data_4J4Q # _model_server_result.job_id 6uqGo0vgpbFPuW8_dZ5l7g _model_server_result.datetime_utc '2024-11-26 15:57:17' _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 4j4q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":406}' # _entry.id 4J4Q # _exptl.entry_id 4J4Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 292.369 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'octyl beta-D-glucopyranoside' _entity.pdbx_number_of_molecules 4 _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 4J4Q _cell.length_a 241.265 _cell.length_b 241.265 _cell.length_c 109.561 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4J4Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _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,I,J,K,L,M,N _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 ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 1 2 GLC GLC C1 O1 . O1 HO1 . 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 401 NAG 3 n C NAG 2 C 2 NAG A 402 NAG 3 n C BMA 3 C 3 BMA A 403 BMA 3 n C MAN 4 C 4 MAN A 404 MAN 4 n D GLC 1 D 1 GLC A 901 TRE 4 n D GLC 2 D 2 GLC A 901 TRE # 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? covale ? covale1 A ND2 ASN 15 A ASN 15 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale2 A SG CYS 323 A CYS 323 1_555 I C1 PLM . A PLM 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale4 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale6 D C1 GLC . D GLC 1 1_555 D O1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 sing # _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 100 n n C1 C2 BOG sing 101 n n C1 O5 BOG sing 102 n n C1 H1 BOG sing 103 n n O1 C1' BOG sing 104 n n C2 O2 BOG sing 105 n n C2 C3 BOG sing 106 n n C2 H2 BOG sing 107 n n O2 HO2 BOG sing 108 n n C3 O3 BOG sing 109 n n C3 C4 BOG sing 110 n n C3 H3 BOG sing 111 n n O3 HO3 BOG sing 112 n n C4 O4 BOG sing 113 n n C4 C5 BOG sing 114 n n C4 H4 BOG sing 115 n n O4 HO4 BOG sing 116 n n C5 O5 BOG sing 117 n n C5 C6 BOG sing 118 n n C5 H5 BOG sing 119 n n C6 O6 BOG sing 120 n n C6 H61 BOG sing 121 n n C6 H62 BOG sing 122 n n O6 HO6 BOG sing 123 n n C1' C2' BOG sing 124 n n C1' "H1'1" BOG sing 125 n n C1' "H1'2" BOG sing 126 n n C2' C3' BOG sing 127 n n C2' "H2'1" BOG sing 128 n n C2' "H2'2" BOG sing 129 n n C3' C4' BOG sing 130 n n C3' "H3'1" BOG sing 131 n n C3' "H3'2" BOG sing 132 n n C4' C5' BOG sing 133 n n C4' "H4'1" BOG sing 134 n n C4' "H4'2" BOG sing 135 n n C5' C6' BOG sing 136 n n C5' "H5'1" BOG sing 137 n n C5' "H5'2" BOG sing 138 n n C6' C7' BOG sing 139 n n C6' "H6'1" BOG sing 140 n n C6' "H6'2" BOG sing 141 n n C7' C8' BOG sing 142 n n C7' "H7'1" BOG sing 143 n n C7' "H7'2" BOG sing 144 n n C8' "H8'1" BOG sing 145 n n C8' "H8'2" BOG sing 146 n n C8' "H8'3" BOG sing 147 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 4J4Q _atom_sites.fract_transf_matrix[1][1] 0.004145 _atom_sites.fract_transf_matrix[1][2] 0.002393 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004786 _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] 0.009127 _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 E 5 BOG A 1 405 501 BOG BOG . F 5 BOG A 1 406 502 BOG BOG . G 5 BOG A 1 407 503 BOG BOG . H 5 BOG A 1 408 504 BOG BOG . I 6 PLM A 1 409 601 PLM PLM . J 7 SO4 A 1 410 703 SO4 SO4 . K 8 ACT A 1 411 801 ACT ACT . L 7 SO4 B 1 401 702 SO4 SO4 . M 9 HOH A 1 501 1 HOH HOH . M 9 HOH A 2 502 2 HOH HOH . M 9 HOH A 3 503 3 HOH HOH . M 9 HOH A 4 504 4 HOH HOH . M 9 HOH A 5 505 5 HOH HOH . M 9 HOH A 6 506 7 HOH HOH . M 9 HOH A 7 507 8 HOH HOH . M 9 HOH A 8 508 9 HOH HOH . M 9 HOH A 9 509 10 HOH HOH . M 9 HOH A 10 510 11 HOH HOH . M 9 HOH A 11 511 12 HOH HOH . M 9 HOH A 12 512 13 HOH HOH . M 9 HOH A 13 513 14 HOH HOH . M 9 HOH A 14 514 15 HOH HOH . M 9 HOH A 15 515 16 HOH HOH . M 9 HOH A 16 516 17 HOH HOH . M 9 HOH A 17 517 18 HOH HOH . M 9 HOH A 18 518 19 HOH HOH . M 9 HOH A 19 519 20 HOH HOH . M 9 HOH A 20 520 21 HOH HOH . M 9 HOH A 21 521 22 HOH HOH . M 9 HOH A 22 522 24 HOH HOH . M 9 HOH A 23 523 25 HOH HOH . M 9 HOH A 24 524 26 HOH HOH . M 9 HOH A 25 525 27 HOH HOH . M 9 HOH A 26 526 28 HOH HOH . M 9 HOH A 27 527 29 HOH HOH . M 9 HOH A 28 528 30 HOH HOH . M 9 HOH A 29 529 31 HOH HOH . M 9 HOH A 30 530 32 HOH HOH . N 9 HOH B 1 501 6 HOH HOH . N 9 HOH B 2 502 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 C C1 BOG . . . F 5 -11.267 27.375 46.877 1 115.35 ? C1 BOG 406 A 1 HETATM 2 O O1 BOG . . . F 5 -11.239 28.803 46.916 1 109.36 ? O1 BOG 406 A 1 HETATM 3 C C2 BOG . . . F 5 -10.767 26.753 48.189 1 116.82 ? C2 BOG 406 A 1 HETATM 4 O O2 BOG . . . F 5 -10.372 25.385 47.989 1 113.16 ? O2 BOG 406 A 1 HETATM 5 C C3 BOG . . . F 5 -11.833 26.809 49.274 1 118.92 ? C3 BOG 406 A 1 HETATM 6 O O3 BOG . . . F 5 -11.252 27.317 50.483 1 117.65 ? O3 BOG 406 A 1 HETATM 7 C C4 BOG . . . F 5 -12.994 27.674 48.794 1 119.96 ? C4 BOG 406 A 1 HETATM 8 O O4 BOG . . . F 5 -14.014 27.726 49.792 1 120.94 ? O4 BOG 406 A 1 HETATM 9 C C5 BOG . . . F 5 -13.586 27.064 47.528 1 122 ? C5 BOG 406 A 1 HETATM 10 O O5 BOG . . . F 5 -12.585 26.936 46.514 1 121.37 ? O5 BOG 406 A 1 HETATM 11 C C6 BOG . . . F 5 -14.769 27.865 46.987 1 122.04 ? C6 BOG 406 A 1 HETATM 12 O O6 BOG . . . F 5 -15.888 26.989 46.801 1 117.88 ? O6 BOG 406 A 1 HETATM 13 C C1' BOG . . . F 5 -11.638 29.366 45.659 1 98.57 ? C1' BOG 406 A 1 HETATM 14 C C2' BOG . . . F 5 -10.566 30.323 45.149 1 84.4 ? C2' BOG 406 A 1 HETATM 15 C C3' BOG . . . F 5 -10.15 30.004 43.717 1 69.87 ? C3' BOG 406 A 1 HETATM 16 C C4' BOG . . . F 5 -8.867 30.745 43.344 1 65.51 ? C4' BOG 406 A 1 HETATM 17 C C5' BOG . . . F 5 -8.562 30.59 41.857 1 66.34 ? C5' BOG 406 A 1 HETATM 18 C C6' BOG . . . F 5 -7.328 31.395 41.469 1 65.47 ? C6' BOG 406 A 1 HETATM 19 C C7' BOG . . . F 5 -7.513 32.112 40.138 1 64.65 ? C7' BOG 406 A 1 HETATM 20 C C8' BOG . . . F 5 -6.227 32.124 39.345 1 60.33 ? C8' BOG 406 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #