data_4F7E # _model_server_result.job_id vECb8dXf2suqhpLjyQmf8g _model_server_result.datetime_utc '2024-11-17 21:48:15' _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 4f7e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 4F7E # _exptl.entry_id 4F7E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 718.057 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(2S,3S,4R)-1-(alpha-D-galactopyranosyloxy)-3,4-dihydroxyoctadecan-2-yl]hexadecanamide _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 4F7E _cell.length_a 55.785 _cell.length_b 74.479 _cell.length_c 122.917 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F7E _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 4 _struct_asym.id D _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 A 500 NAG 3 n C NAG 2 C 2 NAG A 501 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 206 A CYS 206 1_555 A SG CYS 261 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 B SG CYS 25 B CYS 25 1_555 B SG CYS 79 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 E C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _chem_comp.formula 'C40 H79 N O9' _chem_comp.formula_weight 718.057 _chem_comp.id 0SH _chem_comp.mon_nstd_flag . _chem_comp.name N-[(2S,3S,4R)-1-(alpha-D-galactopyranosyloxy)-3,4-dihydroxyoctadecan-2-yl]hexadecanamide _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 O4A C4A 0SH sing 1 n n O3A C3A 0SH sing 2 n n C4A C3A 0SH sing 3 n n C4A C5M 0SH sing 4 n n C3A C2A 0SH sing 5 n n C2A O2A 0SH sing 6 n n C2A C1A 0SH sing 7 n n C6A C5M 0SH sing 8 n n C6A O5A 0SH sing 9 n n C5M O6A 0SH sing 10 n n O6A C1A 0SH sing 11 n n C1A O1A 0SH sing 12 n n O1A C1 0SH sing 13 n n O3 C3 0SH sing 14 n n C1 C2 0SH sing 15 n n C3 C2 0SH sing 16 n n C3 C4 0SH sing 17 n n C2 N2 0SH sing 18 n n C4 O4 0SH sing 19 n n C4 C5 0SH sing 20 n n N2 CAA 0SH sing 21 n n OAA CAA 0SH doub 22 n n CAA CAB 0SH sing 23 n n C5 C6 0SH sing 24 n n CAB CAC 0SH sing 25 n n C6 C7 0SH sing 26 n n C7 C8 0SH sing 27 n n CAC CAD 0SH sing 28 n n C8 C9 0SH sing 29 n n C18 C17 0SH sing 30 n n CAD CAE 0SH sing 31 n n C16 C17 0SH sing 32 n n C16 C15 0SH sing 33 n n C9 C10 0SH sing 34 n n CAE CAF 0SH sing 35 n n C15 C14 0SH sing 36 n n C10 C11 0SH sing 37 n n C13 C14 0SH sing 38 n n C13 C12 0SH sing 39 n n C11 C12 0SH sing 40 n n CAF CAG 0SH sing 41 n n CAG CAH 0SH sing 42 n n CAH CAI 0SH sing 43 n n CAI CAJ 0SH sing 44 n n CAJ CAK 0SH sing 45 n n CAL CAK 0SH sing 46 n n CAL CAM 0SH sing 47 n n CAN CAM 0SH sing 48 n n CAN CAO 0SH sing 49 n n CAP CAO 0SH sing 50 n n C18 H1 0SH sing 51 n n C18 H2 0SH sing 52 n n C18 H3 0SH sing 53 n n C17 H4 0SH sing 54 n n C17 H5 0SH sing 55 n n C16 H6 0SH sing 56 n n C16 H7 0SH sing 57 n n C15 H8 0SH sing 58 n n C15 H9 0SH sing 59 n n C14 H10 0SH sing 60 n n C14 H11 0SH sing 61 n n C13 H12 0SH sing 62 n n C13 H13 0SH sing 63 n n C12 H14 0SH sing 64 n n C12 H15 0SH sing 65 n n C11 H16 0SH sing 66 n n C11 H17 0SH sing 67 n n C10 H18 0SH sing 68 n n C10 H19 0SH sing 69 n n C9 H20 0SH sing 70 n n C9 H21 0SH sing 71 n n C8 H22 0SH sing 72 n n C8 H23 0SH sing 73 n n C7 H24 0SH sing 74 n n C7 H25 0SH sing 75 n n C6 H26 0SH sing 76 n n C5 H28 0SH sing 77 n n C4 H30 0SH sing 78 n n O4 H31 0SH sing 79 n n C3 H32 0SH sing 80 n n O3 H33 0SH sing 81 n n C2 H34 0SH sing 82 n n C1 H35 0SH sing 83 n n C1 H36 0SH sing 84 n n C1A H37 0SH sing 85 n n C5M H38 0SH sing 86 n n C6A H39 0SH sing 87 n n C6A H40 0SH sing 88 n n O5A H41 0SH sing 89 n n C4A H42 0SH sing 90 n n O4A H43 0SH sing 91 n n C3A H44 0SH sing 92 n n O3A H45 0SH sing 93 n n C2A H46 0SH sing 94 n n O2A H47 0SH sing 95 n n N2 H48 0SH sing 96 n n CAB H49 0SH sing 97 n n CAB H50 0SH sing 98 n n CAC H51 0SH sing 99 n n CAC H52 0SH sing 100 n n CAD H53 0SH sing 101 n n CAD H54 0SH sing 102 n n CAE H55 0SH sing 103 n n CAE H56 0SH sing 104 n n CAF H57 0SH sing 105 n n CAF H58 0SH sing 106 n n CAG H59 0SH sing 107 n n CAG H60 0SH sing 108 n n CAH H61 0SH sing 109 n n CAH H62 0SH sing 110 n n CAI H63 0SH sing 111 n n CAI H64 0SH sing 112 n n CAJ H65 0SH sing 113 n n CAJ H66 0SH sing 114 n n CAK H67 0SH sing 115 n n CAK H68 0SH sing 116 n n CAL H69 0SH sing 117 n n CAL H70 0SH sing 118 n n CAM H71 0SH sing 119 n n CAM H72 0SH sing 120 n n CAN H73 0SH sing 121 n n CAN H74 0SH sing 122 n n CAO H75 0SH sing 123 n n CAO H76 0SH sing 124 n n CAP H77 0SH sing 125 n n CAP H78 0SH sing 126 n n CAP H79 0SH sing 127 n n C6 H27 0SH sing 128 n n C5 H29 0SH sing 129 n n # _atom_sites.entry_id 4F7E _atom_sites.fract_transf_matrix[1][1] 0.017926 _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] 0.013427 _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] 0.008136 _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 0SH A 1 301 282 0SH AGH . E 5 NAG A 1 304 502 NAG NAG . F 6 SO4 B 1 101 1 SO4 SO4 . G 7 HOH A 1 401 3 HOH HOH . G 7 HOH A 2 402 4 HOH HOH . G 7 HOH A 3 403 5 HOH HOH . G 7 HOH A 4 404 9 HOH HOH . G 7 HOH A 5 405 12 HOH HOH . G 7 HOH A 6 406 13 HOH HOH . G 7 HOH A 7 407 14 HOH HOH . G 7 HOH A 8 408 18 HOH HOH . G 7 HOH A 9 409 23 HOH HOH . G 7 HOH A 10 410 38 HOH HOH . G 7 HOH A 11 411 45 HOH HOH . G 7 HOH A 12 412 66 HOH HOH . G 7 HOH A 13 413 185 HOH HOH . G 7 HOH A 14 414 186 HOH HOH . G 7 HOH A 15 415 189 HOH HOH . G 7 HOH A 16 416 190 HOH HOH . G 7 HOH A 17 417 191 HOH HOH . G 7 HOH A 18 418 192 HOH HOH . G 7 HOH A 19 419 193 HOH HOH . H 7 HOH B 1 201 1 HOH HOH . H 7 HOH B 2 202 8 HOH HOH . H 7 HOH B 3 203 25 HOH HOH . H 7 HOH B 4 204 26 HOH HOH . H 7 HOH B 5 205 55 HOH HOH . H 7 HOH B 6 206 176 HOH HOH . H 7 HOH B 7 207 184 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 C18 0SH . . . D 4 -28.442 -14.831 -0.382 1 62.15 ? C18 0SH 301 A 1 HETATM 2 C C17 0SH . . . D 4 -27.489 -14.655 0.812 1 61.72 ? C17 0SH 301 A 1 HETATM 3 C C16 0SH . . . D 4 -26.048 -14.487 0.286 1 62.4 ? C16 0SH 301 A 1 HETATM 4 C C15 0SH . . . D 4 -25.029 -14.491 1.434 1 60.79 ? C15 0SH 301 A 1 HETATM 5 C C14 0SH . . . D 4 -24.894 -13.09 2.021 1 63.11 ? C14 0SH 301 A 1 HETATM 6 C C13 0SH . . . D 4 -23.434 -12.638 1.994 1 64.08 ? C13 0SH 301 A 1 HETATM 7 C C12 0SH . . . D 4 -23.364 -11.14 2.314 1 62.65 ? C12 0SH 301 A 1 HETATM 8 C C11 0SH . . . D 4 -21.93 -10.667 2.097 1 69.65 ? C11 0SH 301 A 1 HETATM 9 C C10 0SH . . . D 4 -21.906 -9.165 1.818 1 72.53 ? C10 0SH 301 A 1 HETATM 10 C C9 0SH . . . D 4 -21.279 -8.875 0.441 1 72.74 ? C9 0SH 301 A 1 HETATM 11 C C8 0SH . . . D 4 -22.351 -8.283 -0.491 1 72.23 ? C8 0SH 301 A 1 HETATM 12 C C7 0SH . . . D 4 -21.857 -6.986 -1.134 1 72.22 ? C7 0SH 301 A 1 HETATM 13 C C6 0SH . . . D 4 -22.882 -6.503 -2.169 1 72.86 ? C6 0SH 301 A 1 HETATM 14 C C5 0SH . . . D 4 -22.172 -5.62 -3.205 1 79 ? C5 0SH 301 A 1 HETATM 15 C C4 0SH . . . D 4 -23.18 -4.961 -4.168 1 89.02 ? C4 0SH 301 A 1 HETATM 16 O O4 0SH . . . D 4 -24.304 -4.41 -3.445 1 90.16 ? O4 0SH 301 A 1 HETATM 17 C C3 0SH . . . D 4 -22.481 -3.886 -5.052 1 89.65 ? C3 0SH 301 A 1 HETATM 18 O O3 0SH . . . D 4 -23.136 -3.847 -6.33 1 98.94 ? O3 0SH 301 A 1 HETATM 19 C C2 0SH . . . D 4 -22.445 -2.483 -4.364 1 89.57 ? C2 0SH 301 A 1 HETATM 20 C C1 0SH . . . D 4 -22.749 -1.27 -5.292 1 96.74 ? C1 0SH 301 A 1 HETATM 21 O O1A 0SH . . . D 4 -22.461 -1.538 -6.667 1 115.23 ? O1A 0SH 301 A 1 HETATM 22 C C1A 0SH . . . D 4 -23.226 -0.714 -7.595 1 117.41 ? C1A 0SH 301 A 1 HETATM 23 O O6A 0SH . . . D 4 -22.519 0.506 -7.942 1 125.64 ? O6A 0SH 301 A 1 HETATM 24 C C5M 0SH . . . D 4 -21.136 0.261 -8.407 1 131.57 ? C5M 0SH 301 A 1 HETATM 25 C C6A 0SH . . . D 4 -20.404 1.575 -8.738 1 132.44 ? C6A 0SH 301 A 1 HETATM 26 O O5A 0SH . . . D 4 -21.23 2.698 -8.404 1 128.5 ? O5A 0SH 301 A 1 HETATM 27 C C4A 0SH . . . D 4 -21.088 -0.728 -9.62 1 130.15 ? C4A 0SH 301 A 1 HETATM 28 O O4A 0SH . . . D 4 -21.342 -0.042 -10.866 1 131.98 ? O4A 0SH 301 A 1 HETATM 29 C C3A 0SH . . . D 4 -22.066 -1.943 -9.419 1 125.42 ? C3A 0SH 301 A 1 HETATM 30 O O3A 0SH . . . D 4 -22.232 -2.696 -10.636 1 124.75 ? O3A 0SH 301 A 1 HETATM 31 C C2A 0SH . . . D 4 -23.446 -1.508 -8.867 1 116.96 ? C2A 0SH 301 A 1 HETATM 32 O O2A 0SH . . . D 4 -24.248 -2.662 -8.576 1 106.77 ? O2A 0SH 301 A 1 HETATM 33 N N2 0SH . . . D 4 -21.161 -2.354 -3.624 1 83.43 ? N2 0SH 301 A 1 HETATM 34 C CAA 0SH . . . D 4 -20.535 -1.205 -3.282 1 77.75 ? CAA 0SH 301 A 1 HETATM 35 O OAA 0SH . . . D 4 -20.899 -0.075 -3.602 1 76.85 ? OAA 0SH 301 A 1 HETATM 36 C CAB 0SH . . . D 4 -19.248 -1.405 -2.471 1 72.36 ? CAB 0SH 301 A 1 HETATM 37 C CAC 0SH . . . D 4 -19.382 -0.757 -1.093 1 68.66 ? CAC 0SH 301 A 1 HETATM 38 C CAD 0SH . . . D 4 -19.004 -1.769 -0.001 1 66.05 ? CAD 0SH 301 A 1 HETATM 39 C CAE 0SH . . . D 4 -19.127 -1.108 1.371 1 60.27 ? CAE 0SH 301 A 1 HETATM 40 C CAF 0SH . . . D 4 -19.684 -2.095 2.4 1 59.48 ? CAF 0SH 301 A 1 HETATM 41 C CAG 0SH . . . D 4 -19.954 -1.341 3.71 1 59.84 ? CAG 0SH 301 A 1 HETATM 42 C CAH 0SH . . . D 4 -19.86 -2.283 4.913 1 59.8 ? CAH 0SH 301 A 1 HETATM 43 C CAI 0SH . . . D 4 -21.069 -2.059 5.833 1 60.46 ? CAI 0SH 301 A 1 HETATM 44 C CAJ 0SH . . . D 4 -20.757 -1.02 6.919 1 62.21 ? CAJ 0SH 301 A 1 HETATM 45 C CAK 0SH . . . D 4 -21.954 -0.787 7.868 1 58.02 ? CAK 0SH 301 A 1 HETATM 46 C CAL 0SH . . . D 4 -22.317 0.708 7.858 1 59.54 ? CAL 0SH 301 A 1 HETATM 47 C CAM 0SH . . . D 4 -22.298 1.299 9.277 1 57.18 ? CAM 0SH 301 A 1 HETATM 48 C CAN 0SH . . . D 4 -22.632 2.801 9.215 1 55.11 ? CAN 0SH 301 A 1 HETATM 49 C CAO 0SH . . . D 4 -21.744 3.59 10.21 1 57.66 ? CAO 0SH 301 A 1 HETATM 50 C CAP 0SH . . . D 4 -20.945 4.716 9.5 1 55.05 ? CAP 0SH 301 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 50 #