data_CDI
#
_chem_comp.id CDI
_chem_comp.name "2C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C5 H12 O9 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2001-09-18
_chem_comp.pdbx_modified_date 2011-06-04
_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 278.091
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code CDI
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1JY8
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
CDI C4 C4 C 0 1 N N N 16.179 34.225 4.344 -0.474 -0.373 -3.149 C4 CDI 1
CDI C3 C3 C 0 1 N N S 16.103 33.048 5.368 -0.176 0.115 -1.708 C3 CDI 2
CDI OB4 OB4 O 0 1 N N N 15.382 31.950 4.735 1.060 -0.511 -1.316 OB4 CDI 3
CDI PB PB P 0 1 N N S 15.625 30.460 4.134 1.400 -0.203 0.220 PB CDI 4
CDI OB2 OB2 O 0 1 N N N 14.275 29.852 3.563 2.917 -0.697 0.505 OB2 CDI 5
CDI OB3 OB3 O 0 1 N N N 16.756 30.457 2.987 1.303 1.220 0.555 OB3 CDI 6
CDI PA PA P 0 1 N N R 14.965 29.544 6.563 -0.445 -0.024 2.011 PA CDI 7
CDI OA3 OA3 O 0 1 N N N 14.553 30.965 7.209 -0.891 1.179 1.041 OA3 CDI 8
CDI OA1 OA1 O 0 1 N N N 13.700 28.652 6.256 -1.745 -0.749 2.624 OA1 CDI 9
CDI OA2 OA2 O 0 1 N N N 15.975 28.721 7.472 0.385 0.509 3.117 OA2 CDI 10
CDI C1 C1 C 0 1 N N N 15.145 32.203 7.707 -1.855 0.694 0.127 C1 CDI 11
CDI C2 C2 C 0 1 N N R 15.276 33.377 6.663 -1.318 -0.374 -0.818 C2 CDI 12
CDI O1 O1 O 0 1 N N N 15.876 34.454 7.389 -2.397 -0.818 -1.664 O1 CDI 13
CDI C5 C5 C 0 1 N N N 17.558 32.653 5.753 -0.062 1.630 -1.762 C5 CDI 14
CDI O2 O2 O 0 1 N N N 14.865 34.645 3.953 0.592 0.019 -4.015 O2 CDI 15
CDI OB1 OB1 O 0 1 N N N 15.693 29.403 5.246 0.415 -1.085 1.158 OB1 CDI 16
CDI HC41 1HC4 H 0 0 N N N 16.809 33.964 3.462 -0.564 -1.459 -3.153 HC41 CDI 17
CDI HC42 2HC4 H 0 0 N N N 16.784 35.075 4.737 -1.407 0.069 -3.497 HC42 CDI 18
CDI HB2O OHB2 H 0 0 N N N 14.417 28.981 3.212 3.103 -0.504 1.434 HB2O CDI 19
CDI HA1O OHA1 H 0 0 N N N 13.942 27.816 5.876 -1.426 -1.464 3.191 HA1O CDI 20
CDI HC11 1HC1 H 0 0 N N N 16.140 31.990 8.163 -2.687 0.258 0.703 HC11 CDI 21
CDI HC12 2HC1 H 0 0 N N N 14.585 32.556 8.604 -2.285 1.523 -0.438 HC12 CDI 22
CDI HC2 HC2 H 0 1 N N N 14.264 33.613 6.258 -0.989 -1.247 -0.244 HC2 CDI 23
CDI HO1 HO1 H 0 1 N N N 15.376 34.653 8.172 -3.080 -1.177 -1.081 HO1 CDI 24
CDI HC51 1HC5 H 0 0 N N N 18.154 33.516 6.131 0.747 1.909 -2.437 HC51 CDI 25
CDI HC52 2HC5 H 0 0 N N N 17.504 31.813 6.484 -0.999 2.052 -2.125 HC52 CDI 26
CDI HC53 3HC5 H 0 0 N N N 18.189 32.413 4.866 0.147 2.015 -0.764 HC53 CDI 27
CDI HO2 HO2 H 0 1 N N N 14.911 35.361 3.330 0.367 -0.303 -4.898 HO2 CDI 28
#
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
CDI C4 C3 SING N N 1
CDI C4 O2 SING N N 2
CDI C4 HC41 SING N N 3
CDI C4 HC42 SING N N 4
CDI C3 OB4 SING N N 5
CDI C3 C2 SING N N 6
CDI C3 C5 SING N N 7
CDI OB4 PB SING N N 8
CDI PB OB2 SING N N 9
CDI PB OB3 DOUB N N 10
CDI PB OB1 SING N N 11
CDI OB2 HB2O SING N N 12
CDI PA OA3 SING N N 13
CDI PA OA1 SING N N 14
CDI PA OA2 DOUB N N 15
CDI PA OB1 SING N N 16
CDI OA3 C1 SING N N 17
CDI OA1 HA1O SING N N 18
CDI C1 C2 SING N N 19
CDI C1 HC11 SING N N 20
CDI C1 HC12 SING N N 21
CDI C2 O1 SING N N 22
CDI C2 HC2 SING N N 23
CDI O1 HO1 SING N N 24
CDI C5 HC51 SING N N 25
CDI C5 HC52 SING N N 26
CDI C5 HC53 SING N N 27
CDI O2 HO2 SING N N 28
#
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
CDI SMILES ACDLabs 10.04 "O=P1(OP(=O)(OCC(O)C(O1)(C)CO)O)O"
CDI SMILES_CANONICAL CACTVS 3.341 "C[C@@]1(CO)O[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]1O"
CDI SMILES CACTVS 3.341 "C[C]1(CO)O[P](O)(=O)O[P](O)(=O)OC[CH]1O"
CDI SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C[C@@]1([C@@H](CO[P@](=O)(O[P@](=O)(O1)O)O)O)CO"
CDI SMILES "OpenEye OEToolkits" 1.5.0 "CC1(C(COP(=O)(OP(=O)(O1)O)O)O)CO"
CDI InChI InChI 1.03 "InChI=1S/C5H12O9P2/c1-5(3-6)4(7)2-12-15(8,9)14-16(10,11)13-5/h4,6-7H,2-3H2,1H3,(H,8,9)(H,10,11)/t4-,5+/m1/s1"
CDI InChIKey InChI 1.03 SFRQRNJMIIUYDI-UHNVWZDZSA-N
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
CDI "SYSTEMATIC NAME" ACDLabs 10.04 "(2R,4S,6S,7R)-6-(hydroxymethyl)-6-methyl-1,3,5,2,4-trioxadiphosphocane-2,4,7-triol 2,4-dioxide"
CDI "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2R,4S,6S,7R)-2,4-dihydroxy-6-(hydroxymethyl)-6-methyl-2,4-dioxo-1,3,5-trioxa-2$l^{5},4$l^{5}-diphosphacyclooctan-7-ol"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
CDI "Create component" 2001-09-18 RCSB
CDI "Modify descriptor" 2011-06-04 RCSB
#