 DPO 604 A 1 
HETATM 9 O O7 DPO . . . E 3 22.728 84.202 12.055 1 97.73 ? O7 DPO 604 A 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           9 
#