data_2BT
#

_chem_comp.id                                   2BT
_chem_comp.name                                 "2'-O-BUTYL-THYMIDINE"
_chem_comp.type                                 "RNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C14 H23 N2 O9 P"
_chem_comp.mon_nstd_parent_comp_id              DT
_chem_comp.pdbx_synonyms                        "2'-O-BUTYL-5-METHYLURIDINE"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2004-12-16
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       394.314
_chem_comp.one_letter_code                      T
_chem_comp.three_letter_code                    2BT
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  Y
_chem_comp.pdbx_ideal_coordinates_details       ?
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1WV5
_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
2BT  P       P     P  0  1  N  N  N  -4.736  31.251   0.586   2.787   0.324  -4.407  P       2BT   1  
2BT  OP3     O3P   O  0  1  N  Y  N  -5.868  30.549   0.016   1.198   0.588  -4.548  OP3     2BT   2  
2BT  OP2     O2P   O  0  1  N  N  N  -3.411  30.594   0.625   2.921  -1.270  -4.647  OP2     2BT   3  
2BT  "O5'"   O5*   O  0  1  N  N  N  -4.531  32.593  -0.257   3.063   0.476  -2.819  "O5'"   2BT   4  
2BT  "C5'"   C5*   C  0  1  N  N  N  -5.546  33.600  -0.327   2.282  -0.292  -1.921  "C5'"   2BT   5  
2BT  "C4'"   C4*   C  0  1  N  N  R  -5.014  34.963  -0.718   2.725   0.023  -0.498  "C4'"   2BT   6  
2BT  "O4'"   O4*   O  0  1  N  N  N  -4.260  35.459   0.380   2.470   1.422  -0.246  "O4'"   2BT   7  
2BT  "C1'"   C1*   C  0  1  N  N  R  -3.268  36.323  -0.111   1.373   1.543   0.675  "C1'"   2BT   8  
2BT  N1      N1    N  0  1  N  N  N  -1.948  35.753   0.243   0.452   2.524   0.177  N1      2BT   9  
2BT  C2      C2    C  0  1  N  N  N  -0.858  36.585   0.261  -0.300   3.336   1.055  C2      2BT  10  
2BT  O2      O2    O  0  1  N  N  N  -0.914  37.763  -0.025  -0.225   3.269   2.283  O2      2BT  11  
2BT  N3      N3    N  0  1  N  N  N   0.313  35.996   0.642  -1.159   4.248   0.431  N3      2BT  12  
2BT  C4      C4    C  0  1  N  N  N   0.495  34.674   0.942  -1.338   4.427  -0.932  C4      2BT  13  
2BT  O4      O4    O  0  1  N  N  N   1.587  34.252   1.284  -2.112   5.251  -1.413  O4      2BT  14  
2BT  C5      C5    C  0  1  N  N  N  -0.675  33.881   0.929  -0.514   3.537  -1.792  C5      2BT  15  
2BT  C5M     C5M   C  0  1  N  N  N  -0.620  32.620   1.697  -0.651   3.669  -3.275  C5M     2BT  16  
2BT  C6      C6    C  0  1  N  N  N  -1.835  34.434   0.585   0.309   2.663  -1.199  C6      2BT  17  
2BT  "C2'"   C2*   C  0  1  N  N  R  -3.525  36.491  -1.603   0.748   0.163   0.786  "C2'"   2BT  18  
2BT  "O2'"   O2*   O  0  1  N  N  N  -4.479  37.524  -1.886   0.137  -0.058   2.041  "O2'"   2BT  19  
2BT  "CA'"   CA*   C  0  1  N  N  N  -4.022  38.855  -1.725  -0.332  -1.396   2.174  "CA'"   2BT  20  
2BT  "CB'"   CB*   C  0  1  N  N  N  -5.024  39.764  -2.386  -0.992  -1.552   3.536  "CB'"   2BT  21  
2BT  "CC'"   CC*   C  0  1  N  N  N  -4.354  41.065  -2.829  -1.506  -2.973   3.753  "CC'"   2BT  22  
2BT  "C3'"   C3*   C  0  1  N  N  R  -4.029  35.074  -1.858   1.940  -0.742   0.560  "C3'"   2BT  23  
2BT  "O3'"   O3*   O  0  1  N  N  N  -4.671  34.899  -3.113   2.742  -0.809   1.739  "O3'"   2BT  24  
2BT  "CD'"   CD*   C  0  1  N  N  N       ?       ?       ?  -2.126  -3.136   5.131  "CD'"   2BT  25  
2BT  OP1     O1P   O  0  1  N  N  N       ?       ?       ?   3.659   1.172  -5.286  OP1     2BT  26  
2BT  HOP3    3HOP  H  0  0  N  N  N  -6.718  30.970  -0.009   0.799   0.616  -5.443  HOP3    2BT  27  
2BT  HOP2    2HOP  H  0  0  N  N  N  -2.668  31.054   0.998   2.886  -1.617  -5.563  HOP2    2BT  28  
2BT  "H5'"   1H5*  H  0  1  N  N  N  -6.368  33.285  -1.010   1.229  -0.035  -2.051  "H5'"   2BT  29  
2BT  "H5''"  2H5*  H  0  0  N  N  N  -6.113  33.656   0.631   2.428  -1.352  -2.133  "H5''"  2BT  30  
2BT  "H4'"   H4*   H  0  1  N  N  N  -5.943  35.496  -1.026   3.804  -0.139  -0.410  "H4'"   2BT  31  
2BT  "H1'"   H1*   H  0  1  N  N  N  -3.286  37.343   0.337   1.754   1.910   1.633  "H1'"   2BT  32  
2BT  HN3     HN3   H  0  1  N  N  N   1.130  36.602   0.709  -1.709   4.843   1.045  HN3     2BT  33  
2BT  H71     1H5M  H  0  1  N  N  N  -1.542  31.994   1.686  -1.057   2.748  -3.690  H71     2BT  34  
2BT  H72     2H5M  H  0  1  N  N  N   0.251  32.011   1.359   0.324   3.866  -3.719  H72     2BT  35  
2BT  H73     3H5M  H  0  1  N  N  N  -0.321  32.833   2.749  -1.320   4.497  -3.510  H73     2BT  36  
2BT  H6      H6    H  0  1  N  N  N  -2.725  33.782   0.583   0.928   1.995  -1.790  H6      2BT  37  
2BT  "H2'"   H2*   H  0  1  N  N  N  -2.670  36.820  -2.238  -0.000   0.004  -0.000  "H2'"   2BT  38  
2BT  "HA'1"  1HA*  H  0  0  N  N  N  -3.830  39.122  -0.659   0.521  -2.075   2.072  "HA'1"  2BT  39  
2BT  "HA'2"  2HA*  H  0  0  N  N  N  -2.983  39.006  -2.102  -1.045  -1.596   1.368  "HA'2"  2BT  40  
2BT  "HB'1"  1HB*  H  0  0  N  N  N  -5.548  39.259  -3.230  -1.815  -0.833   3.625  "HB'1"  2BT  41  
2BT  "HB'2"  2HB*  H  0  0  N  N  N  -5.906  39.953  -1.732  -0.274  -1.284   4.321  "HB'2"  2BT  42  
2BT  "HC'1"  1HC*  H  0  0  N  N  N  -4.349  42.010  -3.420  -0.682  -3.688   3.642  "HC'1"  2BT  43  
2BT  "HC'2"  2HC*  H  0  0  N  N  N  -4.000  42.102  -2.622  -2.254  -3.219   2.991  "HC'2"  2BT  44  
2BT  "H3'"   H3*   H  0  1  N  N  N  -3.219  34.308  -1.898   1.675  -1.764   0.277  "H3'"   2BT  45  
2BT  "HO3'"  H3T   H  0  0  N  Y  N  -4.051  34.968  -3.829   3.447  -0.153   1.628  "HO3'"  2BT  46  
2BT  "HD'1"  1HD*  H  0  0  N  N  N   0.488   0.948  -0.323  -1.394  -2.927   5.918  "HD'1"  2BT  47  
2BT  "HD'2"  2HD*  H  0  0  N  N  N  -0.004  -0.945   0.591  -2.975  -2.458   5.263  "HD'2"  2BT  48  
2BT  "HD'3"  3HD*  H  0  0  N  N  N  -0.353  -1.037  -0.206  -2.486  -4.161   5.266  "HD'3"  2BT  49  
#   #
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
2BT  P      OP3     SING  N  N   1  
2BT  P      OP2     SING  N  N   2  
2BT  P      "O5'"   SING  N  N   3  
2BT  P      OP1     DOUB  N  N   4  
2BT  OP3    HOP3    SING  N  N   5  
2BT  OP2    HOP2    SING  N  N   6  
2BT  "O5'"  "C5'"   SING  N  N   7  
2BT  "C5'"  "C4'"   SING  N  N   8  
2BT  "C5'"  "H5'"   SING  N  N   9  
2BT  "C5'"  "H5''"  SING  N  N  10  
2BT  "C4'"  "O4'"   SING  N  N  11  
2BT  "C4'"  "C3'"   SING  N  N  12  
2BT  "C4'"  "H4'"   SING  N  N  13  
2BT  "O4'"  "C1'"   SING  N  N  14  
2BT  "C1'"  N1      SING  N  N  15  
2BT  "C1'"  "C2'"   SING  N  N  16  
2BT  "C1'"  "H1'"   SING  N  N  17  
2BT  N1     C2      SING  N  N  18  
2BT  N1     C6      SING  N  N  19  
2BT  C2     O2      DOUB  N  N  20  
2BT  C2     N3      SING  N  N  21  
2BT  N3     C4      SING  N  N  22  
2BT  N3     HN3     SING  N  N  23  
2BT  C4     O4      DOUB  N  N  24  
2BT  C4     C5      SING  N  N  25  
2BT  C5     C5M     SING  N  N  26  
2BT  C5     C6      DOUB  N  N  27  
2BT  C5M    H71     SING  N  N  28  
2BT  C5M    H72     SING  N  N  29  
2BT  C5M    H73     SING  N  N  30  
2BT  C6     H6      SING  N  N  31  
2BT  "C2'"  "O2'"   SING  N  N  32  
2BT  "C2'"  "C3'"   SING  N  N  33  
2BT  "C2'"  "H2'"   SING  N  N  34  
2BT  "O2'"  "CA'"   SING  N  N  35  
2BT  "CA'"  "CB'"   SING  N  N  36  
2BT  "CA'"  "HA'1"  SING  N  N  37  
2BT  "CA'"  "HA'2"  SING  N  N  38  
2BT  "CB'"  "CC'"   SING  N  N  39  
2BT  "CB'"  "HB'1"  SING  N  N  40  
2BT  "CB'"  "HB'2"  SING  N  N  41  
2BT  "CC'"  "CD'"   SING  N  N  42  
2BT  "CC'"  "HC'1"  SING  N  N  43  
2BT  "CC'"  "HC'2"  SING  N  N  44  
2BT  "C3'"  "O3'"   SING  N  N  45  
2BT  "C3'"  "H3'"   SING  N  N  46  
2BT  "O3'"  "HO3'"  SING  N  N  47  
2BT  "CD'"  "HD'1"  SING  N  N  48  
2BT  "CD'"  "HD'2"  SING  N  N  49  
2BT  "CD'"  "HD'3"  SING  N  N  50  
#   #
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
2BT  SMILES            ACDLabs               10.04  "O=C1NC(=O)N(C=C1C)C2OC(C(O)C2OCCCC)COP(=O)(O)O"  
2BT  SMILES_CANONICAL  CACTVS                3.341  "CCCCO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=C(C)C(=O)NC2=O"  
2BT  SMILES            CACTVS                3.341  "CCCCO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=C(C)C(=O)NC2=O"  
2BT  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "CCCCO[C@@H]1[C@@H]([C@H](O[C@H]1N2C=C(C(=O)NC2=O)C)COP(=O)(O)O)O"  
2BT  SMILES            "OpenEye OEToolkits"  1.5.0  "CCCCOC1C(C(OC1N2C=C(C(=O)NC2=O)C)COP(=O)(O)O)O"  
2BT  InChI             InChI                 1.03   "InChI=1S/C14H23N2O9P/c1-3-4-5-23-11-10(17)9(7-24-26(20,21)22)25-13(11)16-6-8(2)12(18)15-14(16)19/h6,9-11,13,17H,3-5,7H2,1-2H3,(H,15,18,19)(H2,20,21,22)/t9-,10-,11-,13-/m1/s1"  
2BT  InChIKey          InChI                 1.03   WSAMAMLAATZRPR-PRULPYPASA-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
2BT  "SYSTEMATIC NAME"  ACDLabs               10.04  "2'-O-butyl-5-methyluridine 5'-(dihydrogen phosphate)"  
2BT  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[(2R,3R,4R,5R)-4-butoxy-3-hydroxy-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-2-yl]methyl 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
2BT  "Create component"     2004-12-16  RCSB  
2BT  "Modify linking type"  2011-06-04  RCSB  
2BT  "Modify descriptor"    2011-06-04  RCSB  
2BT  "Modify synonyms"      2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     2BT
_pdbx_chem_comp_synonyms.name        "2'-O-BUTYL-5-METHYLURIDINE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
