data_6WKB # _model_server_result.job_id gCOXc4F0wjXyTDO50DOY6Q _model_server_result.datetime_utc '2024-11-23 05:34:22' _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 6wkb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 6WKB # _exptl.entry_id 6WKB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 149.211 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description D-METHIONINE _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 120 _cell.entry_id 6WKB _cell.length_a 144.191 _cell.length_b 144.191 _cell.length_c 188.196 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WKB _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # _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,G,H,I _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 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 covale ? covale1 C C5' U4P . A U4P 401 1_555 F SD MET . B MET 502 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.839 ? covale ? covale2 D SD MED . A MED 402 1_555 G C5' U4P . B U4P 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? # _chem_comp.formula 'C5 H11 N O2 S' _chem_comp.formula_weight 149.211 _chem_comp.id MED _chem_comp.mon_nstd_flag . _chem_comp.name D-METHIONINE _chem_comp.type 'd-peptide linking' _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 N CA MED sing 227 n n N H MED sing 228 n n N H2 MED sing 229 n n CA C MED sing 230 n n CA CB MED sing 231 n n CA HA MED sing 232 n n C O MED doub 233 n n C OXT MED sing 234 n n CB CG MED sing 235 n n CB HB2 MED sing 236 n n CB HB3 MED sing 237 n n CG SD MED sing 238 n n CG HG2 MED sing 239 n n CG HG3 MED sing 240 n n SD CE MED sing 241 n n CE HE1 MED sing 242 n n CE HE2 MED sing 243 n n CE HE3 MED sing 244 n n OXT HXT MED sing 245 n n # _atom_sites.entry_id 6WKB _atom_sites.fract_transf_matrix[1][1] 0.006935 _atom_sites.fract_transf_matrix[1][2] 0.004004 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008008 _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] 0.005314 _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 U4P A 1 401 601 U4P DRG . D 3 MED A 1 402 601 MED DRG . E 4 EDO B 1 501 501 EDO EDO . F 5 MET B 1 502 601 MET DRG . G 2 U4P B 1 503 601 U4P DRG . H 6 HOH A 1 501 30 HOH HOH . H 6 HOH A 2 502 1 HOH HOH . H 6 HOH A 3 503 9 HOH HOH . H 6 HOH A 4 504 7 HOH HOH . H 6 HOH A 5 505 12 HOH HOH . H 6 HOH A 6 506 4 HOH HOH . H 6 HOH A 7 507 10 HOH HOH . I 6 HOH B 1 601 26 HOH HOH . I 6 HOH B 2 602 28 HOH HOH . I 6 HOH B 3 603 20 HOH HOH . I 6 HOH B 4 604 24 HOH HOH . I 6 HOH B 5 605 27 HOH HOH . I 6 HOH B 6 606 14 HOH HOH . I 6 HOH B 7 607 8 HOH HOH . I 6 HOH B 8 608 17 HOH HOH . I 6 HOH B 9 609 31 HOH HOH . I 6 HOH B 10 610 3 HOH HOH . I 6 HOH B 11 611 21 HOH HOH . I 6 HOH B 12 612 5 HOH HOH . I 6 HOH B 13 613 23 HOH HOH . I 6 HOH B 14 614 18 HOH HOH . I 6 HOH B 15 615 2 HOH HOH . I 6 HOH B 16 616 32 HOH HOH . I 6 HOH B 17 617 6 HOH HOH . I 6 HOH B 18 618 33 HOH HOH . I 6 HOH B 19 619 25 HOH HOH . I 6 HOH B 20 620 15 HOH HOH . I 6 HOH B 21 621 29 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 N MED . . . D 3 17.315 -38.321 44.478 0.86 118.93 ? N MED 402 A 1 HETATM 2 C CA MED . . . D 3 17.649 -37.424 43.39 0.86 116.58 ? CA MED 402 A 1 HETATM 3 C C MED . . . D 3 17.518 -35.987 43.858 0.86 112.5 ? C MED 402 A 1 HETATM 4 O O MED . . . D 3 16.386 -35.483 44.03 0.86 110.88 ? O MED 402 A 1 HETATM 5 C CB MED . . . D 3 19.113 -37.674 42.945 0.86 111.53 ? CB MED 402 A 1 HETATM 6 C CG MED . . . D 3 19.406 -39.221 43.013 0.86 114.5 ? CG MED 402 A 1 HETATM 7 S SD MED . . . D 3 20.9 -39.526 44.001 0.86 115.49 ? SD MED 402 A 1 HETATM 8 C CE MED . . . D 3 21.983 -38.105 43.841 0.86 111.02 ? CE MED 402 A 1 HETATM 9 O OXT MED . . . D 3 18.55 -35.301 44.063 0.86 115.56 ? OXT MED 402 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #