data_5KJN # _model_server_result.job_id 7olKKG24Htffo7KOI0O6xw _model_server_result.datetime_utc '2024-11-05 04:08:02' _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 5kjn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":505}' # _entry.id 5KJN # _exptl.entry_id 5KJN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 90.121 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (R,R)-2,3-BUTANEDIOL _entity.pdbx_number_of_molecules 6 _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 5KJN _cell.length_a 154.871 _cell.length_b 154.871 _cell.length_c 52.286 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KJN _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H 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 SG CYS 48 A CYS 52 1_555 L ZN ZN . A ZN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc2 A SG CYS 51 A CYS 55 1_555 L ZN ZN . A ZN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc3 A SG CYS 61 A CYS 65 1_555 M ZN ZN . A ZN 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc4 A SG CYS 64 A CYS 68 1_555 M ZN ZN . A ZN 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc5 A SG CYS 70 A CYS 74 1_555 L ZN ZN . A ZN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.454 ? metalc ? metalc6 A SG CYS 74 A CYS 78 1_555 L ZN ZN . A ZN 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc7 A NE2 HIS 82 A HIS 86 1_555 M ZN ZN . A ZN 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc8 A SG CYS 86 A CYS 90 1_555 M ZN ZN . A ZN 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc9 A OE1 GLU 186 A GLU 190 1_555 I NA NA . A NA 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.163 ? metalc ? metalc10 A OE2 GLU 186 A GLU 190 1_555 I NA NA . A NA 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.1 ? metalc ? metalc11 A SG CYS 205 A CYS 209 1_555 N ZN ZN . A ZN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc12 A OD1 ASP 238 A ASP 242 1_555 J NA NA . A NA 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.896 ? metalc ? metalc13 A SG CYS 258 A CYS 262 1_555 N ZN ZN . A ZN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc14 A SG CYS 260 A CYS 264 1_555 N ZN ZN . A ZN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc15 A SG CYS 263 A CYS 267 1_555 N ZN ZN . A ZN 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? # _chem_comp.formula 'C4 H10 O2' _chem_comp.formula_weight 90.121 _chem_comp.id BU3 _chem_comp.mon_nstd_flag . _chem_comp.name (R,R)-2,3-BUTANEDIOL _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 O6 C3 BU3 sing 155 n n O6 HO6 BU3 sing 156 n n C3 C4 BU3 sing 157 n n C3 C2 BU3 sing 158 n n C3 H3 BU3 sing 159 n n C4 H41 BU3 sing 160 n n C4 H42 BU3 sing 161 n n C4 H43 BU3 sing 162 n n C2 O5 BU3 sing 163 n n C2 C1 BU3 sing 164 n n C2 H2 BU3 sing 165 n n O5 HO5 BU3 sing 166 n n C1 H11 BU3 sing 167 n n C1 H12 BU3 sing 168 n n C1 H13 BU3 sing 169 n n # _atom_sites.entry_id 5KJN _atom_sites.fract_transf_matrix[1][1] 0.006457 _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] 0.006457 _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] 0.019126 _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 SAM A 1 501 1000 SAM SAM . C 3 BU3 A 1 502 1 BU3 BU3 . D 3 BU3 A 1 503 2 BU3 BU3 . E 3 BU3 A 1 504 3 BU3 BU3 . F 3 BU3 A 1 505 4 BU3 BU3 . G 3 BU3 A 1 506 5 BU3 BU3 . H 3 BU3 A 1 507 6 BU3 BU3 . I 4 NA A 1 508 1 NA NA . J 4 NA A 1 509 2 NA NA . K 5 6TL A 1 510 1 6TL INH . L 6 ZN A 1 511 1 ZN ZN . M 6 ZN A 1 512 2 ZN ZN . N 6 ZN A 1 513 3 ZN ZN . O 7 HOH A 1 601 75 HOH HOH . O 7 HOH A 2 602 6 HOH HOH . O 7 HOH A 3 603 62 HOH HOH . O 7 HOH A 4 604 51 HOH HOH . O 7 HOH A 5 605 77 HOH HOH . O 7 HOH A 6 606 1 HOH HOH . O 7 HOH A 7 607 53 HOH HOH . O 7 HOH A 8 608 71 HOH HOH . O 7 HOH A 9 609 81 HOH HOH . O 7 HOH A 10 610 41 HOH HOH . O 7 HOH A 11 611 78 HOH HOH . O 7 HOH A 12 612 54 HOH HOH . O 7 HOH A 13 613 43 HOH HOH . O 7 HOH A 14 614 45 HOH HOH . O 7 HOH A 15 615 79 HOH HOH . O 7 HOH A 16 616 4 HOH HOH . O 7 HOH A 17 617 14 HOH HOH . O 7 HOH A 18 618 3 HOH HOH . O 7 HOH A 19 619 36 HOH HOH . O 7 HOH A 20 620 12 HOH HOH . O 7 HOH A 21 621 76 HOH HOH . O 7 HOH A 22 622 26 HOH HOH . O 7 HOH A 23 623 61 HOH HOH . O 7 HOH A 24 624 21 HOH HOH . O 7 HOH A 25 625 8 HOH HOH . O 7 HOH A 26 626 52 HOH HOH . O 7 HOH A 27 627 16 HOH HOH . O 7 HOH A 28 628 7 HOH HOH . O 7 HOH A 29 629 25 HOH HOH . O 7 HOH A 30 630 31 HOH HOH . O 7 HOH A 31 631 39 HOH HOH . O 7 HOH A 32 632 11 HOH HOH . O 7 HOH A 33 633 28 HOH HOH . O 7 HOH A 34 634 24 HOH HOH . O 7 HOH A 35 635 29 HOH HOH . O 7 HOH A 36 636 80 HOH HOH . O 7 HOH A 37 637 20 HOH HOH . O 7 HOH A 38 638 34 HOH HOH . O 7 HOH A 39 639 10 HOH HOH . O 7 HOH A 40 640 49 HOH HOH . O 7 HOH A 41 641 40 HOH HOH . O 7 HOH A 42 642 15 HOH HOH . O 7 HOH A 43 643 60 HOH HOH . O 7 HOH A 44 644 9 HOH HOH . O 7 HOH A 45 645 58 HOH HOH . O 7 HOH A 46 646 73 HOH HOH . O 7 HOH A 47 647 38 HOH HOH . O 7 HOH A 48 648 56 HOH HOH . O 7 HOH A 49 649 19 HOH HOH . O 7 HOH A 50 650 2 HOH HOH . O 7 HOH A 51 651 32 HOH HOH . O 7 HOH A 52 652 70 HOH HOH . O 7 HOH A 53 653 46 HOH HOH . O 7 HOH A 54 654 33 HOH HOH . O 7 HOH A 55 655 17 HOH HOH . O 7 HOH A 56 656 35 HOH HOH . O 7 HOH A 57 657 50 HOH HOH . O 7 HOH A 58 658 23 HOH HOH . O 7 HOH A 59 659 59 HOH HOH . O 7 HOH A 60 660 13 HOH HOH . O 7 HOH A 61 661 48 HOH HOH . O 7 HOH A 62 662 69 HOH HOH . O 7 HOH A 63 663 22 HOH HOH . O 7 HOH A 64 664 55 HOH HOH . O 7 HOH A 65 665 66 HOH HOH . O 7 HOH A 66 666 72 HOH HOH . O 7 HOH A 67 667 47 HOH HOH . O 7 HOH A 68 668 5 HOH HOH . O 7 HOH A 69 669 44 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 O O6 BU3 . . . F 3 -39.596 10.811 -17.508 1 76.15 ? O6 BU3 505 A 1 HETATM 2 C C3 BU3 . . . F 3 -41.011 10.616 -17.962 1 73.92 ? C3 BU3 505 A 1 HETATM 3 C C4 BU3 . . . F 3 -41.226 11.426 -19.288 1 72.76 ? C4 BU3 505 A 1 HETATM 4 C C2 BU3 . . . F 3 -42.094 10.846 -16.809 1 72.58 ? C2 BU3 505 A 1 HETATM 5 O O5 BU3 . . . F 3 -42.718 12.096 -16.828 1 72.95 ? O5 BU3 505 A 1 HETATM 6 C C1 BU3 . . . F 3 -41.571 10.654 -15.425 1 67.73 ? C1 BU3 505 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #