data_5VAD # _model_server_result.job_id vcnhNVUwH0nA5aGkVOImhw _model_server_result.datetime_utc '2024-11-23 22:54:32' _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 5vad # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1601}' # _entry.id 5VAD # _exptl.entry_id 5VAD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 364.441 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-[(cyclohexanecarbonyl)amino]-N-(2,3-dihydro-1H-inden-2-yl)pyrazine-2-carboxamide _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 111.18 _cell.angle_gamma 90 _cell.entry_id 5VAD _cell.length_a 71.089 _cell.length_b 92.278 _cell.length_c 84.832 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VAD _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,F,G,H,I,J _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 ? 2 C N N ? 2 F 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 disulf ? disulf1 A SG CYS 457 A CYS 1453 1_555 A SG CYS 501 A CYS 1497 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc1 A SG CYS 452 A CYS 1448 1_555 E ZN ZN . A ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.94 ? metalc ? metalc2 A SG CYS 457 A CYS 1453 1_555 E ZN ZN . A ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc3 A SG CYS 499 A CYS 1495 1_555 E ZN ZN . A ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc4 B SG CYS 452 B CYS 1448 1_555 H ZN ZN . B ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc5 B SG CYS 499 B CYS 1495 1_555 H ZN ZN . B ZN 1603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? # _chem_comp.formula 'C21 H24 N4 O2' _chem_comp.formula_weight 364.441 _chem_comp.id 91Y _chem_comp.mon_nstd_flag . _chem_comp.name 3-[(cyclohexanecarbonyl)amino]-N-(2,3-dihydro-1H-inden-2-yl)pyrazine-2-carboxamide _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 C25 C24 91Y sing 1 n n C25 C26 91Y sing 2 n n C24 C23 91Y sing 3 n n C26 C27 91Y sing 4 n n C23 C22 91Y sing 5 n n O1 C2 91Y doub 6 n n C27 C22 91Y sing 7 n n C22 C2 91Y sing 8 n n C2 N3 91Y sing 9 n n N5 C6 91Y doub 10 n y N5 C4 91Y sing 11 n y C6 C7 91Y sing 12 n y N3 C4 91Y sing 13 n n C4 C9 91Y doub 14 n y C7 N8 91Y doub 15 n y C9 N8 91Y sing 16 n y C9 C10 91Y sing 17 n n C10 O11 91Y doub 18 n n C10 N12 91Y sing 19 n n N12 C13 91Y sing 20 n n C13 C14 91Y sing 21 n n C13 C21 91Y sing 22 n n C14 C15 91Y sing 23 n n C21 C20 91Y sing 24 n n C15 C20 91Y doub 25 n y C15 C16 91Y sing 26 n y C20 C19 91Y sing 27 n y C16 C17 91Y doub 28 n y C19 C18 91Y doub 29 n y C17 C18 91Y sing 30 n y N3 H1 91Y sing 31 n n C6 H2 91Y sing 32 n n C7 H3 91Y sing 33 n n N12 H4 91Y sing 34 n n C13 H5 91Y sing 35 n n C17 H6 91Y sing 36 n n C21 H7 91Y sing 37 n n C21 H8 91Y sing 38 n n C22 H9 91Y sing 39 n n C24 H10 91Y sing 40 n n C24 H11 91Y sing 41 n n C26 H12 91Y sing 42 n n C26 H13 91Y sing 43 n n C14 H14 91Y sing 44 n n C14 H15 91Y sing 45 n n C16 H16 91Y sing 46 n n C18 H17 91Y sing 47 n n C19 H18 91Y sing 48 n n C23 H19 91Y sing 49 n n C23 H20 91Y sing 50 n n C25 H21 91Y sing 51 n n C25 H22 91Y sing 52 n n C27 H23 91Y sing 53 n n C27 H24 91Y sing 54 n n # _atom_sites.entry_id 5VAD _atom_sites.fract_transf_matrix[1][1] 0.014067 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005451 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010837 _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] 0.012642 _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 C 2 91Y A 1 1601 1601 91Y LIG . D 3 PRO A 1 1602 1602 PRO PRO . E 4 ZN A 1 1603 1604 ZN ZN . F 2 91Y B 1 1601 1601 91Y LIG . G 3 PRO B 1 1602 1602 PRO PRO . H 4 ZN B 1 1603 1604 ZN ZN . I 5 HOH A 1 1701 44 HOH HOH . I 5 HOH A 2 1702 115 HOH HOH . I 5 HOH A 3 1703 64 HOH HOH . I 5 HOH A 4 1704 131 HOH HOH . I 5 HOH A 5 1705 132 HOH HOH . I 5 HOH A 6 1706 91 HOH HOH . I 5 HOH A 7 1707 110 HOH HOH . I 5 HOH A 8 1708 5 HOH HOH . I 5 HOH A 9 1709 106 HOH HOH . I 5 HOH A 10 1710 62 HOH HOH . I 5 HOH A 11 1711 53 HOH HOH . I 5 HOH A 12 1712 114 HOH HOH . I 5 HOH A 13 1713 33 HOH HOH . I 5 HOH A 14 1714 63 HOH HOH . I 5 HOH A 15 1715 2 HOH HOH . I 5 HOH A 16 1716 56 HOH HOH . I 5 HOH A 17 1717 12 HOH HOH . I 5 HOH A 18 1718 65 HOH HOH . I 5 HOH A 19 1719 54 HOH HOH . I 5 HOH A 20 1720 25 HOH HOH . I 5 HOH A 21 1721 13 HOH HOH . I 5 HOH A 22 1722 58 HOH HOH . I 5 HOH A 23 1723 55 HOH HOH . I 5 HOH A 24 1724 122 HOH HOH . I 5 HOH A 25 1725 138 HOH HOH . I 5 HOH A 26 1726 1 HOH HOH . I 5 HOH A 27 1727 51 HOH HOH . I 5 HOH A 28 1728 108 HOH HOH . I 5 HOH A 29 1729 127 HOH HOH . I 5 HOH A 30 1730 24 HOH HOH . I 5 HOH A 31 1731 14 HOH HOH . I 5 HOH A 32 1732 137 HOH HOH . I 5 HOH A 33 1733 43 HOH HOH . I 5 HOH A 34 1734 41 HOH HOH . I 5 HOH A 35 1735 120 HOH HOH . I 5 HOH A 36 1736 112 HOH HOH . I 5 HOH A 37 1737 140 HOH HOH . I 5 HOH A 38 1738 47 HOH HOH . I 5 HOH A 39 1739 3 HOH HOH . I 5 HOH A 40 1740 21 HOH HOH . I 5 HOH A 41 1741 72 HOH HOH . I 5 HOH A 42 1742 141 HOH HOH . I 5 HOH A 43 1743 136 HOH HOH . I 5 HOH A 44 1744 45 HOH HOH . I 5 HOH A 45 1745 34 HOH HOH . I 5 HOH A 46 1746 125 HOH HOH . I 5 HOH A 47 1747 66 HOH HOH . I 5 HOH A 48 1748 128 HOH HOH . I 5 HOH A 49 1749 59 HOH HOH . I 5 HOH A 50 1750 60 HOH HOH . I 5 HOH A 51 1751 19 HOH HOH . I 5 HOH A 52 1752 28 HOH HOH . I 5 HOH A 53 1753 4 HOH HOH . I 5 HOH A 54 1754 18 HOH HOH . I 5 HOH A 55 1755 70 HOH HOH . I 5 HOH A 56 1756 113 HOH HOH . I 5 HOH A 57 1757 119 HOH HOH . I 5 HOH A 58 1758 134 HOH HOH . I 5 HOH A 59 1759 121 HOH HOH . I 5 HOH A 60 1760 22 HOH HOH . I 5 HOH A 61 1761 116 HOH HOH . I 5 HOH A 62 1762 67 HOH HOH . I 5 HOH A 63 1763 107 HOH HOH . I 5 HOH A 64 1764 118 HOH HOH . I 5 HOH A 65 1765 139 HOH HOH . I 5 HOH A 66 1766 71 HOH HOH . I 5 HOH A 67 1767 48 HOH HOH . I 5 HOH A 68 1768 126 HOH HOH . I 5 HOH A 69 1769 49 HOH HOH . I 5 HOH A 70 1770 129 HOH HOH . I 5 HOH A 71 1771 68 HOH HOH . I 5 HOH A 72 1772 26 HOH HOH . I 5 HOH A 73 1773 69 HOH HOH . J 5 HOH B 1 1701 39 HOH HOH . J 5 HOH B 2 1702 27 HOH HOH . J 5 HOH B 3 1703 42 HOH HOH . J 5 HOH B 4 1704 117 HOH HOH . J 5 HOH B 5 1705 142 HOH HOH . J 5 HOH B 6 1706 97 HOH HOH . J 5 HOH B 7 1707 124 HOH HOH . J 5 HOH B 8 1708 79 HOH HOH . J 5 HOH B 9 1709 90 HOH HOH . J 5 HOH B 10 1710 9 HOH HOH . J 5 HOH B 11 1711 46 HOH HOH . J 5 HOH B 12 1712 35 HOH HOH . J 5 HOH B 13 1713 133 HOH HOH . J 5 HOH B 14 1714 52 HOH HOH . J 5 HOH B 15 1715 29 HOH HOH . J 5 HOH B 16 1716 32 HOH HOH . J 5 HOH B 17 1717 61 HOH HOH . J 5 HOH B 18 1718 105 HOH HOH . J 5 HOH B 19 1719 78 HOH HOH . J 5 HOH B 20 1720 81 HOH HOH . J 5 HOH B 21 1721 92 HOH HOH . J 5 HOH B 22 1722 103 HOH HOH . J 5 HOH B 23 1723 38 HOH HOH . J 5 HOH B 24 1724 101 HOH HOH . J 5 HOH B 25 1725 57 HOH HOH . J 5 HOH B 26 1726 15 HOH HOH . J 5 HOH B 27 1727 80 HOH HOH . J 5 HOH B 28 1728 36 HOH HOH . J 5 HOH B 29 1729 23 HOH HOH . J 5 HOH B 30 1730 17 HOH HOH . J 5 HOH B 31 1731 37 HOH HOH . J 5 HOH B 32 1732 99 HOH HOH . J 5 HOH B 33 1733 76 HOH HOH . J 5 HOH B 34 1734 86 HOH HOH . J 5 HOH B 35 1735 84 HOH HOH . J 5 HOH B 36 1736 50 HOH HOH . J 5 HOH B 37 1737 11 HOH HOH . J 5 HOH B 38 1738 89 HOH HOH . J 5 HOH B 39 1739 130 HOH HOH . J 5 HOH B 40 1740 31 HOH HOH . J 5 HOH B 41 1741 111 HOH HOH . J 5 HOH B 42 1742 30 HOH HOH . J 5 HOH B 43 1743 73 HOH HOH . J 5 HOH B 44 1744 16 HOH HOH . J 5 HOH B 45 1745 6 HOH HOH . J 5 HOH B 46 1746 104 HOH HOH . J 5 HOH B 47 1747 93 HOH HOH . J 5 HOH B 48 1748 100 HOH HOH . J 5 HOH B 49 1749 8 HOH HOH . J 5 HOH B 50 1750 109 HOH HOH . J 5 HOH B 51 1751 98 HOH HOH . J 5 HOH B 52 1752 20 HOH HOH . J 5 HOH B 53 1753 7 HOH HOH . J 5 HOH B 54 1754 135 HOH HOH . J 5 HOH B 55 1755 87 HOH HOH . J 5 HOH B 56 1756 40 HOH HOH . J 5 HOH B 57 1757 85 HOH HOH . J 5 HOH B 58 1758 74 HOH HOH . J 5 HOH B 59 1759 94 HOH HOH . J 5 HOH B 60 1760 75 HOH HOH . J 5 HOH B 61 1761 95 HOH HOH . J 5 HOH B 62 1762 123 HOH HOH . J 5 HOH B 63 1763 10 HOH HOH . J 5 HOH B 64 1764 102 HOH HOH . J 5 HOH B 65 1765 82 HOH HOH . J 5 HOH B 66 1766 88 HOH HOH . J 5 HOH B 67 1767 77 HOH HOH . J 5 HOH B 68 1768 96 HOH HOH . J 5 HOH B 69 1769 83 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 N N3 91Y . . . F 2 -18.913 23.866 11.512 1 46.92 ? N3 91Y 1601 B 1 HETATM 2 C C4 91Y . . . F 2 -20.3 23.927 11.35 1 48.31 ? C4 91Y 1601 B 1 HETATM 3 C C6 91Y . . . F 2 -22.301 23.014 10.59 1 51.04 ? C6 91Y 1601 B 1 HETATM 4 C C7 91Y . . . F 2 -23.006 24.105 11.085 1 48.43 ? C7 91Y 1601 B 1 HETATM 5 C C10 91Y . . . F 2 -20.367 26.169 12.556 1 47.32 ? C10 91Y 1601 B 1 HETATM 6 N N12 91Y . . . F 2 -21.092 27.117 13.185 1 51.72 ? N12 91Y 1601 B 1 HETATM 7 C C13 91Y . . . F 2 -20.446 28.248 13.874 1 51.26 ? C13 91Y 1601 B 1 HETATM 8 C C15 91Y . . . F 2 -22.143 29.964 14.049 1 51.8 ? C15 91Y 1601 B 1 HETATM 9 C C17 91Y . . . F 2 -23.802 31.586 13.385 1 49.49 ? C17 91Y 1601 B 1 HETATM 10 C C20 91Y . . . F 2 -21.401 30.254 12.905 1 53.03 ? C20 91Y 1601 B 1 HETATM 11 C C21 91Y . . . F 2 -20.147 29.4 12.882 1 50.06 ? C21 91Y 1601 B 1 HETATM 12 C C22 91Y . . . F 2 -16.511 23.221 11.247 1 43.72 ? C22 91Y 1601 B 1 HETATM 13 C C24 91Y . . . F 2 -15.593 20.798 11.332 1 52.11 ? C24 91Y 1601 B 1 HETATM 14 C C26 91Y . . . F 2 -16.224 21.961 13.499 1 44.38 ? C26 91Y 1601 B 1 HETATM 15 O O1 91Y . . . F 2 -18.379 22.295 10.033 1 46.61 ? O1 91Y 1601 B 1 HETATM 16 C C2 91Y . . . F 2 -18.002 23.073 10.889 1 45.03 ? C2 91Y 1601 B 1 HETATM 17 N N5 91Y . . . F 2 -20.981 22.954 10.737 1 55.14 ? N5 91Y 1601 B 1 HETATM 18 N N8 91Y . . . F 2 -22.354 25.082 11.699 1 54.7 ? N8 91Y 1601 B 1 HETATM 19 C C9 91Y . . . F 2 -21.026 25.041 11.857 1 49.84 ? C9 91Y 1601 B 1 HETATM 20 O O11 91Y . . . F 2 -19.162 26.246 12.569 1 52.11 ? O11 91Y 1601 B 1 HETATM 21 C C14 91Y . . . F 2 -21.428 28.901 14.858 1 52.04 ? C14 91Y 1601 B 1 HETATM 22 C C16 91Y . . . F 2 -23.348 30.628 14.288 1 51.55 ? C16 91Y 1601 B 1 HETATM 23 C C18 91Y . . . F 2 -23.06 31.873 12.246 1 50.34 ? C18 91Y 1601 B 1 HETATM 24 C C19 91Y . . . F 2 -21.862 31.214 12 1 53.25 ? C19 91Y 1601 B 1 HETATM 25 C C23 91Y . . . F 2 -15.597 22.158 10.597 1 47.77 ? C23 91Y 1601 B 1 HETATM 26 C C25 91Y . . . F 2 -15.267 20.959 12.828 1 50.59 ? C25 91Y 1601 B 1 HETATM 27 C C27 91Y . . . F 2 -16.22 23.325 12.772 1 43.68 ? C27 91Y 1601 B 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 255 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #