data_7DXA
#
_model_server_result.job_id            iMgG0RAJVfheq7FF9IXEcw 
_model_server_result.datetime_utc      '2024-11-23 10:07:57' 
_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          7dxa 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"O","auth_seq_id":401}' 
#
_entry.id    7DXA 
#
_exptl.entry_id    7DXA 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              795.116 
_entity.id                          15 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 
_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            7DXA 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7DXA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetradecameric 
_pdbx_struct_assembly.oligomeric_count      14 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB 
_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    ? 
_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
? 15 O N N 
? 15 IB N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 C NE2 HIS 215 a HIS 215 1_555 WA FE FE2 . d FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? 
metalc ? metalc2 E NE2 HIS 204 d HIS 214 1_555 WA FE FE2 . d FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.805 ? 
metalc ? metalc3 E OE1 GLU 231 d GLU 241 1_555 WA FE FE2 . d FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.758 ? 
metalc ? metalc4 E NE2 HIS 258 d HIS 268 1_555 WA FE FE2 . d FE2 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? 
#
_chem_comp.formula           'C41 H78 O12 S' 
_chem_comp.formula_weight    795.116 
_chem_comp.id                SQD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     SULFOQUINOVOSYLDIACYLGLYCEROL 
#
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
O6 C44 SQD sing 1274 n n 
O6 C1 SQD sing 1275 n n 
C44 C45 SQD sing 1276 n n 
C44 H441 SQD sing 1277 n n 
C44 H442 SQD sing 1278 n n 
C45 C46 SQD sing 1279 n n 
C45 O47 SQD sing 1280 n n 
C45 H45 SQD sing 1281 n n 
C46 O48 SQD sing 1282 n n 
C46 H461 SQD sing 1283 n n 
C46 H462 SQD sing 1284 n n 
O47 C7 SQD sing 1285 n n 
C7 O49 SQD doub 1286 n n 
C7 C8 SQD sing 1287 n n 
C8 C9 SQD sing 1288 n n 
C8 H81 SQD sing 1289 n n 
C8 H82 SQD sing 1290 n n 
C9 C10 SQD sing 1291 n n 
C9 H91 SQD sing 1292 n n 
C9 H92 SQD sing 1293 n n 
C10 C11 SQD sing 1294 n n 
C10 H101 SQD sing 1295 n n 
C10 H102 SQD sing 1296 n n 
C11 C12 SQD sing 1297 n n 
C11 H111 SQD sing 1298 n n 
C11 H112 SQD sing 1299 n n 
C12 C13 SQD sing 1300 n n 
C12 H121 SQD sing 1301 n n 
C12 H122 SQD sing 1302 n n 
C13 C14 SQD sing 1303 n n 
C13 H131 SQD sing 1304 n n 
C13 H132 SQD sing 1305 n n 
C14 C15 SQD sing 1306 n n 
C14 H141 SQD sing 1307 n n 
C14 H142 SQD sing 1308 n n 
C15 C16 SQD sing 1309 n n 
C15 H151 SQD sing 1310 n n 
C15 H152 SQD sing 1311 n n 
C16 C17 SQD sing 1312 n n 
C16 H161 SQD sing 1313 n n 
C16 H162 SQD sing 1314 n n 
C17 C18 SQD sing 1315 n n 
C17 H171 SQD sing 1316 n n 
C17 H172 SQD sing 1317 n n 
C18 C19 SQD sing 1318 n n 
C18 H181 SQD sing 1319 n n 
C18 H182 SQD sing 1320 n n 
C19 C20 SQD sing 1321 n n 
C19 H191 SQD sing 1322 n n 
C19 H192 SQD sing 1323 n n 
C20 C21 SQD sing 1324 n n 
C20 H201 SQD sing 1325 n n 
C20 H202 SQD sing 1326 n n 
C21 C22 SQD sing 1327 n n 
C21 H211 SQD sing 1328 n n 
C21 H212 SQD sing 1329 n n 
C22 H221 SQD sing 1330 n n 
C22 H222 SQD sing 1331 n n 
C22 H223 SQD sing 1332 n n 
O48 C23 SQD sing 1333 n n 
C23 O10 SQD doub 1334 n n 
C23 C24 SQD sing 1335 n n 
C24 C25 SQD sing 1336 n n 
C24 H241 SQD sing 1337 n n 
C24 H242 SQD sing 1338 n n 
C25 C26 SQD sing 1339 n n 
C25 H251 SQD sing 1340 n n 
C25 H252 SQD sing 1341 n n 
C26 C27 SQD sing 1342 n n 
C26 H261 SQD sing 1343 n n 
C26 H262 SQD sing 1344 n n 
C27 C28 SQD sing 1345 n n 
C27 H271 SQD sing 1346 n n 
C27 H272 SQD sing 1347 n n 
C28 C29 SQD sing 1348 n n 
C28 H281 SQD sing 1349 n n 
C28 H282 SQD sing 1350 n n 
C29 C30 SQD sing 1351 n n 
C29 H291 SQD sing 1352 n n 
C29 H292 SQD sing 1353 n n 
C30 C31 SQD sing 1354 n n 
C30 H301 SQD sing 1355 n n 
C30 H302 SQD sing 1356 n n 
C31 C32 SQD sing 1357 n n 
C31 H311 SQD sing 1358 n n 
C31 H312 SQD sing 1359 n n 
C32 C33 SQD sing 1360 n n 
C32 H321 SQD sing 1361 n n 
C32 H322 SQD sing 1362 n n 
C33 C34 SQD sing 1363 n n 
C33 H331 SQD sing 1364 n n 
C33 H332 SQD sing 1365 n n 
C34 C35 SQD sing 1366 n n 
C34 H341 SQD sing 1367 n n 
C34 H342 SQD sing 1368 n n 
C35 C36 SQD sing 1369 n n 
C35 H351 SQD sing 1370 n n 
C35 H352 SQD sing 1371 n n 
C36 C37 SQD sing 1372 n n 
C36 H361 SQD sing 1373 n n 
C36 H362 SQD sing 1374 n n 
C37 C38 SQD sing 1375 n n 
C37 H371 SQD sing 1376 n n 
C37 H372 SQD sing 1377 n n 
C38 H381 SQD sing 1378 n n 
C38 H382 SQD sing 1379 n n 
C38 H383 SQD sing 1380 n n 
C1 C2 SQD sing 1381 n n 
C1 O5 SQD sing 1382 n n 
C1 H1 SQD sing 1383 n n 
C2 O2 SQD sing 1384 n n 
C2 C3 SQD sing 1385 n n 
C2 H2 SQD sing 1386 n n 
O2 HO2 SQD sing 1387 n n 
C3 O3 SQD sing 1388 n n 
C3 C4 SQD sing 1389 n n 
C3 H3 SQD sing 1390 n n 
O3 HO3 SQD sing 1391 n n 
C4 O4 SQD sing 1392 n n 
C4 C5 SQD sing 1393 n n 
C4 H4 SQD sing 1394 n n 
O4 HO4 SQD sing 1395 n n 
C5 C6 SQD sing 1396 n n 
C5 O5 SQD sing 1397 n n 
C5 H5 SQD sing 1398 n n 
C6 S SQD sing 1399 n n 
C6 H61 SQD sing 1400 n n 
C6 H62 SQD sing 1401 n n 
S O7 SQD doub 1402 n n 
S O8 SQD sing 1403 n n 
S O9 SQD doub 1404 n n 
O8 HO8 SQD sing 1405 n n 
#
_atom_sites.entry_id                     7DXA 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
O 15 SQD a 1 401 401 SQD SQD . 
P 16 CLA a 1 402 402 CLA CLA . 
Q 16 CLA a 1 403 403 CLA CLA . 
R 17 PHO a 1 404 404 PHO PHO . 
S 17 PHO a 1 405 405 PHO PHO . 
T 16 CLA a 1 406 406 CLA CLA . 
U 18 BCR a 1 407 407 BCR BCR . 
V 19 CL a 1 408 408 CL CL . 
W 20 MGE a 1 409 409 MGE MGE . 
X 16 CLA b 1 601 601 CLA CLA . 
Y 16 CLA b 1 602 602 CLA CLA . 
Z 16 CLA b 1 603 603 CLA CLA . 
AA 16 CLA b 1 604 604 CLA CLA . 
BA 16 CLA b 1 605 605 CLA CLA . 
CA 16 CLA b 1 606 606 CLA CLA . 
DA 16 CLA b 1 607 607 CLA CLA . 
EA 16 CLA b 1 608 608 CLA CLA . 
FA 16 CLA b 1 609 609 CLA CLA . 
GA 16 CLA b 1 610 610 CLA CLA . 
HA 16 CLA b 1 611 611 CLA CLA . 
IA 16 CLA b 1 612 612 CLA CLA . 
JA 16 CLA b 1 613 613 CLA CLA . 
KA 16 CLA b 1 614 614 CLA CLA . 
LA 16 CLA b 1 615 615 CLA CLA . 
MA 16 CLA b 1 616 616 CLA CLA . 
NA 18 BCR b 1 617 617 BCR BCR . 
OA 18 BCR b 1 618 618 BCR BCR . 
PA 18 BCR b 1 619 619 BCR BCR . 
QA 20 MGE b 1 620 620 MGE MGE . 
RA 21 UNL b 1 621 621 UNL UNL . 
SA 20 MGE b 1 622 622 MGE MGE . 
TA 22 LMT b 1 623 623 LMT LMT . 
UA 16 CLA d 1 401 401 CLA CLA . 
VA 22 LMT d 1 402 402 LMT LMT . 
WA 23 FE2 d 1 403 403 FE2 FE2 . 
XA 16 CLA d 1 404 404 CLA CLA . 
YA 16 CLA d 1 405 405 CLA CLA . 
ZA 24 PQ9 d 1 406 406 PQ9 PQ9 . 
AB 18 BCR d 1 407 407 BCR BCR . 
BB 20 MGE d 1 408 408 MGE MGE . 
CB 20 MGE d 1 409 409 MGE MGE . 
DB 20 MGE d 1 410 410 MGE MGE . 
EB 25 HTG d 1 411 411 HTG HTG . 
FB 26 DGD d 1 412 412 DGD DGD . 
GB 27 HEM e 1 101 101 HEM HEM . 
HB 18 BCR h 1 101 101 BCR BCR . 
IB 15 SQD l 1 101 101 SQD SQD . 
JB 20 MGE m 1 101 101 MGE MGE . 
KB 22 LMT t 1 101 101 LMT LMT . 
LB 21 UNL x 1 101 101 UNL UNL . 
#
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 O O6 SQD . . . O 15 155.964 161.199 162.409 1 75.61 ? O6 SQD 401 a 1 
HETATM 2 C C44 SQD . . . O 15 155.63 160.427 161.258 1 75.61 ? C44 SQD 401 a 1 
HETATM 3 C C45 SQD . . . O 15 154.127 160.514 160.992 1 75.61 ? C45 SQD 401 a 1 
HETATM 4 C C46 SQD . . . O 15 153.362 160.201 162.28 1 75.61 ? C46 SQD 401 a 1 
HETATM 5 O O47 SQD . . . O 15 153.75 161.797 160.475 1 75.61 ? O47 SQD 401 a 1 
HETATM 6 C C7 SQD . . . O 15 153.556 161.787 159.03 1 75.61 ? C7 SQD 401 a 1 
HETATM 7 O O49 SQD . . . O 15 154.328 161.181 158.316 1 75.61 ? O49 SQD 401 a 1 
HETATM 8 C C8 SQD . . . O 15 152.381 162.495 158.405 1 75.61 ? C8 SQD 401 a 1 
HETATM 9 O O48 SQD . . . O 15 151.956 160.129 162.034 1 75.61 ? O48 SQD 401 a 1 
HETATM 10 C C23 SQD . . . O 15 151.08 159.331 162.885 1 75.61 ? C23 SQD 401 a 1 
HETATM 11 O O10 SQD . . . O 15 151.556 158.482 163.622 1 75.61 ? O10 SQD 401 a 1 
HETATM 12 C C24 SQD . . . O 15 149.588 159.544 162.843 1 75.61 ? C24 SQD 401 a 1 
HETATM 13 C C1 SQD . . . O 15 157.195 160.763 162.975 1 75.61 ? C1 SQD 401 a 1 
HETATM 14 C C2 SQD . . . O 15 157.727 161.764 164.007 1 75.61 ? C2 SQD 401 a 1 
HETATM 15 O O2 SQD . . . O 15 157.954 163.043 163.408 1 75.61 ? O2 SQD 401 a 1 
HETATM 16 C C3 SQD . . . O 15 159.048 161.256 164.602 1 75.61 ? C3 SQD 401 a 1 
HETATM 17 O O3 SQD . . . O 15 159.381 162.047 165.752 1 75.61 ? O3 SQD 401 a 1 
HETATM 18 C C4 SQD . . . O 15 159.062 159.772 165.004 1 75.61 ? C4 SQD 401 a 1 
HETATM 19 O O4 SQD . . . O 15 160.417 159.318 164.9 1 75.61 ? O4 SQD 401 a 1 
HETATM 20 C C5 SQD . . . O 15 158.196 158.862 164.118 1 75.61 ? C5 SQD 401 a 1 
HETATM 21 C C6 SQD . . . O 15 157.787 157.618 164.895 1 75.61 ? C6 SQD 401 a 1 
HETATM 22 O O5 SQD . . . O 15 157.002 159.509 163.644 1 75.61 ? O5 SQD 401 a 1 
HETATM 23 S S SQD . . . O 15 159.009 156.471 164.883 1 75.61 ? S SQD 401 a 1 
HETATM 24 O O7 SQD . . . O 15 158.637 155.084 165.117 1 75.61 ? O7 SQD 401 a 1 
HETATM 25 O O8 SQD . . . O 15 160.404 156.785 164.06 1 75.61 ? O8 SQD 401 a 1 
HETATM 26 O O9 SQD . . . O 15 158.519 156.225 163.557 1 75.61 ? O9 SQD 401 a 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    30 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           26 
#