data_5X2W # _model_server_result.job_id 4XFv9fm4Z4zw2cDA4MadlQ _model_server_result.datetime_utc '2024-11-02 15:29:55' _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 5x2w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 5X2W # _exptl.entry_id 5X2W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 378.338 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2E)-2-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]-4-(methylsulfanyl)but-2-enoic acid' _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 5X2W _cell.length_a 154.635 _cell.length_b 152.311 _cell.length_c 80.487 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5X2W _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,K,L _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 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C13 H19 N2 O7 P S' _chem_comp.formula_weight 378.338 _chem_comp.id 3LM _chem_comp.mon_nstd_flag . _chem_comp.name '(2E)-2-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]-4-(methylsulfanyl)but-2-enoic acid' _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 C O1 3LM doub 1 n n C CA 3LM sing 2 n n C O2 3LM sing 3 n n N CA 3LM sing 4 n n N C4A 3LM sing 5 n n P OP1 3LM doub 6 n n P OP2 3LM sing 7 n n P OP3 3LM sing 8 n n P OP4 3LM sing 9 n n N1 C2 3LM doub 10 n y N1 C6 3LM sing 11 n y C2 C3 3LM sing 12 n y C2 C2A 3LM sing 13 n n C3 O3 3LM sing 14 n n C3 C4 3LM doub 15 n y C4 C5 3LM sing 16 n y C4 C4A 3LM sing 17 n n C5 C6 3LM doub 18 n y C5 C5A 3LM sing 19 n n CA CB 3LM doub 20 n n CB CG 3LM sing 21 n n SD CE 3LM sing 22 n n SD CG 3LM sing 23 e n C5A OP4 3LM sing 24 n n N HN 3LM sing 25 n n O3 HO3 3LM sing 26 n n C6 H6 3LM sing 27 n n CB HB 3LM sing 28 n n CE HE 3LM sing 29 n n CE HEA 3LM sing 30 n n CE HEB 3LM sing 31 n n CG HG 3LM sing 32 n n CG HGA 3LM sing 33 n n C2A H2A 3LM sing 34 n n C2A H2A1 3LM sing 35 n n C2A H2A2 3LM sing 36 n n C4A H4A 3LM sing 37 n n C4A H4A1 3LM sing 38 n n C5A H5A 3LM sing 39 n n C5A H5A1 3LM sing 40 n n O2 H2 3LM sing 41 n n OP2 HOP2 3LM sing 42 n n OP3 HOP3 3LM sing 43 n n # _atom_sites.entry_id 5X2W _atom_sites.fract_transf_matrix[1][1] 0.006467 _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] 0.006566 _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] 0.012424 _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 3LM A 1 401 401 3LM 3LM . F 2 3LM B 1 401 401 3LM 3LM . G 2 3LM C 1 401 401 3LM 3LM . H 2 3LM D 1 401 401 3LM 3LM . I 3 HOH A 1 501 39 HOH HOH . I 3 HOH A 2 502 34 HOH HOH . I 3 HOH A 3 503 7 HOH HOH . I 3 HOH A 4 504 27 HOH HOH . I 3 HOH A 5 505 24 HOH HOH . I 3 HOH A 6 506 58 HOH HOH . I 3 HOH A 7 507 32 HOH HOH . I 3 HOH A 8 508 46 HOH HOH . I 3 HOH A 9 509 37 HOH HOH . I 3 HOH A 10 510 21 HOH HOH . I 3 HOH A 11 511 8 HOH HOH . J 3 HOH B 1 501 11 HOH HOH . J 3 HOH B 2 502 26 HOH HOH . J 3 HOH B 3 503 52 HOH HOH . J 3 HOH B 4 504 13 HOH HOH . J 3 HOH B 5 505 10 HOH HOH . J 3 HOH B 6 506 4 HOH HOH . J 3 HOH B 7 507 43 HOH HOH . J 3 HOH B 8 508 49 HOH HOH . J 3 HOH B 9 509 14 HOH HOH . J 3 HOH B 10 510 54 HOH HOH . J 3 HOH B 11 511 1 HOH HOH . J 3 HOH B 12 512 41 HOH HOH . J 3 HOH B 13 513 9 HOH HOH . J 3 HOH B 14 514 22 HOH HOH . J 3 HOH B 15 515 45 HOH HOH . J 3 HOH B 16 516 57 HOH HOH . J 3 HOH B 17 517 19 HOH HOH . J 3 HOH B 18 518 47 HOH HOH . J 3 HOH B 19 519 40 HOH HOH . J 3 HOH B 20 520 59 HOH HOH . J 3 HOH B 21 521 48 HOH HOH . J 3 HOH B 22 522 3 HOH HOH . K 3 HOH C 1 501 38 HOH HOH . K 3 HOH C 2 502 50 HOH HOH . K 3 HOH C 3 503 6 HOH HOH . K 3 HOH C 4 504 20 HOH HOH . K 3 HOH C 5 505 31 HOH HOH . K 3 HOH C 6 506 18 HOH HOH . K 3 HOH C 7 507 55 HOH HOH . K 3 HOH C 8 508 25 HOH HOH . K 3 HOH C 9 509 56 HOH HOH . K 3 HOH C 10 510 33 HOH HOH . K 3 HOH C 11 511 61 HOH HOH . K 3 HOH C 12 512 30 HOH HOH . L 3 HOH D 1 501 17 HOH HOH . L 3 HOH D 2 502 42 HOH HOH . L 3 HOH D 3 503 2 HOH HOH . L 3 HOH D 4 504 12 HOH HOH . L 3 HOH D 5 505 5 HOH HOH . L 3 HOH D 6 506 16 HOH HOH . L 3 HOH D 7 507 28 HOH HOH . L 3 HOH D 8 508 23 HOH HOH . L 3 HOH D 9 509 36 HOH HOH . L 3 HOH D 10 510 51 HOH HOH . L 3 HOH D 11 511 15 HOH HOH . L 3 HOH D 12 512 63 HOH HOH . L 3 HOH D 13 513 29 HOH HOH . L 3 HOH D 14 514 53 HOH HOH . L 3 HOH D 15 515 44 HOH HOH . L 3 HOH D 16 516 62 HOH HOH . L 3 HOH D 17 517 64 HOH HOH . L 3 HOH D 18 518 60 HOH HOH . L 3 HOH D 19 519 35 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 C 3LM . . . E 2 -39.11 27.016 -23.675 1 64.96 ? C 3LM 401 A 1 HETATM 2 N N 3LM . . . E 2 -36.706 27.161 -23.433 1 55 ? N 3LM 401 A 1 HETATM 3 O O1 3LM . . . E 2 -38.934 26.635 -24.851 1 67.64 ? O1 3LM 401 A 1 HETATM 4 P P 3LM . . . E 2 -32.297 27.103 -20.178 1 24.31 ? P 3LM 401 A 1 HETATM 5 N N1 3LM . . . E 2 -32.604 28.861 -25.923 1 37.48 ? N1 3LM 401 A 1 HETATM 6 C C2 3LM . . . E 2 -33.74 28.279 -26.324 1 39.18 ? C2 3LM 401 A 1 HETATM 7 C C3 3LM . . . E 2 -34.638 27.795 -25.374 1 40.77 ? C3 3LM 401 A 1 HETATM 8 O O3 3LM . . . E 2 -35.779 27.231 -25.858 1 41.59 ? O3 3LM 401 A 1 HETATM 9 C C4 3LM . . . E 2 -34.392 27.879 -23.983 1 41.4 ? C4 3LM 401 A 1 HETATM 10 C C5 3LM . . . E 2 -33.19 28.511 -23.585 1 36.11 ? C5 3LM 401 A 1 HETATM 11 C C6 3LM . . . E 2 -32.307 28.987 -24.559 1 36.49 ? C6 3LM 401 A 1 HETATM 12 C CA 3LM . . . E 2 -37.918 27.337 -22.82 1 62.2 ? CA 3LM 401 A 1 HETATM 13 C CB 3LM . . . E 2 -37.994 27.754 -21.478 1 64.6 ? CB 3LM 401 A 1 HETATM 14 S SD 3LM . . . E 2 -39.163 28.617 -18.997 1 79.97 ? SD 3LM 401 A 1 HETATM 15 C CE 3LM . . . E 2 -39.588 30.336 -19.209 1 76.22 ? CE 3LM 401 A 1 HETATM 16 C CG 3LM . . . E 2 -39.294 28.026 -20.689 1 70.8 ? CG 3LM 401 A 1 HETATM 17 C C2A 3LM . . . E 2 -34.026 28.174 -27.82 1 39.87 ? C2A 3LM 401 A 1 HETATM 18 C C4A 3LM . . . E 2 -35.345 27.406 -22.885 1 46.76 ? C4A 3LM 401 A 1 HETATM 19 C C5A 3LM . . . E 2 -32.761 28.683 -22.103 1 32.76 ? C5A 3LM 401 A 1 HETATM 20 O OP1 3LM . . . E 2 -31.627 25.809 -19.883 1 24.13 ? OP1 3LM 401 A 1 HETATM 21 O OP2 3LM . . . E 2 -33.707 27.055 -19.748 1 24.07 ? OP2 3LM 401 A 1 HETATM 22 O OP3 3LM . . . E 2 -31.594 28.19 -19.468 1 24.8 ? OP3 3LM 401 A 1 HETATM 23 O OP4 3LM . . . E 2 -32.231 27.413 -21.75 1 28.13 ? OP4 3LM 401 A 1 HETATM 24 O O2 3LM . . . E 2 -40.29 27.116 -23.284 1 69.16 ? O2 3LM 401 A 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 41 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #