data_5DFB # _model_server_result.job_id k6Ok26al-xIWacYY93zQ8Q _model_server_result.datetime_utc '2025-01-10 07:26:17' _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 5dfb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 5DFB # _exptl.entry_id 5DFB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 58.693 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NICKEL (II) ION' _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 5DFB _cell.length_a 32.118 _cell.length_b 52.731 _cell.length_c 71.464 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DFB _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _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[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -52.731 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'Ni 2' _chem_comp.formula_weight 58.693 _chem_comp.id NI _chem_comp.mon_nstd_flag . _chem_comp.name 'NICKEL (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5DFB _atom_sites.fract_transf_matrix[1][1] 0.031135 _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] 0.018964 _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] 0.013993 _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 NI A 1 501 1 NI Ni . C 3 2PE A 1 502 2 2PE 2PE . D 4 GOL A 1 503 3 GOL GOL . E 5 HOH A 1 601 61 HOH HOH . E 5 HOH A 2 602 25 HOH HOH . E 5 HOH A 3 603 59 HOH HOH . E 5 HOH A 4 604 16 HOH HOH . E 5 HOH A 5 605 15 HOH HOH . E 5 HOH A 6 606 2 HOH HOH . E 5 HOH A 7 607 31 HOH HOH . E 5 HOH A 8 608 13 HOH HOH . E 5 HOH A 9 609 20 HOH HOH . E 5 HOH A 10 610 54 HOH HOH . E 5 HOH A 11 611 36 HOH HOH . E 5 HOH A 12 612 57 HOH HOH . E 5 HOH A 13 613 4 HOH HOH . E 5 HOH A 14 614 42 HOH HOH . E 5 HOH A 15 615 39 HOH HOH . E 5 HOH A 16 616 72 HOH HOH . E 5 HOH A 17 617 60 HOH HOH . E 5 HOH A 18 618 5 HOH HOH . E 5 HOH A 19 619 73 HOH HOH . E 5 HOH A 20 620 27 HOH HOH . E 5 HOH A 21 621 48 HOH HOH . E 5 HOH A 22 622 19 HOH HOH . E 5 HOH A 23 623 75 HOH HOH . E 5 HOH A 24 624 7 HOH HOH . E 5 HOH A 25 625 46 HOH HOH . E 5 HOH A 26 626 14 HOH HOH . E 5 HOH A 27 627 3 HOH HOH . E 5 HOH A 28 628 17 HOH HOH . E 5 HOH A 29 629 38 HOH HOH . E 5 HOH A 30 630 18 HOH HOH . E 5 HOH A 31 631 32 HOH HOH . E 5 HOH A 32 632 76 HOH HOH . E 5 HOH A 33 633 21 HOH HOH . E 5 HOH A 34 634 8 HOH HOH . E 5 HOH A 35 635 53 HOH HOH . E 5 HOH A 36 636 26 HOH HOH . E 5 HOH A 37 637 9 HOH HOH . E 5 HOH A 38 638 70 HOH HOH . E 5 HOH A 39 639 22 HOH HOH . E 5 HOH A 40 640 34 HOH HOH . E 5 HOH A 41 641 11 HOH HOH . E 5 HOH A 42 642 6 HOH HOH . E 5 HOH A 43 643 35 HOH HOH . E 5 HOH A 44 644 40 HOH HOH . E 5 HOH A 45 645 37 HOH HOH . E 5 HOH A 46 646 74 HOH HOH . E 5 HOH A 47 647 64 HOH HOH . E 5 HOH A 48 648 67 HOH HOH . E 5 HOH A 49 649 10 HOH HOH . E 5 HOH A 50 650 44 HOH HOH . E 5 HOH A 51 651 58 HOH HOH . E 5 HOH A 52 652 24 HOH HOH . E 5 HOH A 53 653 30 HOH HOH . E 5 HOH A 54 654 55 HOH HOH . E 5 HOH A 55 655 29 HOH HOH . E 5 HOH A 56 656 69 HOH HOH . E 5 HOH A 57 657 33 HOH HOH . E 5 HOH A 58 658 1 HOH HOH . E 5 HOH A 59 659 71 HOH HOH . E 5 HOH A 60 660 12 HOH HOH . E 5 HOH A 61 661 28 HOH HOH . E 5 HOH A 62 662 23 HOH HOH . E 5 HOH A 63 663 49 HOH HOH . E 5 HOH A 64 664 45 HOH HOH . E 5 HOH A 65 665 47 HOH HOH . E 5 HOH A 66 666 63 HOH HOH . E 5 HOH A 67 667 52 HOH HOH . E 5 HOH A 68 668 56 HOH HOH . E 5 HOH A 69 669 65 HOH HOH . E 5 HOH A 70 670 62 HOH HOH . E 5 HOH A 71 671 68 HOH HOH . E 5 HOH A 72 672 66 HOH HOH . E 5 HOH A 73 673 50 HOH HOH . E 5 HOH A 74 674 51 HOH HOH . E 5 HOH A 75 675 41 HOH HOH . E 5 HOH A 76 676 43 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NI _atom_site.label_atom_id NI _atom_site.label_comp_id NI _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id B _atom_site.label_entity_id 2 _atom_site.Cartn_x -20.662 _atom_site.Cartn_y -26.366 _atom_site.Cartn_z 0 _atom_site.occupancy 0.3 _atom_site.B_iso_or_equiv 14.25 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NI _atom_site.auth_comp_id NI _atom_site.auth_seq_id 501 _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 27 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #