data_4X4M # _model_server_result.job_id s6Hz_XgEdRbBi0fhBl0ERg _model_server_result.datetime_utc '2024-11-09 01:26:54' _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 4x4m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":1008}' # _entry.id 4X4M # _exptl.entry_id 4X4M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 164.156 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description beta-L-fucopyranose _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 89.86 _cell.angle_beta 112.25 _cell.angle_gamma 89.96 _cell.entry_id 4X4M _cell.length_a 59.921 _cell.length_b 67.991 _cell.length_c 125.028 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4X4M _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_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,E,G,H 1 1 C,D,F,I,J,K,L,M 2 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 8 _struct_asym.id M _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide 5 oligosaccharide 6 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 ? 3 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 3 6 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 3 7 6 NAG MAN C1 O1 . O2 HO2 . sing 7 ? 3 8 1 FUL NAG C1 O1 . O6 HO6 . sing 8 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 9 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 10 ? 4 4 3 MAN BMA C1 O1 . O6 HO6 . sing 11 ? 4 5 4 NAG MAN C1 O1 . O2 HO2 . sing 12 ? 4 6 5 GAL NAG C1 O1 . O4 HO4 . sing 13 ? 4 7 3 MAN BMA C1 O1 . O3 HO3 . sing 14 ? 4 8 7 NAG MAN C1 O1 . O2 HO2 . sing 15 ? 4 9 1 FUL NAG C1 O1 . O6 HO6 . sing 16 ? 5 2 1 BMA NAG C1 O1 . O4 HO4 . sing 17 ? 5 3 2 MAN BMA C1 O1 . O3 HO3 . sing 18 ? 5 4 3 NAG MAN C1 O1 . O2 HO2 . sing 19 ? 5 5 2 MAN BMA C1 O1 . O6 HO6 . sing 20 ? 5 6 5 NAG MAN C1 O1 . O2 HO2 . sing 21 ? 6 2 1 SIA GAL C2 O2 . 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 3 n G NAG 1 G 1 NAG A 1001 NAG 3 n G NAG 2 G 2 NAG A 1002 NAG 3 n G BMA 3 G 3 BMA A 1003 BMA 3 n G MAN 4 G 4 MAN A 1004 MAN 3 n G NAG 5 G 5 NAG A 1005 NAG 3 n G MAN 6 G 6 MAN A 1007 MAN 3 n G NAG 7 G 7 NAG A 1008 NAG 3 n G FUL 8 G 8 FUL A 1012 FUC 3 n H NAG 1 H 1 NAG B 1001 NAG 3 n H NAG 2 H 2 NAG B 1002 NAG 3 n H BMA 3 H 3 BMA B 1003 BMA 3 n H MAN 4 H 4 MAN B 1004 MAN 3 n H NAG 5 H 5 NAG B 1005 NAG 3 n H MAN 6 H 6 MAN B 1007 MAN 3 n H NAG 7 H 7 NAG B 1008 NAG 3 n H FUL 8 H 8 FUL B 1012 FUC 4 n I NAG 1 I 1 NAG C 1001 NAG 4 n I NAG 2 I 2 NAG C 1002 NAG 4 n I BMA 3 I 3 BMA C 1003 BMA 4 n I MAN 4 I 4 MAN C 1007 MAN 4 n I NAG 5 I 5 NAG C 1008 NAG 4 n I GAL 6 I 6 GAL C 1009 GAL 4 n I MAN 7 I 7 MAN C 1004 MAN 4 n I NAG 8 I 8 NAG C 1005 NAG 4 n I FUL 9 I 9 FUL C 1012 FUC 5 n J NAG 1 J 1 NAG D 1002 NAG 5 n J BMA 2 J 2 BMA D 1003 BMA 5 n J MAN 3 J 3 MAN D 1004 MAN 5 n J NAG 4 J 4 NAG D 1005 NAG 5 n J MAN 5 J 5 MAN D 1007 MAN 5 n J NAG 6 J 6 NAG D 1008 NAG 6 n K GAL 1 K 1 GAL D 1014 GAL 6 n K SIA 2 K 2 SIA D 1013 SIA # 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 33 A CYS 261 1_555 A SG CYS 93 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 139 A CYS 367 1_555 A SG CYS 197 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 B SG CYS 33 B CYS 261 1_555 B SG CYS 93 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 B SG CYS 139 B CYS 367 1_555 B SG CYS 197 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 C SG CYS 33 C CYS 261 1_555 C SG CYS 93 C CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 C SG CYS 139 C CYS 367 1_555 C SG CYS 197 C CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 D SG CYS 33 D CYS 261 1_555 D SG CYS 93 D CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 D SG CYS 139 D CYS 367 1_555 D SG CYS 197 D CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 E SG CYS 23 E CYS 43 1_555 E SG CYS 65 E CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 E SG CYS 104 E CYS 124 1_555 E SG CYS 148 E CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 E SG CYS 192 E CYS 212 1_555 E SG CYS 240 E CYS 260 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf12 F SG CYS 23 F CYS 43 1_555 F SG CYS 65 F CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf13 F SG CYS 104 F CYS 124 1_555 F SG CYS 148 F CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf14 F SG CYS 192 F CYS 212 1_555 F SG CYS 240 F CYS 260 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? covale ? covale1 A ND2 ASN 69 A ASN 297 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 B ND2 ASN 69 B ASN 297 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale3 C ND2 ASN 69 C ASN 297 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale4 D ND2 ASN 69 D ASN 297 1_555 L C1 NAG . D NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.487 ? covale ? covale5 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale6 G O6 NAG . G NAG 1 1_555 G C1 FUL . G FUL 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale7 G O4 NAG . G NAG 2 1_555 G C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale8 G O3 BMA . G BMA 3 1_555 G C1 MAN . G MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale9 G O6 BMA . G BMA 3 1_555 G C1 MAN . G MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale10 G O2 MAN . G MAN 4 1_555 G C1 NAG . G NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale11 G O2 MAN . G MAN 6 1_555 G C1 NAG . G NAG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale12 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale13 H O6 NAG . H NAG 1 1_555 H C1 FUL . H FUL 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale14 H O4 NAG . H NAG 2 1_555 H C1 BMA . H BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale15 H O3 BMA . H BMA 3 1_555 H C1 MAN . H MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale16 H O6 BMA . H BMA 3 1_555 H C1 MAN . H MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale17 H O2 MAN . H MAN 4 1_555 H C1 NAG . H NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 H O2 MAN . H MAN 6 1_555 H C1 NAG . H NAG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale19 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale20 I O6 NAG . I NAG 1 1_555 I C1 FUL . I FUL 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale21 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale22 I O6 BMA . I BMA 3 1_555 I C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale23 I O3 BMA . I BMA 3 1_555 I C1 MAN . I MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale24 I O2 MAN . I MAN 4 1_555 I C1 NAG . I NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale25 I O4 NAG . I NAG 5 1_555 I C1 GAL . I GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale26 I O2 MAN . I MAN 7 1_555 I C1 NAG . I NAG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale27 J O4 NAG . J NAG 1 1_555 J C1 BMA . J BMA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale28 J O3 BMA . J BMA 2 1_555 J C1 MAN . J MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale29 J O6 BMA . J BMA 2 1_555 J C1 MAN . J MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.487 ? covale ? covale30 J O2 MAN . J MAN 3 1_555 J C1 NAG . J NAG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale31 J O2 MAN . J MAN 5 1_555 J C1 NAG . J NAG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale32 K O3 GAL . K GAL 1 1_555 K C2 SIA . K SIA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? # _chem_comp.formula 'C6 H12 O5' _chem_comp.formula_weight 164.156 _chem_comp.id FUL _chem_comp.mon_nstd_flag . _chem_comp.name beta-L-fucopyranose _chem_comp.type 'l-saccharide, beta linking' _chem_comp.pdbx_synonyms beta-L-fucose;6-deoxy-beta-L-galactopyranose;L-fucose;fucose;6-DEOXY-BETA-L-GALACTOSE # 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 FUL sing 107 n n C1 O5 FUL sing 108 n n C1 O1 FUL sing 109 n n C1 H1 FUL sing 110 n n C2 O2 FUL sing 111 n n C2 C3 FUL sing 112 n n C2 H2 FUL sing 113 n n O2 HO2 FUL sing 114 n n C3 O3 FUL sing 115 n n C3 C4 FUL sing 116 n n C3 H3 FUL sing 117 n n O3 HO3 FUL sing 118 n n C4 O4 FUL sing 119 n n C4 C5 FUL sing 120 n n C4 H4 FUL sing 121 n n O4 HO4 FUL sing 122 n n C5 C6 FUL sing 123 n n C5 O5 FUL sing 124 n n C5 H5 FUL sing 125 n n C6 H61 FUL sing 126 n n C6 H62 FUL sing 127 n n C6 H63 FUL sing 128 n n O1 HO1 FUL 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 FUL LFucpb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 FUL b-L-fucopyranose 'COMMON NAME' GMML 1 FUL b-L-Fucp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 FUL Fuc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 4X4M _atom_sites.fract_transf_matrix[1][1] 0.016689 _atom_sites.fract_transf_matrix[1][2] -0.000011 _atom_sites.fract_transf_matrix[1][3] 0.006829 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014708 _atom_sites.fract_transf_matrix[2][3] -0.000044 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008642 _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 L 7 NAG D 1 1001 1001 NAG NAG . M 8 FUL D 1 1008 1012 FUL FUC . # 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 FUL . . . M 8 -70.006 -129.761 72.269 1 210.91 ? C1 FUL 1008 D 1 HETATM 2 C C2 FUL . . . M 8 -71.254 -128.93 72.516 1 205.14 ? C2 FUL 1008 D 1 HETATM 3 O O2 FUL . . . M 8 -71.495 -128.022 71.423 1 189.59 ? O2 FUL 1008 D 1 HETATM 4 C C3 FUL . . . M 8 -72.453 -129.784 72.607 1 202.27 ? C3 FUL 1008 D 1 HETATM 5 O O3 FUL . . . M 8 -73.341 -129.276 73.643 1 190.4 ? O3 FUL 1008 D 1 HETATM 6 C C4 FUL . . . M 8 -72.106 -131.209 72.882 1 217.25 ? C4 FUL 1008 D 1 HETATM 7 O O4 FUL . . . M 8 -73.259 -131.863 73.417 1 205.14 ? O4 FUL 1008 D 1 HETATM 8 C C5 FUL . . . M 8 -70.963 -131.361 73.868 1 221.89 ? C5 FUL 1008 D 1 HETATM 9 C C6 FUL . . . M 8 -71.338 -130.75 75.18 1 205.15 ? C6 FUL 1008 D 1 HETATM 10 O O5 FUL . . . M 8 -69.736 -130.722 73.383 1 221.7 ? O5 FUL 1008 D 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 10 #