data_8JV7
#
_model_server_result.job_id            -hAfCyHwBbSI-Kp_b2ZX2A 
_model_server_result.datetime_utc      '2024-10-20 05:32:42' 
_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          8jv7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":403}' 
#
_entry.id    8JV7 
#
_exptl.entry_id    8JV7 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              511.378 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '4-[(E)-[4-methanoyl-6-methyl-5-oxidanyl-3-(phosphonooxymethyl)pyridin-2-yl]diazenyl]benzene-1,3-disulfonic acid' 
_entity.pdbx_number_of_molecules    3 
_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            8JV7 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8JV7 
_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    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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
? 3 F N N 
? 3 I N N 
? 3 L 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
disulf ? disulf1 A SG CYS 99 A CYS 119 1_555 A SG CYS 148 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf2 A SG CYS 109 A CYS 129 1_555 A SG CYS 132 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 A SG CYS 115 A CYS 135 1_555 A SG CYS 142 A CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf4 A SG CYS 196 A CYS 216 1_555 A SG CYS 206 A CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf5 A SG CYS 240 A CYS 260 1_555 A SG CYS 249 A CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf6 B SG CYS 99 B CYS 119 1_555 B SG CYS 148 B CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf7 B SG CYS 109 B CYS 129 1_555 B SG CYS 132 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf8 B SG CYS 115 B CYS 135 1_555 B SG CYS 142 B CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf9 B SG CYS 196 B CYS 216 1_555 B SG CYS 206 B CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf10 B SG CYS 240 B CYS 260 1_555 B SG CYS 249 B CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf11 C SG CYS 99 C CYS 119 1_555 C SG CYS 148 C CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf12 C SG CYS 109 C CYS 129 1_555 C SG CYS 132 C CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf13 C SG CYS 115 C CYS 135 1_555 C SG CYS 142 C CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf14 C SG CYS 196 C CYS 216 1_555 C SG CYS 206 C CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf15 C SG CYS 240 C CYS 260 1_555 C SG CYS 249 C CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
covale ? covale1 A ND2 ASN 167 A ASN 187 1_555 D C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale2 A ND2 ASN 193 A ASN 213 1_555 E C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale3 B ND2 ASN 167 B ASN 187 1_555 G C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale4 B ND2 ASN 193 B ASN 213 1_555 H C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
covale ? covale5 C ND2 ASN 167 C ASN 187 1_555 J C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale6 C ND2 ASN 193 C ASN 213 1_555 K C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? 
#
_chem_comp.formula           'C14 H14 N3 O12 P S2' 
_chem_comp.formula_weight    511.378 
_chem_comp.id                UO6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '4-[(E)-[4-methanoyl-6-methyl-5-oxidanyl-3-(phosphonooxymethyl)pyridin-2-yl]diazenyl]benzene-1,3-disulfonic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Ppads 
#
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
O17 S16 UO6 doub 388 n n 
O19 S16 UO6 doub 389 n n 
S16 O18 UO6 sing 390 n n 
S16 C13 UO6 sing 391 n n 
C13 C12 UO6 doub 392 n y 
C13 C14 UO6 sing 393 n y 
C12 C11 UO6 sing 394 n y 
O21 S20 UO6 doub 395 n n 
C14 C15 UO6 doub 396 n y 
O22 S20 UO6 doub 397 n n 
C11 S20 UO6 sing 398 n n 
C11 C10 UO6 doub 399 n y 
C15 C10 UO6 sing 400 n y 
S20 O23 UO6 sing 401 n n 
C10 N09 UO6 sing 402 n n 
N09 N08 UO6 doub 403 n n 
N08 C06 UO6 sing 404 n n 
O29 P26 UO6 doub 405 n n 
C06 N07 UO6 doub 406 n y 
C06 C05 UO6 sing 407 n y 
N07 C02 UO6 sing 408 n y 
C24 C05 UO6 sing 409 n n 
C24 O25 UO6 sing 410 n n 
C05 C04 UO6 doub 411 n y 
C02 C01 UO6 sing 412 n n 
C02 C03 UO6 doub 413 n y 
O28 P26 UO6 sing 414 n n 
P26 O25 UO6 sing 415 n n 
P26 O27 UO6 sing 416 n n 
C04 C03 UO6 sing 417 n y 
C04 C30 UO6 sing 418 n n 
C03 O32 UO6 sing 419 n n 
C30 O31 UO6 doub 420 n n 
C01 H1 UO6 sing 421 n n 
C01 H2 UO6 sing 422 n n 
C01 H3 UO6 sing 423 n n 
C12 H4 UO6 sing 424 n n 
C14 H5 UO6 sing 425 n n 
C15 H6 UO6 sing 426 n n 
C24 H7 UO6 sing 427 n n 
C24 H8 UO6 sing 428 n n 
C30 H9 UO6 sing 429 n n 
O27 H10 UO6 sing 430 n n 
O28 H11 UO6 sing 431 n n 
O32 H12 UO6 sing 432 n n 
O18 H13 UO6 sing 433 n n 
O23 H14 UO6 sing 434 n n 
#
_atom_sites.entry_id                     8JV7 
_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
D 2 NAG A 1 401 401 NAG NAG . 
E 2 NAG A 1 402 402 NAG NAG . 
F 3 UO6 A 1 403 403 UO6 PPA . 
G 2 NAG B 1 401 401 NAG NAG . 
H 2 NAG B 1 402 402 NAG NAG . 
I 3 UO6 B 1 403 403 UO6 PPA . 
J 2 NAG C 1 401 401 NAG NAG . 
K 2 NAG C 1 402 402 NAG NAG . 
L 3 UO6 C 1 403 403 UO6 PPA . 
M 4 HOH A 1 501 404 HOH HOH . 
N 4 HOH B 1 501 404 HOH HOH . 
O 4 HOH C 1 501 404 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 C01 UO6 . . . F 3 131.038 116.703 125.382 1 157.28 ? C01 UO6 403 A 1 
HETATM 2 C C02 UO6 . . . F 3 129.526 116.784 125.186 1 157.28 ? C02 UO6 403 A 1 
HETATM 3 C C03 UO6 . . . F 3 128.716 115.767 125.661 1 157.28 ? C03 UO6 403 A 1 
HETATM 4 C C04 UO6 . . . F 3 127.343 115.838 125.485 1 157.28 ? C04 UO6 403 A 1 
HETATM 5 C C05 UO6 . . . F 3 126.824 116.944 124.826 1 157.28 ? C05 UO6 403 A 1 
HETATM 6 C C06 UO6 . . . F 3 127.699 117.921 124.379 1 157.28 ? C06 UO6 403 A 1 
HETATM 7 C C10 UO6 . . . F 3 127.401 121.114 122.601 1 157.28 ? C10 UO6 403 A 1 
HETATM 8 C C11 UO6 . . . F 3 128.268 122.097 122.151 1 157.28 ? C11 UO6 403 A 1 
HETATM 9 C C12 UO6 . . . F 3 127.772 123.212 121.495 1 157.28 ? C12 UO6 403 A 1 
HETATM 10 C C13 UO6 . . . F 3 126.408 123.345 121.293 1 157.28 ? C13 UO6 403 A 1 
HETATM 11 C C14 UO6 . . . F 3 125.541 122.364 121.744 1 157.28 ? C14 UO6 403 A 1 
HETATM 12 C C15 UO6 . . . F 3 126.037 121.248 122.4 1 157.28 ? C15 UO6 403 A 1 
HETATM 13 C C24 UO6 . . . F 3 125.321 117.085 124.599 1 157.28 ? C24 UO6 403 A 1 
HETATM 14 C C30 UO6 . . . F 3 126.431 114.729 126 1 157.28 ? C30 UO6 403 A 1 
HETATM 15 N N07 UO6 . . . F 3 129.001 117.823 124.564 1 157.28 ? N07 UO6 403 A 1 
HETATM 16 N N08 UO6 . . . F 3 127.168 119.085 123.688 1 157.28 ? N08 UO6 403 A 1 
HETATM 17 N N09 UO6 . . . F 3 127.925 119.948 123.291 1 157.28 ? N09 UO6 403 A 1 
HETATM 18 O O17 UO6 . . . F 3 126.61 125.169 119.241 1 157.28 ? O17 UO6 403 A 1 
HETATM 19 O O18 UO6 . . . F 3 125.9 126.048 121.281 1 157.28 ? O18 UO6 403 A 1 
HETATM 20 O O19 UO6 . . . F 3 124.318 124.582 120.031 1 157.28 ? O19 UO6 403 A 1 
HETATM 21 O O21 UO6 . . . F 3 130.59 120.681 121.744 1 157.28 ? O21 UO6 403 A 1 
HETATM 22 O O22 UO6 . . . F 3 130.828 123.004 121.706 1 157.28 ? O22 UO6 403 A 1 
HETATM 23 O O23 UO6 . . . F 3 130.361 121.911 123.898 1 157.28 ? O23 UO6 403 A 1 
HETATM 24 O O25 UO6 . . . F 3 124.778 117.816 125.661 1 157.28 ? O25 UO6 403 A 1 
HETATM 25 O O27 UO6 . . . F 3 122.846 119.112 126.781 1 157.28 ? O27 UO6 403 A 1 
HETATM 26 O O28 UO6 . . . F 3 122.292 117.257 125.256 1 157.28 ? O28 UO6 403 A 1 
HETATM 27 O O29 UO6 . . . F 3 123.185 119.369 124.352 1 157.28 ? O29 UO6 403 A 1 
HETATM 28 O O31 UO6 . . . F 3 126.897 113.79 126.555 1 157.28 ? O31 UO6 403 A 1 
HETATM 29 O O32 UO6 . . . F 3 129.282 114.668 126.32 1 157.28 ? O32 UO6 403 A 1 
HETATM 30 P P26 UO6 . . . F 3 123.244 118.401 125.509 1 157.28 ? P26 UO6 403 A 1 
HETATM 31 S S16 UO6 . . . F 3 125.756 124.807 120.433 1 157.28 ? S16 UO6 403 A 1 
HETATM 32 S S20 UO6 . . . F 3 130.055 121.92 122.419 1 157.28 ? S20 UO6 403 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          16 
_model_server_stats.element_count           32 
#