data_8VKC
#
_model_server_result.job_id            3Cxd06Aky0VVOIkyr7AWaA 
_model_server_result.datetime_utc      '2024-11-30 20:41:22' 
_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          8vkc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    8VKC 
#
_exptl.entry_id    8VKC 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              139.109 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            P-NITROPHENOL 
_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            8VKC 
_cell.length_a            58.824 
_cell.length_b            67.936 
_cell.length_c            68.276 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VKC 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,K 1 1 
B,F,G,H,I,J,L 2 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
? 3 D N N 
? 3 G 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 A NE2 HIS 89 AAA HIS 89 1_555 C FE HEM . AAA HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc2 B NE2 HIS 89 BBB HIS 89 1_555 F FE HEM . BBB HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? 
#
_chem_comp.formula           'C6 H5 N O3' 
_chem_comp.formula_weight    139.109 
_chem_comp.id                NPO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              P-NITROPHENOL 
_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
C1 C2 NPO doub 332 n y 
C1 C6 NPO sing 333 n y 
C1 N1 NPO sing 334 n n 
C2 C3 NPO sing 335 n y 
C2 H2 NPO sing 336 n n 
C3 C4 NPO doub 337 n y 
C3 H3 NPO sing 338 n n 
C4 C5 NPO sing 339 n y 
C4 OH NPO sing 340 n n 
C5 C6 NPO doub 341 n y 
C5 H5 NPO sing 342 n n 
C6 H6 NPO sing 343 n n 
OH HO NPO sing 344 n n 
N1 O2 NPO sing 345 n n 
N1 O3 NPO doub 346 n n 
#
_atom_sites.entry_id                     8VKC 
_atom_sites.fract_transf_matrix[1][1]    0.017 
_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]    0.01472 
_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]    0.014646 
_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 HEM AAA 1 201 139 HEM HEM . 
D 3 NPO AAA 1 202 140 NPO NPO . 
E 4 GOL AAA 1 203 141 GOL GOL . 
F 2 HEM BBB 1 201 139 HEM HEM . 
G 3 NPO BBB 1 202 140 NPO NPO . 
H 5 SO4 BBB 1 203 1 SO4 SO4 . 
I 5 SO4 BBB 1 204 2 SO4 SO4 . 
J 5 SO4 BBB 1 205 3 SO4 SO4 . 
K 6 HOH AAA 1 301 63 HOH HOH . 
K 6 HOH AAA 2 302 43 HOH HOH . 
K 6 HOH AAA 3 303 74 HOH HOH . 
K 6 HOH AAA 4 304 27 HOH HOH . 
K 6 HOH AAA 5 305 67 HOH HOH . 
K 6 HOH AAA 6 306 13 HOH HOH . 
K 6 HOH AAA 7 307 100 HOH HOH . 
K 6 HOH AAA 8 308 64 HOH HOH . 
K 6 HOH AAA 9 309 78 HOH HOH . 
K 6 HOH AAA 10 310 72 HOH HOH . 
K 6 HOH AAA 11 311 23 HOH HOH . 
K 6 HOH AAA 12 312 11 HOH HOH . 
K 6 HOH AAA 13 313 30 HOH HOH . 
K 6 HOH AAA 14 314 73 HOH HOH . 
K 6 HOH AAA 15 315 25 HOH HOH . 
K 6 HOH AAA 16 316 40 HOH HOH . 
K 6 HOH AAA 17 317 48 HOH HOH . 
K 6 HOH AAA 18 318 99 HOH HOH . 
K 6 HOH AAA 19 319 79 HOH HOH . 
K 6 HOH AAA 20 320 65 HOH HOH . 
K 6 HOH AAA 21 321 39 HOH HOH . 
K 6 HOH AAA 22 322 34 HOH HOH . 
K 6 HOH AAA 23 323 80 HOH HOH . 
K 6 HOH AAA 24 324 68 HOH HOH . 
K 6 HOH AAA 25 325 66 HOH HOH . 
K 6 HOH AAA 26 326 102 HOH HOH . 
K 6 HOH AAA 27 327 82 HOH HOH . 
K 6 HOH AAA 28 328 17 HOH HOH . 
K 6 HOH AAA 29 329 32 HOH HOH . 
K 6 HOH AAA 30 330 24 HOH HOH . 
K 6 HOH AAA 31 331 76 HOH HOH . 
K 6 HOH AAA 32 332 56 HOH HOH . 
K 6 HOH AAA 33 333 101 HOH HOH . 
K 6 HOH AAA 34 334 55 HOH HOH . 
K 6 HOH AAA 35 335 69 HOH HOH . 
K 6 HOH AAA 36 336 37 HOH HOH . 
K 6 HOH AAA 37 337 61 HOH HOH . 
K 6 HOH AAA 38 338 77 HOH HOH . 
K 6 HOH AAA 39 339 19 HOH HOH . 
K 6 HOH AAA 40 340 75 HOH HOH . 
K 6 HOH AAA 41 341 81 HOH HOH . 
K 6 HOH AAA 42 342 70 HOH HOH . 
K 6 HOH AAA 43 343 58 HOH HOH . 
K 6 HOH AAA 44 344 44 HOH HOH . 
K 6 HOH AAA 45 345 3 HOH HOH . 
K 6 HOH AAA 46 346 46 HOH HOH . 
K 6 HOH AAA 47 347 62 HOH HOH . 
K 6 HOH AAA 48 348 71 HOH HOH . 
L 6 HOH BBB 1 301 47 HOH HOH . 
L 6 HOH BBB 2 302 105 HOH HOH . 
L 6 HOH BBB 3 303 98 HOH HOH . 
L 6 HOH BBB 4 304 88 HOH HOH . 
L 6 HOH BBB 5 305 22 HOH HOH . 
L 6 HOH BBB 6 306 53 HOH HOH . 
L 6 HOH BBB 7 307 6 HOH HOH . 
L 6 HOH BBB 8 308 16 HOH HOH . 
L 6 HOH BBB 9 309 86 HOH HOH . 
L 6 HOH BBB 10 310 90 HOH HOH . 
L 6 HOH BBB 11 311 14 HOH HOH . 
L 6 HOH BBB 12 312 36 HOH HOH . 
L 6 HOH BBB 13 313 92 HOH HOH . 
L 6 HOH BBB 14 314 87 HOH HOH . 
L 6 HOH BBB 15 315 91 HOH HOH . 
L 6 HOH BBB 16 316 4 HOH HOH . 
L 6 HOH BBB 17 317 7 HOH HOH . 
L 6 HOH BBB 18 318 9 HOH HOH . 
L 6 HOH BBB 19 319 52 HOH HOH . 
L 6 HOH BBB 20 320 50 HOH HOH . 
L 6 HOH BBB 21 321 18 HOH HOH . 
L 6 HOH BBB 22 322 42 HOH HOH . 
L 6 HOH BBB 23 323 8 HOH HOH . 
L 6 HOH BBB 24 324 10 HOH HOH . 
L 6 HOH BBB 25 325 49 HOH HOH . 
L 6 HOH BBB 26 326 103 HOH HOH . 
L 6 HOH BBB 27 327 106 HOH HOH . 
L 6 HOH BBB 28 328 93 HOH HOH . 
L 6 HOH BBB 29 329 94 HOH HOH . 
L 6 HOH BBB 30 330 28 HOH HOH . 
L 6 HOH BBB 31 331 54 HOH HOH . 
L 6 HOH BBB 32 332 38 HOH HOH . 
L 6 HOH BBB 33 333 95 HOH HOH . 
L 6 HOH BBB 34 334 29 HOH HOH . 
L 6 HOH BBB 35 335 45 HOH HOH . 
L 6 HOH BBB 36 336 84 HOH HOH . 
L 6 HOH BBB 37 337 15 HOH HOH . 
L 6 HOH BBB 38 338 96 HOH HOH . 
L 6 HOH BBB 39 339 12 HOH HOH . 
L 6 HOH BBB 40 340 41 HOH HOH . 
L 6 HOH BBB 41 341 33 HOH HOH . 
L 6 HOH BBB 42 342 60 HOH HOH . 
L 6 HOH BBB 43 343 31 HOH HOH . 
L 6 HOH BBB 44 344 35 HOH HOH . 
L 6 HOH BBB 45 345 26 HOH HOH . 
L 6 HOH BBB 46 346 5 HOH HOH . 
L 6 HOH BBB 47 347 97 HOH HOH . 
L 6 HOH BBB 48 348 104 HOH HOH . 
L 6 HOH BBB 49 349 83 HOH HOH . 
L 6 HOH BBB 50 350 21 HOH HOH . 
L 6 HOH BBB 51 351 20 HOH HOH . 
L 6 HOH BBB 52 352 107 HOH HOH . 
L 6 HOH BBB 53 353 85 HOH HOH . 
L 6 HOH BBB 54 354 89 HOH HOH . 
L 6 HOH BBB 55 355 51 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 C1 NPO . . . D 3 7.473 -1.319 15.997 0.6 31.62 0 C1 NPO 202 AAA 1 
HETATM 2 C C2 NPO . . . D 3 7.215 -2.368 15.124 0.6 31.96 0 C2 NPO 202 AAA 1 
HETATM 3 C C3 NPO . . . D 3 7.926 -3.543 15.281 0.6 36.56 0 C3 NPO 202 AAA 1 
HETATM 4 C C4 NPO . . . D 3 8.877 -3.663 16.285 0.6 31.83 0 C4 NPO 202 AAA 1 
HETATM 5 C C5 NPO . . . D 3 9.118 -2.606 17.144 0.6 34.74 0 C5 NPO 202 AAA 1 
HETATM 6 C C6 NPO . . . D 3 8.424 -1.424 17.006 0.6 35.45 0 C6 NPO 202 AAA 1 
HETATM 7 O OH NPO . . . D 3 9.599 -4.802 16.443 0.6 32.92 0 OH NPO 202 AAA 1 
HETATM 8 N N1 NPO . . . D 3 6.718 -0.095 15.86 0.6 34.05 0 N1 NPO 202 AAA 1 
HETATM 9 O O2 NPO . . . D 3 7.1 0.906 16.448 0.6 32.92 0 O2 NPO 202 AAA 1 
HETATM 10 O O3 NPO . . . D 3 5.717 -0.129 15.166 0.6 42.92 0 O3 NPO 202 AAA 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           10 
#