data_M5M
# 
_chem_comp.id                                    M5M 
_chem_comp.name                                  "2'-(N-ACETAMIDE)-CYTIDINE-5'-MONOPHOSPHATE" 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H17 N4 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               C 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2005-03-17 
_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                        364.248 
_chem_comp.one_letter_code                       C 
_chem_comp.three_letter_code                     M5M 
_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        1YY0 
_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 
M5M P      P    P 0 1 N N N -1.561 35.026 57.421 1.304  -3.478 3.683  P      M5M 1  
M5M "N2'"  N2*  N 0 1 N N N 4.845  33.413 58.668 0.180  2.821  0.827  "N2'"  M5M 2  
M5M "C6'"  C6*  C 0 1 N N N 6.050  32.867 58.808 1.177  3.777  0.842  "C6'"  M5M 3  
M5M "C7'"  C7*  C 0 1 N N N 7.181  33.659 58.213 0.852  5.006  0.059  "C7'"  M5M 4  
M5M "O8'"  O8*  O 0 1 N N N 6.242  31.806 59.407 2.255  3.697  1.421  "O8'"  M5M 5  
M5M OP1    O1P  O 0 1 N N N -1.560 36.032 56.333 0.943  -4.335 4.861  OP1    M5M 6  
M5M OP2    O2P  O 0 1 N N N -2.584 33.952 57.423 2.679  -2.641 3.832  OP2    M5M 7  
M5M "O5'"  O5*  O 0 1 N N N -0.093 34.403 57.537 0.208  -2.352 3.295  "O5'"  M5M 8  
M5M "C5'"  C5*  C 0 1 N N N 1.050  35.262 57.542 0.474  -1.502 2.192  "C5'"  M5M 9  
M5M "C4'"  C4*  C 0 1 N N R 2.269  34.558 58.107 -0.690 -0.534 2.024  "C4'"  M5M 10 
M5M "O4'"  O4*  O 0 1 N N N 1.957  34.044 59.427 -0.776 0.278  3.212  "O4'"  M5M 11 
M5M "C1'"  C1*  C 0 1 N N R 2.710  32.867 59.668 -0.283 1.598  2.925  "C1'"  M5M 12 
M5M N1     N1   N 0 1 N N N 1.773  31.758 59.865 0.699  1.953  3.911  N1     M5M 13 
M5M C6     C6   C 0 1 N N N 0.449  31.892 59.561 1.502  0.955  4.436  C6     M5M 14 
M5M C2     C2   C 0 1 N N N 2.262  30.554 60.360 0.864  3.288  4.354  C2     M5M 15 
M5M O2     O2   O 0 1 N N N 3.463  30.475 60.649 0.165  4.198  3.905  O2     M5M 16 
M5M N3     N3   N 0 1 N N N 1.424  29.511 60.515 1.831  3.558  5.307  N3     M5M 17 
M5M C4     C4   C 0 1 N N N 0.138  29.643 60.198 2.582  2.606  5.795  C4     M5M 18 
M5M N4     N4   N 0 1 N N N -0.654 28.579 60.341 3.537  2.895  6.742  N4     M5M 19 
M5M C5     C5   C 0 1 N N N -0.396 30.869 59.712 2.437  1.194  5.353  C5     M5M 20 
M5M "C2'"  C2*  C 0 1 N N R 3.622  32.657 58.460 0.288  1.564  1.513  "C2'"  M5M 21 
M5M "C3'"  C3*  C 0 1 N N S 2.819  33.347 57.365 -0.501 0.439  0.868  "C3'"  M5M 22 
M5M "O3'"  O3*  O 0 1 N N N 3.680  33.723 56.292 -1.784 0.893  0.436  "O3'"  M5M 23 
M5M OP3    O3P  O 0 1 N Y N ?      ?      ?      1.504  -4.279 2.292  OP3    M5M 24 
M5M "HN'2" 2HN* H 0 0 N N N 4.859  34.431 58.721 -0.669 3.015  0.305  "HN'2" M5M 25 
M5M "H7'1" 1H7* H 0 0 N N N 8.191  33.201 58.330 0.866  5.916  0.680  "H7'1" M5M 26 
M5M "H7'2" 2H7* H 0 0 N N N 6.977  33.871 57.137 1.578  5.194  -0.749 "H7'2" M5M 27 
M5M "H7'3" 3H7* H 0 0 N N N 7.179  34.697 58.620 -0.134 5.005  -0.432 "H7'3" M5M 28 
M5M HOP2   2HOP H 0 0 N N N -2.584 33.307 58.120 3.488  -3.107 4.133  HOP2   M5M 29 
M5M "H5'"  1H5* H 0 1 N N N 1.252  35.678 56.527 1.399  -0.952 2.382  "H5'"  M5M 30 
M5M "H5''" 2H5* H 0 0 N N N 0.842  36.215 58.081 0.594  -2.111 1.294  "H5''" M5M 31 
M5M "H4'"  H4*  H 0 1 N N N 3.039  35.361 58.048 -1.623 -1.101 1.939  "H4'"  M5M 32 
M5M "H1'"  H1*  H 0 1 N N N 3.344  32.938 60.581 -1.119 2.298  3.025  "H1'"  M5M 33 
M5M H6     H6   H 0 1 N N N 0.052  32.849 59.184 1.329  -0.047 4.059  H6     M5M 34 
M5M HN41   1HN4 H 0 0 N N N -1.639 28.680 60.098 4.473  2.623  6.558  HN41   M5M 35 
M5M HN42   2HN4 H 0 0 N N N -0.579 28.232 61.297 3.249  3.364  7.567  HN42   M5M 36 
M5M H5     H5   H 0 1 N N N -1.457 31.025 59.454 3.068  0.420  5.769  H5     M5M 37 
M5M "H2'"  H2*  H 0 1 N N N 3.891  31.594 58.254 1.352  1.300  1.534  "H2'"  M5M 38 
M5M "H3'"  H3*  H 0 1 N N N 2.023  32.721 56.896 0.000  -0.002 0.001  "H3'"  M5M 39 
M5M "HO3'" H3T  H 0 0 N Y N 4.023  32.967 55.829 -1.742 1.003  -0.531 "HO3'" M5M 40 
M5M HOP3   3HOP H 0 0 N N N 0.000  -0.645 0.697  2.064  -5.085 2.285  HOP3   M5M 41 
# 
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 
M5M P     OP1    DOUB N N 1  
M5M P     OP2    SING N N 2  
M5M P     "O5'"  SING N N 3  
M5M P     OP3    SING N N 4  
M5M "N2'" "C6'"  SING N N 5  
M5M "N2'" "C2'"  SING N N 6  
M5M "N2'" "HN'2" SING N N 7  
M5M "C6'" "C7'"  SING N N 8  
M5M "C6'" "O8'"  DOUB N N 9  
M5M "C7'" "H7'1" SING N N 10 
M5M "C7'" "H7'2" SING N N 11 
M5M "C7'" "H7'3" SING N N 12 
M5M OP2   HOP2   SING N N 13 
M5M "O5'" "C5'"  SING N N 14 
M5M "C5'" "C4'"  SING N N 15 
M5M "C5'" "H5'"  SING N N 16 
M5M "C5'" "H5''" SING N N 17 
M5M "C4'" "O4'"  SING N N 18 
M5M "C4'" "C3'"  SING N N 19 
M5M "C4'" "H4'"  SING N N 20 
M5M "O4'" "C1'"  SING N N 21 
M5M "C1'" N1     SING N N 22 
M5M "C1'" "C2'"  SING N N 23 
M5M "C1'" "H1'"  SING N N 24 
M5M N1    C6     SING N N 25 
M5M N1    C2     SING N N 26 
M5M C6    C5     DOUB N N 27 
M5M C6    H6     SING N N 28 
M5M C2    O2     DOUB N N 29 
M5M C2    N3     SING N N 30 
M5M N3    C4     DOUB N N 31 
M5M C4    N4     SING N N 32 
M5M C4    C5     SING N N 33 
M5M N4    HN41   SING N N 34 
M5M N4    HN42   SING N N 35 
M5M C5    H5     SING N N 36 
M5M "C2'" "C3'"  SING N N 37 
M5M "C2'" "H2'"  SING N N 38 
M5M "C3'" "O3'"  SING N N 39 
M5M "C3'" "H3'"  SING N N 40 
M5M "O3'" "HO3'" SING N N 41 
M5M OP3   HOP3   SING N N 42 
# 
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 
M5M SMILES           ACDLabs              10.04 "O=C1N=C(N)C=CN1C2OC(C(O)C2NC(=O)C)COP(=O)(O)O"                                                                                                                             
M5M SMILES_CANONICAL CACTVS               3.341 "CC(=O)N[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=CC(=NC2=O)N"                                                                                                         
M5M SMILES           CACTVS               3.341 "CC(=O)N[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=CC(=NC2=O)N"                                                                                                               
M5M SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC(=O)N[C@@H]1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)O)O"                                                                                                           
M5M SMILES           "OpenEye OEToolkits" 1.5.0 "CC(=O)NC1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)O)O"                                                                                                                             
M5M InChI            InChI                1.03  "InChI=1S/C11H17N4O8P/c1-5(16)13-8-9(17)6(4-22-24(19,20)21)23-10(8)15-3-2-7(12)14-11(15)18/h2-3,6,8-10,17H,4H2,1H3,(H,13,16)(H2,12,14,18)(H2,19,20,21)/t6-,8-,9-,10-/m1/s1" 
M5M InChIKey         InChI                1.03  WPJHNTZXIXFENS-PEBGCTIMSA-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 
M5M "SYSTEMATIC NAME" ACDLabs              10.04 
;2'-(acetylamino)-2'-deoxycytidine 5'-(dihydrogen phosphate)
;
M5M "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-4-acetamido-5-(4-amino-2-oxo-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 
M5M "Create component"  2005-03-17 RCSB 
M5M "Modify descriptor" 2011-06-04 RCSB 
# 
