data_7LF9 # _model_server_result.job_id rq2j0zdxa4zlmGJE6T0_7A _model_server_result.datetime_utc '2024-12-25 04:41:44' _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 7lf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 7LF9 # _exptl.entry_id 7LF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 164.156 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description alpha-L-fucopyranose _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 7LF9 _cell.length_a 49.478 _cell.length_b 77.964 _cell.length_c 140.492 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _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,I _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 ? 4 E N N ? 4 G N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 . O6 HO6 . sing 4 ? 2 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 3 MAN BMA C1 O1 . O3 HO3 . sing 6 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 7 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 8 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 9 ? 3 5 4 NAG MAN C1 O1 . O2 HO2 . sing 10 ? 3 6 5 GAL NAG C1 O1 . O4 HO4 . sing 11 ? 3 7 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 C NAG 1 C 1 NAG A 444 NAG 2 n C NAG 2 C 2 NAG A 445 NAG 2 n C BMA 3 C 3 BMA A 446 BMA 2 n C MAN 4 C 4 MAN A 449 MAN 2 n C NAG 5 C 5 NAG A 450 NAG 2 n C MAN 6 C 6 MAN A 448 MAN 3 n D NAG 1 D 1 NAG B 444 NAG 3 n D NAG 2 D 2 NAG B 445 NAG 3 n D BMA 3 D 3 BMA B 446 BMA 3 n D MAN 4 D 4 MAN B 451 MAN 3 n D NAG 5 D 5 NAG B 452 NAG 3 n D GAL 6 D 6 GAL B 453 GAL 3 n D MAN 7 D 7 MAN B 447 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 47 A CYS 261 1_555 A SG CYS 107 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf2 A SG CYS 153 A CYS 367 1_555 A SG CYS 211 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 B SG CYS 47 B CYS 261 1_555 B SG CYS 107 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 B SG CYS 153 B CYS 367 1_555 B SG CYS 211 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 A ND2 ASN 83 A ASN 297 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 115 A ASN 329 1_555 F C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale3 B ND2 ASN 83 B ASN 297 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale4 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale5 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale6 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale7 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 C O2 MAN . C MAN 4 1_555 C C1 NAG . C NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale9 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale10 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale11 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale12 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale13 D O2 MAN . D MAN 4 1_555 D C1 NAG . D NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.482 ? covale ? covale14 D O4 NAG . D NAG 5 1_555 D C1 GAL . D GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _chem_comp.formula 'C6 H12 O5' _chem_comp.formula_weight 164.156 _chem_comp.id FUC _chem_comp.mon_nstd_flag . _chem_comp.name alpha-L-fucopyranose _chem_comp.type 'l-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-L-fucose;6-deoxy-alpha-L-galactopyranose;L-fucose;fucose # 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 FUC sing 107 n n C1 O1 FUC sing 108 n n C1 O5 FUC sing 109 n n C1 H1 FUC sing 110 n n C2 C3 FUC sing 111 n n C2 O2 FUC sing 112 n n C2 H2 FUC sing 113 n n C3 C4 FUC sing 114 n n C3 O3 FUC sing 115 n n C3 H3 FUC sing 116 n n C4 C5 FUC sing 117 n n C4 O4 FUC sing 118 n n C4 H4 FUC sing 119 n n C5 C6 FUC sing 120 n n C5 O5 FUC sing 121 n n C5 H5 FUC sing 122 n n C6 H61 FUC sing 123 n n C6 H62 FUC sing 124 n n C6 H63 FUC sing 125 n n O1 HO1 FUC sing 126 n n O2 HO2 FUC sing 127 n n O3 HO3 FUC sing 128 n n O4 HO4 FUC sing 129 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version FUC LFucpa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 FUC a-L-fucopyranose 'COMMON NAME' GMML 1 FUC a-L-Fucp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 FUC Fuc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 7LF9 _atom_sites.fract_transf_matrix[1][1] 0.020211 _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] 0.012826 _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] 0.007118 _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 4 FUC A 1 501 447 FUC FUC . F 5 NAG A 1 502 451 NAG NAG . G 4 FUC B 1 501 450 FUC FUC . H 6 HOH A 1 601 24 HOH HOH . H 6 HOH A 2 602 5 HOH HOH . H 6 HOH A 3 603 10 HOH HOH . H 6 HOH A 4 604 28 HOH HOH . H 6 HOH A 5 605 23 HOH HOH . H 6 HOH A 6 606 15 HOH HOH . H 6 HOH A 7 607 32 HOH HOH . H 6 HOH A 8 608 17 HOH HOH . H 6 HOH A 9 609 8 HOH HOH . H 6 HOH A 10 610 9 HOH HOH . H 6 HOH A 11 611 19 HOH HOH . H 6 HOH A 12 612 4 HOH HOH . H 6 HOH A 13 613 25 HOH HOH . I 6 HOH B 1 601 12 HOH HOH . I 6 HOH B 2 602 13 HOH HOH . I 6 HOH B 3 603 30 HOH HOH . I 6 HOH B 4 604 22 HOH HOH . I 6 HOH B 5 605 20 HOH HOH . I 6 HOH B 6 606 27 HOH HOH . I 6 HOH B 7 607 6 HOH HOH . I 6 HOH B 8 608 16 HOH HOH . I 6 HOH B 9 609 3 HOH HOH . I 6 HOH B 10 610 11 HOH HOH . I 6 HOH B 11 611 2 HOH HOH . I 6 HOH B 12 612 31 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 FUC . . . E 4 25.47 17.149 7.811 1 83.75 ? C1 FUC 501 A 1 HETATM 2 C C2 FUC . . . E 4 26.407 16.373 8.785 1 85.97 ? C2 FUC 501 A 1 HETATM 3 C C3 FUC . . . E 4 27.186 15.228 8.117 1 85.94 ? C3 FUC 501 A 1 HETATM 4 C C4 FUC . . . E 4 27.756 15.655 6.754 1 86.33 ? C4 FUC 501 A 1 HETATM 5 C C5 FUC . . . E 4 26.607 16.102 5.873 1 83.36 ? C5 FUC 501 A 1 HETATM 6 C C6 FUC . . . E 4 27.053 16.485 4.459 1 81.19 ? C6 FUC 501 A 1 HETATM 7 O O2 FUC . . . E 4 25.704 15.868 9.902 1 78.66 ? O2 FUC 501 A 1 HETATM 8 O O3 FUC . . . E 4 28.28 14.844 8.95 1 85.27 ? O3 FUC 501 A 1 HETATM 9 O O4 FUC . . . E 4 28.684 16.73 6.911 1 89.33 ? O4 FUC 501 A 1 HETATM 10 O O5 FUC . . . E 4 25.945 17.265 6.459 1 86.64 ? O5 FUC 501 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #