data_5A9
# 
_chem_comp.id                                    5A9 
_chem_comp.name                                  "5'-azido-8-[(2-{[2-(3-bromophenyl)ethyl]amino}-2-oxoethyl)sulfanyl]-5'-deoxyadenosine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C20 H22 Br N9 O4 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-08-31 
_chem_comp.pdbx_modified_date                    2016-09-09 
_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                        564.416 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     5A9 
_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        5DHT 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
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 
5A9 C4  C1  C  0  1 Y N N 11.007 -4.450 -58.755 5.256  -1.758 0.508  C4  5A9 1  
5A9 C5  C2  C  0  1 Y N N 10.792 -5.008 -57.573 4.393  -2.858 0.645  C5  5A9 2  
5A9 C6  C3  C  0  1 Y N N 11.545 -4.674 -56.538 4.951  -4.101 0.986  C6  5A9 3  
5A9 C8  C4  C  0  1 Y N N 9.386  -5.804 -58.946 3.170  -1.136 0.118  C8  5A9 4  
5A9 N1  N1  N  0  1 Y N N 12.530 -3.794 -56.629 6.266  -4.178 1.162  N1  5A9 5  
5A9 N3  N2  N  0  1 Y N N 11.975 -3.554 -58.919 6.559  -1.931 0.704  N3  5A9 6  
5A9 CBC C5  C  0  1 Y N N 7.482  -3.863 -55.935 -6.483 -0.746 0.093  CBC 5A9 7  
5A9 CBD C6  C  0  1 Y N N 7.799  -3.019 -56.978 -7.704 -0.159 -0.185 CBD 5A9 8  
5A9 BR  BR1 BR 0  0 N N N 9.132  -1.834 -56.762 -8.736 0.586  1.213  BR  5A9 9  
5A9 CBE C7  C  0  1 Y N N 7.097  -3.096 -58.164 -8.171 -0.118 -1.487 CBE 5A9 10 
5A9 CAX C8  C  0  1 Y N N 6.076  -4.025 -58.294 -7.417 -0.662 -2.509 CAX 5A9 11 
5A9 CAW C9  C  0  1 Y N N 5.761  -4.873 -57.245 -6.196 -1.249 -2.231 CAW 5A9 12 
5A9 CAV C10 C  0  1 Y N N 6.470  -4.793 -56.066 -5.727 -1.286 -0.931 CAV 5A9 13 
5A9 CAM C11 C  0  1 N N N 6.169  -5.614 -54.995 -4.396 -1.925 -0.629 CAM 5A9 14 
5A9 CAL C12 C  0  1 N N N 6.213  -7.089 -55.373 -3.291 -0.872 -0.726 CAL 5A9 15 
5A9 NAK N3  N  0  1 N N N 7.232  -7.307 -56.387 -1.997 -1.493 -0.432 NAK 5A9 16 
5A9 CAJ C13 C  0  1 N N N 6.920  -7.952 -57.491 -0.872 -0.751 -0.458 CAJ 5A9 17 
5A9 OAB O1  O  0  1 N N N 5.803  -8.400 -57.696 -0.930 0.430  -0.726 OAB 5A9 18 
5A9 CAI C14 C  0  1 N N N 8.048  -8.116 -58.495 0.459  -1.390 -0.156 CAI 5A9 19 
5A9 SAH S1  S  0  1 N N N 8.106  -6.701 -59.644 1.767  -0.144 -0.271 SAH 5A9 20 
5A9 N7  N4  N  0  1 Y N N 9.779  -5.855 -57.690 3.135  -2.416 0.395  N7  5A9 21 
5A9 N6  N5  N  0  1 N N N 11.275 -5.266 -55.396 4.149  -5.220 1.135  N6  5A9 22 
5A9 C2  C15 C  0  1 Y N N 12.771 -3.197 -57.849 7.038  -3.116 1.023  C2  5A9 23 
5A9 N9  N6  N  0  1 Y N N 10.131 -4.946 -59.608 4.460  -0.685 0.181  N9  5A9 24 
5A9 CAR C16 C  0  1 N N R 10.006 -4.616 -61.025 4.912  0.687  -0.065 CAR 5A9 25 
5A9 OAS O2  O  0  1 N N N 8.688  -4.160 -61.221 4.009  1.632  0.549  OAS 5A9 26 
5A9 CAZ C17 C  0  1 N N R 10.096 -5.865 -61.873 4.859  1.009  -1.574 CAZ 5A9 27 
5A9 OAY O3  O  0  1 N N N 11.305 -5.839 -62.604 6.151  0.860  -2.165 OAY 5A9 28 
5A9 CBA C18 C  0  1 N N S 8.963  -5.739 -62.840 4.403  2.485  -1.627 CBA 5A9 29 
5A9 OBF O4  O  0  1 N N N 9.503  -5.854 -64.145 5.401  3.295  -2.252 OBF 5A9 30 
5A9 CAT C19 C  0  1 N N R 8.491  -4.327 -62.598 4.236  2.880  -0.141 CAT 5A9 31 
5A9 CAU C20 C  0  1 N N N 6.991  -4.200 -62.829 3.035  3.811  0.032  CAU 5A9 32 
5A9 NBB N7  N  0  1 N N N 6.651  -2.773 -62.876 2.966  4.267  1.422  NBB 5A9 33 
5A9 NBG N8  N  1  1 N N N 5.849  -2.447 -62.243 3.028  5.365  1.657  NBG 5A9 34 
5A9 NBI N9  N  -1 1 N N N 5.035  -2.108 -61.604 3.089  6.462  1.892  NBI 5A9 35 
5A9 H1  H1  H  0  1 N N N 8.030  -3.796 -55.007 -6.118 -0.779 1.109  H1  5A9 36 
5A9 H2  H2  H  0  1 N N N 7.341  -2.438 -58.985 -9.125 0.340  -1.705 H2  5A9 37 
5A9 H3  H3  H  0  1 N N N 5.523  -4.088 -59.219 -7.781 -0.630 -3.525 H3  5A9 38 
5A9 H4  H4  H  0  1 N N N 4.963  -5.594 -57.351 -5.607 -1.674 -3.030 H4  5A9 39 
5A9 H5  H5  H  0  1 N N N 6.899  -5.432 -54.192 -4.413 -2.341 0.379  H5  5A9 40 
5A9 H6  H6  H  0  1 N N N 5.159  -5.370 -54.634 -4.203 -2.721 -1.347 H6  5A9 41 
5A9 H7  H7  H  0  1 N N N 5.233  -7.394 -55.769 -3.273 -0.455 -1.733 H7  5A9 42 
5A9 H8  H8  H  0  1 N N N 6.451  -7.688 -54.481 -3.483 -0.075 -0.007 H8  5A9 43 
5A9 H9  H9  H  0  1 N N N 8.163  -6.969 -56.247 -1.950 -2.438 -0.218 H9  5A9 44 
5A9 H10 H10 H  0  1 N N N 7.887  -9.040 -59.069 0.442  -1.806 0.851  H10 5A9 45 
5A9 H11 H11 H  0  1 N N N 9.004  -8.181 -57.955 0.652  -2.186 -0.875 H11 5A9 46 
5A9 H12 H12 H  0  1 N N N 11.907 -4.940 -54.693 3.190  -5.151 1.004  H12 5A9 47 
5A9 H13 H13 H  0  1 N N N 10.336 -5.053 -55.124 4.546  -6.074 1.371  H13 5A9 48 
5A9 H14 H14 H  0  1 N N N 13.561 -2.470 -57.964 8.102  -3.223 1.175  H14 5A9 49 
5A9 H15 H15 H  0  1 N N N 10.758 -3.876 -61.337 5.924  0.826  0.317  H15 5A9 50 
5A9 H16 H16 H  0  1 N N N 9.995  -6.770 -61.255 4.134  0.368  -2.076 H16 5A9 51 
5A9 H17 H17 H  0  1 N N N 12.039 -5.918 -62.006 6.175  1.050  -3.113 H17 5A9 52 
5A9 H18 H18 H  0  1 N N N 8.169  -6.472 -62.636 3.453  2.573  -2.155 H18 5A9 53 
5A9 H19 H19 H  0  1 N N N 9.798  -6.746 -64.289 5.193  4.240  -2.258 H19 5A9 54 
5A9 H20 H20 H  0  1 N N N 9.052  -3.604 -63.208 5.144  3.357  0.229  H20 5A9 55 
5A9 H21 H21 H  0  1 N N N 6.446  -4.685 -62.006 3.145  4.672  -0.628 H21 5A9 56 
5A9 H22 H22 H  0  1 N N N 6.720  -4.679 -63.782 2.120  3.275  -0.220 H22 5A9 57 
# 
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 
5A9 OBF CBA SING N N 1  
5A9 NBB CAU SING N N 2  
5A9 NBB NBG DOUB N N 3  
5A9 CBA CAT SING N N 4  
5A9 CBA CAZ SING N N 5  
5A9 CAU CAT SING N N 6  
5A9 OAY CAZ SING N N 7  
5A9 CAT OAS SING N N 8  
5A9 NBG NBI DOUB N N 9  
5A9 CAZ CAR SING N N 10 
5A9 OAS CAR SING N N 11 
5A9 CAR N9  SING N N 12 
5A9 SAH C8  SING N N 13 
5A9 SAH CAI SING N N 14 
5A9 N9  C8  SING Y N 15 
5A9 N9  C4  SING Y N 16 
5A9 C8  N7  DOUB Y N 17 
5A9 N3  C4  DOUB Y N 18 
5A9 N3  C2  SING Y N 19 
5A9 C4  C5  SING Y N 20 
5A9 CAI CAJ SING N N 21 
5A9 CAX CBE DOUB Y N 22 
5A9 CAX CAW SING Y N 23 
5A9 CBE CBD SING Y N 24 
5A9 C2  N1  DOUB Y N 25 
5A9 OAB CAJ DOUB N N 26 
5A9 N7  C5  SING Y N 27 
5A9 C5  C6  DOUB Y N 28 
5A9 CAJ NAK SING N N 29 
5A9 CAW CAV DOUB Y N 30 
5A9 CBD BR  SING N N 31 
5A9 CBD CBC DOUB Y N 32 
5A9 N1  C6  SING Y N 33 
5A9 C6  N6  SING N N 34 
5A9 NAK CAL SING N N 35 
5A9 CAV CBC SING Y N 36 
5A9 CAV CAM SING N N 37 
5A9 CAL CAM SING N N 38 
5A9 CBC H1  SING N N 39 
5A9 CBE H2  SING N N 40 
5A9 CAX H3  SING N N 41 
5A9 CAW H4  SING N N 42 
5A9 CAM H5  SING N N 43 
5A9 CAM H6  SING N N 44 
5A9 CAL H7  SING N N 45 
5A9 CAL H8  SING N N 46 
5A9 NAK H9  SING N N 47 
5A9 CAI H10 SING N N 48 
5A9 CAI H11 SING N N 49 
5A9 N6  H12 SING N N 50 
5A9 N6  H13 SING N N 51 
5A9 C2  H14 SING N N 52 
5A9 CAR H15 SING N N 53 
5A9 CAZ H16 SING N N 54 
5A9 OAY H17 SING N N 55 
5A9 CBA H18 SING N N 56 
5A9 OBF H19 SING N N 57 
5A9 CAT H20 SING N N 58 
5A9 CAU H21 SING N N 59 
5A9 CAU H22 SING N N 60 
# 
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 
5A9 SMILES           ACDLabs              12.01 "c13c(c(N)ncn1)nc(SCC(NCCc2cc(Br)ccc2)=O)n3C4OC(C(C4O)O)CN=[N+]=[N-]" 
5A9 InChI            InChI                1.03  
"InChI=1S/C20H22BrN9O4S/c21-11-3-1-2-10(6-11)4-5-24-13(31)8-35-20-28-14-17(22)25-9-26-18(14)30(20)19-16(33)15(32)12(34-19)7-27-29-23/h1-3,6,9,12,15-16,19,32-33H,4-5,7-8H2,(H,24,31)(H2,22,25,26)/t12-,15-,16-,19-/m1/s1" 
5A9 InChIKey         InChI                1.03  JYGMOYIMZQWVHO-BGIGGGFGSA-N 
5A9 SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n([C@@H]3O[C@H](CN=[N+]=[N-])[C@@H](O)[C@H]3O)c(SCC(=O)NCCc4cccc(Br)c4)nc12" 
5A9 SMILES           CACTVS               3.385 "Nc1ncnc2n([CH]3O[CH](CN=[N+]=[N-])[CH](O)[CH]3O)c(SCC(=O)NCCc4cccc(Br)c4)nc12" 
5A9 SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "c1cc(cc(c1)Br)CCNC(=O)CSc2nc3c(ncnc3n2[C@H]4[C@@H]([C@@H]([C@H](O4)CN=[N+]=[N-])O)O)N" 
5A9 SMILES           "OpenEye OEToolkits" 1.9.2 "c1cc(cc(c1)Br)CCNC(=O)CSc2nc3c(ncnc3n2C4C(C(C(O4)CN=[N+]=[N-])O)O)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 
5A9 "SYSTEMATIC NAME" ACDLabs              12.01 "5'-azido-8-[(2-{[2-(3-bromophenyl)ethyl]amino}-2-oxoethyl)sulfanyl]-5'-deoxyadenosine"                                              
5A9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "2-[6-azanyl-9-[(2R,3R,4S,5R)-5-(azidomethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]sulfanyl-N-[2-(3-bromophenyl)ethyl]ethanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
5A9 "Create component" 2015-08-31 EBI  
5A9 "Initial release"  2016-09-14 RCSB 
# 
