data_5TE3 # _model_server_result.job_id czkorocHUzdUstaMkXP22g _model_server_result.datetime_utc '2024-11-23 05:43:45' _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 5te3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":406}' # _entry.id 5TE3 # _exptl.entry_id 5TE3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 3 _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 5TE3 _cell.length_a 242.66 _cell.length_b 242.66 _cell.length_c 111.77 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TE3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J 1 1 A,B,C,D,E,F,G,H,I,J 2 1,2 # 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' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 111.77 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N ? 3 I N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . 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 B NAG 1 B 1 NAG A 401 NAG 2 n B NAG 2 B 2 NAG A 402 NAG 2 n B BMA 3 B 3 BMA A 403 BMA 2 n B MAN 4 B 4 MAN A 404 MAN # 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 110 A CYS 110 1_555 A SG CYS 187 A CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 A ND2 ASN 15 A ASN 15 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 A SG CYS 322 A CYS 322 1_555 E C1 PLM . A PLM 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? covale ? covale3 A SG CYS 323 A CYS 323 1_555 H C1 PLM . A PLM 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.613 ? covale ? covale4 A SG CYS 323 A CYS 323 1_555 H O2 PLM . A PLM 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.715 ? covale ? covale5 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale7 B O3 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? # _chem_comp.formula 'C14 H28 O6' _chem_comp.formula_weight 292.369 _chem_comp.id BOG _chem_comp.mon_nstd_flag n _chem_comp.name 'octyl beta-D-glucopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'Beta-Octylglucoside;octyl beta-D-glucoside;octyl D-glucoside;octyl glucoside' # 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 O1 BOG sing 94 n n C1 C2 BOG sing 95 n n C1 O5 BOG sing 96 n n C1 H1 BOG sing 97 n n O1 C1' BOG sing 98 n n C2 O2 BOG sing 99 n n C2 C3 BOG sing 100 n n C2 H2 BOG sing 101 n n O2 HO2 BOG sing 102 n n C3 O3 BOG sing 103 n n C3 C4 BOG sing 104 n n C3 H3 BOG sing 105 n n O3 HO3 BOG sing 106 n n C4 O4 BOG sing 107 n n C4 C5 BOG sing 108 n n C4 H4 BOG sing 109 n n O4 HO4 BOG sing 110 n n C5 O5 BOG sing 111 n n C5 C6 BOG sing 112 n n C5 H5 BOG sing 113 n n C6 O6 BOG sing 114 n n C6 H61 BOG sing 115 n n C6 H62 BOG sing 116 n n O6 HO6 BOG sing 117 n n C1' C2' BOG sing 118 n n C1' "H1'1" BOG sing 119 n n C1' "H1'2" BOG sing 120 n n C2' C3' BOG sing 121 n n C2' "H2'1" BOG sing 122 n n C2' "H2'2" BOG sing 123 n n C3' C4' BOG sing 124 n n C3' "H3'1" BOG sing 125 n n C3' "H3'2" BOG sing 126 n n C4' C5' BOG sing 127 n n C4' "H4'1" BOG sing 128 n n C4' "H4'2" BOG sing 129 n n C5' C6' BOG sing 130 n n C5' "H5'1" BOG sing 131 n n C5' "H5'2" BOG sing 132 n n C6' C7' BOG sing 133 n n C6' "H6'1" BOG sing 134 n n C6' "H6'2" BOG sing 135 n n C7' C8' BOG sing 136 n n C7' "H7'1" BOG sing 137 n n C7' "H7'2" BOG sing 138 n n C8' "H8'1" BOG sing 139 n n C8' "H8'2" BOG sing 140 n n C8' "H8'3" BOG sing 141 n n # _pdbx_chem_comp_identifier.comp_id BOG _pdbx_chem_comp_identifier.identifier b-octylglucoside _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 5TE3 _atom_sites.fract_transf_matrix[1][1] 0.004121 _atom_sites.fract_transf_matrix[1][2] 0.002379 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004759 _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] 0.008947 _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 3 BOG A 1 405 406 BOG BOG . D 3 BOG A 1 406 407 BOG BOG . E 4 PLM A 1 407 409 PLM PLM . F 5 SO4 A 1 408 410 SO4 SO4 . G 5 SO4 A 1 409 601 SO4 SO4 . H 4 PLM A 1 410 409 PLM PLM . I 3 BOG A 1 411 1 BOG BOG . J 6 HOH A 1 501 527 HOH HOH . J 6 HOH A 2 502 519 HOH HOH . J 6 HOH A 3 503 518 HOH HOH . J 6 HOH A 4 504 511 HOH HOH . J 6 HOH A 5 505 516 HOH HOH . J 6 HOH A 6 506 508 HOH HOH . J 6 HOH A 7 507 515 HOH HOH . J 6 HOH A 8 508 530 HOH HOH . J 6 HOH A 9 509 521 HOH HOH . J 6 HOH A 10 510 506 HOH HOH . J 6 HOH A 11 511 535 HOH HOH . J 6 HOH A 12 512 502 HOH HOH . J 6 HOH A 13 513 510 HOH HOH . J 6 HOH A 14 514 507 HOH HOH . J 6 HOH A 15 515 503 HOH HOH . J 6 HOH A 16 516 517 HOH HOH . J 6 HOH A 17 517 528 HOH HOH . J 6 HOH A 18 518 524 HOH HOH . J 6 HOH A 19 519 529 HOH HOH . J 6 HOH A 20 520 512 HOH HOH . J 6 HOH A 21 521 509 HOH HOH . J 6 HOH A 22 522 533 HOH HOH . J 6 HOH A 23 523 501 HOH HOH . J 6 HOH A 24 524 513 HOH HOH . J 6 HOH A 25 525 523 HOH HOH . J 6 HOH A 26 526 504 HOH HOH . J 6 HOH A 27 527 534 HOH HOH . J 6 HOH A 28 528 520 HOH HOH . J 6 HOH A 29 529 522 HOH HOH . J 6 HOH A 30 530 531 HOH HOH . J 6 HOH A 31 531 526 HOH HOH . J 6 HOH A 32 532 525 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 C1 BOG . . . D 3 36.801 52.928 49.616 1 125.42 ? C1 BOG 406 A 1 HETATM 2 O O1 BOG . . . D 3 37.023 51.613 49.188 1 116.6 ? O1 BOG 406 A 1 HETATM 3 C C2 BOG . . . D 3 38.066 53.409 50.325 1 128.52 ? C2 BOG 406 A 1 HETATM 4 O O2 BOG . . . D 3 37.73 54.02 51.567 1 126.45 ? O2 BOG 406 A 1 HETATM 5 C C3 BOG . . . D 3 38.848 54.387 49.451 1 130.26 ? C3 BOG 406 A 1 HETATM 6 O O3 BOG . . . D 3 39.344 53.727 48.292 1 131 ? O3 BOG 406 A 1 HETATM 7 C C4 BOG . . . D 3 37.992 55.583 49.046 1 131.65 ? C4 BOG 406 A 1 HETATM 8 O O4 BOG . . . D 3 38.012 56.568 50.073 1 130.69 ? O4 BOG 406 A 1 HETATM 9 C C5 BOG . . . D 3 36.551 55.15 48.785 1 133.73 ? C5 BOG 406 A 1 HETATM 10 O O5 BOG . . . D 3 36.515 53.743 48.494 1 130.81 ? O5 BOG 406 A 1 HETATM 11 C C6 BOG . . . D 3 35.924 55.856 47.604 1 134.45 ? C6 BOG 406 A 1 HETATM 12 O O6 BOG . . . D 3 34.507 55.739 47.618 1 132.34 ? O6 BOG 406 A 1 HETATM 13 C C1' BOG . . . D 3 35.901 50.744 49.345 1 110.13 ? C1' BOG 406 A 1 HETATM 14 C C2' BOG . . . D 3 36.319 49.34 48.989 1 108.11 ? C2' BOG 406 A 1 HETATM 15 C C3' BOG . . . D 3 35.231 48.304 49.229 1 106.21 ? C3' BOG 406 A 1 HETATM 16 C C4' BOG . . . D 3 35.704 46.86 49.156 1 104.63 ? C4' BOG 406 A 1 HETATM 17 C C5' BOG . . . D 3 34.572 45.856 49.005 1 103.71 ? C5' BOG 406 A 1 HETATM 18 C C6' BOG . . . D 3 34.958 44.409 49.276 1 102.73 ? C6' BOG 406 A 1 HETATM 19 C C7' BOG . . . D 3 33.877 43.396 48.909 1 103.47 ? C7' BOG 406 A 1 HETATM 20 C C8' BOG . . . D 3 33.396 42.561 50.082 1 103.21 ? C8' BOG 406 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #