data_2BDH # _model_server_result.job_id BsDvh0vyMUNw0hA061Wnng _model_server_result.datetime_utc '2024-11-07 15:41:17' _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 2bdh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":301}' # _entry.id 2BDH # _exptl.entry_id 2BDH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 136.174 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'P-AMINO BENZAMIDINE' _entity.pdbx_number_of_molecules 4 _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 2BDH _cell.length_a 73.488 _cell.length_b 73.488 _cell.length_c 338.315 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2BDH _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,J 1 1 B,G,K 2 1 C,H,L 3 1 D,I,M 4 1 A,E,F,J 5 1 B,G,K 5 2 # 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' 5_545 -x+1/2,y-1/2,-z+1/4 -1 0 0 0 1 0 0 0 -1 36.744 -36.744 84.57875 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I 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 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 A SG CYS 26 A CYS 42 1_555 A SG CYS 42 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 111 A CYS 128 1_555 A SG CYS 211 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 118 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 198 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf7 B SG CYS 7 B CYS 22 1_555 B SG CYS 137 B CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf8 B SG CYS 26 B CYS 42 1_555 B SG CYS 42 B CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 B SG CYS 111 B CYS 128 1_555 B SG CYS 211 B CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf10 B SG CYS 118 B CYS 136 1_555 B SG CYS 183 B CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 B SG CYS 148 B CYS 168 1_555 B SG CYS 162 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf12 B SG CYS 173 B CYS 191 1_555 B SG CYS 198 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf13 C SG CYS 7 C CYS 22 1_555 C SG CYS 137 C CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf14 C SG CYS 26 C CYS 42 1_555 C SG CYS 42 C CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 C SG CYS 111 C CYS 128 1_555 C SG CYS 211 C CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf16 C SG CYS 118 C CYS 136 1_555 C SG CYS 183 C CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf17 C SG CYS 148 C CYS 168 1_555 C SG CYS 162 C CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf18 C SG CYS 173 C CYS 191 1_555 C SG CYS 198 C CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf19 D SG CYS 7 D CYS 22 1_555 D SG CYS 137 D CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf20 D SG CYS 26 D CYS 42 1_555 D SG CYS 42 D CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf21 D SG CYS 111 D CYS 128 1_555 D SG CYS 211 D CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf22 D SG CYS 118 D CYS 136 1_555 D SG CYS 183 D CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf23 D SG CYS 148 D CYS 168 1_555 D SG CYS 162 D CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf24 D SG CYS 173 D CYS 191 1_555 D SG CYS 198 D CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc1 A NE2 HIS 10 A HIS 25 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc2 A OE2 GLU 61 A GLU 77 1_555 E ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc3 E ZN ZN . A ZN 401 1_555 B OE2 GLU 57 B GLU 74 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc4 E ZN ZN . A ZN 401 1_555 B OD2 ASP 59 B ASP 75 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc5 E ZN ZN . A ZN 401 1_555 B OD1 ASP 59 B ASP 75 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? # _chem_comp.formula 'C7 H10 N3 1' _chem_comp.formula_weight 136.174 _chem_comp.id PBZ _chem_comp.mon_nstd_flag . _chem_comp.name 'P-AMINO 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 N2 C7 PBZ sing 237 n n N2 HN21 PBZ sing 238 n n N2 HN22 PBZ sing 239 n n N3 C7 PBZ doub 240 n n N3 HN31 PBZ sing 241 n n N3 HN32 PBZ sing 242 n n C7 C4 PBZ sing 243 n n C4 C3 PBZ sing 244 n y C4 C5 PBZ doub 245 n y C2 C3 PBZ doub 246 n y C2 C1 PBZ sing 247 n y C2 H2 PBZ sing 248 n n C3 H3 PBZ sing 249 n n C5 C6 PBZ sing 250 n y C5 H5 PBZ sing 251 n n C6 C1 PBZ doub 252 n y C6 H6 PBZ sing 253 n n C1 N1 PBZ sing 254 n n N1 HN11 PBZ sing 255 n n N1 HN12 PBZ sing 256 n n # _atom_sites.entry_id 2BDH _atom_sites.fract_transf_matrix[1][1] 0.013608 _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] 0.013608 _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] 0.002956 _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 E 2 ZN A 1 401 1 ZN ZN2 . F 3 PBZ A 1 303 3 PBZ ABZ . G 3 PBZ B 1 301 1 PBZ ABZ . H 3 PBZ C 1 302 2 PBZ ABZ . I 3 PBZ D 1 304 4 PBZ ABZ . J 4 HOH A 1 402 7 HOH WAT . J 4 HOH A 2 403 8 HOH WAT . J 4 HOH A 3 404 17 HOH WAT . J 4 HOH A 4 405 18 HOH WAT . J 4 HOH A 5 406 24 HOH WAT . J 4 HOH A 6 407 25 HOH WAT . J 4 HOH A 7 408 29 HOH WAT . J 4 HOH A 8 409 31 HOH WAT . J 4 HOH A 9 410 37 HOH WAT . J 4 HOH A 10 411 39 HOH WAT . J 4 HOH A 11 412 46 HOH WAT . J 4 HOH A 12 413 47 HOH WAT . J 4 HOH A 13 414 50 HOH WAT . J 4 HOH A 14 415 52 HOH WAT . J 4 HOH A 15 416 56 HOH WAT . J 4 HOH A 16 417 57 HOH WAT . J 4 HOH A 17 418 60 HOH WAT . J 4 HOH A 18 419 66 HOH WAT . J 4 HOH A 19 420 68 HOH WAT . J 4 HOH A 20 421 70 HOH WAT . J 4 HOH A 21 422 72 HOH WAT . J 4 HOH A 22 423 73 HOH WAT . J 4 HOH A 23 424 74 HOH WAT . J 4 HOH A 24 425 78 HOH WAT . J 4 HOH A 25 426 84 HOH WAT . J 4 HOH A 26 427 87 HOH WAT . J 4 HOH A 27 428 89 HOH WAT . J 4 HOH A 28 429 90 HOH WAT . J 4 HOH A 29 430 92 HOH WAT . J 4 HOH A 30 431 93 HOH WAT . J 4 HOH A 31 432 95 HOH WAT . J 4 HOH A 32 433 98 HOH WAT . J 4 HOH A 33 434 102 HOH WAT . J 4 HOH A 34 435 107 HOH WAT . J 4 HOH A 35 436 111 HOH WAT . K 4 HOH B 1 302 3 HOH WAT . K 4 HOH B 2 303 4 HOH WAT . K 4 HOH B 3 304 5 HOH WAT . K 4 HOH B 4 305 9 HOH WAT . K 4 HOH B 5 306 10 HOH WAT . K 4 HOH B 6 307 11 HOH WAT . K 4 HOH B 7 308 19 HOH WAT . K 4 HOH B 8 309 21 HOH WAT . K 4 HOH B 9 310 22 HOH WAT . K 4 HOH B 10 311 33 HOH WAT . K 4 HOH B 11 312 38 HOH WAT . K 4 HOH B 12 313 45 HOH WAT . K 4 HOH B 13 314 48 HOH WAT . K 4 HOH B 14 315 51 HOH WAT . K 4 HOH B 15 316 58 HOH WAT . K 4 HOH B 16 317 59 HOH WAT . K 4 HOH B 17 318 67 HOH WAT . K 4 HOH B 18 319 77 HOH WAT . K 4 HOH B 19 320 79 HOH WAT . K 4 HOH B 20 321 81 HOH WAT . K 4 HOH B 21 322 94 HOH WAT . K 4 HOH B 22 323 99 HOH WAT . K 4 HOH B 23 324 101 HOH WAT . K 4 HOH B 24 325 103 HOH WAT . K 4 HOH B 25 326 106 HOH WAT . K 4 HOH B 26 327 108 HOH WAT . K 4 HOH B 27 328 109 HOH WAT . K 4 HOH B 28 329 110 HOH WAT . L 4 HOH C 1 303 13 HOH WAT . L 4 HOH C 2 304 28 HOH WAT . L 4 HOH C 3 305 30 HOH WAT . L 4 HOH C 4 306 32 HOH WAT . L 4 HOH C 5 307 36 HOH WAT . L 4 HOH C 6 308 40 HOH WAT . L 4 HOH C 7 309 41 HOH WAT . L 4 HOH C 8 310 42 HOH WAT . L 4 HOH C 9 311 49 HOH WAT . L 4 HOH C 10 312 53 HOH WAT . L 4 HOH C 11 313 54 HOH WAT . L 4 HOH C 12 314 62 HOH WAT . L 4 HOH C 13 315 63 HOH WAT . L 4 HOH C 14 316 69 HOH WAT . L 4 HOH C 15 317 75 HOH WAT . L 4 HOH C 16 318 83 HOH WAT . L 4 HOH C 17 319 85 HOH WAT . L 4 HOH C 18 320 104 HOH WAT . M 4 HOH D 1 305 1 HOH WAT . M 4 HOH D 2 306 2 HOH WAT . M 4 HOH D 3 307 6 HOH WAT . M 4 HOH D 4 308 12 HOH WAT . M 4 HOH D 5 309 14 HOH WAT . M 4 HOH D 6 310 15 HOH WAT . M 4 HOH D 7 311 16 HOH WAT . M 4 HOH D 8 312 20 HOH WAT . M 4 HOH D 9 313 23 HOH WAT . M 4 HOH D 10 314 26 HOH WAT . M 4 HOH D 11 315 27 HOH WAT . M 4 HOH D 12 316 34 HOH WAT . M 4 HOH D 13 317 35 HOH WAT . M 4 HOH D 14 318 43 HOH WAT . M 4 HOH D 15 319 44 HOH WAT . M 4 HOH D 16 320 55 HOH WAT . M 4 HOH D 17 321 61 HOH WAT . M 4 HOH D 18 322 64 HOH WAT . M 4 HOH D 19 323 65 HOH WAT . M 4 HOH D 20 324 71 HOH WAT . M 4 HOH D 21 325 76 HOH WAT . M 4 HOH D 22 326 80 HOH WAT . M 4 HOH D 23 327 82 HOH WAT . M 4 HOH D 24 328 86 HOH WAT . M 4 HOH D 25 329 88 HOH WAT . M 4 HOH D 26 330 91 HOH WAT . M 4 HOH D 27 331 96 HOH WAT . M 4 HOH D 28 332 97 HOH WAT . M 4 HOH D 29 333 100 HOH WAT . M 4 HOH D 30 334 105 HOH WAT . # 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 N2 PBZ . . . G 3 38.096 52.914 20.931 1 44.58 ? N2 PBZ 301 B 1 HETATM 2 N N3 PBZ . . . G 3 38.421 50.865 21.986 1 44.8 ? N3 PBZ 301 B 1 HETATM 3 C C7 PBZ . . . G 3 37.645 51.899 21.664 1 47.23 ? C7 PBZ 301 B 1 HETATM 4 C C4 PBZ . . . G 3 36.197 51.916 22.154 1 48.21 ? C4 PBZ 301 B 1 HETATM 5 C C2 PBZ . . . G 3 34.268 50.719 23.108 1 51.15 ? C2 PBZ 301 B 1 HETATM 6 C C3 PBZ . . . G 3 35.605 50.718 22.651 1 49.63 ? C3 PBZ 301 B 1 HETATM 7 C C5 PBZ . . . G 3 35.414 53.123 22.123 1 47.93 ? C5 PBZ 301 B 1 HETATM 8 C C6 PBZ . . . G 3 34.066 53.119 22.585 1 49.53 ? C6 PBZ 301 B 1 HETATM 9 C C1 PBZ . . . G 3 33.496 51.909 23.077 1 51.01 ? C1 PBZ 301 B 1 HETATM 10 N N1 PBZ . . . G 3 32.168 51.886 23.538 1 52.78 ? N1 PBZ 301 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 230 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #