data_5NRP # _model_server_result.job_id t7bCLD4laM0IdHrS_J207g _model_server_result.datetime_utc '2025-07-25 12:55:45' _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 5nrp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 5NRP # _exptl.entry_id 5NRP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 26.017 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CYANIDE 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 5NRP _cell.length_a 59.859 _cell.length_b 59.859 _cell.length_c 70.114 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NRP _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details 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 # _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 D _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 4 A HIS 305 1_555 C CO CBY . A CBY 502 3_775 ? ? ? ? ? ? ? ? ? ? ? ? 1.905 ? metalc ? metalc2 A NE2 HIS 44 A HIS 345 1_555 B CO CBY . A CBY 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? # _chem_comp.formula 'C N -1' _chem_comp.formula_weight 26.017 _chem_comp.id CYN _chem_comp.mon_nstd_flag . _chem_comp.name 'CYANIDE ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _chem_comp_bond.atom_id_1 C _chem_comp_bond.atom_id_2 N _chem_comp_bond.comp_id CYN _chem_comp_bond.value_order trip _chem_comp_bond.pdbx_ordinal 217 _chem_comp_bond.pdbx_stereo_config n _chem_comp_bond.pdbx_aromatic_flag n # _atom_sites.entry_id 5NRP _atom_sites.fract_transf_matrix[1][1] 0.016706 _atom_sites.fract_transf_matrix[1][2] 0.009645 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01929 _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] 0.014262 _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 CBY A 1 501 301 CBY CBY . C 2 CBY A 1 502 302 CBY CBY . D 3 CYN A 1 503 302 CYN CYN . E 4 HOH A 1 601 16 HOH HOH . E 4 HOH A 2 602 15 HOH HOH . E 4 HOH A 3 603 6 HOH HOH . E 4 HOH A 4 604 26 HOH HOH . E 4 HOH A 5 605 8 HOH HOH . E 4 HOH A 6 606 58 HOH HOH . E 4 HOH A 7 607 2 HOH HOH . E 4 HOH A 8 608 14 HOH HOH . E 4 HOH A 9 609 10 HOH HOH . E 4 HOH A 10 610 9 HOH HOH . E 4 HOH A 11 611 30 HOH HOH . E 4 HOH A 12 612 17 HOH HOH . E 4 HOH A 13 613 11 HOH HOH . E 4 HOH A 14 614 77 HOH HOH . E 4 HOH A 15 615 36 HOH HOH . E 4 HOH A 16 616 3 HOH HOH . E 4 HOH A 17 617 59 HOH HOH . E 4 HOH A 18 618 27 HOH HOH . E 4 HOH A 19 619 43 HOH HOH . E 4 HOH A 20 620 23 HOH HOH . E 4 HOH A 21 621 19 HOH HOH . E 4 HOH A 22 622 40 HOH HOH . E 4 HOH A 23 623 67 HOH HOH . E 4 HOH A 24 624 5 HOH HOH . E 4 HOH A 25 625 29 HOH HOH . E 4 HOH A 26 626 57 HOH HOH . E 4 HOH A 27 627 63 HOH HOH . E 4 HOH A 28 628 44 HOH HOH . E 4 HOH A 29 629 62 HOH HOH . E 4 HOH A 30 630 4 HOH HOH . E 4 HOH A 31 631 45 HOH HOH . E 4 HOH A 32 632 51 HOH HOH . E 4 HOH A 33 633 39 HOH HOH . E 4 HOH A 34 634 13 HOH HOH . E 4 HOH A 35 635 35 HOH HOH . E 4 HOH A 36 636 69 HOH HOH . E 4 HOH A 37 637 12 HOH HOH . E 4 HOH A 38 638 28 HOH HOH . E 4 HOH A 39 639 37 HOH HOH . E 4 HOH A 40 640 65 HOH HOH . E 4 HOH A 41 641 22 HOH HOH . E 4 HOH A 42 642 1 HOH HOH . E 4 HOH A 43 643 49 HOH HOH . E 4 HOH A 44 644 41 HOH HOH . E 4 HOH A 45 645 25 HOH HOH . E 4 HOH A 46 646 31 HOH HOH . E 4 HOH A 47 647 7 HOH HOH . E 4 HOH A 48 648 24 HOH HOH . E 4 HOH A 49 649 53 HOH HOH . E 4 HOH A 50 650 74 HOH HOH . E 4 HOH A 51 651 42 HOH HOH . E 4 HOH A 52 652 52 HOH HOH . E 4 HOH A 53 653 21 HOH HOH . E 4 HOH A 54 654 60 HOH HOH . E 4 HOH A 55 655 38 HOH HOH . E 4 HOH A 56 656 33 HOH HOH . E 4 HOH A 57 657 54 HOH HOH . E 4 HOH A 58 658 20 HOH HOH . E 4 HOH A 59 659 68 HOH HOH . E 4 HOH A 60 660 76 HOH HOH . E 4 HOH A 61 661 32 HOH HOH . E 4 HOH A 62 662 50 HOH HOH . E 4 HOH A 63 663 71 HOH HOH . E 4 HOH A 64 664 55 HOH HOH . E 4 HOH A 65 665 18 HOH HOH . E 4 HOH A 66 666 73 HOH HOH . E 4 HOH A 67 667 81 HOH HOH . E 4 HOH A 68 668 82 HOH HOH . E 4 HOH A 69 669 70 HOH HOH . E 4 HOH A 70 670 78 HOH HOH . E 4 HOH A 71 671 48 HOH HOH . E 4 HOH A 72 672 64 HOH HOH . E 4 HOH A 73 673 79 HOH HOH . E 4 HOH A 74 674 66 HOH HOH . E 4 HOH A 75 675 34 HOH HOH . E 4 HOH A 76 676 46 HOH HOH . E 4 HOH A 77 677 61 HOH HOH . E 4 HOH A 78 678 72 HOH HOH . E 4 HOH A 79 679 56 HOH HOH . E 4 HOH A 80 680 83 HOH HOH . E 4 HOH A 81 681 47 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 C C CYN . . . D 3 60.361 28.448 -3.078 1 46.42 ? C CYN 503 A 1 HETATM 2 N N CYN . . . D 3 60.127 29.107 -4.003 1 51.63 ? N CYN 503 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 2 #