data_0KL # _chem_comp.id 0KL _chem_comp.name ;5-(5-aminopent-1-yn-1-yl)-2'-deoxyuridine 5'-(tetrahydrogen triphosphate) ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C14 H22 N3 O14 P3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2012-02-03 _chem_comp.pdbx_modified_date 2012-05-11 _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 549.257 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 0KL _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 4DFJ _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 0KL O3G O3G O 0 1 N N N 18.038 -14.879 -14.403 7.022 -3.305 -2.106 O3G DTT 1 0KL PG PG P 0 1 N N N 17.004 -13.997 -13.742 6.800 -2.842 -0.580 PG DTT 2 0KL O2G O2G O 0 1 N N N 17.581 -12.744 -13.127 6.540 -4.137 0.341 O2G DTT 3 0KL O1G O1G O 0 1 N N N 15.750 -13.767 -14.550 8.006 -2.131 -0.101 O1G DTT 4 0KL O3B O3B O 0 1 N N N 16.484 -14.840 -12.469 5.528 -1.859 -0.496 O3B DTT 5 0KL PB PB P 0 1 N N N 16.856 -16.390 -12.226 5.027 -0.768 0.576 PB DTT 6 0KL O1B O1B O 0 1 N N N 15.701 -17.020 -11.487 4.417 -1.520 1.862 O1B DTT 7 0KL O2B O2B O 0 1 N N N 17.374 -17.028 -13.494 6.170 0.075 0.994 O2B DTT 8 0KL O3A O3A O 0 1 N N N 18.037 -16.242 -11.146 3.893 0.159 -0.092 O3A DTT 9 0KL PA PA P 0 1 N N N 19.583 -16.534 -11.476 3.296 1.615 0.247 PA DTT 10 0KL O1A O1A O 0 1 N N N 19.785 -16.634 -12.971 3.158 1.763 1.713 O1A DTT 11 0KL O2A O2A O 0 1 N N N 20.389 -15.543 -10.673 4.293 2.748 -0.315 O2A DTT 12 0KL "O5'" O5* O 0 1 N N N 19.714 -17.977 -10.777 1.852 1.779 -0.447 O5* DTT 13 0KL "C5'" C5* C 0 1 N N N 19.522 -19.183 -11.513 1.018 2.922 -0.248 C5* DTT 14 0KL "C4'" C4* C 0 1 N N R 18.753 -20.165 -10.636 -0.275 2.755 -1.049 C4* DTT 15 0KL "C3'" C3* C 0 1 N N S 17.426 -19.592 -10.163 -1.138 4.032 -0.950 C3* DTT 16 0KL "O3'" O3* O 0 1 N N N 16.353 -19.796 -11.087 -0.954 4.852 -2.106 O3* DTT 17 0KL "C2'" C2* C 0 1 N N N 17.171 -20.326 -8.861 -2.588 3.502 -0.886 C2* DTT 18 0KL "O4'" O4* O 0 1 N N N 19.473 -20.461 -9.433 -1.092 1.712 -0.473 O4* DTT 19 0KL "C1'" C1* C 0 1 N N R 18.558 -20.686 -8.353 -2.429 1.967 -0.955 C1* DTT 20 0KL N1 N1 N 0 1 N N N 18.856 -19.771 -7.249 -3.416 1.313 -0.091 N1 DTT 21 0KL C2 C2 C 0 1 N N N 18.531 -20.130 -5.919 -3.350 1.497 1.237 C2 DTT 22 0KL O2 O2 O 0 1 N N N 18.010 -21.244 -5.683 -2.472 2.204 1.693 O2 DTT 23 0KL N3 N3 N 0 1 N N N 18.779 -19.299 -4.897 -4.228 0.923 2.078 N3 DTT 24 0KL C6 C6 C 0 1 N N N 19.401 -18.579 -7.523 -4.385 0.535 -0.654 C6 DTT 25 0KL C5 C5 C 0 1 N N N 19.671 -17.699 -6.494 -5.306 -0.076 0.148 C5 DTT 26 0KL C4 C4 C 0 1 N N N 19.335 -18.102 -5.112 -5.214 0.134 1.600 C4 DTT 27 0KL O4 O4 O 0 1 N N N 19.572 -17.319 -4.167 -6.011 -0.389 2.356 O4 DTT 28 0KL C29 C29 C 0 1 N N N 20.209 -16.558 -6.724 -6.336 -0.899 -0.411 C29 DTT 29 0KL C30 C30 C 0 1 N N N 20.691 -15.498 -6.901 -7.181 -1.574 -0.869 C30 DTT 30 0KL C31 C31 C 0 1 N N N 21.306 -14.194 -7.177 -8.240 -2.420 -1.443 C31 DTT 31 0KL C32 C32 C 0 1 N N N 21.098 -13.267 -5.991 -9.120 -2.969 -0.319 C32 DTT 32 0KL C33 C33 C 0 1 N N N 21.728 -13.835 -4.723 -10.221 -3.848 -0.916 C33 DTT 33 0KL N34 N34 N 0 1 N N N 20.765 -14.640 -3.991 -11.066 -4.376 0.164 N34 DTT 34 0KL H1 H1 H 0 1 N N N 17.903 -15.781 -14.136 7.773 -3.901 -2.232 H1 DTT 35 0KL H2 H2 H 0 1 N N N 17.040 -11.998 -13.360 5.764 -4.653 0.084 H2 DTT 36 0KL H3 H3 H 0 1 N N N 15.419 -17.802 -11.947 3.662 -2.091 1.662 H3 DTT 37 0KL H4 H4 H 0 1 N N N 20.971 -15.065 -11.252 4.430 2.712 -1.271 H4 DTT 38 0KL H5 H5 H 0 1 N N N 18.948 -18.973 -12.427 0.780 3.017 0.811 H5 DTT 39 0KL H6 H6 H 0 1 N N N 20.498 -19.612 -11.784 1.541 3.816 -0.585 H6 DTT 40 0KL H7 H7 H 0 1 N N N 18.565 -21.087 -11.207 -0.049 2.530 -2.091 H7 DTT 41 0KL H8 H8 H 0 1 N N N 17.552 -18.519 -9.954 -0.895 4.588 -0.044 H8 DTT 42 0KL H9 H9 H 0 1 N N N 15.556 -19.417 -10.736 -1.473 5.668 -2.096 H9 DTT 43 0KL H10 H10 H 0 1 N N N 16.650 -19.676 -8.143 -3.061 3.796 0.050 H10 DTT 44 0KL H11 H11 H 0 1 N N N 16.573 -21.232 -9.036 -3.164 3.865 -1.737 H11 DTT 45 0KL H12 H12 H 0 1 N N N 18.580 -21.733 -8.016 -2.535 1.620 -1.983 H12 DTT 46 0KL H13 H13 H 0 1 N N N 18.546 -19.577 -3.965 -4.153 1.076 3.033 H13 DTT 47 0KL H14 H14 H 0 1 N N N 19.628 -18.307 -8.543 -4.424 0.403 -1.726 H14 DTT 48 0KL H15 H15 H 0 1 N N N 22.384 -14.328 -7.352 -8.849 -1.826 -2.125 H15 DTT 49 0KL H16 H16 H 0 1 N N N 20.842 -13.753 -8.071 -7.787 -3.248 -1.988 H16 DTT 50 0KL H17 H17 H 0 1 N N N 21.558 -12.293 -6.213 -8.510 -3.563 0.363 H17 DTT 51 0KL H18 H18 H 0 1 N N N 20.019 -13.134 -5.826 -9.572 -2.141 0.226 H18 DTT 52 0KL H19 H19 H 0 1 N N N 22.590 -14.462 -4.997 -10.830 -3.255 -1.597 H19 DTT 53 0KL H20 H20 H 0 1 N N N 22.066 -13.006 -4.084 -9.768 -4.677 -1.461 H20 DTT 54 0KL H21 H21 H 0 1 N N N 21.194 -15.004 -3.164 -11.801 -4.960 -0.205 H21 DTT 55 0KL H22 H22 H 0 1 N N N 19.981 -14.073 -3.738 -10.513 -4.876 0.844 H22 DTT 56 # 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 0KL O1G PG DOUB N N 1 0KL O3G PG SING N N 2 0KL PG O2G SING N N 3 0KL PG O3B SING N N 4 0KL O2B PB DOUB N N 5 0KL O1A PA DOUB N N 6 0KL O3B PB SING N N 7 0KL PB O1B SING N N 8 0KL PB O3A SING N N 9 0KL "C5'" "O5'" SING N N 10 0KL "C5'" "C4'" SING N N 11 0KL PA O3A SING N N 12 0KL PA "O5'" SING N N 13 0KL PA O2A SING N N 14 0KL "O3'" "C3'" SING N N 15 0KL "C4'" "C3'" SING N N 16 0KL "C4'" "O4'" SING N N 17 0KL "C3'" "C2'" SING N N 18 0KL "O4'" "C1'" SING N N 19 0KL "C2'" "C1'" SING N N 20 0KL "C1'" N1 SING N N 21 0KL C6 N1 SING N N 22 0KL C6 C5 DOUB N N 23 0KL N1 C2 SING N N 24 0KL C31 C30 SING N N 25 0KL C31 C32 SING N N 26 0KL C30 C29 TRIP N N 27 0KL C29 C5 SING N N 28 0KL C5 C4 SING N N 29 0KL C32 C33 SING N N 30 0KL C2 O2 DOUB N N 31 0KL C2 N3 SING N N 32 0KL C4 N3 SING N N 33 0KL C4 O4 DOUB N N 34 0KL C33 N34 SING N N 35 0KL O3G H1 SING N N 36 0KL O2G H2 SING N N 37 0KL O1B H3 SING N N 38 0KL O2A H4 SING N N 39 0KL "C5'" H5 SING N N 40 0KL "C5'" H6 SING N N 41 0KL "C4'" H7 SING N N 42 0KL "C3'" H8 SING N N 43 0KL "O3'" H9 SING N N 44 0KL "C2'" H10 SING N N 45 0KL "C2'" H11 SING N N 46 0KL "C1'" H12 SING N N 47 0KL N3 H13 SING N N 48 0KL C6 H14 SING N N 49 0KL C31 H15 SING N N 50 0KL C31 H16 SING N N 51 0KL C32 H17 SING N N 52 0KL C32 H18 SING N N 53 0KL C33 H19 SING N N 54 0KL C33 H20 SING N N 55 0KL N34 H21 SING N N 56 0KL N34 H22 SING N N 57 # 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 0KL SMILES ACDLabs 12.01 "O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC2OC(N1C(=O)NC(=O)C(C#CCCCN)=C1)CC2O" 0KL InChI InChI 1.03 "InChI=1S/C14H22N3O14P3/c15-5-3-1-2-4-9-7-17(14(20)16-13(9)19)12-6-10(18)11(29-12)8-28-33(24,25)31-34(26,27)30-32(21,22)23/h7,10-12,18H,1,3,5-6,8,15H2,(H,24,25)(H,26,27)(H,16,19,20)(H2,21,22,23)/t10-,11+,12+/m0/s1" 0KL InChIKey InChI 1.03 WENDCSLWIXFOST-QJPTWQEYSA-N 0KL SMILES_CANONICAL CACTVS 3.370 "NCCCC#CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O2)C(=O)NC1=O" 0KL SMILES CACTVS 3.370 "NCCCC#CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)O2)C(=O)NC1=O" 0KL SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1[C@@H]([C@H](O[C@H]1N2C=C(C(=O)NC2=O)C#CCCCN)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O" 0KL SMILES "OpenEye OEToolkits" 1.7.6 "C1C(C(OC1N2C=C(C(=O)NC2=O)C#CCCCN)COP(=O)(O)OP(=O)(O)OP(=O)(O)O)O" # 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 0KL "SYSTEMATIC NAME" ACDLabs 12.01 ;5-(5-aminopent-1-yn-1-yl)-2'-deoxyuridine 5'-(tetrahydrogen triphosphate) ; 0KL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[[(2R,3S,5R)-5-[5-(5-azanylpent-1-ynyl)-2,4-bis(oxidanylidene)pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen 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 0KL "Create component" 2012-02-03 RCSB #