data_6ZUP
#
_model_server_result.job_id            vXn6v8Iy31iqFJVbNfCIOg 
_model_server_result.datetime_utc      '2024-11-29 00:24:12' 
_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          6zup 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":402}' 
#
_entry.id    6ZUP 
#
_exptl.entry_id    6ZUP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "PYRIDOXAL-5'-PHOSPHATE" 
_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          103 
_cell.angle_gamma         90 
_cell.entry_id            6ZUP 
_cell.length_a            71.39 
_cell.length_b            60.39 
_cell.length_c            81.94 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6ZUP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,M 
_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 
#
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 H 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 180 B CYS 180 1_555 A SG CYS 181 B CYS 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
disulf ? disulf2 B SG CYS 180 A CYS 180 1_555 B SG CYS 181 A CYS 181 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.517 ? 
covale ? covale1 B NZ LYS 246 A LYS 246 1_555 H C4A PLP . A PLP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.524 ? 
metalc ? metalc1 C MG MG . B MG 401 1_555 L O HOH . B HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc2 C MG MG . B MG 401 1_555 L O HOH . B HOH 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc3 C MG MG . B MG 401 1_555 L O HOH . B HOH 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? 
metalc ? metalc4 C MG MG . B MG 401 1_555 L O HOH . B HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? 
metalc ? metalc5 C MG MG . B MG 401 1_555 M O HOH . A HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc6 C MG MG . B MG 401 1_555 M O HOH . A HOH 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? 
#
_chem_comp.formula           'C8 H10 N O6 P' 
_chem_comp.formula_weight    247.142 
_chem_comp.id                PLP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "PYRIDOXAL-5'-PHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'VITAMIN B6 Phosphate' 
#
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
N1 C2 PLP doub 285 n y 
N1 C6 PLP sing 286 n y 
C2 C2A PLP sing 287 n n 
C2 C3 PLP sing 288 n y 
C2A H2A1 PLP sing 289 n n 
C2A H2A2 PLP sing 290 n n 
C2A H2A3 PLP sing 291 n n 
C3 O3 PLP sing 292 n n 
C3 C4 PLP doub 293 n y 
O3 HO3 PLP sing 294 n n 
C4 C4A PLP sing 295 n n 
C4 C5 PLP sing 296 n y 
C4A O4A PLP doub 297 n n 
C4A H4A PLP sing 298 n n 
C5 C6 PLP doub 299 n y 
C5 C5A PLP sing 300 n n 
C6 H6 PLP sing 301 n n 
C5A O4P PLP sing 302 n n 
C5A H5A1 PLP sing 303 n n 
C5A H5A2 PLP sing 304 n n 
O4P P PLP sing 305 n n 
P O1P PLP doub 306 n n 
P O2P PLP sing 307 n n 
P O3P PLP sing 308 n n 
O2P HOP2 PLP sing 309 n n 
O3P HOP3 PLP sing 310 n n 
#
_atom_sites.entry_id                     6ZUP 
_atom_sites.fract_transf_matrix[1][1]    0.014008 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003235 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016559 
_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]    0.012525 
_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 MG B 1 401 1 MG MG . 
D 3 PLP B 1 402 2 PLP PLP . 
E 4 NO3 B 1 403 3 NO3 NO3 . 
F 4 NO3 B 1 404 7 NO3 NO3 . 
G 5 HFA B 1 405 2 HFA HFA . 
H 3 PLP A 1 401 1 PLP PLP . 
I 4 NO3 A 1 402 4 NO3 NO3 . 
J 4 NO3 A 1 403 6 NO3 NO3 . 
K 5 HFA A 1 404 1 HFA HFA . 
L 6 HOH B 1 501 32 HOH HOH . 
L 6 HOH B 2 502 20 HOH HOH . 
L 6 HOH B 3 503 28 HOH HOH . 
L 6 HOH B 4 504 23 HOH HOH . 
L 6 HOH B 5 505 15 HOH HOH . 
L 6 HOH B 6 506 56 HOH HOH . 
L 6 HOH B 7 507 2 HOH HOH . 
L 6 HOH B 8 508 51 HOH HOH . 
L 6 HOH B 9 509 6 HOH HOH . 
L 6 HOH B 10 510 18 HOH HOH . 
L 6 HOH B 11 511 43 HOH HOH . 
L 6 HOH B 12 512 30 HOH HOH . 
L 6 HOH B 13 513 78 HOH HOH . 
L 6 HOH B 14 514 57 HOH HOH . 
L 6 HOH B 15 515 21 HOH HOH . 
L 6 HOH B 16 516 3 HOH HOH . 
L 6 HOH B 17 517 13 HOH HOH . 
L 6 HOH B 18 518 26 HOH HOH . 
L 6 HOH B 19 519 1 HOH HOH . 
L 6 HOH B 20 520 25 HOH HOH . 
L 6 HOH B 21 521 79 HOH HOH . 
L 6 HOH B 22 522 38 HOH HOH . 
L 6 HOH B 23 523 49 HOH HOH . 
L 6 HOH B 24 524 77 HOH HOH . 
L 6 HOH B 25 525 75 HOH HOH . 
L 6 HOH B 26 526 33 HOH HOH . 
L 6 HOH B 27 527 63 HOH HOH . 
L 6 HOH B 28 528 35 HOH HOH . 
L 6 HOH B 29 529 34 HOH HOH . 
L 6 HOH B 30 530 76 HOH HOH . 
L 6 HOH B 31 531 41 HOH HOH . 
L 6 HOH B 32 532 37 HOH HOH . 
L 6 HOH B 33 533 39 HOH HOH . 
L 6 HOH B 34 534 74 HOH HOH . 
L 6 HOH B 35 535 52 HOH HOH . 
L 6 HOH B 36 536 42 HOH HOH . 
L 6 HOH B 37 537 9 HOH HOH . 
L 6 HOH B 38 538 64 HOH HOH . 
M 6 HOH A 1 501 27 HOH HOH . 
M 6 HOH A 2 502 31 HOH HOH . 
M 6 HOH A 3 503 48 HOH HOH . 
M 6 HOH A 4 504 8 HOH HOH . 
M 6 HOH A 5 505 5 HOH HOH . 
M 6 HOH A 6 506 12 HOH HOH . 
M 6 HOH A 7 507 19 HOH HOH . 
M 6 HOH A 8 508 22 HOH HOH . 
M 6 HOH A 9 509 54 HOH HOH . 
M 6 HOH A 10 510 14 HOH HOH . 
M 6 HOH A 11 511 65 HOH HOH . 
M 6 HOH A 12 512 10 HOH HOH . 
M 6 HOH A 13 513 16 HOH HOH . 
M 6 HOH A 14 514 11 HOH HOH . 
M 6 HOH A 15 515 59 HOH HOH . 
M 6 HOH A 16 516 29 HOH HOH . 
M 6 HOH A 17 517 68 HOH HOH . 
M 6 HOH A 18 518 67 HOH HOH . 
M 6 HOH A 19 519 72 HOH HOH . 
M 6 HOH A 20 520 45 HOH HOH . 
M 6 HOH A 21 521 4 HOH HOH . 
M 6 HOH A 22 522 7 HOH HOH . 
M 6 HOH A 23 523 46 HOH HOH . 
M 6 HOH A 24 524 53 HOH HOH . 
M 6 HOH A 25 525 40 HOH HOH . 
M 6 HOH A 26 526 50 HOH HOH . 
M 6 HOH A 27 527 66 HOH HOH . 
M 6 HOH A 28 528 69 HOH HOH . 
M 6 HOH A 29 529 36 HOH HOH . 
M 6 HOH A 30 530 44 HOH HOH . 
M 6 HOH A 31 531 60 HOH HOH . 
M 6 HOH A 32 532 70 HOH HOH . 
M 6 HOH A 33 533 62 HOH HOH . 
M 6 HOH A 34 534 24 HOH HOH . 
M 6 HOH A 35 535 73 HOH HOH . 
M 6 HOH A 36 536 17 HOH HOH . 
M 6 HOH A 37 537 55 HOH HOH . 
M 6 HOH A 38 538 47 HOH HOH . 
M 6 HOH A 39 539 61 HOH HOH . 
M 6 HOH A 40 540 58 HOH HOH . 
M 6 HOH A 41 541 71 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 N1 PLP . . . D 3 42.37 5.941 26.446 0.85 92.37 ? N1 PLP 402 B 1 
HETATM 2 C C2 PLP . . . D 3 42.666 7.208 26.184 0.85 95.39 ? C2 PLP 402 B 1 
HETATM 3 C C2A PLP . . . D 3 43.579 7.976 27.112 0.85 95.63 ? C2A PLP 402 B 1 
HETATM 4 C C3 PLP . . . D 3 42.137 7.836 25.054 0.85 95.87 ? C3 PLP 402 B 1 
HETATM 5 O O3 PLP . . . D 3 42.444 9.158 24.778 0.85 95.29 ? O3 PLP 402 B 1 
HETATM 6 C C4 PLP . . . D 3 41.298 7.148 24.185 0.85 94.97 ? C4 PLP 402 B 1 
HETATM 7 C C4A PLP . . . D 3 40.779 7.907 22.995 0.85 99.64 ? C4A PLP 402 B 1 
HETATM 8 O O4A PLP . . . D 3 41.023 9.082 22.795 0.85 107.7 ? O4A PLP 402 B 1 
HETATM 9 C C5 PLP . . . D 3 40.984 5.792 24.471 0.85 86.89 ? C5 PLP 402 B 1 
HETATM 10 C C6 PLP . . . D 3 41.546 5.234 25.606 0.85 86.53 ? C6 PLP 402 B 1 
HETATM 11 C C5A PLP . . . D 3 40.085 4.929 23.601 0.85 82.55 ? C5A PLP 402 B 1 
HETATM 12 O O4P PLP . . . D 3 39.209 5.726 22.78 0.85 74.49 ? O4P PLP 402 B 1 
HETATM 13 P P PLP . . . D 3 38.768 5.054 21.373 0.85 70.82 ? P PLP 402 B 1 
HETATM 14 O O1P PLP . . . D 3 39.028 6.024 20.244 0.85 70.08 ? O1P PLP 402 B 1 
HETATM 15 O O2P PLP . . . D 3 37.294 4.691 21.44 0.85 73.83 ? O2P PLP 402 B 1 
HETATM 16 O O3P PLP . . . D 3 39.553 3.787 21.16 0.85 72.42 ? O3P PLP 402 B 1 
#
_model_server_stats.io_time_ms              24 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           345 
_model_server_stats.encode_time_ms          20 
_model_server_stats.element_count           16 
#