data_J1D
#
_chem_comp.id J1D
_chem_comp.name "5'-{[2-({N-[(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridin-6-yl)carbonyl]glycyl}amino)ethyl]sulfonyl}-5'-deoxyadenosine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C23 H30 N12 O8 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-05-23
_chem_comp.pdbx_modified_date 2012-07-06
_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 634.625
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code J1D
_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 4F7V
_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
J1D C1 C1 C 0 1 N N S 4.865 18.014 14.149 -5.183 1.841 -0.947 C1 J1D 1
J1D O1 O1 O 0 1 N N N 4.307 16.670 14.372 -5.539 0.486 -0.624 O1 J1D 2
J1D C2 C2 C 0 1 N N S 6.388 17.797 14.033 -6.340 2.743 -0.475 C2 J1D 3
J1D O2 O2 O 0 1 N N N 7.040 18.945 14.441 -6.885 3.474 -1.575 O2 J1D 4
J1D C3 C3 C 0 1 N N R 6.607 16.590 15.038 -7.388 1.752 0.089 C3 J1D 5
J1D O3 O3 O 0 1 N N N 6.623 16.897 16.384 -8.710 2.138 -0.290 O3 J1D 6
J1D C4 C4 C 0 1 N N R 5.335 15.729 14.726 -6.981 0.424 -0.598 C4 J1D 7
J1D N1 N1 N 0 1 Y N N 5.529 14.892 13.534 -7.433 -0.725 0.192 N1 J1D 8
J1D C5 C5 C 0 1 Y N N 6.684 14.643 12.727 -6.729 -1.357 1.172 C5 J1D 9
J1D N2 N2 N 0 1 Y N N 6.413 13.834 11.701 -7.431 -2.336 1.664 N2 J1D 10
J1D C6 C6 C 0 1 Y N N 5.049 13.569 11.813 -8.628 -2.394 1.032 C6 J1D 11
J1D C7 C7 C 0 1 Y N N 4.198 12.820 11.038 -9.762 -3.217 1.135 C7 J1D 12
J1D N3 N3 N 0 1 N N N 4.690 12.193 9.907 -9.805 -4.251 2.055 N3 J1D 13
J1D N4 N4 N 0 1 Y N N 2.872 12.704 11.403 -10.792 -2.981 0.330 N4 J1D 14
J1D C8 C8 C 0 1 Y N N 2.439 13.386 12.512 -10.761 -1.997 -0.550 C8 J1D 15
J1D N5 N5 N 0 1 Y N N 3.161 14.130 13.329 -9.721 -1.201 -0.683 N5 J1D 16
J1D C9 C9 C 0 1 Y N N 4.480 14.210 12.938 -8.646 -1.357 0.084 C9 J1D 17
J1D C10 C10 C 0 1 N N N 4.291 18.747 12.934 -3.891 2.226 -0.223 C10 J1D 18
J1D S1 S1 S 0 1 N N N 2.529 18.900 13.010 -2.514 1.245 -0.881 S1 J1D 19
J1D C11 C11 C 0 1 N N N 2.133 19.888 11.709 -1.117 1.855 0.101 C11 J1D 20
J1D N6 N6 N 0 1 N N N 3.660 21.734 11.989 1.289 1.620 0.471 N6 J1D 21
J1D C12 C12 C 0 1 N N N 2.244 21.375 12.030 0.161 1.127 -0.322 C12 J1D 22
J1D C13 C13 C 0 1 N N N 4.218 22.094 10.781 2.524 1.118 0.270 C13 J1D 23
J1D C14 C14 C 0 1 N N N 5.677 22.460 10.841 3.685 1.625 1.086 C14 J1D 24
J1D N7 N7 N 0 1 N N N 5.947 23.505 9.872 4.908 0.928 0.680 N7 J1D 25
J1D C15 C15 C 0 1 N N N 5.309 24.738 9.861 6.080 1.220 1.278 C15 J1D 26
J1D O4 O4 O 0 1 N N N 4.436 25.062 10.661 6.123 2.063 2.155 O4 J1D 27
J1D N8 N8 N 0 1 N N N 7.201 27.892 5.598 10.533 -1.775 -0.065 N8 J1D 28
J1D C16 C16 C 0 1 N N N 8.369 27.493 5.134 10.554 -2.399 -1.228 C16 J1D 29
J1D N9 N9 N 0 1 N N N 8.990 28.125 4.057 11.673 -3.096 -1.586 N9 J1D 30
J1D N10 N10 N 0 1 N N N 9.080 26.453 5.586 9.494 -2.370 -2.082 N10 J1D 31
J1D C17 C17 C 0 1 N N N 8.687 25.662 6.678 8.375 -1.683 -1.763 C17 J1D 32
J1D O5 O5 O 0 1 N N N 9.428 24.758 6.998 7.421 -1.656 -2.520 O5 J1D 33
J1D N11 N11 N 0 1 N N N 6.955 25.324 8.275 7.267 -0.291 -0.144 N11 J1D 34
J1D C18 C18 C 0 1 N N N 5.789 25.629 8.757 7.303 0.523 0.873 C18 J1D 35
J1D C19 C19 C 0 1 N N N 4.929 26.801 8.359 8.578 0.760 1.641 C19 J1D 36
J1D C20 C20 C 0 1 N N N 4.826 27.803 9.520 8.249 1.030 3.111 C20 J1D 37
J1D C21 C21 C 0 1 N N N 3.597 26.274 7.839 9.314 1.965 1.051 C21 J1D 38
J1D N12 N12 N 0 1 N N N 5.544 27.528 7.216 9.427 -0.438 1.538 N12 J1D 39
J1D C22 C22 C 0 1 N N N 6.718 27.138 6.682 9.468 -1.081 0.321 C22 J1D 40
J1D C23 C23 C 0 1 N N N 7.417 26.064 7.225 8.340 -0.995 -0.524 C23 J1D 41
J1D O6 O6 O 0 1 N N N 3.555 22.132 9.751 2.701 0.259 -0.567 O6 J1D 42
J1D O7 O7 O 0 1 N N N 2.012 17.614 12.737 -2.735 -0.121 -0.554 O7 J1D 43
J1D O8 O8 O 0 1 N N N 2.317 19.605 14.237 -2.307 1.609 -2.238 O8 J1D 44
J1D H1 H1 H 0 1 N N N 4.677 18.630 15.041 -5.049 1.943 -2.023 H1 J1D 45
J1D H2 H2 H 0 1 N N N 6.657 17.489 13.012 -5.999 3.425 0.304 H2 J1D 46
J1D H3 H3 H 0 1 N N N 7.979 18.818 14.372 -7.617 4.058 -1.335 H3 J1D 47
J1D H4 H4 H 0 1 N N N 7.505 16.031 14.734 -7.304 1.672 1.173 H4 J1D 48
J1D H5 H5 H 0 1 N N N 6.760 16.104 16.889 -8.977 3.006 0.042 H5 J1D 49
J1D H6 H6 H 0 1 N N N 5.060 15.126 15.604 -7.382 0.377 -1.610 H6 J1D 50
J1D H7 H7 H 0 1 N N N 7.660 15.061 12.925 -5.734 -1.087 1.493 H7 J1D 51
J1D H8 H8 H 0 1 N N N 3.953 11.689 9.457 -10.593 -4.812 2.117 H8 J1D 52
J1D H9 H9 H 0 1 N N N 5.057 12.879 9.278 -9.046 -4.414 2.637 H9 J1D 53
J1D H10 H10 H 0 1 N N N 1.387 13.305 12.743 -11.620 -1.839 -1.185 H10 J1D 54
J1D H11 H11 H 0 1 N N N 4.558 18.188 12.025 -3.689 3.286 -0.379 H11 J1D 55
J1D H12 H12 H 0 1 N N N 4.732 19.754 12.888 -4.000 2.030 0.844 H12 J1D 56
J1D H13 H13 H 0 1 N N N 1.097 19.671 11.408 -0.996 2.926 -0.064 H13 J1D 57
J1D H14 H14 H 0 1 N N N 2.813 19.658 10.875 -1.307 1.670 1.159 H14 J1D 58
J1D H15 H15 H 0 1 N N N 4.214 21.719 12.822 1.148 2.307 1.141 H15 J1D 59
J1D H16 H16 H 0 1 N N N 1.687 21.962 11.285 0.040 0.056 -0.156 H16 J1D 60
J1D H17 H17 H 0 1 N N N 1.836 21.573 13.032 0.351 1.311 -1.379 H17 J1D 61
J1D H18 H18 H 0 1 N N N 6.288 21.575 10.608 3.806 2.696 0.920 H18 J1D 62
J1D H19 H19 H 0 1 N N N 5.924 22.821 11.850 3.495 1.440 2.143 H19 J1D 63
J1D H20 H20 H 0 1 N N N 6.635 23.326 9.169 4.875 0.256 -0.018 H20 J1D 64
J1D H21 H21 H 0 1 N N N 8.549 28.905 3.613 11.704 -3.560 -2.437 H21 J1D 65
J1D H22 H22 H 0 1 N N N 9.876 27.798 3.729 12.437 -3.126 -0.989 H22 J1D 66
J1D H23 H23 H 0 1 N N N 9.936 26.227 5.122 9.542 -2.846 -2.925 H23 J1D 67
J1D H24 H24 H 0 1 N N N 4.375 27.309 10.393 7.579 0.254 3.481 H24 J1D 68
J1D H25 H25 H 0 1 N N N 5.831 28.164 9.783 9.169 1.027 3.696 H25 J1D 69
J1D H26 H26 H 0 1 N N N 4.199 28.654 9.215 7.764 2.002 3.202 H26 J1D 70
J1D H27 H27 H 0 1 N N N 3.083 25.721 8.639 8.680 2.848 1.121 H27 J1D 71
J1D H28 H28 H 0 1 N N N 2.970 27.118 7.516 10.236 2.135 1.607 H28 J1D 72
J1D H29 H29 H 0 1 N N N 3.776 25.603 6.986 9.552 1.769 0.005 H29 J1D 73
J1D H31 H31 H 0 1 N N N 5.672 28.472 7.519 9.937 -0.761 2.297 H31 J1D 74
#
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
J1D N9 C16 SING N N 1
J1D C16 N10 SING N N 2
J1D C16 N8 DOUB N N 3
J1D N10 C17 SING N N 4
J1D N8 C22 SING N N 5
J1D C17 O5 DOUB N N 6
J1D C17 C23 SING N N 7
J1D C22 N12 SING N N 8
J1D C22 C23 DOUB N N 9
J1D N12 C19 SING N N 10
J1D C23 N11 SING N N 11
J1D C21 C19 SING N N 12
J1D N11 C18 DOUB N N 13
J1D C19 C18 SING N N 14
J1D C19 C20 SING N N 15
J1D C18 C15 SING N N 16
J1D O6 C13 DOUB N N 17
J1D C15 N7 SING N N 18
J1D C15 O4 DOUB N N 19
J1D N7 C14 SING N N 20
J1D N3 C7 SING N N 21
J1D C13 C14 SING N N 22
J1D C13 N6 SING N N 23
J1D C7 N4 DOUB Y N 24
J1D C7 C6 SING Y N 25
J1D N4 C8 SING Y N 26
J1D N2 C6 SING Y N 27
J1D N2 C5 DOUB Y N 28
J1D C11 C12 SING N N 29
J1D C11 S1 SING N N 30
J1D C6 C9 DOUB Y N 31
J1D N6 C12 SING N N 32
J1D C8 N5 DOUB Y N 33
J1D C5 N1 SING Y N 34
J1D O7 S1 DOUB N N 35
J1D C10 S1 SING N N 36
J1D C10 C1 SING N N 37
J1D C9 N5 SING Y N 38
J1D C9 N1 SING Y N 39
J1D S1 O8 DOUB N N 40
J1D N1 C4 SING N N 41
J1D C2 C1 SING N N 42
J1D C2 O2 SING N N 43
J1D C2 C3 SING N N 44
J1D C1 O1 SING N N 45
J1D O1 C4 SING N N 46
J1D C4 C3 SING N N 47
J1D C3 O3 SING N N 48
J1D C1 H1 SING N N 49
J1D C2 H2 SING N N 50
J1D O2 H3 SING N N 51
J1D C3 H4 SING N N 52
J1D O3 H5 SING N N 53
J1D C4 H6 SING N N 54
J1D C5 H7 SING N N 55
J1D N3 H8 SING N N 56
J1D N3 H9 SING N N 57
J1D C8 H10 SING N N 58
J1D C10 H11 SING N N 59
J1D C10 H12 SING N N 60
J1D C11 H13 SING N N 61
J1D C11 H14 SING N N 62
J1D N6 H15 SING N N 63
J1D C12 H16 SING N N 64
J1D C12 H17 SING N N 65
J1D C14 H18 SING N N 66
J1D C14 H19 SING N N 67
J1D N7 H20 SING N N 68
J1D N9 H21 SING N N 69
J1D N9 H22 SING N N 70
J1D N10 H23 SING N N 71
J1D C20 H24 SING N N 72
J1D C20 H25 SING N N 73
J1D C20 H26 SING N N 74
J1D C21 H27 SING N N 75
J1D C21 H28 SING N N 76
J1D C21 H29 SING N N 77
J1D N12 H31 SING N N 78
#
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
J1D SMILES ACDLabs 12.01 "O=C2NC(=NC=1NC(C(=NC=12)C(=O)NCC(=O)NCCS(=O)(=O)CC5OC(n4cnc3c(ncnc34)N)C(O)C5O)(C)C)N"
J1D InChI InChI 1.03
;InChI=1S/C23H30N12O8S/c1-23(2)15(31-12-17(34-23)32-22(25)33-19(12)39)20(40)27-5-10(36)26-3-4-44(41,42)6-9-13(37)14(38)21(43-9)35-8-30-11-16(24)28-7-29-18(11)35/h7-9,13-14,21,37-38H,3-6H2,1-2H3,(H,26,36)(H,27,40)(H2,24,28,29)(H4,25,32,33,34,39)/t9-,13-,14-,21-/m1/s1
;
J1D InChIKey InChI 1.03 QCWCABDSXQYDST-GWKRVTOESA-N
J1D SMILES_CANONICAL CACTVS 3.370 "CC1(C)NC2=C(N=C1C(=O)NCC(=O)NCC[S](=O)(=O)C[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5c(N)ncnc45)C(=O)NC(=N2)N"
J1D SMILES CACTVS 3.370 "CC1(C)NC2=C(N=C1C(=O)NCC(=O)NCC[S](=O)(=O)C[CH]3O[CH]([CH](O)[CH]3O)n4cnc5c(N)ncnc45)C(=O)NC(=N2)N"
J1D SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CC1(C(=NC2=C(N1)N=C(NC2=O)N)C(=O)NCC(=O)NCCS(=O)(=O)C[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O)C"
J1D SMILES "OpenEye OEToolkits" 1.7.6 "CC1(C(=NC2=C(N1)N=C(NC2=O)N)C(=O)NCC(=O)NCCS(=O)(=O)CC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)C"
#
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
J1D "SYSTEMATIC NAME" ACDLabs 12.01 "5'-{[2-({N-[(2-amino-7,7-dimethyl-4-oxo-3,4,7,8-tetrahydropteridin-6-yl)carbonyl]glycyl}amino)ethyl]sulfonyl}-5'-deoxyadenosine"
J1D "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "N-[2-[2-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfonyl]ethylamino]-2-oxidanylidene-ethyl]-2-azanyl-7,7-dimethyl-4-oxidanylidene-3,8-dihydropteridine-6-carboxamide"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
J1D "Create component" 2012-05-23 RCSB
#