data_CB2
# 
_chem_comp.id                                    CB2 
_chem_comp.name                                  "PHOSPHORIC ACID MONO-[5-(4-AMINO-5-BROMO-2-OXO-2H-PYRIMIDIN-1-YL)-3,4-DIHYDROXY-TETRAHYDRO-FURAN-2-YLMETHYL] ESTER" 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H13 Br N3 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               DC 
_chem_comp.pdbx_synonyms                         5-BROMO-CYTIDINEMONOPHOSPHATE 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2003-05-19 
_chem_comp.pdbx_modified_date                    2011-12-12 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   OBS 
_chem_comp.pdbx_replaced_by                      ? 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        402.093 
_chem_comp.one_letter_code                       C 
_chem_comp.three_letter_code                     CB2 
_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        1P1Y 
_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 
CB2 "O3'"  O3*  O  0 1 N N N 7.074  -31.170 -8.020  1.912  -0.804 1.532  "O3'"  CB2 1  
CB2 "C3'"  C3*  C  0 1 N N S 5.662  -30.999 -7.876  2.168  -0.326 0.213  "C3'"  CB2 2  
CB2 "C2'"  C2*  C  0 1 N N S 5.383  -30.406 -6.490  0.961  0.440  -0.285 "C2'"  CB2 3  
CB2 "O2'"  O2*  O  0 1 N N N ?      ?       ?       1.026  0.515  -1.704 "O2'"  CB2 4  
CB2 "C1'"  C1*  C  0 1 N N R 5.530  -28.900 -6.681  1.180  1.804  0.351  "C1'"  CB2 5  
CB2 "O4'"  O4*  O  0 1 N N N 5.276  -28.626 -8.049  2.597  2.020  0.362  "O4'"  CB2 6  
CB2 "C4'"  C4*  C  0 1 N N R 5.081  -29.923 -8.757  3.261  0.741  0.292  "C4'"  CB2 7  
CB2 "C5'"  C5*  C  0 1 N N N 3.606  -30.214 -8.928  4.178  0.759  -0.923 "C5'"  CB2 8  
CB2 "O5'"  O5*  O  0 1 N N N 2.988  -29.128 -9.551  5.140  1.786  -0.752 "O5'"  CB2 9  
CB2 P      P    P  0 1 N N N 1.427  -29.092 -9.787  6.242  2.013  -1.916 P      CB2 10 
CB2 OP1    O1P  O  0 1 N N N 1.199  -27.791 -10.366 7.221  3.120  -1.655 OP1    CB2 11 
CB2 OP2    O2P  O  0 1 N N N 0.703  -29.464 -8.578  5.354  2.178  -3.258 OP2    CB2 12 
CB2 OP3    O3P  O  0 1 N Y N ?      ?       ?       6.899  0.545  -2.084 OP3    CB2 13 
CB2 N1     N1   N  0 1 N N N 4.496  -28.290 -5.872  0.531  2.882  -0.332 N1     CB2 14 
CB2 C6     C6   C  0 1 N N N 3.439  -27.712 -6.483  1.154  3.517  -1.398 C6     CB2 15 
CB2 C5     C5   C  0 1 N N N 2.480  -27.161 -5.745  0.600  4.526  -2.073 C5     CB2 16 
CB2 BR     BR   BR 0 0 N N N 1.016  -26.307 -6.562  1.429  5.378  -3.500 BR     CB2 17 
CB2 C4     C4   C  0 1 N N N 2.587  -27.214 -4.344  -0.758 4.954  -1.614 C4     CB2 18 
CB2 N3     N3   N  0 1 N N N 3.604  -27.754 -3.730  -1.355 4.362  -0.610 N3     CB2 19 
CB2 C2     C2   C  0 1 N N N 4.585  -28.347 -4.449  -0.757 3.318  0.071  C2     CB2 20 
CB2 O2     O2   O  0 1 N N N 5.568  -28.882 -3.860  -1.341 2.777  1.012  O2     CB2 21 
CB2 N4     N4   N  0 1 N N N 1.644  -26.696 -3.571  -1.404 5.989  -2.252 N4     CB2 22 
CB2 "HO3'" H3T  H  0 0 N Y N 7.246  -31.537 -8.878  1.393  -0.117 1.978  "HO3'" CB2 23 
CB2 "H3'"  H3*  H  0 1 N N N 5.231  -32.003 -8.099  2.451  -1.179 -0.411 "H3'"  CB2 24 
CB2 "H2'"  1H2* H  0 1 N N N 5.315  -31.390 -5.971  -0.001 0.003  -0.002 "H2'"  CB2 25 
CB2 "HO2'" 2HO* H  0 0 N N N -0.172 0.367   0.858   1.762  -0.054 -1.980 "HO2'" CB2 26 
CB2 "H1'"  H1*  H  0 1 N N N 6.538  -28.520 -6.395  0.838  1.814  1.392  "H1'"  CB2 27 
CB2 "H4'"  H4*  H  0 1 N N N 5.566  -29.884 -9.759  3.870  0.634  1.195  "H4'"  CB2 28 
CB2 "H5'"  1H5* H  0 1 N N N 3.425  -31.170 -9.471  3.600  0.957  -1.828 "H5'"  CB2 29 
CB2 "H5''" 2H5* H  0 0 N N N 3.114  -30.483 -7.964  4.691  -0.199 -1.021 "H5''" CB2 30 
CB2 H2P    H2P  H  0 1 N N N -0.236 -29.442 -8.720  5.805  2.397  -4.101 H2P    CB2 31 
CB2 H3P    H3P  H  0 1 N N N -0.939 0.021   -0.142  7.671  0.436  -2.678 H3P    CB2 32 
CB2 H6     H6   H  0 1 N N N 3.359  -27.690 -7.582  2.137  3.132  -1.651 H6     CB2 33 
CB2 HN41   1HN4 H  0 0 N N N 1.721  -26.734 -2.554  -2.074 6.506  -1.736 HN41   CB2 34 
CB2 HN42   2HN4 H  0 0 N N N 0.751  -27.111 -3.837  -1.170 6.170  -3.197 HN42   CB2 35 
# 
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 
CB2 "O3'" "C3'"  SING N N 1  
CB2 "O3'" "HO3'" SING N N 2  
CB2 "C3'" "C2'"  SING N N 3  
CB2 "C3'" "C4'"  SING N N 4  
CB2 "C3'" "H3'"  SING N N 5  
CB2 "C2'" "O2'"  SING N N 6  
CB2 "C2'" "C1'"  SING N N 7  
CB2 "C2'" "H2'"  SING N N 8  
CB2 "O2'" "HO2'" SING N N 9  
CB2 "C1'" "O4'"  SING N N 10 
CB2 "C1'" N1     SING N N 11 
CB2 "C1'" "H1'"  SING N N 12 
CB2 "O4'" "C4'"  SING N N 13 
CB2 "C4'" "C5'"  SING N N 14 
CB2 "C4'" "H4'"  SING N N 15 
CB2 "C5'" "O5'"  SING N N 16 
CB2 "C5'" "H5'"  SING N N 17 
CB2 "C5'" "H5''" SING N N 18 
CB2 "O5'" P      SING N N 19 
CB2 P     OP1    DOUB N N 20 
CB2 P     OP2    SING N N 21 
CB2 P     OP3    SING N N 22 
CB2 OP2   H2P    SING N N 23 
CB2 OP3   H3P    SING N N 24 
CB2 N1    C6     SING N N 25 
CB2 N1    C2     SING N N 26 
CB2 C6    C5     DOUB N N 27 
CB2 C6    H6     SING N N 28 
CB2 C5    BR     SING N N 29 
CB2 C5    C4     SING N N 30 
CB2 C4    N3     DOUB N N 31 
CB2 C4    N4     SING N N 32 
CB2 N3    C2     SING N N 33 
CB2 C2    O2     DOUB N N 34 
CB2 N4    HN41   SING N N 35 
CB2 N4    HN42   SING N N 36 
# 
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 
CB2 SMILES           ACDLabs              10.04 "BrC=1C(=NC(=O)N(C=1)C2OC(C(O)C2O)COP(=O)(O)O)N"                                                                                                        
CB2 SMILES_CANONICAL CACTVS               3.341 "NC1=NC(=O)N(C=C1Br)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@@H]2O"                                                                                      
CB2 SMILES           CACTVS               3.341 "NC1=NC(=O)N(C=C1Br)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O"                                                                                             
CB2 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=C(C(=NC(=O)N1[C@H]2[C@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)N)Br"                                                                                      
CB2 SMILES           "OpenEye OEToolkits" 1.5.0 "C1=C(C(=NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)O)N)Br"                                                                                                       
CB2 InChI            InChI                1.03  "InChI=1S/C9H13BrN3O8P/c10-3-1-13(9(16)12-7(3)11)8-6(15)5(14)4(21-8)2-20-22(17,18)19/h1,4-6,8,14-15H,2H2,(H2,11,12,16)(H2,17,18,19)/t4-,5-,6+,8-/m1/s1" 
CB2 InChIKey         InChI                1.03  KOHPTSGPCYTYFB-MNCSTQPFSA-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 
CB2 "SYSTEMATIC NAME" ACDLabs              10.04 "4-amino-5-bromo-1-(5-O-phosphono-beta-D-arabinofuranosyl)pyrimidin-2(1H)-one"                                  
CB2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4S,5R)-5-(4-amino-5-bromo-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-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 
CB2 "Create component"    2003-05-19 RCSB 
CB2 "Modify linking type" 2011-06-04 RCSB 
CB2 "Modify descriptor"   2011-06-04 RCSB 
CB2 "Obsolete component"  2011-12-12 RCSB 
# 
