data_BVP
#

_chem_comp.id                                   BVP
_chem_comp.name                                 "(E)-5-(2-BROMOVINYL)-2'-DEOXYURIDINE-5'-MONOPHOSPHATE"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C11 H14 Br N2 O8 P"
_chem_comp.mon_nstd_parent_comp_id              DU
_chem_comp.pdbx_synonyms                        BVDU-MP
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2003-03-31
_chem_comp.pdbx_modified_date                   2020-06-17
_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                       413.115
_chem_comp.one_letter_code                      U
_chem_comp.three_letter_code                    BVP
_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       1OSN
_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
BVP  "O3'"   O3*   O   0  1  N  N  N  84.775  22.905  52.971  -3.279   3.632   0.610  "O3'"   BVP   1  
BVP  "C3'"   C3*   C   0  1  N  N  S  84.840  22.493  54.336  -2.776   2.504  -0.107  "C3'"   BVP   2  
BVP  "C2'"   C2*   C   0  1  N  N  N  84.298  23.528  55.308  -1.238   2.581  -0.228  "C2'"   BVP   3  
BVP  "C1'"   C1*   C   0  1  N  N  R  82.802  23.279  55.231  -0.739   1.317   0.507  "C1'"   BVP   4  
BVP  "O4'"   O4*   O   0  1  N  N  N  82.642  21.899  54.864  -1.850   0.396   0.452  "O4'"   BVP   5  
BVP  "C4'"   C4*   C   0  1  N  N  R  83.919  21.324  54.502  -3.028   1.202   0.685  "C4'"   BVP   6  
BVP  "C5'"   C5*   C   0  1  N  N  N  84.304  20.323  55.603  -4.275   0.485   0.163  "C5'"   BVP   7  
BVP  "O5'"   O5*   O   0  1  N  N  N  85.635  19.808  55.408  -4.510  -0.691   0.941  "O5'"   BVP   8  
BVP  P       P     P   0  1  N  N  N  86.816  19.964  56.535  -5.829  -1.391   0.340  P       BVP   9  
BVP  O1P     O1P   O   0  1  N  N  N  86.394  20.980  57.539  -6.944  -0.417   0.331  O1P     BVP  10  
BVP  O2P     O2P   O   0  1  N  N  N  88.081  20.412  55.861  -5.536  -1.886  -1.164  O2P     BVP  11  
BVP  O3P     O3P   O   0  1  N  Y  N  87.057  18.680  57.202  -6.229  -2.655   1.253  O3P     BVP  12  
BVP  N1      N1    N   0  1  N  N  N  81.985  23.534  56.504   0.427   0.755  -0.179  N1      BVP  13  
BVP  C6      C6    C   0  1  N  N  N  82.142  22.736  57.644   1.635   0.741   0.459  C6      BVP  14  
BVP  C5      C5    C   0  1  N  N  N  81.364  22.995  58.842   2.724   0.218  -0.177  C5      BVP  15  
BVP  C5A     C5A   C   0  1  N  N  N  81.349  22.479  59.863   4.044   0.187   0.483  C5A     BVP  16  
BVP  C5B     C5B   C   0  1  N  N  N  80.719  21.296  60.218   5.066  -0.425  -0.104  C5B     BVP  17  
BVP  BR      BR    BR  0  0  N  N  N  80.435  20.721  62.090   6.717  -0.590   0.803  BR      BVP  18  
BVP  C4      C4    C   0  1  N  N  N  80.417  24.120  58.791   2.548  -0.315  -1.536  C4      BVP  19  
BVP  O4      O4    O   0  1  N  N  N  79.675  24.474  59.745   3.489  -0.792  -2.143  O4      BVP  20  
BVP  N3      N3    N   0  1  N  N  N  80.337  24.847  57.617   1.321  -0.264  -2.097  N3      BVP  21  
BVP  C2      C2    C   0  1  N  N  N  81.078  24.592  56.498   0.285   0.259  -1.418  C2      BVP  22  
BVP  O2      O2    O   0  1  N  N  N  80.921  25.311  55.522  -0.810   0.293  -1.946  O2      BVP  23  
BVP  "H3'"   H3*   H   0  1  N  N  N  85.114  22.258  52.363  -3.067   4.415   0.084  "H3'"   BVP  24  
BVP  H1      H1    H   0  1  N  N  N  85.915  22.293  54.554  -3.234   2.445  -1.095  H1      BVP  25  
BVP  "H2'1"  1H2*  H   0  0  N  N  N  84.613  24.578  55.105  -0.935   2.558  -1.275  "H2'1"  BVP  26  
BVP  "H2'2"  2H2*  H   0  0  N  N  N  84.732  23.485  56.334  -0.861   3.480   0.259  "H2'2"  BVP  27  
BVP  "H1'"   H1*   H   0  1  N  N  N  82.402  24.018  54.498  -0.493   1.553   1.542  "H1'"   BVP  28  
BVP  "H4'"   H4*   H   0  1  N  N  N  83.938  20.740  53.553  -3.134   1.420   1.748  "H4'"   BVP  29  
BVP  "H5'1"  1H5*  H   0  0  N  N  N  83.556  19.500  55.685  -5.136   1.150   0.241  "H5'1"  BVP  30  
BVP  "H5'2"  2H5*  H   0  0  N  N  N  84.184  20.768  56.618  -4.125   0.207  -0.880  "H5'2"  BVP  31  
BVP  H2P     H2P   H   0  1  N  N  N  88.765  20.502  56.514  -4.806  -2.517  -1.113  H2P     BVP  32  
BVP  H3P     H3P   H   0  1  N  N  N  87.741  18.770  57.855  -7.022  -3.045   0.859  H3P     BVP  33  
BVP  H6      H6    H   0  1  N  N  N  82.872  21.911  57.599   1.728   1.141   1.458  H6      BVP  34  
BVP  H5A     H5A   H   0  1  N  N  N  81.952  23.133  60.516   4.179   0.661   1.444  H5A     BVP  35  
BVP  H5B     H5B   H   0  1  N  N  N  80.491  20.895  59.216   4.954  -0.829  -1.099  H5B     BVP  36  
BVP  HN3     HN3   H   0  1  N  N  N  79.683  25.629  57.573   1.185  -0.610  -2.993  HN3     BVP  37  
#   #
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
BVP  "O3'"  "C3'"   SING  N  N   1  
BVP  "O3'"  "H3'"   SING  N  N   2  
BVP  "C3'"  "C2'"   SING  N  N   3  
BVP  "C3'"  "C4'"   SING  N  N   4  
BVP  "C3'"  H1      SING  N  N   5  
BVP  "C2'"  "C1'"   SING  N  N   6  
BVP  "C2'"  "H2'1"  SING  N  N   7  
BVP  "C2'"  "H2'2"  SING  N  N   8  
BVP  "C1'"  "O4'"   SING  N  N   9  
BVP  "C1'"  N1      SING  N  N  10  
BVP  "C1'"  "H1'"   SING  N  N  11  
BVP  "O4'"  "C4'"   SING  N  N  12  
BVP  "C4'"  "C5'"   SING  N  N  13  
BVP  "C4'"  "H4'"   SING  N  N  14  
BVP  "C5'"  "O5'"   SING  N  N  15  
BVP  "C5'"  "H5'1"  SING  N  N  16  
BVP  "C5'"  "H5'2"  SING  N  N  17  
BVP  "O5'"  P       SING  N  N  18  
BVP  P      O1P     DOUB  N  N  19  
BVP  P      O2P     SING  N  N  20  
BVP  P      O3P     SING  N  N  21  
BVP  O2P    H2P     SING  N  N  22  
BVP  O3P    H3P     SING  N  N  23  
BVP  N1     C6      SING  N  N  24  
BVP  N1     C2      SING  N  N  25  
BVP  C6     C5      DOUB  N  N  26  
BVP  C6     H6      SING  N  N  27  
BVP  C5     C5A     SING  N  N  28  
BVP  C5     C4      SING  N  N  29  
BVP  C5A    C5B     DOUB  N  E  30  
BVP  C5A    H5A     SING  N  N  31  
BVP  C5B    BR      SING  N  N  32  
BVP  C5B    H5B     SING  N  N  33  
BVP  C4     O4      DOUB  N  N  34  
BVP  C4     N3      SING  N  N  35  
BVP  N3     C2      SING  N  N  36  
BVP  N3     HN3     SING  N  N  37  
BVP  C2     O2      DOUB  N  N  38  
#   #
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
BVP  SMILES            ACDLabs               10.04  "Br[C@H]=CC=1C(=O)NC(=O)N(C=1)C2OC(C(O)C2)COP(=O)(O)O"  
BVP  SMILES_CANONICAL  CACTVS                3.341  "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(\C=C\Br)C(=O)NC2=O"  
BVP  SMILES            CACTVS                3.341  "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=C(C=CBr)C(=O)NC2=O"  
BVP  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C1[C@@H]([C@H](O[C@H]1N2C=C(C(=O)NC2=O)\C=C\Br)COP(=O)(O)O)O"  
BVP  SMILES            "OpenEye OEToolkits"  1.5.0  "C1C(C(OC1N2C=C(C(=O)NC2=O)C=CBr)COP(=O)(O)O)O"  
BVP  InChI             InChI                 1.03   "InChI=1S/C11H14BrN2O8P/c12-2-1-6-4-14(11(17)13-10(6)16)9-3-7(15)8(22-9)5-21-23(18,19)20/h1-2,4,7-9,15H,3,5H2,(H,13,16,17)(H2,18,19,20)/b2-1+/t7-,8+,9+/m0/s1"  
BVP  InChIKey          InChI                 1.03   LKWCVKAHHUJPQO-PIXDULNESA-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
BVP  "SYSTEMATIC NAME"  ACDLabs               10.04  "5-[(E)-2-bromoethenyl]-2'-deoxyuridine 5'-(dihydrogen phosphate)"  
BVP  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[(2R,3S,5R)-5-[5-[(E)-2-bromoethenyl]-2,4-dioxo-pyrimidin-1-yl]-3-hydroxy-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
BVP  "Create component"   2003-03-31  RCSB  
BVP  "Modify descriptor"  2011-06-04  RCSB  
BVP  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     BVP
_pdbx_chem_comp_synonyms.name        BVDU-MP
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
