data_3DZ5 # _model_server_result.job_id 8LxDm2JmqDZgkfMCmyo06A _model_server_result.datetime_utc '2024-12-05 15:50:49' _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 3dz5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":350}' # _entry.id 3DZ5 # _exptl.entry_id 3DZ5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 88.151 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,4-DIAMINOBUTANE _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 104.17 _cell.angle_gamma 90 _cell.entry_id 3DZ5 _cell.length_a 96.778 _cell.length_b 44.458 _cell.length_c 70.554 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DZ5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 _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 3 _struct_asym.id C _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 covale ? covale1 B C PYR 1 A PYR 68 1_555 B N SER 2 A SER 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? covale ? covale2 B CA PYR 1 A PYR 68 1_555 D N1 M8M . A M8M 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.493 ? # _chem_comp.formula 'C4 H12 N2' _chem_comp.formula_weight 88.151 _chem_comp.id PUT _chem_comp.mon_nstd_flag . _chem_comp.name 1,4-DIAMINOBUTANE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PUTRESCINE # 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 C4 PUT sing 327 n n N2 HN21 PUT sing 328 n n N2 HN22 PUT sing 329 n n C4 C3 PUT sing 330 n n C4 H41 PUT sing 331 n n C4 H42 PUT sing 332 n n C3 C2 PUT sing 333 n n C3 H31 PUT sing 334 n n C3 H32 PUT sing 335 n n C2 C1 PUT sing 336 n n C2 H21 PUT sing 337 n n C2 H22 PUT sing 338 n n C1 N1 PUT sing 339 n n C1 H11 PUT sing 340 n n C1 H12 PUT sing 341 n n N1 HN11 PUT sing 342 n n N1 HN12 PUT sing 343 n n # _atom_sites.entry_id 3DZ5 _atom_sites.fract_transf_matrix[1][1] 0.010333 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002609 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022493 _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] 0.014618 _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 3 PUT B 1 350 350 PUT PUT . D 4 M8M A 1 368 368 M8M M8M . E 5 HOH B 1 351 4 HOH HOH . E 5 HOH B 2 352 13 HOH HOH . E 5 HOH B 3 353 14 HOH HOH . E 5 HOH B 4 354 15 HOH HOH . E 5 HOH B 5 355 19 HOH HOH . E 5 HOH B 6 356 27 HOH HOH . E 5 HOH B 7 357 32 HOH HOH . E 5 HOH B 8 358 34 HOH HOH . E 5 HOH B 9 359 39 HOH HOH . E 5 HOH B 10 360 52 HOH HOH . E 5 HOH B 11 361 61 HOH HOH . E 5 HOH B 12 362 62 HOH HOH . E 5 HOH B 13 363 69 HOH HOH . F 5 HOH A 1 369 1 HOH HOH . F 5 HOH A 2 370 2 HOH HOH . F 5 HOH A 3 371 3 HOH HOH . F 5 HOH A 4 372 5 HOH HOH . F 5 HOH A 5 373 6 HOH HOH . F 5 HOH A 6 374 7 HOH HOH . F 5 HOH A 7 375 8 HOH HOH . F 5 HOH A 8 376 9 HOH HOH . F 5 HOH A 9 377 10 HOH HOH . F 5 HOH A 10 378 11 HOH HOH . F 5 HOH A 11 379 12 HOH HOH . F 5 HOH A 12 380 16 HOH HOH . F 5 HOH A 13 381 17 HOH HOH . F 5 HOH A 14 382 18 HOH HOH . F 5 HOH A 15 383 20 HOH HOH . F 5 HOH A 16 384 21 HOH HOH . F 5 HOH A 17 385 22 HOH HOH . F 5 HOH A 18 386 23 HOH HOH . F 5 HOH A 19 387 24 HOH HOH . F 5 HOH A 20 388 25 HOH HOH . F 5 HOH A 21 389 26 HOH HOH . F 5 HOH A 22 390 28 HOH HOH . F 5 HOH A 23 391 29 HOH HOH . F 5 HOH A 24 392 30 HOH HOH . F 5 HOH A 25 393 31 HOH HOH . F 5 HOH A 26 394 33 HOH HOH . F 5 HOH A 27 395 35 HOH HOH . F 5 HOH A 28 396 36 HOH HOH . F 5 HOH A 29 397 37 HOH HOH . F 5 HOH A 30 398 38 HOH HOH . F 5 HOH A 31 399 40 HOH HOH . F 5 HOH A 32 400 41 HOH HOH . F 5 HOH A 33 401 42 HOH HOH . F 5 HOH A 34 402 43 HOH HOH . F 5 HOH A 35 403 44 HOH HOH . F 5 HOH A 36 404 45 HOH HOH . F 5 HOH A 37 405 46 HOH HOH . F 5 HOH A 38 406 47 HOH HOH . F 5 HOH A 39 407 48 HOH HOH . F 5 HOH A 40 408 49 HOH HOH . F 5 HOH A 41 409 50 HOH HOH . F 5 HOH A 42 410 51 HOH HOH . F 5 HOH A 43 411 53 HOH HOH . F 5 HOH A 44 412 54 HOH HOH . F 5 HOH A 45 413 55 HOH HOH . F 5 HOH A 46 414 56 HOH HOH . F 5 HOH A 47 415 57 HOH HOH . F 5 HOH A 48 416 58 HOH HOH . F 5 HOH A 49 417 59 HOH HOH . F 5 HOH A 50 418 60 HOH HOH . F 5 HOH A 51 419 63 HOH HOH . F 5 HOH A 52 420 64 HOH HOH . F 5 HOH A 53 421 65 HOH HOH . F 5 HOH A 54 422 66 HOH HOH . F 5 HOH A 55 423 67 HOH HOH . F 5 HOH A 56 424 68 HOH HOH . F 5 HOH A 57 425 70 HOH HOH . F 5 HOH A 58 426 71 HOH HOH . F 5 HOH A 59 427 72 HOH HOH . F 5 HOH A 60 428 73 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 N2 PUT . . . C 3 -20.318 -17.925 23.482 1 24.07 ? N2 PUT 350 B 1 HETATM 2 C C4 PUT . . . C 3 -20.991 -18.545 24.489 1 28.08 ? C4 PUT 350 B 1 HETATM 3 C C3 PUT . . . C 3 -21.403 -19.883 24.174 1 28.64 ? C3 PUT 350 B 1 HETATM 4 C C2 PUT . . . C 3 -22.057 -20.408 25.3 1 28.09 ? C2 PUT 350 B 1 HETATM 5 C C1 PUT . . . C 3 -22.198 -21.816 25.307 1 30.32 ? C1 PUT 350 B 1 HETATM 6 N N1 PUT . . . C 3 -23.209 -22.027 24.377 1 28.04 ? N1 PUT 350 B 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #