data_4Y9F
#
_model_server_result.job_id            lDmI9D9ElocESeg9uCEyQg 
_model_server_result.datetime_utc      '2024-11-29 01:39:05' 
_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          4y9f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":200}' 
#
_entry.id    4Y9F 
#
_exptl.entry_id    4Y9F 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              396.433 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,3,6,7-tetrahydroxy-2,8-bis(3-methylbut-2-en-1-yl)-9H-xanthen-9-one 
_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            4Y9F 
_cell.length_a            43.043 
_cell.length_b            85.638 
_cell.length_c            63.391 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Y9F 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K,L,M,N 1 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N 1 2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 2_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -43.043 0 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 I N N 
#
_chem_comp.formula           'C23 H24 O6' 
_chem_comp.formula_weight    396.433 
_chem_comp.id                MKT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,3,6,7-tetrahydroxy-2,8-bis(3-methylbut-2-en-1-yl)-9H-xanthen-9-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Gamma-mangostin 
#
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
CAC CAR MKT sing 218 n n 
CAD CAR MKT sing 219 n n 
CAR CAK MKT doub 220 n n 
CAK CAO MKT sing 221 n n 
OAH CAU MKT sing 222 n n 
CAO CAX MKT sing 223 n n 
CAU CAX MKT sing 224 n y 
CAU CAS MKT doub 225 n y 
CAX CBC MKT doub 226 n y 
OAF CAS MKT sing 227 n n 
CAS CAL MKT sing 228 n y 
OAE CAY MKT doub 229 n n 
CBC CAY MKT sing 230 n n 
CBC CBA MKT sing 231 n y 
CAY CBB MKT sing 232 n n 
CAL CBA MKT doub 233 n y 
CBA OAP MKT sing 234 n n 
OAI CAV MKT sing 235 n n 
CBB CAV MKT sing 236 n y 
CBB CAZ MKT doub 237 n y 
CAV CAW MKT doub 238 n y 
OAP CAZ MKT sing 239 n n 
CAZ CAM MKT sing 240 n y 
CAW CAN MKT sing 241 n n 
CAW CAT MKT sing 242 n y 
CAN CAJ MKT sing 243 n n 
CAM CAT MKT doub 244 n y 
CAJ CAQ MKT doub 245 n n 
CAT OAG MKT sing 246 n n 
CAQ CAB MKT sing 247 n n 
CAQ CAA MKT sing 248 n n 
CAA H1 MKT sing 249 n n 
CAA H2 MKT sing 250 n n 
CAA H3 MKT sing 251 n n 
CAB H4 MKT sing 252 n n 
CAB H5 MKT sing 253 n n 
CAB H6 MKT sing 254 n n 
CAJ H7 MKT sing 255 n n 
CAN H8 MKT sing 256 n n 
CAN H9 MKT sing 257 n n 
OAI H10 MKT sing 258 n n 
OAG H11 MKT sing 259 n n 
CAM H12 MKT sing 260 n n 
CAL H13 MKT sing 261 n n 
OAF H14 MKT sing 262 n n 
OAH H15 MKT sing 263 n n 
CAO H16 MKT sing 264 n n 
CAO H17 MKT sing 265 n n 
CAK H18 MKT sing 266 n n 
CAD H21 MKT sing 267 n n 
CAD H22 MKT sing 268 n n 
CAD H23 MKT sing 269 n n 
CAC H24 MKT sing 270 n n 
CAC H25 MKT sing 271 n n 
CAC H26 MKT sing 272 n n 
#
_atom_sites.entry_id                     4Y9F 
_atom_sites.fract_transf_matrix[1][1]    0.023233 
_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]    0.011677 
_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]    0.015775 
_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 MKT A 1 201 200 MKT DRG . 
D 3 BR A 1 202 201 BR BR . 
E 3 BR A 1 203 202 BR BR . 
F 3 BR A 1 204 203 BR BR . 
G 3 BR A 1 205 204 BR BR . 
H 3 BR A 1 206 204 BR BR . 
I 2 MKT B 1 200 200 MKT DRG . 
J 3 BR B 1 201 201 BR BR . 
K 3 BR B 1 202 202 BR BR . 
L 3 BR B 1 203 203 BR BR . 
M 4 HOH A 1 301 179 HOH HOH . 
M 4 HOH A 2 302 92 HOH HOH . 
M 4 HOH A 3 303 119 HOH HOH . 
M 4 HOH A 4 304 157 HOH HOH . 
M 4 HOH A 5 305 45 HOH HOH . 
M 4 HOH A 6 306 59 HOH HOH . 
M 4 HOH A 7 307 114 HOH HOH . 
M 4 HOH A 8 308 169 HOH HOH . 
M 4 HOH A 9 309 14 HOH HOH . 
M 4 HOH A 10 310 115 HOH HOH . 
M 4 HOH A 11 311 76 HOH HOH . 
M 4 HOH A 12 312 112 HOH HOH . 
M 4 HOH A 13 313 168 HOH HOH . 
M 4 HOH A 14 314 184 HOH HOH . 
M 4 HOH A 15 315 66 HOH HOH . 
M 4 HOH A 16 316 54 HOH HOH . 
M 4 HOH A 17 317 108 HOH HOH . 
M 4 HOH A 18 318 110 HOH HOH . 
M 4 HOH A 19 319 154 HOH HOH . 
M 4 HOH A 20 320 188 HOH HOH . 
M 4 HOH A 21 321 166 HOH HOH . 
M 4 HOH A 22 322 25 HOH HOH . 
M 4 HOH A 23 323 33 HOH HOH . 
M 4 HOH A 24 324 187 HOH HOH . 
M 4 HOH A 25 325 81 HOH HOH . 
M 4 HOH A 26 326 150 HOH HOH . 
M 4 HOH A 27 327 20 HOH HOH . 
M 4 HOH A 28 328 86 HOH HOH . 
M 4 HOH A 29 329 164 HOH HOH . 
M 4 HOH A 30 330 96 HOH HOH . 
M 4 HOH A 31 331 117 HOH HOH . 
M 4 HOH A 32 332 153 HOH HOH . 
M 4 HOH A 33 333 22 HOH HOH . 
M 4 HOH A 34 334 93 HOH HOH . 
M 4 HOH A 35 335 133 HOH HOH . 
M 4 HOH A 36 336 146 HOH HOH . 
M 4 HOH A 37 337 19 HOH HOH . 
M 4 HOH A 38 338 67 HOH HOH . 
M 4 HOH A 39 339 98 HOH HOH . 
M 4 HOH A 40 340 126 HOH HOH . 
M 4 HOH A 41 341 180 HOH HOH . 
M 4 HOH A 42 342 185 HOH HOH . 
M 4 HOH A 43 343 186 HOH HOH . 
M 4 HOH A 44 344 193 HOH HOH . 
M 4 HOH A 45 345 192 HOH HOH . 
M 4 HOH A 46 346 3 HOH HOH . 
M 4 HOH A 47 347 7 HOH HOH . 
M 4 HOH A 48 348 8 HOH HOH . 
M 4 HOH A 49 349 10 HOH HOH . 
M 4 HOH A 50 350 11 HOH HOH . 
M 4 HOH A 51 351 15 HOH HOH . 
M 4 HOH A 52 352 16 HOH HOH . 
M 4 HOH A 53 353 21 HOH HOH . 
M 4 HOH A 54 354 23 HOH HOH . 
M 4 HOH A 55 355 28 HOH HOH . 
M 4 HOH A 56 356 30 HOH HOH . 
M 4 HOH A 57 357 31 HOH HOH . 
M 4 HOH A 58 358 32 HOH HOH . 
M 4 HOH A 59 359 34 HOH HOH . 
M 4 HOH A 60 360 35 HOH HOH . 
M 4 HOH A 61 361 37 HOH HOH . 
M 4 HOH A 62 362 41 HOH HOH . 
M 4 HOH A 63 363 44 HOH HOH . 
M 4 HOH A 64 364 46 HOH HOH . 
M 4 HOH A 65 365 47 HOH HOH . 
M 4 HOH A 66 366 49 HOH HOH . 
M 4 HOH A 67 367 51 HOH HOH . 
M 4 HOH A 68 368 70 HOH HOH . 
M 4 HOH A 69 369 71 HOH HOH . 
M 4 HOH A 70 370 73 HOH HOH . 
M 4 HOH A 71 371 78 HOH HOH . 
M 4 HOH A 72 372 79 HOH HOH . 
M 4 HOH A 73 373 80 HOH HOH . 
M 4 HOH A 74 374 83 HOH HOH . 
M 4 HOH A 75 375 85 HOH HOH . 
M 4 HOH A 76 376 99 HOH HOH . 
M 4 HOH A 77 377 104 HOH HOH . 
M 4 HOH A 78 378 111 HOH HOH . 
M 4 HOH A 79 379 116 HOH HOH . 
M 4 HOH A 80 380 124 HOH HOH . 
M 4 HOH A 81 381 127 HOH HOH . 
M 4 HOH A 82 382 128 HOH HOH . 
M 4 HOH A 83 383 130 HOH HOH . 
M 4 HOH A 84 384 131 HOH HOH . 
M 4 HOH A 85 385 134 HOH HOH . 
M 4 HOH A 86 386 138 HOH HOH . 
M 4 HOH A 87 387 147 HOH HOH . 
M 4 HOH A 88 388 156 HOH HOH . 
M 4 HOH A 89 389 158 HOH HOH . 
M 4 HOH A 90 390 160 HOH HOH . 
M 4 HOH A 91 391 162 HOH HOH . 
M 4 HOH A 92 392 167 HOH HOH . 
M 4 HOH A 93 393 173 HOH HOH . 
M 4 HOH A 94 394 176 HOH HOH . 
M 4 HOH A 95 395 181 HOH HOH . 
N 4 HOH B 1 301 139 HOH HOH . 
N 4 HOH B 2 302 100 HOH HOH . 
N 4 HOH B 3 303 64 HOH HOH . 
N 4 HOH B 4 304 84 HOH HOH . 
N 4 HOH B 5 305 60 HOH HOH . 
N 4 HOH B 6 306 122 HOH HOH . 
N 4 HOH B 7 307 189 HOH HOH . 
N 4 HOH B 8 308 57 HOH HOH . 
N 4 HOH B 9 309 82 HOH HOH . 
N 4 HOH B 10 310 140 HOH HOH . 
N 4 HOH B 11 311 144 HOH HOH . 
N 4 HOH B 12 312 38 HOH HOH . 
N 4 HOH B 13 313 63 HOH HOH . 
N 4 HOH B 14 314 141 HOH HOH . 
N 4 HOH B 15 315 58 HOH HOH . 
N 4 HOH B 16 316 75 HOH HOH . 
N 4 HOH B 17 317 152 HOH HOH . 
N 4 HOH B 18 318 91 HOH HOH . 
N 4 HOH B 19 319 50 HOH HOH . 
N 4 HOH B 20 320 125 HOH HOH . 
N 4 HOH B 21 321 87 HOH HOH . 
N 4 HOH B 22 322 171 HOH HOH . 
N 4 HOH B 23 323 26 HOH HOH . 
N 4 HOH B 24 324 123 HOH HOH . 
N 4 HOH B 25 325 190 HOH HOH . 
N 4 HOH B 26 326 56 HOH HOH . 
N 4 HOH B 27 327 42 HOH HOH . 
N 4 HOH B 28 328 183 HOH HOH . 
N 4 HOH B 29 329 142 HOH HOH . 
N 4 HOH B 30 330 149 HOH HOH . 
N 4 HOH B 31 331 97 HOH HOH . 
N 4 HOH B 32 332 174 HOH HOH . 
N 4 HOH B 33 333 143 HOH HOH . 
N 4 HOH B 34 334 182 HOH HOH . 
N 4 HOH B 35 335 191 HOH HOH . 
N 4 HOH B 36 336 4 HOH HOH . 
N 4 HOH B 37 337 5 HOH HOH . 
N 4 HOH B 38 338 6 HOH HOH . 
N 4 HOH B 39 339 12 HOH HOH . 
N 4 HOH B 40 340 13 HOH HOH . 
N 4 HOH B 41 341 17 HOH HOH . 
N 4 HOH B 42 342 18 HOH HOH . 
N 4 HOH B 43 343 24 HOH HOH . 
N 4 HOH B 44 344 29 HOH HOH . 
N 4 HOH B 45 345 36 HOH HOH . 
N 4 HOH B 46 346 39 HOH HOH . 
N 4 HOH B 47 347 43 HOH HOH . 
N 4 HOH B 48 348 48 HOH HOH . 
N 4 HOH B 49 349 52 HOH HOH . 
N 4 HOH B 50 350 53 HOH HOH . 
N 4 HOH B 51 351 61 HOH HOH . 
N 4 HOH B 52 352 62 HOH HOH . 
N 4 HOH B 53 353 68 HOH HOH . 
N 4 HOH B 54 354 69 HOH HOH . 
N 4 HOH B 55 355 72 HOH HOH . 
N 4 HOH B 56 356 74 HOH HOH . 
N 4 HOH B 57 357 89 HOH HOH . 
N 4 HOH B 58 358 90 HOH HOH . 
N 4 HOH B 59 359 94 HOH HOH . 
N 4 HOH B 60 360 101 HOH HOH . 
N 4 HOH B 61 361 102 HOH HOH . 
N 4 HOH B 62 362 103 HOH HOH . 
N 4 HOH B 63 363 106 HOH HOH . 
N 4 HOH B 64 364 107 HOH HOH . 
N 4 HOH B 65 365 109 HOH HOH . 
N 4 HOH B 66 366 113 HOH HOH . 
N 4 HOH B 67 367 120 HOH HOH . 
N 4 HOH B 68 368 129 HOH HOH . 
N 4 HOH B 69 369 132 HOH HOH . 
N 4 HOH B 70 370 137 HOH HOH . 
N 4 HOH B 71 371 145 HOH HOH . 
N 4 HOH B 72 372 155 HOH HOH . 
N 4 HOH B 73 373 159 HOH HOH . 
N 4 HOH B 74 374 161 HOH HOH . 
N 4 HOH B 75 375 163 HOH HOH . 
N 4 HOH B 76 376 165 HOH HOH . 
N 4 HOH B 77 377 170 HOH HOH . 
N 4 HOH B 78 378 172 HOH HOH . 
N 4 HOH B 79 379 175 HOH HOH . 
N 4 HOH B 80 380 177 HOH HOH . 
N 4 HOH B 81 381 178 HOH HOH . 
#
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 CAA MKT . . . I 2 -27.458 -3.415 -32.536 0.5 16.73 ? CAA MKT 200 B 1 
HETATM 2 C CAQ MKT . . . I 2 -27.594 -2.045 -31.874 0.5 17.12 ? CAQ MKT 200 B 1 
HETATM 3 C CAB MKT . . . I 2 -28.823 -1.171 -32.198 0.5 16.72 ? CAB MKT 200 B 1 
HETATM 4 C CAJ MKT . . . I 2 -26.567 -1.586 -30.813 0.5 16.54 ? CAJ MKT 200 B 1 
HETATM 5 C CAN MKT . . . I 2 -25.538 -2.642 -30.291 0.5 17.71 ? CAN MKT 200 B 1 
HETATM 6 C CAW MKT . . . I 2 -24.404 -1.941 -29.924 0.5 19.26 ? CAW MKT 200 B 1 
HETATM 7 C CAV MKT . . . I 2 -24.177 -1.694 -28.588 0.5 17.81 ? CAV MKT 200 B 1 
HETATM 8 O OAI MKT . . . I 2 -25.075 -2.198 -27.716 0.5 17.09 ? OAI MKT 200 B 1 
HETATM 9 C CAT MKT . . . I 2 -23.493 -1.459 -30.846 0.5 20.34 ? CAT MKT 200 B 1 
HETATM 10 O OAG MKT . . . I 2 -23.746 -1.738 -32.145 0.5 21.81 ? OAG MKT 200 B 1 
HETATM 11 C CAM MKT . . . I 2 -22.379 -0.726 -30.436 0.5 19.89 ? CAM MKT 200 B 1 
HETATM 12 C CAZ MKT . . . I 2 -22.197 -0.489 -29.068 0.5 18.16 ? CAZ MKT 200 B 1 
HETATM 13 O OAP MKT . . . I 2 -21.111 0.208 -28.646 0.5 17.51 ? OAP MKT 200 B 1 
HETATM 14 C CBB MKT . . . I 2 -23.09 -0.97 -28.119 0.5 18.07 ? CBB MKT 200 B 1 
HETATM 15 C CAY MKT . . . I 2 -22.906 -0.742 -26.751 0.5 17.24 ? CAY MKT 200 B 1 
HETATM 16 O OAE MKT . . . I 2 -23.722 -1.231 -25.956 0.5 17.7 ? OAE MKT 200 B 1 
HETATM 17 C CBC MKT . . . I 2 -21.818 0.064 -26.34 0.5 16.07 ? CBC MKT 200 B 1 
HETATM 18 C CBA MKT . . . I 2 -20.932 0.54 -27.327 0.5 17.03 ? CBA MKT 200 B 1 
HETATM 19 C CAL MKT . . . I 2 -19.822 1.331 -27.032 0.5 15.89 ? CAL MKT 200 B 1 
HETATM 20 C CAS MKT . . . I 2 -19.547 1.676 -25.731 0.5 16.52 ? CAS MKT 200 B 1 
HETATM 21 O OAF MKT . . . I 2 -18.485 2.461 -25.383 0.5 15.04 ? OAF MKT 200 B 1 
HETATM 22 C CAU MKT . . . I 2 -20.41 1.224 -24.74 0.5 15.99 ? CAU MKT 200 B 1 
HETATM 23 O OAH MKT . . . I 2 -20.159 1.564 -23.448 0.5 17.71 ? OAH MKT 200 B 1 
HETATM 24 C CAX MKT . . . I 2 -21.529 0.423 -25.001 0.5 15.39 ? CAX MKT 200 B 1 
HETATM 25 C CAO MKT . . . I 2 -22.339 0.111 -23.916 0.5 13.23 ? CAO MKT 200 B 1 
HETATM 26 C CAK MKT . . . I 2 -22.279 -1.308 -23.337 0.5 12.67 ? CAK MKT 200 B 1 
HETATM 27 C CAR MKT . . . I 2 -21.729 -1.536 -21.944 0.5 11.8 ? CAR MKT 200 B 1 
HETATM 28 C CAD MKT . . . I 2 -21.439 -3 -21.528 0.5 10.97 ? CAD MKT 200 B 1 
HETATM 29 C CAC MKT . . . I 2 -21.559 -0.406 -20.919 0.5 11.05 ? CAC MKT 200 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           337 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           29 
#