data_3G8E
#
_model_server_result.job_id            9hZ6gUJI3acF9TBdLaa6-A 
_model_server_result.datetime_utc      '2025-03-05 19:15:02' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          3g8e 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    3G8E 
#
_exptl.entry_id    3G8E 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              524.629 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            3-[(1E)-3-oxo-3-({4-[1-(phenylcarbonyl)piperidin-4-yl]butyl}amino)prop-1-en-1-yl]-1-beta-D-ribofuranosylpyridinium 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            3G8E 
_cell.length_a            83.316 
_cell.length_b            107.406 
_cell.length_c            120.195 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3G8E 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C29 H38 N3 O6 1' 
_chem_comp.formula_weight    524.629 
_chem_comp.id                IS1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              3-[(1E)-3-oxo-3-({4-[1-(phenylcarbonyl)piperidin-4-yl]butyl}amino)prop-1-en-1-yl]-1-beta-D-ribofuranosylpyridinium 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     3-((E)-3-(4-(1-benzoylpiperidin-4-yl)butylamino)-3-oxoprop-1-enyl)-1-((2R,3R,4S,5R)-3,4-dihydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl)pyridinium 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
CAM CAI IS1 doub 171 n y 
CAM CBE IS1 sing 172 n y 
CAI CAH IS1 sing 173 n y 
CAH CAJ IS1 doub 174 n y 
CAJ CAN IS1 sing 175 n y 
CAN CBE IS1 doub 176 n y 
CBE CBC IS1 sing 177 n n 
CBC OAB IS1 doub 178 n n 
CBC NBK IS1 sing 179 n n 
NBK CAY IS1 sing 180 n n 
NBK CAX IS1 sing 181 n n 
CAY CAW IS1 sing 182 n n 
CAW CBF IS1 sing 183 n n 
CAX CAV IS1 sing 184 n n 
CAV CBF IS1 sing 185 n n 
CBF CAU IS1 sing 186 n n 
CAU CAS IS1 sing 187 n n 
CAS CAR IS1 sing 188 n n 
CAR CAT IS1 sing 189 n n 
CAT NAZ IS1 sing 190 n n 
NAZ CBB IS1 sing 191 n n 
CBB OAA IS1 doub 192 n n 
CBB CAF IS1 sing 193 n n 
CAF CAG IS1 doub 194 n n 
CAG CBD IS1 sing 195 n n 
CBD CAP IS1 doub 196 n y 
CBD CAL IS1 sing 197 n y 
CAP NBL IS1 sing 198 n y 
CAL CAK IS1 doub 199 n y 
CAK CAO IS1 sing 200 n y 
CAO NBL IS1 doub 201 n y 
NBL C1' IS1 sing 202 n n 
C1' O4' IS1 sing 203 n n 
C1' C2' IS1 sing 204 n n 
O4' C4' IS1 sing 205 n n 
C4' C5' IS1 sing 206 n n 
C4' C3' IS1 sing 207 n n 
C5' O5' IS1 sing 208 n n 
C3' O3' IS1 sing 209 n n 
C3' C2' IS1 sing 210 n n 
C2' O2' IS1 sing 211 n n 
CAM HAM IS1 sing 212 n n 
CAI HAI IS1 sing 213 n n 
CAH HAH IS1 sing 214 n n 
CAJ HAJ IS1 sing 215 n n 
CAN HAN IS1 sing 216 n n 
CAY HAY IS1 sing 217 e n 
CAY HAYA IS1 sing 218 n n 
CAW HAW IS1 sing 219 n n 
CAW HAWA IS1 sing 220 n n 
CAX HAX IS1 sing 221 n n 
CAX HAXA IS1 sing 222 n n 
CAV HAV IS1 sing 223 n n 
CAV HAVA IS1 sing 224 n n 
CBF HBF IS1 sing 225 n n 
CAU HAU IS1 sing 226 n n 
CAU HAUA IS1 sing 227 n n 
CAS HAS IS1 sing 228 n n 
CAS HASA IS1 sing 229 n n 
CAR HAR IS1 sing 230 n n 
CAR HARA IS1 sing 231 n n 
CAT HAT IS1 sing 232 n n 
CAT HATA IS1 sing 233 n n 
NAZ HNAZ IS1 sing 234 n n 
CAF HAF IS1 sing 235 n n 
CAG HAG IS1 sing 236 n n 
CAP HAP IS1 sing 237 n n 
CAL HAL IS1 sing 238 n n 
CAK HAK IS1 sing 239 n n 
CAO HAO IS1 sing 240 n n 
C1' H1' IS1 sing 241 n n 
C4' H4' IS1 sing 242 n n 
C5' H5' IS1 sing 243 n n 
C5' "H5'A" IS1 sing 244 n n 
O5' HO5' IS1 sing 245 n n 
C3' H3' IS1 sing 246 n n 
O3' HO3' IS1 sing 247 n n 
C2' H2' IS1 sing 248 n n 
O2' HO2' IS1 sing 249 n n 
#
_atom_sites.entry_id                     3G8E 
_atom_sites.fract_transf_matrix[1][1]    0.012002 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00931 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.00832 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
C 2 IS1 A 1 501 501 IS1 DRG . 
D 2 IS1 B 1 502 502 IS1 DRG . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C CAM IS1 . . . D 2 -10.221 3.739 -10.4 1 62.95 ? CAM IS1 502 B 1 
HETATM 2 C CAI IS1 . . . D 2 -10.066 3.587 -9.027 1 63.13 ? CAI IS1 502 B 1 
HETATM 3 C CAH IS1 . . . D 2 -10.724 2.558 -8.366 1 63.41 ? CAH IS1 502 B 1 
HETATM 4 C CAJ IS1 . . . D 2 -11.537 1.682 -9.079 1 63.25 ? CAJ IS1 502 B 1 
HETATM 5 C CAN IS1 . . . D 2 -11.693 1.836 -10.452 1 62.89 ? CAN IS1 502 B 1 
HETATM 6 C CBE IS1 . . . D 2 -11.035 2.865 -11.114 1 62.17 ? CBE IS1 502 B 1 
HETATM 7 C CBC IS1 . . . D 2 -11.196 3.031 -12.627 1 60.3 ? CBC IS1 502 B 1 
HETATM 8 O OAB IS1 . . . D 2 -12.208 3.544 -13.1 1 60.48 ? OAB IS1 502 B 1 
HETATM 9 N NBK IS1 . . . D 2 -10.23 2.612 -13.442 1 58.76 ? NBK IS1 502 B 1 
HETATM 10 C CAY IS1 . . . D 2 -10.353 2.83 -14.902 1 57.75 ? CAY IS1 502 B 1 
HETATM 11 C CAW IS1 . . . D 2 -9.048 3.412 -15.452 1 56.6 ? CAW IS1 502 B 1 
HETATM 12 C CAX IS1 . . . D 2 -9.026 1.979 -12.859 1 59.22 ? CAX IS1 502 B 1 
HETATM 13 C CAV IS1 . . . D 2 -7.766 2.586 -13.477 1 57.36 ? CAV IS1 502 B 1 
HETATM 14 C CBF IS1 . . . D 2 -8.128 3.821 -14.299 1 57.15 ? CBF IS1 502 B 1 
HETATM 15 C CAU IS1 . . . D 2 -6.821 4.422 -14.814 1 56.49 ? CAU IS1 502 B 1 
HETATM 16 C CAS IS1 . . . D 2 -6.843 5.95 -14.799 1 57.26 ? CAS IS1 502 B 1 
HETATM 17 C CAR IS1 . . . D 2 -5.397 6.416 -14.96 1 57.49 ? CAR IS1 502 B 1 
HETATM 18 C CAT IS1 . . . D 2 -5.296 7.842 -15.5 1 58.41 ? CAT IS1 502 B 1 
HETATM 19 N NAZ IS1 . . . D 2 -3.881 8.059 -15.824 1 57.5 ? NAZ IS1 502 B 1 
HETATM 20 C CBB IS1 . . . D 2 -3.029 8.506 -14.906 1 57.86 ? CBB IS1 502 B 1 
HETATM 21 O OAA IS1 . . . D 2 -3.38 8.792 -13.757 1 57.15 ? OAA IS1 502 B 1 
HETATM 22 C CAF IS1 . . . D 2 -1.705 8.673 -15.268 1 58.59 ? CAF IS1 502 B 1 
HETATM 23 C CAG IS1 . . . D 2 -0.808 9.199 -14.341 1 60.35 ? CAG IS1 502 B 1 
HETATM 24 C CBD IS1 . . . D 2 0.525 9.384 -14.675 1 62.66 ? CBD IS1 502 B 1 
HETATM 25 C CAP IS1 . . . D 2 1.394 9.918 -13.727 1 66.38 ? CAP IS1 502 B 1 
HETATM 26 C CAL IS1 . . . D 2 1.006 9.036 -15.931 1 62.54 ? CAL IS1 502 B 1 
HETATM 27 C CAK IS1 . . . D 2 2.346 9.212 -16.254 1 63.49 ? CAK IS1 502 B 1 
HETATM 28 C CAO IS1 . . . D 2 3.22 9.747 -15.312 1 66.2 ? CAO IS1 502 B 1 
HETATM 29 N NBL IS1 . . . D 2 2.746 10.09 -14.042 1 69.61 ? NBL IS1 502 B 1 
HETATM 30 C C1' IS1 . . . D 2 3.682 10.612 -13.015 1 74.45 ? C1' IS1 502 B 1 
HETATM 31 O O4' IS1 . . . D 2 4.855 9.797 -12.816 1 77.65 ? O4' IS1 502 B 1 
HETATM 32 C C4' IS1 . . . D 2 5.506 10.311 -11.63 1 78.61 ? C4' IS1 502 B 1 
HETATM 33 C C5' IS1 . . . D 2 6.434 9.52 -10.818 1 81.08 ? C5' IS1 502 B 1 
HETATM 34 O O5' IS1 . . . D 2 6.539 10.162 -9.447 1 83.83 ? O5' IS1 502 B 1 
HETATM 35 C C3' IS1 . . . D 2 4.421 11.082 -10.881 1 77.27 ? C3' IS1 502 B 1 
HETATM 36 O O3' IS1 . . . D 2 4.399 12.406 -10.296 1 77.32 ? O3' IS1 502 B 1 
HETATM 37 C C2' IS1 . . . D 2 3.155 10.641 -11.561 1 76.35 ? C2' IS1 502 B 1 
HETATM 38 O O2' IS1 . . . D 2 1.95 11.105 -10.921 1 75.85 ? O2' IS1 502 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           213 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           38 
#