data_1V2V # _model_server_result.job_id iX1YA9otO-k2Gpqp14x85g _model_server_result.datetime_utc '2024-11-30 01:09:11' _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 1v2v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 1V2V # _exptl.entry_id 1V2V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 120.152 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BENZAMIDINE _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 1V2V _cell.length_a 61.63 _cell.length_b 70.58 _cell.length_c 64.13 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V2V _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 ? _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 _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 4 _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 disulf ? disulf1 A SG CYS 7 T CYS 22 1_555 A SG CYS 137 T CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 25 T CYS 42 1_555 A SG CYS 41 T CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 109 T CYS 128 1_555 A SG CYS 210 T CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 116 T CYS 136 1_555 A SG CYS 183 T CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 148 T CYS 168 1_555 A SG CYS 162 T CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 A SG CYS 173 T CYS 191 1_555 A SG CYS 197 T CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A OE1 GLU 52 T GLU 70 1_555 C CA CA . T CA 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc2 A O ASN 54 T ASN 72 1_555 C CA CA . T CA 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc3 A O VAL 57 T VAL 75 1_555 C CA CA . T CA 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc4 A OE2 GLU 62 T GLU 80 1_555 C CA CA . T CA 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc5 C CA CA . T CA 480 1_555 E O HOH . T HOH 711 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.625 ? metalc ? metalc6 C CA CA . T CA 480 1_555 E O HOH . T HOH 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.606 ? # _chem_comp.formula 'C7 H8 N2' _chem_comp.formula_weight 120.152 _chem_comp.id BEN _chem_comp.mon_nstd_flag . _chem_comp.name BENZAMIDINE _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 C1 C2 BEN doub 70 n y C1 C6 BEN sing 71 n y C1 C BEN sing 72 n n C2 C3 BEN sing 73 n y C2 H2 BEN sing 74 n n C3 C4 BEN doub 75 n y C3 H3 BEN sing 76 n n C4 C5 BEN sing 77 n y C4 H4 BEN sing 78 n n C5 C6 BEN doub 79 n y C5 H5 BEN sing 80 n n C6 H6 BEN sing 81 n n C N1 BEN doub 82 e n C N2 BEN sing 83 n n N1 HN1 BEN sing 84 n n N2 HN21 BEN sing 85 n n N2 HN22 BEN sing 86 n n # _atom_sites.entry_id 1V2V _atom_sites.fract_transf_matrix[1][1] 0.016226 _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] 0.014168 _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] 0.015593 _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 SO4 T 1 600 600 SO4 SO4 . C 3 CA T 1 480 480 CA CA . D 4 BEN T 1 1 1 BEN BEN . E 5 HOH T 1 406 406 HOH TIP . E 5 HOH T 2 408 408 HOH TIP . E 5 HOH T 3 410 410 HOH TIP . E 5 HOH T 4 412 412 HOH TIP . E 5 HOH T 5 415 415 HOH TIP . E 5 HOH T 6 416 416 HOH TIP . E 5 HOH T 7 429 429 HOH TIP . E 5 HOH T 8 430 430 HOH TIP . E 5 HOH T 9 457 457 HOH TIP . E 5 HOH T 10 470 470 HOH TIP . E 5 HOH T 11 473 473 HOH TIP . E 5 HOH T 12 516 516 HOH TIP . E 5 HOH T 13 562 562 HOH TIP . E 5 HOH T 14 604 604 HOH TIP . E 5 HOH T 15 700 700 HOH TIP . E 5 HOH T 16 701 701 HOH TIP . E 5 HOH T 17 703 703 HOH TIP . E 5 HOH T 18 704 704 HOH TIP . E 5 HOH T 19 705 705 HOH TIP . E 5 HOH T 20 706 706 HOH TIP . E 5 HOH T 21 707 707 HOH TIP . E 5 HOH T 22 708 708 HOH TIP . E 5 HOH T 23 709 709 HOH TIP . E 5 HOH T 24 711 711 HOH TIP . E 5 HOH T 25 714 714 HOH TIP . E 5 HOH T 26 715 715 HOH TIP . E 5 HOH T 27 716 716 HOH TIP . E 5 HOH T 28 717 717 HOH TIP . E 5 HOH T 29 718 718 HOH TIP . E 5 HOH T 30 721 721 HOH TIP . E 5 HOH T 31 722 722 HOH TIP . E 5 HOH T 32 736 736 HOH TIP . E 5 HOH T 33 746 746 HOH TIP . E 5 HOH T 34 764 764 HOH TIP . E 5 HOH T 35 769 769 HOH TIP . E 5 HOH T 36 772 772 HOH TIP . E 5 HOH T 37 781 781 HOH TIP . E 5 HOH T 38 783 783 HOH TIP . E 5 HOH T 39 784 784 HOH TIP . E 5 HOH T 40 785 785 HOH TIP . E 5 HOH T 41 793 793 HOH TIP . E 5 HOH T 42 829 829 HOH TIP . E 5 HOH T 43 834 834 HOH TIP . E 5 HOH T 44 1213 1213 HOH TIP . E 5 HOH T 45 1228 1228 HOH TIP . E 5 HOH T 46 1240 1240 HOH TIP . E 5 HOH T 47 1245 1245 HOH TIP . E 5 HOH T 48 1250 1250 HOH TIP . E 5 HOH T 49 1354 1354 HOH TIP . E 5 HOH T 50 4014 4014 HOH TIP . E 5 HOH T 51 4015 4015 HOH TIP . E 5 HOH T 52 4018 4018 HOH TIP . E 5 HOH T 53 4020 4020 HOH TIP . # 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 C1 BEN . . . D 4 -3.19 8.975 19.648 1 23.9 ? C1 BEN 1 T 1 HETATM 2 C C2 BEN . . . D 4 -1.828 8.735 19.229 1 21.21 ? C2 BEN 1 T 1 HETATM 3 C C3 BEN . . . D 4 -1.24 7.433 19.366 1 24.94 ? C3 BEN 1 T 1 HETATM 4 C C4 BEN . . . D 4 -2.007 6.354 19.925 1 23.46 ? C4 BEN 1 T 1 HETATM 5 C C5 BEN . . . D 4 -3.353 6.579 20.343 1 24.93 ? C5 BEN 1 T 1 HETATM 6 C C6 BEN . . . D 4 -3.945 7.883 20.207 1 23.5 ? C6 BEN 1 T 1 HETATM 7 C C BEN . . . D 4 -3.822 10.367 19.498 1 26.56 ? C BEN 1 T 1 HETATM 8 N N1 BEN . . . D 4 -5.122 10.51 19.639 1 27.28 ? N1 BEN 1 T 1 HETATM 9 N N2 BEN . . . D 4 -3.055 11.403 19.22 1 26.32 ? N2 BEN 1 T 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 9 #