data_X6N
#
_chem_comp.id X6N
_chem_comp.name "[(2~{R},3~{S},4~{R},5~{S})-2-(hydroxymethyl)-5-methoxy-4,6-bis(oxidanyl)oxan-3-yl] dihydrogen phosphate"
_chem_comp.type "D-saccharide, alpha linking"
_chem_comp.pdbx_type ATOMS
_chem_comp.formula "C7 H15 O9 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-10-24
_chem_comp.pdbx_modified_date 2024-10-04
_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 274.162
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code X6N
_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 8WO1
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
_chem_comp.pdbx_pcm ?
#
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.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_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
X6N C1 C1 C 0 1 N N S N N N 157.262 158.442 155.214 2.813 0.470 -0.327 C1 X6N 1
X6N C2 C2 C 0 1 N N S N N N 156.993 158.423 153.905 2.289 -0.967 -0.261 C2 X6N 2
X6N C3 C3 C 0 1 N N R N N N 156.397 157.309 153.501 0.887 -1.020 -0.877 C3 X6N 3
X6N C4 C4 C 0 1 N N S N N N 157.119 156.155 153.779 -0.022 -0.035 -0.136 C4 X6N 4
X6N C48 C5 C 0 1 N N N N N N 158.592 160.019 152.835 3.427 -2.013 1.571 C48 X6N 5
X6N C5 C6 C 0 1 N N R N N N 157.387 156.073 155.178 0.591 1.366 -0.208 C5 X6N 6
X6N C6 C7 C 0 1 N N N N N N 158.249 154.991 155.500 -0.280 2.345 0.581 C6 X6N 7
X6N O3 O1 O 0 1 N N N N N N 156.155 157.450 152.065 0.361 -2.343 -0.753 O3 X6N 8
X6N O4 O2 O 0 1 N N N N N N 156.392 155.076 153.421 -1.313 -0.023 -0.749 O4 X6N 9
X6N O47 O3 O 0 1 N N N N N N 158.269 158.588 153.145 2.229 -1.391 1.102 O47 X6N 10
X6N O5 O4 O 0 1 N N N N N N 157.901 157.263 155.673 1.905 1.338 0.354 O5 X6N 11
X6N O52 O5 O 0 1 N N N N N N 157.778 154.222 156.596 0.227 3.671 0.419 O52 X6N 12
X6N O54 O6 O 0 1 N N N N N N 157.904 154.795 151.166 -2.933 0.661 1.205 O54 X6N 13
X6N O55 O7 O 0 1 N N N N N N 156.066 152.916 151.742 -3.901 -0.418 -0.988 O55 X6N 14
X6N O56 O8 O 0 1 N N N N N N 155.281 155.360 150.951 -2.511 -1.761 0.635 O56 X6N 15
X6N P51 P1 P 0 1 N N N N N N 156.413 154.526 151.813 -2.661 -0.415 0.039 P51 X6N 16
X6N H1 H1 H 0 1 N N N N N N 157.936 159.286 155.422 3.792 0.522 0.148 H1 X6N 17
X6N H3 H3 H 0 1 N N N N N N 156.357 159.285 153.656 2.957 -1.625 -0.817 H3 X6N 18
X6N H4 H4 H 0 1 N N N N N N 155.416 157.227 153.991 0.942 -0.745 -1.930 H4 X6N 19
X6N H5 H5 H 0 1 N N N N N N 158.072 156.173 153.229 -0.115 -0.339 0.906 H5 X6N 20
X6N H6 H6 H 0 1 N N N N N N 159.539 160.069 152.277 3.637 -2.897 0.969 H6 X6N 21
X6N H7 H7 H 0 1 N N N N N N 157.785 160.454 152.227 4.257 -1.312 1.489 H7 X6N 22
X6N H8 H8 H 0 1 N N N N N N 158.689 160.584 153.774 3.300 -2.306 2.614 H8 X6N 23
X6N H9 H9 H 0 1 N N N N N N 156.427 155.888 155.683 0.647 1.686 -1.248 H9 X6N 24
X6N H10 H10 H 0 1 N N N N N N 158.334 154.335 154.621 -1.304 2.300 0.211 H10 X6N 25
X6N H11 H11 H 0 1 N N N N N N 159.240 155.395 155.754 -0.263 2.077 1.638 H11 X6N 26
X6N H12 H12 H 0 1 N N N N N N 155.829 156.629 151.716 0.887 -3.020 -1.199 H12 X6N 27
X6N H13 H13 H 0 1 N N N N N N 158.387 153.514 156.771 -0.278 4.346 0.893 H13 X6N 28
X6N H14 H14 H 0 1 N N N N N N 157.826 155.379 150.421 -3.042 1.567 0.887 H14 X6N 29
X6N H15 H15 H 0 1 N N N N N N 155.284 152.783 151.220 -4.748 -0.646 -0.581 H15 X6N 30
X6N OXT OXT O 0 1 N Y N N N N 156.051 158.682 155.910 2.924 0.873 -1.694 O1 X6N 31
X6N HXT HXT H 0 1 N Y N N N N 156.220 158.699 156.845 3.251 1.776 -1.811 H2 X6N 32
#
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
X6N O56 P51 DOUB N N 1
X6N O54 P51 SING N N 2
X6N O55 P51 SING N N 3
X6N P51 O4 SING N N 4
X6N O3 C3 SING N N 5
X6N C48 O47 SING N N 6
X6N O47 C2 SING N N 7
X6N O4 C4 SING N N 8
X6N C3 C4 SING N N 9
X6N C3 C2 SING N N 10
X6N C4 C5 SING N N 11
X6N C2 C1 SING N N 12
X6N C5 C6 SING N N 13
X6N C5 O5 SING N N 14
X6N C1 O5 SING N N 15
X6N C6 O52 SING N N 16
X6N C1 H1 SING N N 17
X6N C2 H3 SING N N 18
X6N C3 H4 SING N N 19
X6N C4 H5 SING N N 20
X6N C48 H6 SING N N 21
X6N C48 H7 SING N N 22
X6N C48 H8 SING N N 23
X6N C5 H9 SING N N 24
X6N C6 H10 SING N N 25
X6N C6 H11 SING N N 26
X6N O3 H12 SING N N 27
X6N O52 H13 SING N N 28
X6N O54 H14 SING N N 29
X6N O55 H15 SING N N 30
X6N C1 OXT SING N N 31
X6N OXT HXT SING N N 32
#
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
X6N InChI InChI 1.06 "InChI=1S/C7H15O9P/c1-14-6-4(9)5(16-17(11,12)13)3(2-8)15-7(6)10/h3-10H,2H2,1H3,(H2,11,12,13)/t3-,4+,5-,6+,7?/m1/s1"
X6N InChIKey InChI 1.06 NLMCYSYQBJOKBW-MSPRSRQBSA-N
X6N SMILES_CANONICAL CACTVS 3.385 "CO[C@@H]1[C@@H](O)O[C@H](CO)[C@@H](O[P](O)(O)=O)[C@@H]1O"
X6N SMILES CACTVS 3.385 "CO[CH]1[CH](O)O[CH](CO)[CH](O[P](O)(O)=O)[CH]1O"
X6N SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CO[C@H]1[C@H]([C@@H]([C@H](OC1O)CO)OP(=O)(O)O)O"
X6N SMILES "OpenEye OEToolkits" 2.0.7 "COC1C(C(C(OC1O)CO)OP(=O)(O)O)O"
#
_pdbx_chem_comp_identifier.comp_id X6N
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier "[(2~{R},3~{S},4~{R},5~{S})-2-(hydroxymethyl)-5-methoxy-4,6-bis(oxidanyl)oxan-3-yl] dihydrogen phosphate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
X6N "Create component" 2023-10-24 PDBJ
X6N "Initial release" 2024-10-09 RCSB
#