data_8XKS
#
_model_server_result.job_id            ZyS1skxvYkkTCe5QVw0t4g 
_model_server_result.datetime_utc      '2024-12-27 15:27:32' 
_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          8xks 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"CA","auth_seq_id":303}' 
#
_entry.id    8XKS 
#
_exptl.entry_id    8XKS 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              795.116 
_entity.id                          25 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    eicosameric 
_pdbx_struct_assembly.oligomeric_count      20 
_pdbx_struct_assembly.details               author_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 
_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    ? 
_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                      25 
_struct_asym.id                             CA 
_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
disulf ? disulf1 P SG CYS 200 P CYS 136 1_555 P SG CYS 253 P CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? 
covale ? covale1 R C ASP 71 R ASP 43 1_555 R N SEP 72 R SEP 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale2 R C SEP 72 R SEP 44 1_555 R N LEU 73 R LEU 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
metalc ? metalc1 C SG CYS 58 C CYS 58 1_555 U ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? 
metalc ? metalc2 C SG CYS 61 C CYS 61 1_555 U ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc3 C SG CYS 69 C CYS 69 1_555 V ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc4 C SG CYS 72 C CYS 72 1_555 V ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? 
metalc ? metalc5 C SG CYS 113 C CYS 113 1_555 V ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc6 C SG CYS 116 C CYS 116 1_555 V ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc7 C SG CYS 306 C CYS 306 1_555 U ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc8 C SG CYS 309 C CYS 309 1_555 U ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
#
_chem_comp.formula           'C41 H78 O12 S' 
_chem_comp.formula_weight    795.116 
_chem_comp.id                SQD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     SULFOQUINOVOSYLDIACYLGLYCEROL 
#
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
O6 C44 SQD sing 782 n n 
O6 C1 SQD sing 783 n n 
C44 C45 SQD sing 784 n n 
C44 H441 SQD sing 785 n n 
C44 H442 SQD sing 786 n n 
C45 C46 SQD sing 787 n n 
C45 O47 SQD sing 788 n n 
C45 H45 SQD sing 789 n n 
C46 O48 SQD sing 790 n n 
C46 H461 SQD sing 791 n n 
C46 H462 SQD sing 792 n n 
O47 C7 SQD sing 793 n n 
C7 O49 SQD doub 794 n n 
C7 C8 SQD sing 795 n n 
C8 C9 SQD sing 796 n n 
C8 H81 SQD sing 797 n n 
C8 H82 SQD sing 798 n n 
C9 C10 SQD sing 799 n n 
C9 H91 SQD sing 800 n n 
C9 H92 SQD sing 801 n n 
C10 C11 SQD sing 802 n n 
C10 H101 SQD sing 803 n n 
C10 H102 SQD sing 804 n n 
C11 C12 SQD sing 805 n n 
C11 H111 SQD sing 806 n n 
C11 H112 SQD sing 807 n n 
C12 C13 SQD sing 808 n n 
C12 H121 SQD sing 809 n n 
C12 H122 SQD sing 810 n n 
C13 C14 SQD sing 811 n n 
C13 H131 SQD sing 812 n n 
C13 H132 SQD sing 813 n n 
C14 C15 SQD sing 814 n n 
C14 H141 SQD sing 815 n n 
C14 H142 SQD sing 816 n n 
C15 C16 SQD sing 817 n n 
C15 H151 SQD sing 818 n n 
C15 H152 SQD sing 819 n n 
C16 C17 SQD sing 820 n n 
C16 H161 SQD sing 821 n n 
C16 H162 SQD sing 822 n n 
C17 C18 SQD sing 823 n n 
C17 H171 SQD sing 824 n n 
C17 H172 SQD sing 825 n n 
C18 C19 SQD sing 826 n n 
C18 H181 SQD sing 827 n n 
C18 H182 SQD sing 828 n n 
C19 C20 SQD sing 829 n n 
C19 H191 SQD sing 830 n n 
C19 H192 SQD sing 831 n n 
C20 C21 SQD sing 832 n n 
C20 H201 SQD sing 833 n n 
C20 H202 SQD sing 834 n n 
C21 C22 SQD sing 835 n n 
C21 H211 SQD sing 836 n n 
C21 H212 SQD sing 837 n n 
C22 H221 SQD sing 838 n n 
C22 H222 SQD sing 839 n n 
C22 H223 SQD sing 840 n n 
O48 C23 SQD sing 841 n n 
C23 O10 SQD doub 842 n n 
C23 C24 SQD sing 843 n n 
C24 C25 SQD sing 844 n n 
C24 H241 SQD sing 845 n n 
C24 H242 SQD sing 846 n n 
C25 C26 SQD sing 847 n n 
C25 H251 SQD sing 848 n n 
C25 H252 SQD sing 849 n n 
C26 C27 SQD sing 850 n n 
C26 H261 SQD sing 851 n n 
C26 H262 SQD sing 852 n n 
C27 C28 SQD sing 853 n n 
C27 H271 SQD sing 854 n n 
C27 H272 SQD sing 855 n n 
C28 C29 SQD sing 856 n n 
C28 H281 SQD sing 857 n n 
C28 H282 SQD sing 858 n n 
C29 C30 SQD sing 859 n n 
C29 H291 SQD sing 860 n n 
C29 H292 SQD sing 861 n n 
C30 C31 SQD sing 862 n n 
C30 H301 SQD sing 863 n n 
C30 H302 SQD sing 864 n n 
C31 C32 SQD sing 865 n n 
C31 H311 SQD sing 866 n n 
C31 H312 SQD sing 867 n n 
C32 C33 SQD sing 868 n n 
C32 H321 SQD sing 869 n n 
C32 H322 SQD sing 870 n n 
C33 C34 SQD sing 871 n n 
C33 H331 SQD sing 872 n n 
C33 H332 SQD sing 873 n n 
C34 C35 SQD sing 874 n n 
C34 H341 SQD sing 875 n n 
C34 H342 SQD sing 876 n n 
C35 C36 SQD sing 877 n n 
C35 H351 SQD sing 878 n n 
C35 H352 SQD sing 879 n n 
C36 C37 SQD sing 880 n n 
C36 H361 SQD sing 881 n n 
C36 H362 SQD sing 882 n n 
C37 C38 SQD sing 883 n n 
C37 H371 SQD sing 884 n n 
C37 H372 SQD sing 885 n n 
C38 H381 SQD sing 886 n n 
C38 H382 SQD sing 887 n n 
C38 H383 SQD sing 888 n n 
C1 C2 SQD sing 889 n n 
C1 O5 SQD sing 890 n n 
C1 H1 SQD sing 891 n n 
C2 O2 SQD sing 892 n n 
C2 C3 SQD sing 893 n n 
C2 H2 SQD sing 894 n n 
O2 HO2 SQD sing 895 n n 
C3 O3 SQD sing 896 n n 
C3 C4 SQD sing 897 n n 
C3 H3 SQD sing 898 n n 
O3 HO3 SQD sing 899 n n 
C4 O4 SQD sing 900 n n 
C4 C5 SQD sing 901 n n 
C4 H4 SQD sing 902 n n 
O4 HO4 SQD sing 903 n n 
C5 C6 SQD sing 904 n n 
C5 O5 SQD sing 905 n n 
C5 H5 SQD sing 906 n n 
C6 S SQD sing 907 n n 
C6 H61 SQD sing 908 n n 
C6 H62 SQD sing 909 n n 
S O7 SQD doub 910 n n 
S O8 SQD sing 911 n n 
S O9 SQD doub 912 n n 
O8 HO8 SQD sing 913 n n 
#
_atom_sites.entry_id                     8XKS 
_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
U 20 ZN C 1 501 501 ZN ZN . 
V 20 ZN C 1 502 502 ZN ZN . 
W 21 DGA H 1 701 701 DGA DGA . 
X 22 DGD J 1 401 401 DGD DGD . 
Y 23 LMG J 1 402 402 LMG LMG . 
Z 24 ACD K 1 501 501 ACD ACD . 
AA 23 LMG L 1 301 403 LMG LMG . 
BA 22 DGD L 1 302 301 DGD DGD . 
CA 25 SQD L 1 303 302 SQD SQD . 
#
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 O O6 SQD . . . CA 25 198.044 230.012 203.841 1 20.52 ? O6 SQD 303 L 1 
HETATM 2 C C44 SQD . . . CA 25 196.81 229.402 204.187 1 19.4 ? C44 SQD 303 L 1 
HETATM 3 C C45 SQD . . . CA 25 195.614 230.374 203.95 1 13.86 ? C45 SQD 303 L 1 
HETATM 4 C C46 SQD . . . CA 25 195.517 230.786 202.432 1 16.45 ? C46 SQD 303 L 1 
HETATM 5 O O47 SQD . . . CA 25 194.397 229.672 204.174 1 19.78 ? O47 SQD 303 L 1 
HETATM 6 C C7 SQD . . . CA 25 193.527 230.133 205.125 1 27.7 ? C7 SQD 303 L 1 
HETATM 7 O O49 SQD . . . CA 25 192.975 229.334 205.853 1 31.65 ? O49 SQD 303 L 1 
HETATM 8 C C8 SQD . . . CA 25 193.293 231.636 205.228 1 19.77 ? C8 SQD 303 L 1 
HETATM 9 C C9 SQD . . . CA 25 192.945 232.08 206.655 1 19.74 ? C9 SQD 303 L 1 
HETATM 10 C C10 SQD . . . CA 25 193.352 233.531 206.941 1 22.18 ? C10 SQD 303 L 1 
HETATM 11 C C11 SQD . . . CA 25 192.761 234.514 205.936 1 19.06 ? C11 SQD 303 L 1 
HETATM 12 O O48 SQD . . . CA 25 195.071 232.132 202.299 1 23.11 ? O48 SQD 303 L 1 
HETATM 13 C C23 SQD . . . CA 25 195.473 232.794 201.178 1 22.89 ? C23 SQD 303 L 1 
HETATM 14 O O10 SQD . . . CA 25 195.529 232.177 200.136 1 22.93 ? O10 SQD 303 L 1 
HETATM 15 C C24 SQD . . . CA 25 195.82 234.274 201.306 1 17.95 ? C24 SQD 303 L 1 
HETATM 16 C C25 SQD . . . CA 25 194.6 235.121 201.76 1 17.93 ? C25 SQD 303 L 1 
HETATM 17 C C26 SQD . . . CA 25 194.881 236.228 202.8 1 17.13 ? C26 SQD 303 L 1 
HETATM 18 C C27 SQD . . . CA 25 196.329 236.767 202.797 1 18.98 ? C27 SQD 303 L 1 
HETATM 19 C C28 SQD . . . CA 25 196.683 237.622 204.032 1 21.49 ? C28 SQD 303 L 1 
HETATM 20 C C29 SQD . . . CA 25 195.797 238.871 204.212 1 20.61 ? C29 SQD 303 L 1 
HETATM 21 C C30 SQD . . . CA 25 196.547 240.064 204.821 1 20.95 ? C30 SQD 303 L 1 
HETATM 22 C C31 SQD . . . CA 25 195.723 241.347 204.853 1 20.2 ? C31 SQD 303 L 1 
HETATM 23 C C1 SQD . . . CA 25 198.806 229.19 202.997 1 17.74 ? C1 SQD 303 L 1 
HETATM 24 C C2 SQD . . . CA 25 200.123 229.88 202.551 1 15.39 ? C2 SQD 303 L 1 
HETATM 25 O O2 SQD . . . CA 25 199.745 230.923 201.72 1 22.57 ? O2 SQD 303 L 1 
HETATM 26 C C3 SQD . . . CA 25 200.879 228.831 201.69 1 16.86 ? C3 SQD 303 L 1 
HETATM 27 O O3 SQD . . . CA 25 202.101 229.399 201.356 1 22.38 ? O3 SQD 303 L 1 
HETATM 28 C C4 SQD . . . CA 25 201.143 227.566 202.559 1 21.1 ? C4 SQD 303 L 1 
HETATM 29 O O4 SQD . . . CA 25 201.691 226.566 201.8 1 29.26 ? O4 SQD 303 L 1 
HETATM 30 C C5 SQD . . . CA 25 199.781 227.068 203.111 1 18.37 ? C5 SQD 303 L 1 
HETATM 31 C C6 SQD . . . CA 25 200.02 225.861 203.979 1 20.48 ? C6 SQD 303 L 1 
HETATM 32 O O5 SQD . . . CA 25 199.173 228.114 203.849 1 16.65 ? O5 SQD 303 L 1 
HETATM 33 S S SQD . . . CA 25 198.539 225.183 204.72 1 12.72 ? S SQD 303 L 1 
HETATM 34 O O7 SQD . . . CA 25 197.251 225.416 203.814 1 16.13 ? O7 SQD 303 L 1 
HETATM 35 O O8 SQD . . . CA 25 198.573 223.58 204.881 1 18.36 ? O8 SQD 303 L 1 
HETATM 36 O O9 SQD . . . CA 25 198.12 225.69 206.181 1 20.14 ? O9 SQD 303 L 1 
#
_model_server_stats.io_time_ms              35 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    112 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           36 
#