data_XG4
#
_chem_comp.id XG4
_chem_comp.name "2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H17 N6 O12 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2010-06-21
_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 506.196
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code XG4
_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 3MR5
_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
XG4 N1 N1 N 0 1 N N N -43.764 -4.706 -7.654 7.571 2.016 -0.396 N1 XG4 1
XG4 C2 C2 C 0 1 N N N -44.195 -5.752 -8.443 7.482 0.699 -0.737 C2 XG4 2
XG4 N2 N2 N 0 1 N N N -43.292 -6.719 -8.826 8.598 0.058 -1.213 N2 XG4 3
XG4 N3 N3 N 0 1 N N N -45.469 -5.867 -8.843 6.359 0.026 -0.622 N3 XG4 4
XG4 C4 C4 C 0 1 Y N N -46.387 -4.925 -8.479 5.247 0.610 -0.163 C4 XG4 5
XG4 C5 C5 C 0 1 Y N N -46.011 -3.833 -7.659 5.273 1.961 0.204 C5 XG4 6
XG4 C6 C6 C 0 1 N N N -44.645 -3.735 -7.268 6.488 2.673 0.075 C6 XG4 7
XG4 O6 O6 O 0 1 N N N -44.241 -2.782 -6.561 6.558 3.850 0.388 O6 XG4 8
XG4 N7 N7 N 0 1 Y N N -47.115 -3.062 -7.456 4.027 2.287 0.627 N7 XG4 9
XG4 C8 C8 C 0 1 Y N N -48.134 -3.624 -8.076 3.257 1.242 0.544 C8 XG4 10
XG4 N9 N9 N 0 1 Y N N -47.743 -4.780 -8.720 3.967 0.181 0.062 N9 XG4 11
XG4 PA PA P 0 1 N N N -52.286 -2.388 -8.365 -2.354 -1.940 -0.630 PA XG4 12
XG4 PB PB P 0 1 N N N -53.861 -4.513 -6.994 -4.415 -0.124 -0.237 PB XG4 13
XG4 PG PG P 0 1 N N N -55.943 -3.013 -5.940 -6.113 2.243 0.307 PG XG4 14
XG4 "C1'" C1* C 0 1 N N R -48.536 -5.735 -9.544 3.452 -1.171 -0.175 C1* XG4 15
XG4 O1A O1A O 0 1 N N N -53.331 -2.067 -9.091 -2.953 -2.853 0.369 O1A XG4 16
XG4 O1B O1B O 0 1 N N N -54.348 -4.668 -8.134 -4.959 -0.434 -1.578 O1B XG4 17
XG4 O1G O1G O 0 1 N N N -55.850 -2.331 -7.086 -7.083 1.452 1.096 O1G XG4 18
XG4 "C2'" C2* C 0 1 N N N -49.285 -6.711 -8.584 3.743 -2.063 1.048 C2* XG4 19
XG4 O2A O2A O 0 1 N N N -51.497 -1.355 -7.897 -2.928 -2.293 -2.092 O2A XG4 20
XG4 O2B O2B O 0 1 N N N -53.223 -5.553 -6.608 -5.084 -1.102 0.853 O2B XG4 21
XG4 O2G O2G O 0 1 N N N -57.168 -3.514 -5.711 -5.801 3.627 1.069 O2G XG4 22
XG4 "C3'" C3* C 0 1 N N S -50.707 -6.240 -8.582 2.345 -2.549 1.504 C3* XG4 23
XG4 "O3'" O3* O 0 1 N N N -51.696 -7.131 -8.306 2.382 -3.927 1.879 O3* XG4 24
XG4 N3A N3A N 0 1 N N N -52.758 -3.266 -7.141 -2.747 -0.350 -0.243 N3A XG4 25
XG4 O3B O3B O 0 1 N N N -54.902 -4.153 -5.931 -4.748 1.405 0.138 O3B XG4 26
XG4 O3G O3G O 0 1 N N N -55.628 -2.192 -4.932 -6.732 2.559 -1.145 O3G XG4 27
XG4 "C4'" C4* C 0 1 N N R -50.740 -5.593 -9.959 1.497 -2.347 0.222 C4* XG4 28
XG4 "O4'" O4* O 0 1 N N N -49.479 -5.169 -10.294 2.025 -1.128 -0.343 O4* XG4 29
XG4 "C5'" C5* C 0 1 N N N -51.722 -4.382 -9.922 0.018 -2.181 0.575 C5* XG4 30
XG4 "O5'" O5* O 0 1 N N N -51.297 -3.227 -9.200 -0.754 -2.114 -0.625 O5* XG4 31
XG4 HN1 HN1 H 0 1 N N N -42.808 -4.658 -7.365 8.416 2.483 -0.489 HN1 XG4 32
XG4 HN2 HN2 H 0 1 N N N -43.592 -7.487 -9.391 9.434 0.541 -1.303 HN2 XG4 33
XG4 HN2A HN2A H 0 0 N N N -42.336 -6.653 -8.539 8.551 -0.879 -1.460 HN2A XG4 34
XG4 H8 H8 H 0 1 N N N -49.140 -3.232 -8.079 2.212 1.217 0.817 H8 XG4 35
XG4 "H1'" H1* H 0 1 N N N -47.811 -6.222 -10.212 3.920 -1.595 -1.063 H1* XG4 36
XG4 "H2'" H2* H 0 1 N N N -49.214 -7.748 -8.943 4.367 -2.910 0.762 H2* XG4 37
XG4 "H2'A" H2*A H 0 0 N N N -48.856 -6.673 -7.572 4.222 -1.484 1.837 H2*A XG4 38
XG4 HO2A HO2A H 0 0 N N N -51.854 -0.525 -8.190 -2.578 -1.732 -2.798 HO2A XG4 39
XG4 HO2B HO2B H 0 0 N N N -53.263 -6.219 -7.284 -4.773 -0.955 1.757 HO2B XG4 40
XG4 HO2G HO2G H 0 0 N N N -57.746 -3.280 -6.428 -6.580 4.184 1.206 HO2G XG4 41
XG4 "H3'" H3* H 0 1 N N N -50.948 -5.583 -7.734 1.968 -1.935 2.321 H3* XG4 42
XG4 "HO3'" HO3* H 0 0 N N N -52.538 -6.692 -8.341 2.972 -4.117 2.622 HO3* XG4 43
XG4 HN3A HN3A H 0 0 N N N -51.906 -3.700 -6.849 -2.343 -0.083 0.643 HN3A XG4 44
XG4 HO3G HO3G H 0 0 N N N -55.417 -1.332 -5.277 -6.149 3.075 -1.718 HO3G XG4 45
XG4 "H4'" H4* H 0 1 N N N -51.082 -6.319 -10.711 1.635 -3.182 -0.465 H4* XG4 46
XG4 "H5'" H5* H 0 1 N N N -51.887 -4.069 -10.963 -0.311 -3.032 1.171 H5* XG4 47
XG4 "H5'A" H5*A H 0 0 N N N -52.651 -4.734 -9.449 -0.118 -1.263 1.147 H5*A XG4 48
#
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
XG4 C2 N1 SING N N 1
XG4 N1 C6 SING N N 2
XG4 N1 HN1 SING N N 3
XG4 N3 C2 DOUB N N 4
XG4 N2 C2 SING N N 5
XG4 N2 HN2 SING N N 6
XG4 N2 HN2A SING N N 7
XG4 N3 C4 SING N N 8
XG4 N9 C4 SING Y N 9
XG4 C4 C5 DOUB Y N 10
XG4 C5 N7 SING Y N 11
XG4 C5 C6 SING N N 12
XG4 C6 O6 DOUB N N 13
XG4 C8 N7 DOUB Y N 14
XG4 N9 C8 SING Y N 15
XG4 C8 H8 SING N N 16
XG4 "C1'" N9 SING N N 17
XG4 "O5'" PA SING N N 18
XG4 O1A PA DOUB N N 19
XG4 PA O2A SING N N 20
XG4 PA N3A SING N N 21
XG4 O1B PB DOUB N N 22
XG4 N3A PB SING N N 23
XG4 PB O2B SING N N 24
XG4 PB O3B SING N N 25
XG4 O1G PG DOUB N N 26
XG4 PG O3B SING N N 27
XG4 PG O2G SING N N 28
XG4 PG O3G SING N N 29
XG4 "O4'" "C1'" SING N N 30
XG4 "C1'" "C2'" SING N N 31
XG4 "C1'" "H1'" SING N N 32
XG4 "C2'" "C3'" SING N N 33
XG4 "C2'" "H2'" SING N N 34
XG4 "C2'" "H2'A" SING N N 35
XG4 O2A HO2A SING N N 36
XG4 O2B HO2B SING N N 37
XG4 O2G HO2G SING N N 38
XG4 "C4'" "C3'" SING N N 39
XG4 "C3'" "O3'" SING N N 40
XG4 "C3'" "H3'" SING N N 41
XG4 "O3'" "HO3'" SING N N 42
XG4 N3A HN3A SING N N 43
XG4 O3G HO3G SING N N 44
XG4 "O4'" "C4'" SING N N 45
XG4 "C4'" "C5'" SING N N 46
XG4 "C4'" "H4'" SING N N 47
XG4 "C5'" "O5'" SING N N 48
XG4 "C5'" "H5'" SING N N 49
XG4 "C5'" "H5'A" SING N N 50
#
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
XG4 SMILES ACDLabs 12.01 "O=P(O)(O)OP(=O)(O)NP(=O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)CC3O"
XG4 SMILES_CANONICAL CACTVS 3.370 "NC1=Nc2n(cnc2C(=O)N1)[C@H]3C[C@H](O)[C@@H](CO[P](O)(=O)N[P](O)(=O)O[P](O)(O)=O)O3"
XG4 SMILES CACTVS 3.370 "NC1=Nc2n(cnc2C(=O)N1)[CH]3C[CH](O)[CH](CO[P](O)(=O)N[P](O)(=O)O[P](O)(O)=O)O3"
XG4 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "c1nc2c(n1[C@H]3C[C@@H]([C@H](O3)CO[P@@](=O)(N[P@@](=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N"
XG4 SMILES "OpenEye OEToolkits" 1.7.0 "c1nc2c(n1C3CC(C(O3)COP(=O)(NP(=O)(O)OP(=O)(O)O)O)O)N=C(NC2=O)N"
XG4 InChI InChI 1.03 "InChI=1S/C10H17N6O12P3/c11-10-13-8-7(9(18)14-10)12-3-16(8)6-1-4(17)5(27-6)2-26-29(19,20)15-30(21,22)28-31(23,24)25/h3-6,17H,1-2H2,(H2,23,24,25)(H3,11,13,14,18)(H3,15,19,20,21,22)/t4-,5+,6+/m0/s1"
XG4 InChIKey InChI 1.03 DWGAAFQEGIMTIA-KVQBGUIXSA-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
XG4 "SYSTEMATIC NAME" ACDLabs 12.01 "2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine"
XG4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[(2R,3S,5R)-5-(2-azanyl-6-oxo-1H-purin-9-yl)-3-hydroxy-oxolan-2-yl]methoxy-N-[hydroxy(phosphonooxy)phosphoryl]phosphonamidic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
XG4 "Create component" 2010-06-21 RCSB
XG4 "Modify aromatic_flag" 2011-06-04 RCSB
XG4 "Modify descriptor" 2011-06-04 RCSB
#