data_5D27 # _model_server_result.job_id bUh7tYpEfXcoTh4rfeZTNA _model_server_result.datetime_utc '2024-11-29 13:29:32' _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 5d27 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 5D27 # _exptl.entry_id 5D27 _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 120 _cell.entry_id 5D27 _cell.length_a 39.897 _cell.length_b 39.897 _cell.length_c 187.269 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D27 _symmetry.cell_setting ? _symmetry.Int_Tables_number 153 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 1 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 _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 2 _struct_asym.id B _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 NE2 HIS 108 A HIS 349 1_555 B NI NI . A NI 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc2 A NE2 HIS 108 A HIS 349 1_555 B NI NI . A NI 501 4_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 A NE2 HIS 121 A HIS 362 1_555 B NI NI . A NI 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc4 A NE2 HIS 121 A HIS 362 1_555 B NI NI . A NI 501 4_445 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? # _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 5D27 _atom_sites.fract_transf_matrix[1][1] 0.025065 _atom_sites.fract_transf_matrix[1][2] 0.014471 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.028942 _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] 0.00534 _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 HOH A 1 601 41 HOH HOH . C 3 HOH A 2 602 81 HOH HOH . C 3 HOH A 3 603 78 HOH HOH . C 3 HOH A 4 604 23 HOH HOH . C 3 HOH A 5 605 47 HOH HOH . C 3 HOH A 6 606 27 HOH HOH . C 3 HOH A 7 607 42 HOH HOH . C 3 HOH A 8 608 58 HOH HOH . C 3 HOH A 9 609 11 HOH HOH . C 3 HOH A 10 610 16 HOH HOH . C 3 HOH A 11 611 24 HOH HOH . C 3 HOH A 12 612 76 HOH HOH . C 3 HOH A 13 613 32 HOH HOH . C 3 HOH A 14 614 57 HOH HOH . C 3 HOH A 15 615 31 HOH HOH . C 3 HOH A 16 616 70 HOH HOH . C 3 HOH A 17 617 40 HOH HOH . C 3 HOH A 18 618 20 HOH HOH . C 3 HOH A 19 619 28 HOH HOH . C 3 HOH A 20 620 67 HOH HOH . C 3 HOH A 21 621 34 HOH HOH . C 3 HOH A 22 622 64 HOH HOH . C 3 HOH A 23 623 38 HOH HOH . C 3 HOH A 24 624 29 HOH HOH . C 3 HOH A 25 625 39 HOH HOH . C 3 HOH A 26 626 6 HOH HOH . C 3 HOH A 27 627 8 HOH HOH . C 3 HOH A 28 628 73 HOH HOH . C 3 HOH A 29 629 45 HOH HOH . C 3 HOH A 30 630 10 HOH HOH . C 3 HOH A 31 631 15 HOH HOH . C 3 HOH A 32 632 17 HOH HOH . C 3 HOH A 33 633 59 HOH HOH . C 3 HOH A 34 634 68 HOH HOH . C 3 HOH A 35 635 37 HOH HOH . C 3 HOH A 36 636 26 HOH HOH . C 3 HOH A 37 637 91 HOH HOH . C 3 HOH A 38 638 72 HOH HOH . C 3 HOH A 39 639 12 HOH HOH . C 3 HOH A 40 640 25 HOH HOH . C 3 HOH A 41 641 77 HOH HOH . C 3 HOH A 42 642 66 HOH HOH . C 3 HOH A 43 643 71 HOH HOH . C 3 HOH A 44 644 55 HOH HOH . C 3 HOH A 45 645 18 HOH HOH . C 3 HOH A 46 646 3 HOH HOH . C 3 HOH A 47 647 35 HOH HOH . C 3 HOH A 48 648 69 HOH HOH . C 3 HOH A 49 649 65 HOH HOH . C 3 HOH A 50 650 56 HOH HOH . C 3 HOH A 51 651 30 HOH HOH . C 3 HOH A 52 652 43 HOH HOH . C 3 HOH A 53 653 82 HOH HOH . C 3 HOH A 54 654 21 HOH HOH . C 3 HOH A 55 655 1 HOH HOH . C 3 HOH A 56 656 61 HOH HOH . C 3 HOH A 57 657 54 HOH HOH . C 3 HOH A 58 658 80 HOH HOH . C 3 HOH A 59 659 48 HOH HOH . C 3 HOH A 60 660 62 HOH HOH . C 3 HOH A 61 661 7 HOH HOH . C 3 HOH A 62 662 14 HOH HOH . C 3 HOH A 63 663 44 HOH HOH . C 3 HOH A 64 664 60 HOH HOH . C 3 HOH A 65 665 33 HOH HOH . C 3 HOH A 66 666 92 HOH HOH . C 3 HOH A 67 667 5 HOH HOH . C 3 HOH A 68 668 46 HOH HOH . C 3 HOH A 69 669 13 HOH HOH . C 3 HOH A 70 670 2 HOH HOH . C 3 HOH A 71 671 87 HOH HOH . C 3 HOH A 72 672 22 HOH HOH . C 3 HOH A 73 673 93 HOH HOH . C 3 HOH A 74 674 4 HOH HOH . C 3 HOH A 75 675 19 HOH HOH . C 3 HOH A 76 676 88 HOH HOH . C 3 HOH A 77 677 84 HOH HOH . C 3 HOH A 78 678 75 HOH HOH . C 3 HOH A 79 679 36 HOH HOH . C 3 HOH A 80 680 53 HOH HOH . C 3 HOH A 81 681 74 HOH HOH . C 3 HOH A 82 682 49 HOH HOH . C 3 HOH A 83 683 85 HOH HOH . C 3 HOH A 84 684 86 HOH HOH . C 3 HOH A 85 685 94 HOH HOH . C 3 HOH A 86 686 63 HOH HOH . C 3 HOH A 87 687 51 HOH HOH . C 3 HOH A 88 688 9 HOH HOH . C 3 HOH A 89 689 50 HOH HOH . C 3 HOH A 90 690 83 HOH HOH . C 3 HOH A 91 691 79 HOH HOH . C 3 HOH A 92 692 52 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 -16.9 _atom_site.Cartn_y -13.305 _atom_site.Cartn_z 31.228 _atom_site.occupancy 0.5 _atom_site.B_iso_or_equiv 23.02 _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 111 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #