data_8JL1 # _model_server_result.job_id OxkI-lNYex5BDHAUQ5Km5A _model_server_result.datetime_utc '2024-10-19 20:18:07' _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 8jl1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"KB","auth_seq_id":821}' # _entry.id 8JL1 # _exptl.entry_id 8JL1 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 142.282 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DECANE _entity.pdbx_number_of_molecules 2 _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 8JL1 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8JL1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB _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 ? 9 Z N N ? 9 KB N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 2 n C NAG 1 C 1 NAG A 801 NAG 2 n C NAG 2 C 2 NAG A 802 NAG 2 n D NAG 1 D 1 NAG A 803 NAG 2 n D NAG 2 D 2 NAG A 804 NAG 2 n E NAG 1 E 1 NAG B 801 NAG 2 n E NAG 2 E 2 NAG B 802 NAG 2 n F NAG 1 F 1 NAG B 803 NAG 2 n F NAG 2 F 2 NAG B 804 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 104 A CYS 104 1_555 A SG CYS 107 A CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 151 A CYS 151 1_555 A SG CYS 179 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 443 A CYS 443 1_555 A SG CYS 462 A CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 104 B CYS 104 1_555 B SG CYS 107 B CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 151 B CYS 151 1_555 B SG CYS 179 B CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 443 B CYS 443 1_555 B SG CYS 462 B CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 94 A ASN 94 1_555 H C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 142 A ASN 142 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 A ND2 ASN 162 A ASN 162 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 B ND2 ASN 94 B ASN 94 1_555 SA C1 NAG . B NAG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B ND2 ASN 142 B ASN 142 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 B ND2 ASN 162 B ASN 162 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale9 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale10 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? # _chem_comp.formula 'C10 H22' _chem_comp.formula_weight 142.282 _chem_comp.id D10 _chem_comp.mon_nstd_flag . _chem_comp.name DECANE _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 C1 C2 D10 sing 294 n n C1 H11 D10 sing 295 n n C1 H12 D10 sing 296 n n C1 H13 D10 sing 297 n n C2 C3 D10 sing 298 n n C2 H21 D10 sing 299 n n C2 H22 D10 sing 300 n n C3 C4 D10 sing 301 n n C3 H31 D10 sing 302 n n C3 H32 D10 sing 303 n n C4 C5 D10 sing 304 n n C4 H41 D10 sing 305 n n C4 H42 D10 sing 306 n n C5 C6 D10 sing 307 n n C5 H51 D10 sing 308 n n C5 H52 D10 sing 309 n n C6 C7 D10 sing 310 n n C6 H61 D10 sing 311 n n C6 H62 D10 sing 312 n n C7 C8 D10 sing 313 n n C7 H71 D10 sing 314 n n C7 H72 D10 sing 315 n n C8 C9 D10 sing 316 n n C8 H81 D10 sing 317 n n C8 H82 D10 sing 318 n n C9 C10 D10 sing 319 n n C9 H91 D10 sing 320 n n C9 H92 D10 sing 321 n n C10 H101 D10 sing 322 n n C10 H102 D10 sing 323 n n C10 H103 D10 sing 324 n n # _atom_sites.entry_id 8JL1 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 3 ACO A 1 801 702 ACO ACO . H 4 NAG A 1 802 800 NAG NAG . I 5 D12 A 1 803 901 D12 D12 . J 6 OCT A 1 804 902 OCT OCT . K 6 OCT A 1 805 903 OCT OCT . L 6 OCT A 1 806 904 OCT OCT . M 7 C14 A 1 807 906 C14 C14 . N 7 C14 A 1 808 907 C14 C14 . O 7 C14 A 1 809 908 C14 C14 . P 7 C14 A 1 810 909 C14 C14 . Q 7 C14 A 1 811 910 C14 C14 . R 6 OCT A 1 812 911 OCT OCT . S 7 C14 A 1 813 912 C14 C14 . T 6 OCT A 1 814 913 OCT OCT . U 8 CLR A 1 815 914 CLR CLR . V 6 OCT A 1 816 915 OCT OCT . W 7 C14 A 1 817 916 C14 C14 . X 7 C14 A 1 818 917 C14 C14 . Y 6 OCT A 1 819 918 OCT OCT . Z 9 D10 A 1 820 919 D10 D10 . AA 5 D12 A 1 821 920 D12 D12 . BA 6 OCT A 1 822 921 OCT OCT . CA 6 OCT A 1 823 922 OCT OCT . DA 6 OCT A 1 824 927 OCT OCT . EA 6 OCT A 1 825 928 OCT OCT . FA 7 C14 A 1 826 929 C14 C14 . GA 7 C14 A 1 827 932 C14 C14 . HA 7 C14 A 1 828 933 C14 C14 . IA 7 C14 A 1 829 934 C14 C14 . JA 6 OCT A 1 830 936 OCT OCT . KA 6 OCT A 1 831 937 OCT OCT . LA 10 R16 A 1 832 938 R16 R16 . MA 6 OCT A 1 833 939 OCT OCT . NA 6 OCT A 1 834 941 OCT OCT . OA 6 OCT A 1 835 942 OCT OCT . PA 5 D12 A 1 836 926 D12 D12 . QA 5 D12 B 1 801 926 D12 D12 . RA 3 ACO B 1 802 702 ACO ACO . SA 4 NAG B 1 803 800 NAG NAG . TA 5 D12 B 1 804 901 D12 D12 . UA 6 OCT B 1 805 902 OCT OCT . VA 6 OCT B 1 806 903 OCT OCT . WA 6 OCT B 1 807 904 OCT OCT . XA 7 C14 B 1 808 906 C14 C14 . YA 7 C14 B 1 809 907 C14 C14 . ZA 7 C14 B 1 810 908 C14 C14 . AB 7 C14 B 1 811 909 C14 C14 . BB 7 C14 B 1 812 910 C14 C14 . CB 6 OCT B 1 813 911 OCT OCT . DB 7 C14 B 1 814 912 C14 C14 . EB 6 OCT B 1 815 913 OCT OCT . FB 8 CLR B 1 816 914 CLR CLR . GB 6 OCT B 1 817 915 OCT OCT . HB 7 C14 B 1 818 916 C14 C14 . IB 7 C14 B 1 819 917 C14 C14 . JB 6 OCT B 1 820 918 OCT OCT . KB 9 D10 B 1 821 919 D10 D10 . LB 5 D12 B 1 822 920 D12 D12 . MB 6 OCT B 1 823 921 OCT OCT . NB 6 OCT B 1 824 922 OCT OCT . OB 6 OCT B 1 825 927 OCT OCT . PB 6 OCT B 1 826 928 OCT OCT . QB 7 C14 B 1 827 929 C14 C14 . RB 7 C14 B 1 828 932 C14 C14 . SB 7 C14 B 1 829 933 C14 C14 . TB 7 C14 B 1 830 934 C14 C14 . UB 6 OCT B 1 831 936 OCT OCT . VB 6 OCT B 1 832 937 OCT OCT . WB 10 R16 B 1 833 938 R16 R16 . XB 6 OCT B 1 834 939 OCT OCT . YB 6 OCT B 1 835 941 OCT OCT . ZB 6 OCT B 1 836 942 OCT OCT . # 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 C1 D10 . . . KB 9 143.891 190.621 156.074 1 47.71 ? C1 D10 821 B 1 HETATM 2 C C2 D10 . . . KB 9 143.659 190.626 157.578 1 47.77 ? C2 D10 821 B 1 HETATM 3 C C3 D10 . . . KB 9 144.781 189.944 158.347 1 47.28 ? C3 D10 821 B 1 HETATM 4 C C4 D10 . . . KB 9 144.476 189.792 159.828 1 46.26 ? C4 D10 821 B 1 HETATM 5 C C5 D10 . . . KB 9 145.424 188.841 160.543 1 44.31 ? C5 D10 821 B 1 HETATM 6 C C6 D10 . . . KB 9 144.774 188.142 161.729 1 44.33 ? C6 D10 821 B 1 HETATM 7 C C7 D10 . . . KB 9 145.418 186.804 162.06 1 48.18 ? C7 D10 821 B 1 HETATM 8 C C8 D10 . . . KB 9 144.679 186.036 163.147 1 49.1 ? C8 D10 821 B 1 HETATM 9 C C9 D10 . . . KB 9 145.386 184.753 163.565 1 41.98 ? C9 D10 821 B 1 HETATM 10 C C10 D10 . . . KB 9 144.589 183.955 164.586 1 39.27 ? C10 D10 821 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 226 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #