data_6HHJ # _model_server_result.job_id YssmOzSVywK-k0665hO9Nw _model_server_result.datetime_utc '2024-10-18 06:25:52' _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 6hhj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6HHJ # _exptl.entry_id 6HHJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 612.72 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-[1-methyl-2-oxidanylidene-3-[1-[[4-(5-oxidanylidene-3-phenyl-6~{H}-1,6-naphthyridin-2-yl)phenyl]methyl]piperidin-4-yl]benzimidazol-5-yl]propanamide _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 6HHJ _cell.length_a 70.05 _cell.length_b 71.37 _cell.length_c 90.96 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6HHJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 disulf ? disulf1 A SG CYS 60 A CYS 60 1_555 A SG CYS 77 A CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale1 A SG CYS 310 A CYS 310 1_555 B CAM G4H . A G4H 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.821 ? # _chem_comp.formula 'C37 H36 N6 O3' _chem_comp.formula_weight 612.72 _chem_comp.id G4H _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-[1-methyl-2-oxidanylidene-3-[1-[[4-(5-oxidanylidene-3-phenyl-6~{H}-1,6-naphthyridin-2-yl)phenyl]methyl]piperidin-4-yl]benzimidazol-5-yl]propanamide _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 CAM CAA G4H sing 83 n n CAF CAE G4H doub 84 n y CAF CAG G4H sing 85 n y CAE CAK G4H sing 86 n y NAC CAG G4H sing 87 n n NAC CAB G4H sing 88 n n CAG CAH G4H doub 89 n y CAA CAB G4H sing 90 n n CAK NAJ G4H sing 91 n n CAK CAL G4H doub 92 n y CAO NAJ G4H sing 93 n n CAB OAP G4H doub 94 n n CAH CAL G4H sing 95 n y NAJ CAI G4H sing 96 n n CAL NAQ G4H sing 97 n n CAI NAQ G4H sing 98 n n CAI OAD G4H doub 99 n n NAQ CAY G4H sing 100 n n CAX CAY G4H sing 101 n n CAX CAW G4H sing 102 n n CAY CAZ G4H sing 103 n n CAW NBB G4H sing 104 n n CAZ CBA G4H sing 105 n n NBB CBA G4H sing 106 n n NBB CBC G4H sing 107 n n CBC CBF G4H sing 108 n n CBE CBF G4H doub 109 n y CBE CBD G4H sing 110 n y CBF CBG G4H sing 111 n y CBD CBI G4H doub 112 n y CBG CBH G4H doub 113 n y CBI CBH G4H sing 114 n y CBI CBL G4H sing 115 n n CAV CAU G4H doub 116 n y CAV CBJ G4H sing 117 n y CAU CAT G4H sing 118 n y CBL NBK G4H doub 119 n y CBL CBM G4H sing 120 n y NBK CBP G4H sing 121 n y CBJ CBM G4H sing 122 n n CBJ CAR G4H doub 123 n y CBM CBN G4H doub 124 n y CAT CAS G4H doub 125 n y CBP CBO G4H sing 126 n n CBP CBS G4H doub 127 n y CBO CBR G4H doub 128 n n CBN CBS G4H sing 129 n y CBS CBQ G4H sing 130 n n CAR CAS G4H sing 131 n y CBR NBT G4H sing 132 n n CBQ NBT G4H sing 133 n n CBQ OAN G4H doub 134 n n CAR H1 G4H sing 135 n n CAS H2 G4H sing 136 n n CAT H3 G4H sing 137 n n CAU H4 G4H sing 138 n n CAV H5 G4H sing 139 n n CBN H6 G4H sing 140 n n CBR H7 G4H sing 141 n n CBO H8 G4H sing 142 n n CBH H10 G4H sing 143 n n CBG H11 G4H sing 144 n n CBD H12 G4H sing 145 n n CBE H13 G4H sing 146 n n CBC H14 G4H sing 147 n n CBC H15 G4H sing 148 n n CBA H17 G4H sing 149 n n CBA H18 G4H sing 150 n n CAZ H19 G4H sing 151 n n CAZ H20 G4H sing 152 n n CAW H21 G4H sing 153 n n CAW H22 G4H sing 154 n n CAX H23 G4H sing 155 n n CAX H24 G4H sing 156 n n CAY H25 G4H sing 157 n n CAH H26 G4H sing 158 n n CAO H27 G4H sing 159 n n CAO H28 G4H sing 160 n n CAO H29 G4H sing 161 n n CAE H30 G4H sing 162 n n CAF H31 G4H sing 163 n n NAC H32 G4H sing 164 n n CAA H33 G4H sing 165 n n CAA H34 G4H sing 166 n n CAM H35 G4H sing 167 n n CAM H36 G4H sing 168 n n CAM H37 G4H sing 169 n n NBT H16 G4H sing 170 n n # _atom_sites.entry_id 6HHJ _atom_sites.fract_transf_matrix[1][1] 0.014276 _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] 0.014011 _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] 0.010994 _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 G4H A 1 501 1 G4H DRG . C 3 HOH A 1 601 108 HOH HOH . C 3 HOH A 2 602 73 HOH HOH . C 3 HOH A 3 603 28 HOH HOH . C 3 HOH A 4 604 49 HOH HOH . C 3 HOH A 5 605 146 HOH HOH . C 3 HOH A 6 606 94 HOH HOH . C 3 HOH A 7 607 56 HOH HOH . C 3 HOH A 8 608 89 HOH HOH . C 3 HOH A 9 609 90 HOH HOH . C 3 HOH A 10 610 42 HOH HOH . C 3 HOH A 11 611 150 HOH HOH . C 3 HOH A 12 612 23 HOH HOH . C 3 HOH A 13 613 6 HOH HOH . C 3 HOH A 14 614 86 HOH HOH . C 3 HOH A 15 615 48 HOH HOH . C 3 HOH A 16 616 125 HOH HOH . C 3 HOH A 17 617 69 HOH HOH . C 3 HOH A 18 618 22 HOH HOH . C 3 HOH A 19 619 59 HOH HOH . C 3 HOH A 20 620 55 HOH HOH . C 3 HOH A 21 621 77 HOH HOH . C 3 HOH A 22 622 24 HOH HOH . C 3 HOH A 23 623 116 HOH HOH . C 3 HOH A 24 624 58 HOH HOH . C 3 HOH A 25 625 26 HOH HOH . C 3 HOH A 26 626 11 HOH HOH . C 3 HOH A 27 627 70 HOH HOH . C 3 HOH A 28 628 100 HOH HOH . C 3 HOH A 29 629 37 HOH HOH . C 3 HOH A 30 630 31 HOH HOH . C 3 HOH A 31 631 21 HOH HOH . C 3 HOH A 32 632 12 HOH HOH . C 3 HOH A 33 633 75 HOH HOH . C 3 HOH A 34 634 44 HOH HOH . C 3 HOH A 35 635 101 HOH HOH . C 3 HOH A 36 636 79 HOH HOH . C 3 HOH A 37 637 40 HOH HOH . C 3 HOH A 38 638 47 HOH HOH . C 3 HOH A 39 639 45 HOH HOH . C 3 HOH A 40 640 82 HOH HOH . C 3 HOH A 41 641 78 HOH HOH . C 3 HOH A 42 642 124 HOH HOH . C 3 HOH A 43 643 62 HOH HOH . C 3 HOH A 44 644 104 HOH HOH . C 3 HOH A 45 645 60 HOH HOH . C 3 HOH A 46 646 2 HOH HOH . C 3 HOH A 47 647 76 HOH HOH . C 3 HOH A 48 648 53 HOH HOH . C 3 HOH A 49 649 54 HOH HOH . C 3 HOH A 50 650 17 HOH HOH . C 3 HOH A 51 651 8 HOH HOH . C 3 HOH A 52 652 92 HOH HOH . C 3 HOH A 53 653 74 HOH HOH . C 3 HOH A 54 654 27 HOH HOH . C 3 HOH A 55 655 9 HOH HOH . C 3 HOH A 56 656 33 HOH HOH . C 3 HOH A 57 657 43 HOH HOH . C 3 HOH A 58 658 52 HOH HOH . C 3 HOH A 59 659 144 HOH HOH . C 3 HOH A 60 660 66 HOH HOH . C 3 HOH A 61 661 35 HOH HOH . C 3 HOH A 62 662 106 HOH HOH . C 3 HOH A 63 663 140 HOH HOH . C 3 HOH A 64 664 80 HOH HOH . C 3 HOH A 65 665 99 HOH HOH . C 3 HOH A 66 666 122 HOH HOH . C 3 HOH A 67 667 67 HOH HOH . C 3 HOH A 68 668 29 HOH HOH . C 3 HOH A 69 669 136 HOH HOH . C 3 HOH A 70 670 132 HOH HOH . C 3 HOH A 71 671 5 HOH HOH . C 3 HOH A 72 672 93 HOH HOH . C 3 HOH A 73 673 131 HOH HOH . C 3 HOH A 74 674 1 HOH HOH . C 3 HOH A 75 675 39 HOH HOH . C 3 HOH A 76 676 118 HOH HOH . C 3 HOH A 77 677 7 HOH HOH . C 3 HOH A 78 678 63 HOH HOH . C 3 HOH A 79 679 98 HOH HOH . C 3 HOH A 80 680 121 HOH HOH . C 3 HOH A 81 681 36 HOH HOH . C 3 HOH A 82 682 149 HOH HOH . C 3 HOH A 83 683 111 HOH HOH . C 3 HOH A 84 684 46 HOH HOH . C 3 HOH A 85 685 142 HOH HOH . C 3 HOH A 86 686 65 HOH HOH . C 3 HOH A 87 687 3 HOH HOH . C 3 HOH A 88 688 4 HOH HOH . C 3 HOH A 89 689 148 HOH HOH . C 3 HOH A 90 690 97 HOH HOH . C 3 HOH A 91 691 141 HOH HOH . C 3 HOH A 92 692 88 HOH HOH . C 3 HOH A 93 693 38 HOH HOH . C 3 HOH A 94 694 16 HOH HOH . C 3 HOH A 95 695 120 HOH HOH . C 3 HOH A 96 696 126 HOH HOH . C 3 HOH A 97 697 96 HOH HOH . C 3 HOH A 98 698 84 HOH HOH . C 3 HOH A 99 699 64 HOH HOH . C 3 HOH A 100 700 127 HOH HOH . C 3 HOH A 101 701 71 HOH HOH . C 3 HOH A 102 702 145 HOH HOH . C 3 HOH A 103 703 119 HOH HOH . C 3 HOH A 104 704 113 HOH HOH . C 3 HOH A 105 705 25 HOH HOH . C 3 HOH A 106 706 83 HOH HOH . C 3 HOH A 107 707 61 HOH HOH . C 3 HOH A 108 708 110 HOH HOH . C 3 HOH A 109 709 81 HOH HOH . C 3 HOH A 110 710 151 HOH HOH . C 3 HOH A 111 711 105 HOH HOH . C 3 HOH A 112 712 115 HOH HOH . C 3 HOH A 113 713 130 HOH HOH . C 3 HOH A 114 714 112 HOH HOH . C 3 HOH A 115 715 85 HOH HOH . C 3 HOH A 116 716 13 HOH HOH . C 3 HOH A 117 717 102 HOH HOH . C 3 HOH A 118 718 107 HOH HOH . C 3 HOH A 119 719 41 HOH HOH . C 3 HOH A 120 720 137 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 CAR G4H . . . B 2 15.858 -11.802 -6.954 1 26.05 ? CAR G4H 501 A 1 HETATM 2 C CAS G4H . . . B 2 15.494 -10.462 -6.913 1 26.26 ? CAS G4H 501 A 1 HETATM 3 C CAT G4H . . . B 2 15.645 -9.663 -8.039 1 28.3 ? CAT G4H 501 A 1 HETATM 4 C CAU G4H . . . B 2 16.16 -10.206 -9.211 1 28.41 ? CAU G4H 501 A 1 HETATM 5 C CAV G4H . . . B 2 16.525 -11.547 -9.251 1 29.15 ? CAV G4H 501 A 1 HETATM 6 C CBJ G4H . . . B 2 16.36 -12.354 -8.127 1 29.83 ? CBJ G4H 501 A 1 HETATM 7 C CBM G4H . . . B 2 16.726 -13.7 -8.122 1 32.45 ? CBM G4H 501 A 1 HETATM 8 C CBN G4H . . . B 2 17.568 -14.104 -7.092 1 33.8 ? CBN G4H 501 A 1 HETATM 9 C CBS G4H . . . B 2 17.985 -15.423 -7.016 1 35.39 ? CBS G4H 501 A 1 HETATM 10 C CBQ G4H . . . B 2 18.828 -15.844 -5.996 1 39.3 ? CBQ G4H 501 A 1 HETATM 11 O OAN G4H . . . B 2 19.222 -15.053 -5.143 1 39.82 ? OAN G4H 501 A 1 HETATM 12 N NBT G4H . . . B 2 19.234 -17.183 -5.938 1 38.24 ? NBT G4H 501 A 1 HETATM 13 C CBR G4H . . . B 2 18.819 -18.047 -6.848 1 36.27 ? CBR G4H 501 A 1 HETATM 14 C CBO G4H . . . B 2 17.972 -17.649 -7.881 1 34.38 ? CBO G4H 501 A 1 HETATM 15 C CBP G4H . . . B 2 17.551 -16.327 -7.968 1 33.18 ? CBP G4H 501 A 1 HETATM 16 N NBK G4H . . . B 2 16.737 -15.924 -8.954 1 30.34 ? NBK G4H 501 A 1 HETATM 17 C CBL G4H . . . B 2 16.313 -14.652 -9.068 1 29.96 ? CBL G4H 501 A 1 HETATM 18 C CBI G4H . . . B 2 15.459 -14.383 -10.139 1 28.74 ? CBI G4H 501 A 1 HETATM 19 C CBH G4H . . . B 2 14.183 -13.863 -9.927 1 28.76 ? CBH G4H 501 A 1 HETATM 20 C CBG G4H . . . B 2 13.337 -13.618 -11.006 1 29.53 ? CBG G4H 501 A 1 HETATM 21 C CBD G4H . . . B 2 15.871 -14.681 -11.433 1 28.24 ? CBD G4H 501 A 1 HETATM 22 C CBE G4H . . . B 2 15.025 -14.436 -12.513 1 30.04 ? CBE G4H 501 A 1 HETATM 23 C CBF G4H . . . B 2 13.752 -13.909 -12.3 1 30.49 ? CBF G4H 501 A 1 HETATM 24 C CBC G4H . . . B 2 12.896 -13.651 -13.371 1 30.55 ? CBC G4H 501 A 1 HETATM 25 N NBB G4H . . . B 2 12.599 -14.838 -14.188 1 34.05 ? NBB G4H 501 A 1 HETATM 26 C CBA G4H . . . B 2 11.412 -15.518 -13.643 1 35.2 ? CBA G4H 501 A 1 HETATM 27 C CAZ G4H . . . B 2 10.986 -16.706 -14.504 1 36.42 ? CAZ G4H 501 A 1 HETATM 28 C CAW G4H . . . B 2 12.292 -14.375 -15.551 1 34.98 ? CAW G4H 501 A 1 HETATM 29 C CAX G4H . . . B 2 11.968 -15.545 -16.462 1 36.19 ? CAX G4H 501 A 1 HETATM 30 C CAY G4H . . . B 2 10.724 -16.233 -15.94 1 39.01 ? CAY G4H 501 A 1 HETATM 31 N NAQ G4H . . . B 2 10.311 -17.333 -16.862 1 43.52 ? NAQ G4H 501 A 1 HETATM 32 C CAL G4H . . . B 2 9.289 -17.315 -17.728 1 49.06 ? CAL G4H 501 A 1 HETATM 33 C CAH G4H . . . B 2 8.372 -16.381 -18.005 1 51.29 ? CAH G4H 501 A 1 HETATM 34 C CAI G4H . . . B 2 10.904 -18.513 -17.01 1 43.84 ? CAI G4H 501 A 1 HETATM 35 O OAD G4H . . . B 2 11.889 -18.912 -16.393 1 42.81 ? OAD G4H 501 A 1 HETATM 36 N NAJ G4H . . . B 2 10.272 -19.231 -17.922 1 46.65 ? NAJ G4H 501 A 1 HETATM 37 C CAO G4H . . . B 2 10.621 -20.599 -18.359 1 46.27 ? CAO G4H 501 A 1 HETATM 38 C CAK G4H . . . B 2 9.267 -18.491 -18.375 1 49.38 ? CAK G4H 501 A 1 HETATM 39 C CAE G4H . . . B 2 8.35 -18.77 -19.298 1 51.04 ? CAE G4H 501 A 1 HETATM 40 C CAF G4H . . . B 2 7.377 -17.841 -19.623 1 52.89 ? CAF G4H 501 A 1 HETATM 41 C CAG G4H . . . B 2 7.388 -16.623 -18.964 1 54.57 ? CAG G4H 501 A 1 HETATM 42 N NAC G4H . . . B 2 6.447 -15.728 -19.272 1 58.49 ? NAC G4H 501 A 1 HETATM 43 C CAB G4H . . . B 2 5.564 -15.403 -18.315 1 61.07 ? CAB G4H 501 A 1 HETATM 44 O OAP G4H . . . B 2 5.577 -15.863 -17.176 1 63.3 ? OAP G4H 501 A 1 HETATM 45 C CAA G4H . . . B 2 4.49 -14.4 -18.732 1 62.23 ? CAA G4H 501 A 1 HETATM 46 C CAM G4H . . . B 2 4.374 -14.158 -20.237 1 64.21 ? CAM G4H 501 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 46 #