data_8JYH
#
_model_server_result.job_id            uEtsvM5JnNj--l2tOXddSQ 
_model_server_result.datetime_utc      '2024-11-24 23:31:20' 
_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          8jyh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":203}' 
#
_entry.id    8JYH 
#
_exptl.entry_id    8JYH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              539.401 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '7-[5-[(2~{S})-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]-2-oxidanyl-phenyl]-3,5,6,8-tetrakis(oxidanyl)-9,10-bis(oxidanylidene)anthracene-1,2-dicarboxylic acid' 
_entity.pdbx_number_of_molecules    1 
_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            8JYH 
_cell.length_a            61.85 
_cell.length_b            61.85 
_cell.length_c            82.337 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8JYH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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,E,F,G 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 A OD1 ASP 23 A ASP 23 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc2 A OD2 ASP 23 A ASP 23 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? 
metalc ? metalc3 A OD1 ASP 51 A ASP 51 1_555 E ZN ZN . A ZN 204 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc4 A OD2 ASP 51 A ASP 51 1_555 E ZN ZN . A ZN 204 5_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.68 ? 
metalc ? metalc5 A OE2 GLU 58 A GLU 58 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc6 A OE2 GLU 72 A GLU 72 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc7 A OD1 ASP 78 A ASP 78 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? 
metalc ? metalc8 A OD2 ASP 78 A ASP 78 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? 
metalc ? metalc9 A ND1 HIS 91 A HIS 91 1_555 F ZN ZN . A ZN 205 4_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc10 A OE1 GLU 119 A GLU 119 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? 
metalc ? metalc11 A NE2 HIS 129 A HIS 129 1_555 E ZN ZN . A ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc12 A OE1 GLU 136 A GLU 136 1_555 E ZN ZN . A ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
metalc ? metalc13 A OD1 ASP 139 A ASP 139 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? 
metalc ? metalc14 B MN MN . A MN 201 1_555 D OAX V96 . A V96 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.782 ? 
metalc ? metalc15 B MN MN . A MN 201 1_555 D OAY V96 . A V96 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.774 ? 
metalc ? metalc16 C MN MN . A MN 202 1_555 D OAZ V96 . A V96 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc17 C MN MN . A MN 202 1_555 D OAY V96 . A V96 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? 
metalc ? metalc18 E ZN ZN . A ZN 204 1_555 G O HOH . A HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
metalc ? metalc19 F ZN ZN . A ZN 205 1_555 G O HOH . A HOH 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? 
#
_chem_comp.formula           'C25 H17 N O13' 
_chem_comp.formula_weight    539.401 
_chem_comp.id                V96 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '7-[5-[(2~{S})-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]-2-oxidanyl-phenyl]-3,5,6,8-tetrakis(oxidanyl)-9,10-bis(oxidanylidene)anthracene-1,2-dicarboxylic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
CBE CD2 V96 sing 345 n y 
CBE CBF V96 doub 346 n y 
OBM CBF V96 sing 347 n n 
CD2 CG V96 doub 348 n y 
CBF CBA V96 sing 349 n y 
OAO CAN V96 sing 350 n n 
OXT C V96 doub 351 n n 
CG CB V96 sing 352 n n 
CG CD1 V96 sing 353 n y 
OAR CAQ V96 doub 354 n n 
OAP CAJ V96 doub 355 n n 
OAS CAQ V96 sing 356 n n 
CBA CD1 V96 doub 357 n y 
CBA CAM V96 sing 358 n n 
CAQ CAF V96 sing 359 n n 
C O V96 sing 360 n n 
C CA V96 sing 361 n n 
CB CA V96 sing 362 n n 
CAN CAM V96 doub 363 n y 
CAN CAI V96 sing 364 n y 
CAM CAL V96 sing 365 n y 
CAJ CAI V96 sing 366 n n 
CAJ CAE V96 sing 367 n n 
CAI CAH V96 doub 368 n y 
CAF CAE V96 sing 369 n y 
CAF CAA V96 doub 370 n y 
OAU CAT V96 doub 371 n n 
CA N V96 sing 372 n n 
CAE CAD V96 doub 373 n y 
CAL OAZ V96 sing 374 n n 
CAL CAK V96 doub 375 n y 
CAA CAT V96 sing 376 n n 
CAA CAB V96 sing 377 n y 
CAT OAV V96 sing 378 n n 
CAH CAK V96 sing 379 n y 
CAH CAG V96 sing 380 n n 
CAK OAY V96 sing 381 n n 
CAD CAG V96 sing 382 n n 
CAD CAC V96 sing 383 n y 
CAG OAX V96 doub 384 n n 
CAB CAC V96 doub 385 n y 
CAB OAW V96 sing 386 n n 
N H1 V96 sing 387 n n 
N H2 V96 sing 388 n n 
CA H4 V96 sing 389 n n 
O H5 V96 sing 390 n n 
CB H6 V96 sing 391 n n 
CB H7 V96 sing 392 n n 
CD1 H8 V96 sing 393 n n 
CD2 H9 V96 sing 394 n n 
CAC H10 V96 sing 395 n n 
CBE H11 V96 sing 396 n n 
OAO H12 V96 sing 397 n n 
OAS H13 V96 sing 398 n n 
OAV H14 V96 sing 399 n n 
OAW H15 V96 sing 400 n n 
OAY H16 V96 sing 401 n n 
OAZ H17 V96 sing 402 n n 
OBM H18 V96 sing 403 n n 
#
_atom_sites.entry_id                     8JYH 
_atom_sites.fract_transf_matrix[1][1]    0.016168 
_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]    0.016168 
_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]    0.012145 
_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
B 2 MN A 1 201 150 MN MN . 
C 2 MN A 1 202 151 MN MN . 
D 3 V96 A 1 203 152 V96 V96 . 
E 4 ZN A 1 204 153 ZN ZN . 
F 4 ZN A 1 205 154 ZN ZN . 
G 5 HOH A 1 301 12 HOH HOH . 
G 5 HOH A 2 302 2 HOH HOH . 
G 5 HOH A 3 303 1 HOH HOH . 
G 5 HOH A 4 304 11 HOH HOH . 
G 5 HOH A 5 305 8 HOH HOH . 
G 5 HOH A 6 306 9 HOH HOH . 
G 5 HOH A 7 307 5 HOH HOH . 
G 5 HOH A 8 308 4 HOH HOH . 
G 5 HOH A 9 309 3 HOH HOH . 
G 5 HOH A 10 310 6 HOH HOH . 
G 5 HOH A 11 311 18 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 N N V96 . . . D 3 20.582 17.129 2.597 1 200.32 ? N V96 203 A 1 
HETATM 2 C CA V96 . . . D 3 21.533 16.017 2.441 1 201.76 ? CA V96 203 A 1 
HETATM 3 C C V96 . . . D 3 22.022 16.001 0.989 1 201.8 ? C V96 203 A 1 
HETATM 4 O O V96 . . . D 3 21.76 17 0.289 1 200.08 ? O V96 203 A 1 
HETATM 5 C CB V96 . . . D 3 20.875 14.679 2.848 1 202.15 ? CB V96 203 A 1 
HETATM 6 C CG V96 . . . D 3 19.707 14.369 2.134 1 204.6 ? CG V96 203 A 1 
HETATM 7 C CD1 V96 . . . D 3 18.5 14.275 2.836 1 202.71 ? CD1 V96 203 A 1 
HETATM 8 C CD2 V96 . . . D 3 19.721 14.106 0.772 1 202.75 ? CD2 V96 203 A 1 
HETATM 9 O OXT V96 . . . D 3 22.64 14.98 0.612 1 201.89 ? OXT V96 203 A 1 
HETATM 10 C CAA V96 . . . D 3 8.52 14.336 3.725 1 195.75 ? CAA V96 203 A 1 
HETATM 11 C CAB V96 . . . D 3 8.809 14.094 5.053 1 194.13 ? CAB V96 203 A 1 
HETATM 12 C CAC V96 . . . D 3 10.093 13.938 5.509 1 195.27 ? CAC V96 203 A 1 
HETATM 13 C CAD V96 . . . D 3 11.155 14.022 4.637 1 195.32 ? CAD V96 203 A 1 
HETATM 14 C CAE V96 . . . D 3 10.984 14.241 3.268 1 210.26 ? CAE V96 203 A 1 
HETATM 15 C CAF V96 . . . D 3 9.615 14.436 2.782 1 210.1 ? CAF V96 203 A 1 
HETATM 16 C CAG V96 . . . D 3 12.389 13.85 5.234 1 197.12 ? CAG V96 203 A 1 
HETATM 17 C CAH V96 . . . D 3 13.568 13.894 4.528 1 197.57 ? CAH V96 203 A 1 
HETATM 18 C CAI V96 . . . D 3 13.501 14.118 3.182 1 210.77 ? CAI V96 203 A 1 
HETATM 19 C CAJ V96 . . . D 3 12.242 14.297 2.557 1 214.28 ? CAJ V96 203 A 1 
HETATM 20 C CAK V96 . . . D 3 14.817 13.721 5.115 1 199.36 ? CAK V96 203 A 1 
HETATM 21 C CAL V96 . . . D 3 16.009 13.805 4.409 1 199.79 ? CAL V96 203 A 1 
HETATM 22 C CAM V96 . . . D 3 16.031 13.938 3.005 1 207.56 ? CAM V96 203 A 1 
HETATM 23 C CAN V96 . . . D 3 14.724 14.162 2.468 1 215.12 ? CAN V96 203 A 1 
HETATM 24 C CAQ V96 . . . D 3 9.323 14.645 1.406 1 211.39 ? CAQ V96 203 A 1 
HETATM 25 C CAT V96 . . . D 3 7.104 14.44 3.587 1 193.02 ? CAT V96 203 A 1 
HETATM 26 C CBA V96 . . . D 3 17.248 14.061 2.236 1 208.4 ? CBA V96 203 A 1 
HETATM 27 C CBE V96 . . . D 3 18.532 13.816 0.136 1 202.86 ? CBE V96 203 A 1 
HETATM 28 C CBF V96 . . . D 3 17.343 13.762 0.858 1 214.77 ? CBF V96 203 A 1 
HETATM 29 O OAO V96 . . . D 3 14.601 14.389 1.136 1 219.22 ? OAO V96 203 A 1 
HETATM 30 O OAP V96 . . . D 3 12.311 14.493 1.352 1 219.8 ? OAP V96 203 A 1 
HETATM 31 O OAR V96 . . . D 3 8.186 14.898 0.982 1 202.1 ? OAR V96 203 A 1 
HETATM 32 O OAS V96 . . . D 3 10.136 14.395 0.508 1 218.01 ? OAS V96 203 A 1 
HETATM 33 O OAU V96 . . . D 3 6.484 14.641 2.53 1 193.19 ? OAU V96 203 A 1 
HETATM 34 O OAV V96 . . . D 3 6.39 14.385 4.61 1 193.77 ? OAV V96 203 A 1 
HETATM 35 O OAW V96 . . . D 3 7.742 14.01 5.892 1 194.5 ? OAW V96 203 A 1 
HETATM 36 O OAX V96 . . . D 3 12.416 13.66 6.429 1 198.51 ? OAX V96 203 A 1 
HETATM 37 O OAY V96 . . . D 3 14.896 13.499 6.445 1 200.22 ? OAY V96 203 A 1 
HETATM 38 O OAZ V96 . . . D 3 17.142 13.574 5.134 1 201.14 ? OAZ V96 203 A 1 
HETATM 39 O OBM V96 . . . D 3 16.21 13.462 0.18 1 219.12 ? OBM V96 203 A 1 
#
_model_server_stats.io_time_ms              57 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           331 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           39 
#