data_8SD2 # _model_server_result.job_id Y3Um-IVHLE9QKtjzHxau7w _model_server_result.datetime_utc '2024-12-18 04:12:17' _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 8sd2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":403}' # _entry.id 8SD2 # _exptl.entry_id 8SD2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.005 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NITRATE ION' _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 8SD2 _cell.length_a 166.638 _cell.length_b 166.638 _cell.length_c 166.638 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SD2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2,3 # 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_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 C 1 NAG C 1 NAG 3 n C NAG 2 C 2 NAG C 2 NAG # 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 5 A CYS 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 43 A CYS 52 1_555 A SG CYS 275 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf3 A SG CYS 56 A CYS 64 1_555 A SG CYS 68 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf4 A SG CYS 91 A CYS 97 1_555 A SG CYS 136 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf5 A SG CYS 279 A CYS 281 1_555 A SG CYS 303 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? covale ? covale1 A ND2 ASN 12 A ASN 21 1_555 E C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 A ND2 ASN 24 A ASN 33 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale3 A ND2 ASN 287 A ASN 289 1_555 D C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? # _chem_comp.formula 'N O3 -1' _chem_comp.formula_weight 62.005 _chem_comp.id NO3 _chem_comp.mon_nstd_flag . _chem_comp.name 'NITRATE ION' _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 N O1 NO3 doub 327 n n N O2 NO3 sing 328 n n N O3 NO3 sing 329 n n # _atom_sites.entry_id 8SD2 _atom_sites.fract_transf_matrix[1][1] 0.006001 _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] 0.006001 _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] 0.006001 _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 D 4 NAG A 1 401 326 NAG NAG . E 4 NAG A 1 402 328 NAG NAG . F 5 NO3 A 1 403 331 NO3 NO3 . G 6 FIE B 1 201 1 FIE FIE . H 7 HOH A 1 501 16 HOH HOH . H 7 HOH A 2 502 2 HOH HOH . H 7 HOH A 3 503 31 HOH HOH . H 7 HOH A 4 504 33 HOH HOH . H 7 HOH A 5 505 24 HOH HOH . H 7 HOH A 6 506 21 HOH HOH . H 7 HOH A 7 507 6 HOH HOH . H 7 HOH A 8 508 37 HOH HOH . H 7 HOH A 9 509 13 HOH HOH . H 7 HOH A 10 510 18 HOH HOH . H 7 HOH A 11 511 20 HOH HOH . H 7 HOH A 12 512 39 HOH HOH . H 7 HOH A 13 513 4 HOH HOH . H 7 HOH A 14 514 25 HOH HOH . H 7 HOH A 15 515 28 HOH HOH . H 7 HOH A 16 516 7 HOH HOH . H 7 HOH A 17 517 38 HOH HOH . H 7 HOH A 18 518 1 HOH HOH . H 7 HOH A 19 519 10 HOH HOH . H 7 HOH A 20 520 34 HOH HOH . H 7 HOH A 21 521 40 HOH HOH . H 7 HOH A 22 522 5 HOH HOH . H 7 HOH A 23 523 8 HOH HOH . H 7 HOH A 24 524 26 HOH HOH . H 7 HOH A 25 525 22 HOH HOH . H 7 HOH A 26 526 9 HOH HOH . H 7 HOH A 27 527 29 HOH HOH . H 7 HOH A 28 528 11 HOH HOH . H 7 HOH A 29 529 14 HOH HOH . H 7 HOH A 30 530 32 HOH HOH . H 7 HOH A 31 531 17 HOH HOH . H 7 HOH A 32 532 15 HOH HOH . H 7 HOH A 33 533 30 HOH HOH . H 7 HOH A 34 534 19 HOH HOH . H 7 HOH A 35 535 27 HOH HOH . H 7 HOH A 36 536 3 HOH HOH . H 7 HOH A 37 537 41 HOH HOH . H 7 HOH A 38 538 12 HOH HOH . I 7 HOH B 1 301 35 HOH HOH . I 7 HOH B 2 302 36 HOH HOH . I 7 HOH B 3 303 23 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 NO3 . . . F 5 -64.912 -28.784 -41.672 1 107.05 ? N NO3 403 A 1 HETATM 2 O O1 NO3 . . . F 5 -65.041 -28.91 -40.451 1 96.06 ? O1 NO3 403 A 1 HETATM 3 O O2 NO3 . . . F 5 -65.688 -28.073 -42.317 1 95.13 ? O2 NO3 403 A 1 HETATM 4 O O3 NO3 . . . F 5 -63.996 -29.362 -42.245 1 108.28 ? O3 NO3 403 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #