data_3NL6
#
_model_server_result.job_id            6MZYT6UyWv5ak6Ej988T4Q 
_model_server_result.datetime_utc      '2024-11-15 09:44:28' 
_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          3nl6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":2006}' 
#
_entry.id    3NL6 
#
_exptl.entry_id    3NL6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              345.334 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'THIAMIN PHOSPHATE' 
_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          117.99 
_cell.angle_gamma         90 
_cell.entry_id            3NL6 
_cell.length_a            163.173 
_cell.length_b            153.528 
_cell.length_c            109.618 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3NL6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,H,I,J,K,L 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 163.173 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 E N N 
? 3 H N N 
? 3 K 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 D MG MG . A MG 541 1_555 F O1B ACP . A ACP 799 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? 
metalc ? metalc2 G MG MG . B MG 541 1_555 I O2B ACP . B ACP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.641 ? 
metalc ? metalc3 G MG MG . B MG 541 1_555 I O2G ACP . B ACP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? 
metalc ? metalc4 J MG MG . C MG 541 1_555 L O1B ACP . C ACP 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.777 ? 
#
_chem_comp.formula           'C12 H18 N4 O4 P S 1' 
_chem_comp.formula_weight    345.334 
_chem_comp.id                TPS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'THIAMIN PHOSPHATE' 
_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
CM2 C2A TPS sing 355 n n 
CM2 HM21 TPS sing 356 n n 
CM2 HM22 TPS sing 357 n n 
CM2 HM23 TPS sing 358 n n 
N3 C2 TPS doub 359 n y 
N3 C4 TPS sing 360 n y 
N3 C7A TPS sing 361 n n 
C2 S1 TPS sing 362 n y 
C2 H2 TPS sing 363 n n 
S1 C5 TPS sing 364 n y 
C5 C4 TPS doub 365 n y 
C5 C6 TPS sing 366 n n 
C4 CM4 TPS sing 367 n n 
CM4 HM41 TPS sing 368 n n 
CM4 HM42 TPS sing 369 n n 
CM4 HM43 TPS sing 370 n n 
C6 C7 TPS sing 371 n n 
C6 H61 TPS sing 372 n n 
C6 H62 TPS sing 373 n n 
C7 O7 TPS sing 374 n n 
C7 H71 TPS sing 375 n n 
C7 H72 TPS sing 376 n n 
O7 P1 TPS sing 377 n n 
N1A C2A TPS doub 378 n y 
N1A C6A TPS sing 379 n y 
C2A N3A TPS sing 380 n y 
N3A C4A TPS doub 381 n y 
C4A N4A TPS sing 382 n n 
C4A C5A TPS sing 383 n y 
N4A H41N TPS sing 384 n n 
N4A H42N TPS sing 385 n n 
C5A C6A TPS doub 386 n y 
C5A C7A TPS sing 387 n n 
C6A H6A TPS sing 388 n n 
C7A H7A1 TPS sing 389 n n 
C7A H7A2 TPS sing 390 n n 
P1 O1 TPS doub 391 n n 
P1 O2 TPS sing 392 n n 
P1 O3 TPS sing 393 n n 
O2 HO2 TPS sing 394 n n 
O3 HO3 TPS sing 395 n n 
#
_atom_sites.entry_id                     3NL6 
_atom_sites.fract_transf_matrix[1][1]    0.006128 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003258 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006513 
_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]    0.010331 
_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 MG A 1 541 1 MG MG . 
E 3 TPS A 1 2001 2001 TPS TPS . 
F 4 ACP A 1 799 799 ACP ACP . 
G 2 MG B 1 541 3 MG MG . 
H 3 TPS B 1 2006 2006 TPS TPS . 
I 4 ACP B 1 999 999 ACP ACP . 
J 2 MG C 1 541 2 MG MG . 
K 3 TPS C 1 2002 2002 TPS TPS . 
L 4 ACP C 1 899 899 ACP ACP . 
#
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 CM2 TPS . . . H 3 45.353 -3.762 17.064 1 60.96 ? CM2 TPS 2006 B 1 
HETATM 2 N N3 TPS . . . H 3 50.291 -3.008 12.997 1 76.26 ? N3 TPS 2006 B 1 
HETATM 3 C C2 TPS . . . H 3 49.95 -3.016 11.49 1 81.92 ? C2 TPS 2006 B 1 
HETATM 4 S S1 TPS . . . H 3 50.072 -1.449 10.935 1 66.59 ? S1 TPS 2006 B 1 
HETATM 5 C C5 TPS . . . H 3 50.711 -0.573 12.297 1 57.27 ? C5 TPS 2006 B 1 
HETATM 6 C C4 TPS . . . H 3 50.792 -1.552 13.466 1 61.62 ? C4 TPS 2006 B 1 
HETATM 7 C CM4 TPS . . . H 3 51.232 -1.19 14.885 1 74.78 ? CM4 TPS 2006 B 1 
HETATM 8 C C6 TPS . . . H 3 51.252 0.857 12.275 1 64.91 ? C6 TPS 2006 B 1 
HETATM 9 C C7 TPS . . . H 3 50.285 1.967 11.873 1 53.18 ? C7 TPS 2006 B 1 
HETATM 10 O O7 TPS . . . H 3 50.588 3.271 12.267 1 59.46 ? O7 TPS 2006 B 1 
HETATM 11 N N1A TPS . . . H 3 46.56 -4.204 14.85 1 67.46 ? N1A TPS 2006 B 1 
HETATM 12 C C2A TPS . . . H 3 46.636 -3.862 16.228 1 64.07 ? C2A TPS 2006 B 1 
HETATM 13 N N3A TPS . . . H 3 47.874 -3.616 16.825 1 51.84 ? N3A TPS 2006 B 1 
HETATM 14 C C4A TPS . . . H 3 48.985 -3.702 16.1 1 48.14 ? C4A TPS 2006 B 1 
HETATM 15 N N4A TPS . . . H 3 50.283 -3.448 16.71 1 76.48 ? N4A TPS 2006 B 1 
HETATM 16 C C5A TPS . . . H 3 48.897 -4.054 14.686 1 45.29 ? C5A TPS 2006 B 1 
HETATM 17 C C6A TPS . . . H 3 47.707 -4.293 14.102 1 66.73 ? C6A TPS 2006 B 1 
HETATM 18 C C7A TPS . . . H 3 50.171 -4.151 13.864 1 63.2 ? C7A TPS 2006 B 1 
HETATM 19 P P1 TPS . . . H 3 49.887 4.536 11.478 1 61.98 ? P1 TPS 2006 B 1 
HETATM 20 O O1 TPS . . . H 3 50.042 4.358 10.037 1 48.85 ? O1 TPS 2006 B 1 
HETATM 21 O O2 TPS . . . H 3 50.613 5.942 11.938 1 79 ? O2 TPS 2006 B 1 
HETATM 22 O O3 TPS . . . H 3 48.287 4.596 11.853 1 60.16 ? O3 TPS 2006 B 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           22 
#