data_MF6
#
_chem_comp.id MF6
_chem_comp.name "(1S,3R,4R,6R,9S,11R,14R,15S,16R,18R)-4-(6-amino-9H-purin-9-yl)-9,11,15,16,18-pentahydroxy-2,5,8,10,12,17-hexaoxa-9lambda~5~,11lambda~5~-diphosphatricyclo[12.2.1.1~3,6~]octadecane-9,11-dione"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C15 H21 N5 O13 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms
;1'-2' gcADPR
;
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-03-16
_chem_comp.pdbx_modified_date 2022-09-30
_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 541.300
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code MF6
_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 7UAW
_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
MF6 C17 C1 C 0 1 N N S -9.113 22.214 -41.605 1.598 -3.879 -0.208 C17 MF6 1
MF6 C21 C2 C 0 1 N N R -5.640 22.288 -44.862 -0.323 0.679 -1.435 C21 MF6 2
MF6 C24 C3 C 0 1 N N N -3.317 22.553 -43.994 0.387 2.746 -0.198 C24 MF6 3
MF6 C02 C4 C 0 1 Y N N -5.498 17.922 -39.865 -6.716 0.671 0.063 C02 MF6 4
MF6 C04 C5 C 0 1 Y N N -6.112 20.160 -39.760 -6.059 -1.536 0.229 C04 MF6 5
MF6 C06 C6 C 0 1 Y N N -5.667 19.227 -41.872 -4.392 0.047 0.215 C06 MF6 6
MF6 C07 C7 C 0 1 Y N N -5.389 18.018 -41.286 -5.365 1.055 0.104 C07 MF6 7
MF6 C09 C8 C 0 1 Y N N -5.131 17.808 -43.440 -3.427 2.028 0.135 C09 MF6 8
MF6 C11 C9 C 0 1 N N R -5.628 20.067 -44.257 -1.860 0.055 0.336 C11 MF6 9
MF6 C12 C10 C 0 1 N N R -6.242 21.385 -43.865 -1.388 -0.371 -1.061 C12 MF6 10
MF6 C14 C11 C 0 1 N N S -8.398 22.461 -43.758 -0.052 -2.091 0.027 C14 MF6 11
MF6 C16 C12 C 0 1 N N R -8.272 23.461 -41.667 2.264 -2.517 0.043 C16 MF6 12
MF6 C19 C13 C 0 1 N N R -9.652 22.166 -42.963 0.096 -3.623 0.010 C19 MF6 13
MF6 C23 C14 C 0 1 N N R -4.209 21.827 -44.949 0.128 1.243 -0.078 C23 MF6 14
MF6 C32 C15 C 0 1 N N N -7.222 23.442 -40.606 3.352 -2.266 -1.003 C32 MF6 15
MF6 N01 N1 N 0 1 N N N -5.221 16.662 -39.185 -7.719 1.619 -0.045 N01 MF6 16
MF6 N03 N2 N 0 1 Y N N -5.858 18.995 -39.168 -7.009 -0.624 0.126 N03 MF6 17
MF6 N05 N3 N 0 1 Y N N -6.018 20.275 -41.070 -4.781 -1.223 0.276 N05 MF6 18
MF6 N08 N4 N 0 1 Y N N -5.058 17.152 -42.279 -4.709 2.239 0.060 N08 MF6 19
MF6 N10 N5 N 0 1 Y N N -5.512 19.074 -43.216 -3.181 0.691 0.232 N10 MF6 20
MF6 O13 O1 O 0 1 N N N -7.678 21.285 -43.937 -0.852 -1.683 -1.076 O13 MF6 21
MF6 O15 O2 O 0 1 N N N -7.677 23.459 -42.978 1.252 -1.516 -0.061 O15 MF6 22
MF6 O18 O3 O 0 1 N N N -10.130 22.377 -40.623 2.079 -4.848 0.726 O18 MF6 23
MF6 O20 O4 O 0 1 N N N -10.641 23.199 -43.117 -0.328 -4.174 1.258 O20 MF6 24
MF6 O22 O5 O 0 1 N N N -6.225 22.062 -46.142 0.768 0.073 -2.125 O22 MF6 25
MF6 O25 O6 O 0 1 N N N -3.502 22.002 -42.725 1.723 2.964 -0.656 O25 MF6 26
MF6 O27 O7 O 0 1 N N N -2.967 22.093 -40.109 3.853 4.162 0.313 O27 MF6 27
MF6 O28 O8 O 0 1 N N N -4.063 24.182 -41.340 3.947 1.607 -0.298 O28 MF6 28
MF6 O30 O9 O 0 1 N N N -4.798 24.385 -38.717 5.714 -0.251 0.286 O30 MF6 29
MF6 O31 O10 O 0 1 N N N -6.588 24.686 -40.639 3.580 -0.861 -1.125 O31 MF6 30
MF6 O33 O11 O 0 1 N N N -4.710 26.237 -40.195 3.412 -0.253 1.321 O33 MF6 31
MF6 O34 O12 O 0 1 N N N -1.743 23.478 -41.681 2.587 2.442 1.658 O34 MF6 32
MF6 O35 O13 O 0 1 N N N -4.278 20.409 -44.630 -0.922 0.997 0.860 O35 MF6 33
MF6 P26 P1 P 0 1 N N N -3.092 22.865 -41.405 3.017 2.786 0.285 P26 MF6 34
MF6 P29 P2 P 0 1 N N N -5.019 24.760 -40.161 4.147 0.052 0.073 P29 MF6 35
MF6 H1 H1 H 0 1 N N N -8.484 21.336 -41.397 1.784 -4.213 -1.228 H1 MF6 36
MF6 H2 H2 H 0 1 N N N -5.702 23.341 -44.549 -0.769 1.466 -2.044 H2 MF6 37
MF6 H3 H3 H 0 1 N N N -2.267 22.436 -44.302 -0.315 3.181 -0.910 H3 MF6 38
MF6 H4 H4 H 0 1 N N N -3.578 23.621 -43.978 0.254 3.217 0.775 H4 MF6 39
MF6 H5 H5 H 0 1 N N N -6.396 21.015 -39.164 -6.341 -2.577 0.277 H5 MF6 40
MF6 H6 H6 H 0 1 N N N -4.916 17.384 -44.410 -2.670 2.798 0.122 H6 MF6 41
MF6 H7 H7 H 0 1 N N N -6.170 19.653 -45.120 -1.934 -0.808 0.995 H7 MF6 42
MF6 H8 H8 H 0 1 N N N -5.919 21.663 -42.851 -2.227 -0.301 -1.765 H8 MF6 43
MF6 H9 H9 H 0 1 N N N -8.686 22.890 -44.729 -0.513 -1.793 0.970 H9 MF6 44
MF6 H10 H10 H 0 1 N N N -8.914 24.345 -41.537 2.701 -2.502 1.042 H10 MF6 45
MF6 H11 H11 H 0 1 N N N -10.050 21.171 -43.209 -0.484 -4.047 -0.809 H11 MF6 46
MF6 H12 H12 H 0 1 N N N -3.841 21.967 -45.976 1.037 0.737 0.248 H12 MF6 47
MF6 H13 H13 H 0 1 N N N -7.683 23.279 -39.621 4.272 -2.762 -0.698 H13 MF6 48
MF6 H14 H14 H 0 1 N N N -6.495 22.642 -40.808 3.026 -2.663 -1.965 H14 MF6 49
MF6 H15 H15 H 0 1 N N N -5.349 16.779 -38.200 -8.647 1.341 -0.077 H15 MF6 50
MF6 H16 H16 H 0 1 N N N -5.846 15.958 -39.521 -7.492 2.561 -0.090 H16 MF6 51
MF6 H17 H17 H 0 1 N N N -9.736 22.403 -39.759 1.673 -5.720 0.632 H17 MF6 52
MF6 H18 H18 H 0 1 N N N -11.411 22.980 -42.605 -1.256 -4.005 1.468 H18 MF6 53
MF6 H19 H19 H 0 1 N N N -7.133 22.341 -46.129 1.464 0.693 -2.382 H19 MF6 54
MF6 H20 H20 H 0 1 N N N -2.081 22.173 -39.776 4.648 4.127 0.862 H20 MF6 55
MF6 H21 H21 H 0 1 N N N -4.531 25.154 -38.227 6.122 0.266 0.994 H21 MF6 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
MF6 O22 C21 SING N N 1
MF6 C23 C21 SING N N 2
MF6 C23 O35 SING N N 3
MF6 C23 C24 SING N N 4
MF6 C21 C12 SING N N 5
MF6 O35 C11 SING N N 6
MF6 C11 C12 SING N N 7
MF6 C11 N10 SING N N 8
MF6 C24 O25 SING N N 9
MF6 O13 C12 SING N N 10
MF6 O13 C14 SING N N 11
MF6 C14 O15 SING N N 12
MF6 C14 C19 SING N N 13
MF6 C09 N10 SING Y N 14
MF6 C09 N08 DOUB Y N 15
MF6 N10 C06 SING Y N 16
MF6 O20 C19 SING N N 17
MF6 O15 C16 SING N N 18
MF6 C19 C17 SING N N 19
MF6 O25 P26 SING N N 20
MF6 N08 C07 SING Y N 21
MF6 C06 C07 DOUB Y N 22
MF6 C06 N05 SING Y N 23
MF6 O34 P26 DOUB N N 24
MF6 C16 C17 SING N N 25
MF6 C16 C32 SING N N 26
MF6 C17 O18 SING N N 27
MF6 P26 O28 SING N N 28
MF6 P26 O27 SING N N 29
MF6 O28 P29 SING N N 30
MF6 C07 C02 SING Y N 31
MF6 N05 C04 DOUB Y N 32
MF6 O31 C32 SING N N 33
MF6 O31 P29 SING N N 34
MF6 O33 P29 DOUB N N 35
MF6 P29 O30 SING N N 36
MF6 C02 N01 SING N N 37
MF6 C02 N03 DOUB Y N 38
MF6 C04 N03 SING Y N 39
MF6 C17 H1 SING N N 40
MF6 C21 H2 SING N N 41
MF6 C24 H3 SING N N 42
MF6 C24 H4 SING N N 43
MF6 C04 H5 SING N N 44
MF6 C09 H6 SING N N 45
MF6 C11 H7 SING N N 46
MF6 C12 H8 SING N N 47
MF6 C14 H9 SING N N 48
MF6 C16 H10 SING N N 49
MF6 C19 H11 SING N N 50
MF6 C23 H12 SING N N 51
MF6 C32 H13 SING N N 52
MF6 C32 H14 SING N N 53
MF6 N01 H15 SING N N 54
MF6 N01 H16 SING N N 55
MF6 O18 H17 SING N N 56
MF6 O20 H18 SING N N 57
MF6 O22 H19 SING N N 58
MF6 O27 H20 SING N N 59
MF6 O30 H21 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
MF6 SMILES ACDLabs 12.01 "Nc1ncnc2c1ncn2C1OC2COP(=O)(O)OP(=O)(O)OCC3OC(OC1C2O)C(O)C3O"
MF6 InChI InChI 1.03 "InChI=1S/C15H21N5O13P2/c16-12-7-13(18-3-17-12)20(4-19-7)14-11-9(22)6(30-14)2-29-35(26,27)33-34(24,25)28-1-5-8(21)10(23)15(31-5)32-11/h3-6,8-11,14-15,21-23H,1-2H2,(H,24,25)(H,26,27)(H2,16,17,18)/t5-,6-,8-,9-,10-,11-,14-,15+/m1/s1"
MF6 InChIKey InChI 1.03 FWMYLCHFFTZWAN-ZQSHOCFMSA-N
MF6 SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@@H]4CO[P](O)(=O)O[P](O)(=O)OC[C@H]5O[C@@H](O[C@@H]3[C@@H]4O)[C@H](O)[C@@H]5O"
MF6 SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH]4CO[P](O)(=O)O[P](O)(=O)OC[CH]5O[CH](O[CH]3[CH]4O)[CH](O)[CH]5O"
MF6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@H]4[C@@H]([C@H](O3)COP(=O)(OP(=O)(OC[C@@H]5[C@H]([C@H]([C@@H](O5)O4)O)O)O)O)O)N"
MF6 SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C4C(C(O3)COP(=O)(OP(=O)(OCC5C(C(C(O5)O4)O)O)O)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
MF6 "SYSTEMATIC NAME" ACDLabs 12.01 "(1S,3R,4R,6R,9S,11R,14R,15S,16R,18R)-4-(6-amino-9H-purin-9-yl)-9,11,15,16,18-pentahydroxy-2,5,8,10,12,17-hexaoxa-9lambda~5~,11lambda~5~-diphosphatricyclo[12.2.1.1~3,6~]octadecane-9,11-dione"
MF6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{S},3~{R},4~{R},6~{R},14~{R},15~{S},16~{R},18~{R})-4-(6-aminopurin-9-yl)-9,11-bis(oxidanyl)-9,11-bis(oxidanylidene)-2,5,8,10,12,17-hexaoxa-9$l^{5},11$l^{5}-diphosphatricyclo[12.2.1.1^{3,6}]octadecane-15,16,18-triol"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
MF6 "Create component" 2022-03-16 RCSB
MF6 "Initial release" 2022-10-05 RCSB
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id MF6
_pdbx_chem_comp_synonyms.name
;1'-2' gcADPR
;
_pdbx_chem_comp_synonyms.provenance AUTHOR
_pdbx_chem_comp_synonyms.type ?
#