data_6YR # _chem_comp.id 6YR _chem_comp.name "methyl 1-seleno-2-O-methyl-beta-L-fucopyranoside" _chem_comp.type L-saccharide _chem_comp.pdbx_type ATOMS _chem_comp.formula "C8 H16 O4 Se" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ;2-O-methyl-methyl-seleno-L-fucopyranoside; methyl 1-seleno-2-O-methyl-beta-L-fucoside; methyl 1-seleno-2-O-methyl-L-fucoside; methyl 1-seleno-2-O-methyl-fucoside ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2016-01-04 _chem_comp.pdbx_modified_date 2020-07-17 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 255.170 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 6YR _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 5FSB _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # loop_ _pdbx_chem_comp_synonyms.ordinal _pdbx_chem_comp_synonyms.comp_id _pdbx_chem_comp_synonyms.name _pdbx_chem_comp_synonyms.provenance _pdbx_chem_comp_synonyms.type 1 6YR 2-O-methyl-methyl-seleno-L-fucopyranoside PDB ? 2 6YR "methyl 1-seleno-2-O-methyl-beta-L-fucoside" PDB ? 3 6YR "methyl 1-seleno-2-O-methyl-L-fucoside" PDB ? 4 6YR "methyl 1-seleno-2-O-methyl-fucoside" PDB ? # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal 6YR O4 O4 O 0 1 N N N 3.758 -17.900 6.202 2.571 0.677 1.309 O4 6YR 1 6YR C4 C4 C 0 1 N N S 5.171 -17.769 6.095 2.480 0.689 -0.117 C4 6YR 2 6YR C3 C3 C 0 1 N N R 5.575 -16.548 6.904 1.998 -0.678 -0.611 C3 6YR 3 6YR O3 O3 O 0 1 N N N 4.821 -15.434 6.540 2.885 -1.696 -0.143 O3 6YR 4 6YR C2 C2 C 0 1 N N S 5.596 -16.881 8.411 0.589 -0.937 -0.069 C2 6YR 5 6YR O2 O2 O 0 1 N N N 6.180 -15.773 9.024 0.100 -2.177 -0.582 O2 6YR 6 6YR C7 C7 C 0 1 N N N 5.515 -15.242 10.138 0.308 -3.290 0.290 C7 6YR 7 6YR C5 C5 C 0 1 N N S 5.861 -19.020 6.585 1.482 1.764 -0.557 C5 6YR 8 6YR C6 C6 C 0 1 N N N 5.326 -20.172 5.766 1.926 3.124 -0.016 C6 6YR 9 6YR O5 O5 O 0 1 N N N 5.697 -19.226 7.992 0.186 1.446 -0.045 O5 6YR 10 6YR C1 C1 C 0 1 N N R 6.351 -18.181 8.652 -0.336 0.200 -0.510 C1 6YR 11 6YR SE SE SE 0 1 N N N 6.280 -18.636 10.539 -2.123 -0.081 0.243 SE 6YR 12 6YR C8 C8 C 0 1 N N N 8.120 -19.030 10.682 -3.077 1.478 -0.463 C8 6YR 13 6YR HO4 HO4 H 0 1 N Y N 3.471 -18.657 5.705 2.872 1.513 1.691 HO4 6YR 14 6YR H4 H4 H 0 1 N N N 5.452 -17.601 5.045 3.460 0.906 -0.543 H4 6YR 15 6YR H3 H3 H 0 1 N N N 6.620 -16.340 6.632 1.977 -0.685 -1.701 H3 6YR 16 6YR H5 H5 H 0 1 N N N 6.934 -18.921 6.364 1.444 1.800 -1.646 H5 6YR 17 6YR HO3 HO3 H 0 1 N Y N 5.091 -14.685 7.058 3.798 -1.590 -0.444 HO3 6YR 18 6YR H2 H2 H 0 1 N N N 4.558 -17.008 8.753 0.621 -0.980 1.020 H2 6YR 19 6YR H1 H1 H 0 1 N N N 7.415 -18.088 8.387 -0.399 0.216 -1.598 H1 6YR 20 6YR H71C H71C H 0 0 N N N 6.077 -14.378 10.524 1.377 -3.474 0.396 H71C 6YR 21 6YR H72C H72C H 0 0 N N N 4.505 -14.921 9.843 -0.121 -3.070 1.268 H72C 6YR 22 6YR H73C H73C H 0 0 N N N 5.441 -16.011 10.921 -0.173 -4.174 -0.128 H73C 6YR 23 6YR H61 H61C H 0 1 N N N 5.804 -21.107 6.092 2.914 3.366 -0.407 H61 6YR 24 6YR H62 H62C H 0 1 N N N 4.238 -20.248 5.908 1.215 3.889 -0.329 H62 6YR 25 6YR H63 H63C H 0 1 N N N 5.546 -19.999 4.702 1.964 3.088 1.072 H63 6YR 26 6YR H81C H81C H 0 0 N N N 8.352 -19.332 11.714 -2.595 2.390 -0.110 H81C 6YR 27 6YR H82C H82C H 0 0 N N N 8.374 -19.850 9.995 -3.056 1.454 -1.553 H82C 6YR 28 6YR H83C H83C H 0 0 N N N 8.707 -18.138 10.420 -4.111 1.458 -0.120 H83C 6YR 29 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 6YR O4 C4 SING N N 1 6YR C4 C3 SING N N 2 6YR C4 C5 SING N N 3 6YR C3 O3 SING N N 4 6YR C3 C2 SING N N 5 6YR C2 O2 SING N N 6 6YR C2 C1 SING N N 7 6YR O2 C7 SING N N 8 6YR C5 C6 SING N N 9 6YR C5 O5 SING N N 10 6YR O5 C1 SING N N 11 6YR C1 SE SING N N 12 6YR SE C8 SING N N 13 6YR O4 HO4 SING N N 14 6YR C4 H4 SING N N 15 6YR C3 H3 SING N N 16 6YR C5 H5 SING N N 17 6YR O3 HO3 SING N N 18 6YR C2 H2 SING N N 19 6YR C1 H1 SING N N 20 6YR C7 H71C SING N N 21 6YR C7 H72C SING N N 22 6YR C7 H73C SING N N 23 6YR C6 H61 SING N N 24 6YR C6 H62 SING N N 25 6YR C6 H63 SING N N 26 6YR C8 H81C SING N N 27 6YR C8 H82C SING N N 28 6YR C8 H83C SING N N 29 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor 6YR InChI InChI 1.03 "InChI=1S/C8H16O4Se/c1-4-5(9)6(10)7(11-2)8(12-4)13-3/h4-10H,1-3H3/t4-,5+,6+,7-,8+/m0/s1" 6YR InChIKey InChI 1.03 JGCHFCAEXBTPJU-FMGWEMOISA-N 6YR SMILES_CANONICAL CACTVS 3.385 "CO[C@H]1[C@H](O)[C@H](O)[C@H](C)O[C@@H]1[Se]C" 6YR SMILES CACTVS 3.385 "CO[CH]1[CH](O)[CH](O)[CH](C)O[CH]1[Se]C" 6YR SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C[C@H]1[C@H]([C@H]([C@@H]([C@H](O1)[Se]C)OC)O)O" 6YR SMILES "OpenEye OEToolkits" 1.7.6 "CC1C(C(C(C(O1)[Se]C)OC)O)O" # _pdbx_chem_comp_identifier.comp_id 6YR _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 1.7.6 _pdbx_chem_comp_identifier.identifier "(2S,3S,4R,5S,6R)-5-methoxy-2-methyl-6-methylselanyl-oxane-3,4-diol" # # loop_ _pdbx_chem_comp_feature.comp_id _pdbx_chem_comp_feature.type _pdbx_chem_comp_feature.value _pdbx_chem_comp_feature.source _pdbx_chem_comp_feature.support 6YR "CARBOHYDRATE ISOMER" L PDB ? 6YR "CARBOHYDRATE RING" pyranose PDB ? 6YR "CARBOHYDRATE ANOMER" beta PDB ? 6YR "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose PDB ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 6YR "Create component" 2016-01-04 EBI 6YR "Modify atom id" 2016-02-22 EBI 6YR "Other modification" 2016-03-03 EBI 6YR "Initial release" 2017-03-29 RCSB 6YR "Other modification" 2020-07-03 RCSB 6YR "Modify name" 2020-07-17 RCSB 6YR "Modify synonyms" 2020-07-17 RCSB 6YR "Modify linking type" 2020-07-17 RCSB 6YR "Modify atom id" 2020-07-17 RCSB 6YR "Modify component atom id" 2020-07-17 RCSB 6YR "Modify leaving atom flag" 2020-07-17 RCSB ##