data_TBD
#
_chem_comp.id TBD
_chem_comp.name "2*-DEOXY-THYMIDINE-5*-ALPHA BORANO DIPHOSPHATE (ISOMER RP)"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H19 B N2 O10 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2000-09-06
_chem_comp.pdbx_modified_date 2012-01-05
_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 400.024
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code TBD
_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 1F6T
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
#
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
TBD PB PB P 0 1 N N N 19.695 43.734 35.992 -5.370 -1.125 0.394 PB TBD 1
TBD O1B O1B O 0 1 N N N 20.320 44.304 37.202 -6.463 0.056 0.352 O1B TBD 2
TBD O2B O2B O 0 1 N N N 19.435 42.274 35.964 -5.639 -2.061 1.676 O2B TBD 3
TBD O3B O3B O 0 1 N N N 18.628 44.638 35.485 -5.473 -1.937 -0.840 O3B TBD 4
TBD O3A O3A O 0 1 N N N 20.856 43.989 34.932 -3.895 -0.488 0.495 O3A TBD 5
TBD PA PA P 1 1 N N R 21.845 42.955 34.238 -2.922 0.253 -0.553 PA TBD 6
TBD B1A B1A B -1 1 N N N 22.083 43.573 32.447 -3.767 1.801 -1.206 B1A TBD 7
TBD O2A O2A O 0 1 N N N 21.293 41.589 34.473 -2.598 -0.739 -1.779 O2A TBD 8
TBD "O5'" O5* O 0 1 N N N 23.233 43.156 35.011 -1.550 0.662 0.184 "O5'" TBD 9
TBD "C5'" C5* C 0 1 N N N 23.356 42.874 36.409 -0.618 1.594 -0.368 "C5'" TBD 10
TBD "C4'" C4* C 0 1 N N R 23.980 44.050 37.153 0.569 1.751 0.585 "C4'" TBD 11
TBD "O4'" O4* O 0 1 N N N 25.353 44.259 36.728 1.324 0.523 0.664 "O4'" TBD 12
TBD "C1'" C1* C 0 1 N N R 25.679 45.637 36.822 2.640 0.868 1.129 "C1'" TBD 13
TBD N1 N1 N 0 1 N N N 26.118 46.107 35.487 3.633 -0.016 0.513 N1 TBD 14
TBD C6 C6 C 0 1 N N N 25.593 45.545 34.339 4.511 -0.703 1.305 C6 TBD 15
TBD C2 C2 C 0 1 N N N 27.068 47.108 35.425 3.669 -0.147 -0.825 C2 TBD 16
TBD O2 O2 O 0 1 N N N 27.543 47.653 36.415 2.876 0.469 -1.510 O2 TBD 17
TBD N3 N3 N 0 1 N N N 27.447 47.456 34.154 4.571 -0.952 -1.417 N3 TBD 18
TBD C4 C4 C 0 1 N N N 26.980 46.931 32.969 5.457 -1.643 -0.672 C4 TBD 19
TBD O4 O4 O 0 1 N N N 27.433 47.342 31.909 6.274 -2.372 -1.206 O4 TBD 20
TBD C5 C5 C 0 1 N N N 25.966 45.901 33.102 5.426 -1.518 0.738 C5 TBD 21
TBD C5A C5A C 0 1 N N N 25.386 45.286 31.867 6.402 -2.283 1.594 C5A TBD 22
TBD "C2'" C2* C 0 1 N N N 24.444 46.370 37.358 2.905 2.327 0.709 "C2'" TBD 23
TBD "C3'" C3* C 0 1 N N S 23.318 45.412 36.978 1.592 2.768 0.018 "C3'" TBD 24
TBD "O3'" O3* O 0 1 N N N 22.221 45.550 37.878 1.244 4.103 0.389 "O3'" TBD 25
TBD H1BO OH1B H 0 0 N N N 20.486 45.239 37.219 -6.453 0.629 1.131 H1BO TBD 26
TBD H2BO OH2B H 0 0 N N N 19.032 41.907 35.185 -6.510 -2.479 1.681 H2BO TBD 27
TBD H1B H1B H 0 1 N N N 21.722 44.716 32.498 -4.011 2.546 -0.285 H1B TBD 28
TBD H2B H2B H 0 1 N N N 23.203 43.182 32.267 -3.036 2.357 -1.994 H2B TBD 29
TBD H3B H3B H 0 1 N N N 21.584 43.170 31.433 -4.798 1.494 -1.760 H3B TBD 30
TBD H2AO OH2A H 0 0 N N N 21.883 40.971 34.058 -2.161 -1.560 -1.515 H2AO TBD 31
TBD "H5'1" 1H5* H 0 0 N N N 22.378 42.577 36.855 -0.265 1.227 -1.331 "H5'1" TBD 32
TBD "H5'2" 2H5* H 0 0 N N N 23.919 41.928 36.589 -1.106 2.559 -0.503 "H5'2" TBD 33
TBD "H4'C" CH4* H 0 0 N N N 23.859 43.734 38.215 0.228 2.057 1.574 "H4'C" TBD 34
TBD "H1'C" CH1* H 0 0 N N N 26.520 45.837 37.525 2.685 0.778 2.214 "H1'C" TBD 35
TBD HC6 HC6 H 0 1 N N N 24.823 44.758 34.415 4.473 -0.595 2.379 HC6 TBD 36
TBD HN3 HN3 H 0 1 N N N 28.155 48.186 34.082 4.584 -1.036 -2.383 HN3 TBD 37
TBD HCA1 1HCA H 0 0 N N N 25.696 45.582 30.837 5.975 -3.251 1.856 HCA1 TBD 38
TBD HCA2 2HCA H 0 0 N N N 25.518 44.182 31.950 7.330 -2.433 1.042 HCA2 TBD 39
TBD HCA3 3HCA H 0 0 N N N 24.278 45.398 31.926 6.608 -1.719 2.504 HCA3 TBD 40
TBD "H2'1" 1H2* H 0 0 N N N 24.488 46.642 38.438 3.102 2.946 1.585 "H2'1" TBD 41
TBD "H2'2" 2H2* H 0 0 N N N 24.318 47.415 36.991 3.740 2.377 0.010 "H2'2" TBD 42
TBD "H3'C" CH3* H 0 0 N N N 22.905 45.585 35.956 1.673 2.676 -1.066 "H3'C" TBD 43
TBD "H3'O" OH3* H 0 0 N N N 21.808 46.398 37.768 1.854 4.776 0.057 "H3'O" TBD 44
#
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
TBD PB O1B SING N N 1
TBD PB O2B SING N N 2
TBD PB O3B DOUB N N 3
TBD PB O3A SING N N 4
TBD O1B H1BO SING N N 5
TBD O2B H2BO SING N N 6
TBD O3A PA SING N N 7
TBD PA B1A SING N N 8
TBD PA O2A SING N N 9
TBD PA "O5'" SING N N 10
TBD B1A H1B SING N N 11
TBD B1A H2B SING N N 12
TBD B1A H3B SING N N 13
TBD O2A H2AO SING N N 14
TBD "O5'" "C5'" SING N N 15
TBD "C5'" "C4'" SING N N 16
TBD "C5'" "H5'1" SING N N 17
TBD "C5'" "H5'2" SING N N 18
TBD "C4'" "O4'" SING N N 19
TBD "C4'" "C3'" SING N N 20
TBD "C4'" "H4'C" SING N N 21
TBD "O4'" "C1'" SING N N 22
TBD "C1'" N1 SING N N 23
TBD "C1'" "C2'" SING N N 24
TBD "C1'" "H1'C" SING N N 25
TBD N1 C6 SING N N 26
TBD N1 C2 SING N N 27
TBD C6 C5 DOUB N N 28
TBD C6 HC6 SING N N 29
TBD C2 O2 DOUB N N 30
TBD C2 N3 SING N N 31
TBD N3 C4 SING N N 32
TBD N3 HN3 SING N N 33
TBD C4 O4 DOUB N N 34
TBD C4 C5 SING N N 35
TBD C5 C5A SING N N 36
TBD C5A HCA1 SING N N 37
TBD C5A HCA2 SING N N 38
TBD C5A HCA3 SING N N 39
TBD "C2'" "C3'" SING N N 40
TBD "C2'" "H2'1" SING N N 41
TBD "C2'" "H2'2" SING N N 42
TBD "C3'" "O3'" SING N N 43
TBD "C3'" "H3'C" SING N N 44
TBD "O3'" "H3'O" SING N N 45
#
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
TBD SMILES ACDLabs 10.04 "O=P(O)(O)O[P+](O)(OCC2OC(N1C(=O)NC(=O)C(=C1)C)CC2O)[BH3-]"
TBD InChI InChI 1.03 "InChI=1S/C10H19BN2O10P2/c1-5-3-13(10(16)12-9(5)15)8-2-6(14)7(22-8)4-21-24(11,17)23-25(18,19)20/h3,6-8,14,17H,2,4H2,1,11H3,(H,12,15,16)(H2,18,19,20)/t6-,7+,8+,24+/m0/s1"
TBD InChIKey InChI 1.03 QDZZFSSDQOLCBV-TYNZIUOXSA-N
TBD SMILES_CANONICAL CACTVS 3.385 "[BH3-][P@@+](O)(OC[C@H]1O[C@H](C[C@@H]1O)N2C=C(C)C(=O)NC2=O)O[P](O)(O)=O"
TBD SMILES CACTVS 3.385 "[BH3-][P+](O)(OC[CH]1O[CH](C[CH]1O)N2C=C(C)C(=O)NC2=O)O[P](O)(O)=O"
TBD SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "[BH3-][P@@+](O)(OC[C@@H]1[C@H](C[C@@H](O1)N2C=C(C(=O)NC2=O)C)O)OP(=O)(O)O"
TBD SMILES "OpenEye OEToolkits" 1.7.5 "[BH3-][P+](O)(OCC1C(CC(O1)N2C=C(C(=O)NC2=O)C)O)OP(=O)(O)O"
#
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
TBD "SYSTEMATIC NAME" ACDLabs 10.04 "trihydrido{5'-O-[(1R)-1,3,3-trihydroxy-3-oxidodiphosphoxanyl-kappaP~1~]thymidine}boron"
TBD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "trihydrido-[(R)-hydroxy-[[(2R,3S,5R)-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methoxy]-phosphonooxy-phosphaniumyl]boron"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
TBD "Create component" 2000-09-06 PDBJ
TBD "Modify descriptor" 2011-06-04 RCSB
TBD "Modify descriptor" 2012-01-05 RCSB
TBD "Modify coordinates" 2012-01-05 RCSB
#