data_2VD5 # _model_server_result.job_id wPZC6kFttVcH8Qph6yBA0w _model_server_result.datetime_utc '2024-10-13 02:28:50' _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 2vd5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1417}' # _entry.id 2VD5 # _exptl.entry_id 2VD5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.457 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-[1-(3-AMINOPROPYL)-1H-INDOL-3-YL]-4-(1-METHYL-1H-INDOL-3-YL)-1H-PYRROLE-2,5-DIONE _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 90 _cell.angle_gamma 120 _cell.entry_id 2VD5 _cell.length_a 122.599 _cell.length_b 122.599 _cell.length_c 134.278 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VD5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS dimeric 2 author_and_software_defined_assembly 1 PQS dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1,2 B,D,F 2 1,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_645 y+1,x-1,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 183.8985 -106.173848 0 3 'crystal symmetry operation' 6_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 89.518667 # 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 D 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 198 A CYS 206 1_555 B SG CYS 357 B CYS 365 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 357 A CYS 365 1_555 B SG CYS 198 B CYS 206 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? # _chem_comp.formula 'C24 H22 N4 O2' _chem_comp.formula_weight 398.457 _chem_comp.id BI8 _chem_comp.mon_nstd_flag . _chem_comp.name 3-[1-(3-AMINOPROPYL)-1H-INDOL-3-YL]-4-(1-METHYL-1H-INDOL-3-YL)-1H-PYRROLE-2,5-DIONE _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 CB0 NAO BI8 sing 70 n n CB0 HB01 BI8 sing 71 n n CB0 HB02 BI8 sing 72 n n CB0 HB03 BI8 sing 73 n n NBC CBB BI8 sing 74 n n NBC HBC1 BI8 sing 75 n n NBC HBC2 BI8 sing 76 n n CBB CBA BI8 sing 77 n n CBB HBB1 BI8 sing 78 n n CBB HBB2 BI8 sing 79 n n CBA CAY BI8 sing 80 n n CBA HBA1 BI8 sing 81 n n CBA HBA2 BI8 sing 82 n n CAY NAH BI8 sing 83 n n CAY HAY1 BI8 sing 84 n n CAY HAY2 BI8 sing 85 n n NAH CAW BI8 sing 86 n y NAH CAE BI8 sing 87 n y CAW CAG BI8 doub 88 n y CAW HAW BI8 sing 89 n n CAE CAF BI8 sing 90 n y CAE CAD BI8 doub 91 n y CAF CAA BI8 doub 92 n y CAF HAF BI8 sing 93 n n CAA CAB BI8 sing 94 n y CAA HAA BI8 sing 95 n n CAB CAC BI8 doub 96 n y CAB HAB BI8 sing 97 n n CAC CAD BI8 sing 98 n y CAC HAC BI8 sing 99 n n CAD CAG BI8 sing 100 n y CAG CAI BI8 sing 101 n n CAI CAT BI8 sing 102 n n CAI CAJ BI8 doub 103 n n CAT OAZ BI8 doub 104 n n CAT NAU BI8 sing 105 n n NAU CAV BI8 sing 106 n n NAU HAU BI8 sing 107 n n CAV OAX BI8 doub 108 n n CAV CAJ BI8 sing 109 n n CAJ CAK BI8 sing 110 n n CAK CAM BI8 sing 111 n y CAK CAL BI8 doub 112 n y CAM CAP BI8 doub 113 n y CAM CAN BI8 sing 114 n y CAP CAQ BI8 sing 115 n y CAP HAP BI8 sing 116 n n CAQ CAR BI8 doub 117 n y CAQ HAQ BI8 sing 118 n n CAR CAS BI8 sing 119 n y CAR HAR BI8 sing 120 n n CAS CAN BI8 doub 121 n y CAS HAS BI8 sing 122 n n CAN NAO BI8 sing 123 n y NAO CAL BI8 sing 124 n y CAL HAL BI8 sing 125 n n # _atom_sites.entry_id 2VD5 _atom_sites.fract_transf_matrix[1][1] 0.008157 _atom_sites.fract_transf_matrix[1][2] 0.004709 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009419 _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] 0.007447 _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 BI8 A 1 1417 1417 BI8 BI8 . D 2 BI8 B 1 1417 1417 BI8 BI8 . E 3 HOH A 1 2001 2001 HOH HOH . E 3 HOH A 2 2002 2002 HOH HOH . E 3 HOH A 3 2003 2003 HOH HOH . E 3 HOH A 4 2004 2004 HOH HOH . E 3 HOH A 5 2005 2005 HOH HOH . E 3 HOH A 6 2006 2006 HOH HOH . F 3 HOH B 1 2001 2001 HOH HOH . F 3 HOH B 2 2002 2002 HOH HOH . F 3 HOH B 3 2003 2003 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 CB0 BI8 . . . C 2 66.012 -42.034 24.31 1 36.81 ? CB0 BI8 1417 A 1 HETATM 2 N NBC BI8 . . . C 2 61.118 -46.211 16.874 1 38.54 ? NBC BI8 1417 A 1 HETATM 3 C CBB BI8 . . . C 2 61.699 -45.321 17.865 1 55.07 ? CBB BI8 1417 A 1 HETATM 4 C CBA BI8 . . . C 2 63.194 -45.59 17.864 1 51.72 ? CBA BI8 1417 A 1 HETATM 5 C CAY BI8 . . . C 2 63.894 -44.353 17.38 1 41.79 ? CAY BI8 1417 A 1 HETATM 6 N NAH BI8 . . . C 2 65.334 -44.492 17.463 1 42.76 ? NAH BI8 1417 A 1 HETATM 7 C CAW BI8 . . . C 2 66.074 -43.737 18.257 1 46.86 ? CAW BI8 1417 A 1 HETATM 8 C CAE BI8 . . . C 2 66.083 -45.322 16.76 1 43.66 ? CAE BI8 1417 A 1 HETATM 9 C CAF BI8 . . . C 2 65.767 -46.268 15.796 1 33.43 ? CAF BI8 1417 A 1 HETATM 10 C CAA BI8 . . . C 2 66.79 -46.992 15.215 1 41.14 ? CAA BI8 1417 A 1 HETATM 11 C CAB BI8 . . . C 2 68.108 -46.754 15.595 1 44.31 ? CAB BI8 1417 A 1 HETATM 12 C CAC BI8 . . . C 2 68.421 -45.795 16.55 1 39.28 ? CAC BI8 1417 A 1 HETATM 13 C CAD BI8 . . . C 2 67.403 -45.076 17.143 1 41.4 ? CAD BI8 1417 A 1 HETATM 14 C CAG BI8 . . . C 2 67.348 -44.094 18.139 1 41.09 ? CAG BI8 1417 A 1 HETATM 15 C CAI BI8 . . . C 2 68.372 -43.426 18.802 1 37.43 ? CAI BI8 1417 A 1 HETATM 16 C CAT BI8 . . . C 2 69.542 -42.975 18.186 1 42.61 ? CAT BI8 1417 A 1 HETATM 17 O OAZ BI8 . . . C 2 69.888 -43.224 17.034 1 44.19 ? OAZ BI8 1417 A 1 HETATM 18 N NAU BI8 . . . C 2 70.281 -42.267 19.034 1 44.45 ? NAU BI8 1417 A 1 HETATM 19 C CAV BI8 . . . C 2 69.604 -42.212 20.189 1 48.08 ? CAV BI8 1417 A 1 HETATM 20 O OAX BI8 . . . C 2 70.011 -41.619 21.185 1 42.51 ? OAX BI8 1417 A 1 HETATM 21 C CAJ BI8 . . . C 2 68.379 -42.895 20.096 1 41.16 ? CAJ BI8 1417 A 1 HETATM 22 C CAK BI8 . . . C 2 67.466 -43.022 21.172 1 38.72 ? CAK BI8 1417 A 1 HETATM 23 C CAM BI8 . . . C 2 66.544 -44.063 21.399 1 40.29 ? CAM BI8 1417 A 1 HETATM 24 C CAP BI8 . . . C 2 66.161 -45.22 20.709 1 38.84 ? CAP BI8 1417 A 1 HETATM 25 C CAQ BI8 . . . C 2 65.166 -46.046 21.229 1 40.5 ? CAQ BI8 1417 A 1 HETATM 26 C CAR BI8 . . . C 2 64.534 -45.744 22.44 1 36.24 ? CAR BI8 1417 A 1 HETATM 27 C CAS BI8 . . . C 2 64.895 -44.598 23.136 1 34.27 ? CAS BI8 1417 A 1 HETATM 28 C CAN BI8 . . . C 2 65.896 -43.779 22.607 1 45.11 ? CAN BI8 1417 A 1 HETATM 29 N NAO BI8 . . . C 2 66.43 -42.662 23.054 1 47.67 ? NAO BI8 1417 A 1 HETATM 30 C CAL BI8 . . . C 2 67.369 -42.202 22.219 1 44.95 ? CAL BI8 1417 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 259 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 30 #