data_4WYA
#
_model_server_result.job_id            cBqClha85485AndTbqwifA 
_model_server_result.datetime_utc      '2024-12-27 08:00:45' 
_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          4wya 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":502}' 
#
_entry.id    4WYA 
#
_exptl.entry_id    4WYA 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              247.142 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "PYRIDOXAL-5'-PHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.29 
_cell.angle_gamma         90 
_cell.entry_id            4WYA 
_cell.length_a            62.647 
_cell.length_b            65.672 
_cell.length_c            201.336 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4WYA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,K,L 1 1 
C,D,H,I,J,M,N 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
? 2 E N N 
? 2 G N N 
? 2 H N N 
? 2 J 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
covale ? covale1 A NZ LYS 303 A LYS 283 1_555 E C4A PLP . A PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.369 ? 
covale ? covale2 B NZ LYS 303 B LYS 283 1_555 G C4A PLP . B PLP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
covale ? covale3 C NZ LYS 303 C LYS 283 1_555 H C4A PLP . C PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.22 ? 
covale ? covale4 D NZ LYS 303 D LYS 283 1_555 J C4A PLP . D PLP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? 
#
_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 283 n y 
N1 C6 PLP sing 284 n y 
C2 C2A PLP sing 285 n n 
C2 C3 PLP sing 286 n y 
C2A H2A1 PLP sing 287 n n 
C2A H2A2 PLP sing 288 n n 
C2A H2A3 PLP sing 289 n n 
C3 O3 PLP sing 290 n n 
C3 C4 PLP doub 291 n y 
O3 HO3 PLP sing 292 n n 
C4 C4A PLP sing 293 n n 
C4 C5 PLP sing 294 n y 
C4A O4A PLP doub 295 n n 
C4A H4A PLP sing 296 n n 
C5 C6 PLP doub 297 n y 
C5 C5A PLP sing 298 n n 
C6 H6 PLP sing 299 n n 
C5A O4P PLP sing 300 n n 
C5A H5A1 PLP sing 301 n n 
C5A H5A2 PLP sing 302 n n 
O4P P PLP sing 303 n n 
P O1P PLP doub 304 n n 
P O2P PLP sing 305 n n 
P O3P PLP sing 306 n n 
O2P HOP2 PLP sing 307 n n 
O3P HOP3 PLP sing 308 n n 
#
_atom_sites.entry_id                     4WYA 
_atom_sites.fract_transf_matrix[1][1]    0.015962 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000081 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015227 
_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]    0.004967 
_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
E 2 PLP A 1 501 501 PLP PLP . 
F 3 3VQ B 1 501 502 3VQ 3VQ . 
G 2 PLP B 1 502 501 PLP PLP . 
H 2 PLP C 1 501 501 PLP PLP . 
I 3 3VQ D 1 501 502 3VQ 3VQ . 
J 2 PLP D 1 502 501 PLP PLP . 
K 4 HOH A 1 601 615 HOH HOH . 
K 4 HOH A 2 602 601 HOH HOH . 
K 4 HOH A 3 603 612 HOH HOH . 
K 4 HOH A 4 604 605 HOH HOH . 
K 4 HOH A 5 605 611 HOH HOH . 
K 4 HOH A 6 606 601 HOH HOH . 
K 4 HOH A 7 607 610 HOH HOH . 
K 4 HOH A 8 608 613 HOH HOH . 
K 4 HOH A 9 609 606 HOH HOH . 
K 4 HOH A 10 610 609 HOH HOH . 
K 4 HOH A 11 611 616 HOH HOH . 
K 4 HOH A 12 612 5 HOH HOH . 
K 4 HOH A 13 613 16 HOH HOH . 
K 4 HOH A 14 614 607 HOH HOH . 
K 4 HOH A 15 615 608 HOH HOH . 
K 4 HOH A 16 616 602 HOH HOH . 
K 4 HOH A 17 617 2 HOH HOH . 
K 4 HOH A 18 618 17 HOH HOH . 
K 4 HOH A 19 619 617 HOH HOH . 
K 4 HOH A 20 620 15 HOH HOH . 
K 4 HOH A 21 621 42 HOH HOH . 
K 4 HOH A 22 622 11 HOH HOH . 
K 4 HOH A 23 623 603 HOH HOH . 
K 4 HOH A 24 624 614 HOH HOH . 
K 4 HOH A 25 625 3 HOH HOH . 
K 4 HOH A 26 626 40 HOH HOH . 
K 4 HOH A 27 627 43 HOH HOH . 
K 4 HOH A 28 628 604 HOH HOH . 
K 4 HOH A 29 629 12 HOH HOH . 
K 4 HOH A 30 630 6 HOH HOH . 
K 4 HOH A 31 631 56 HOH HOH . 
K 4 HOH A 32 632 618 HOH HOH . 
K 4 HOH A 33 633 57 HOH HOH . 
K 4 HOH A 34 634 4 HOH HOH . 
L 4 HOH B 1 601 604 HOH HOH . 
L 4 HOH B 2 602 602 HOH HOH . 
L 4 HOH B 3 603 7 HOH HOH . 
L 4 HOH B 4 604 19 HOH HOH . 
L 4 HOH B 5 605 13 HOH HOH . 
L 4 HOH B 6 606 8 HOH HOH . 
L 4 HOH B 7 607 24 HOH HOH . 
L 4 HOH B 8 608 54 HOH HOH . 
L 4 HOH B 9 609 47 HOH HOH . 
L 4 HOH B 10 610 14 HOH HOH . 
L 4 HOH B 11 611 22 HOH HOH . 
L 4 HOH B 12 612 23 HOH HOH . 
L 4 HOH B 13 613 10 HOH HOH . 
L 4 HOH B 14 614 44 HOH HOH . 
L 4 HOH B 15 615 603 HOH HOH . 
L 4 HOH B 16 616 1 HOH HOH . 
L 4 HOH B 17 617 51 HOH HOH . 
L 4 HOH B 18 618 50 HOH HOH . 
L 4 HOH B 19 619 21 HOH HOH . 
L 4 HOH B 20 620 20 HOH HOH . 
L 4 HOH B 21 621 45 HOH HOH . 
L 4 HOH B 22 622 9 HOH HOH . 
L 4 HOH B 23 623 52 HOH HOH . 
L 4 HOH B 24 624 53 HOH HOH . 
L 4 HOH B 25 625 58 HOH HOH . 
M 4 HOH C 1 601 29 HOH HOH . 
M 4 HOH C 2 602 605 HOH HOH . 
M 4 HOH C 3 603 607 HOH HOH . 
M 4 HOH C 4 604 601 HOH HOH . 
M 4 HOH C 5 605 608 HOH HOH . 
M 4 HOH C 6 606 41 HOH HOH . 
M 4 HOH C 7 607 26 HOH HOH . 
M 4 HOH C 8 608 27 HOH HOH . 
M 4 HOH C 9 609 32 HOH HOH . 
M 4 HOH C 10 610 604 HOH HOH . 
M 4 HOH C 11 611 30 HOH HOH . 
M 4 HOH C 12 612 609 HOH HOH . 
M 4 HOH C 13 613 28 HOH HOH . 
M 4 HOH C 14 614 602 HOH HOH . 
M 4 HOH C 15 615 611 HOH HOH . 
M 4 HOH C 16 616 63 HOH HOH . 
M 4 HOH C 17 617 603 HOH HOH . 
M 4 HOH C 18 618 612 HOH HOH . 
M 4 HOH C 19 619 49 HOH HOH . 
M 4 HOH C 20 620 606 HOH HOH . 
M 4 HOH C 21 621 60 HOH HOH . 
M 4 HOH C 22 622 31 HOH HOH . 
M 4 HOH C 23 623 55 HOH HOH . 
M 4 HOH C 24 624 61 HOH HOH . 
N 4 HOH D 1 601 25 HOH HOH . 
N 4 HOH D 2 602 613 HOH HOH . 
N 4 HOH D 3 603 59 HOH HOH . 
N 4 HOH D 4 604 46 HOH HOH . 
N 4 HOH D 5 605 618 HOH HOH . 
N 4 HOH D 6 606 608 HOH HOH . 
N 4 HOH D 7 607 617 HOH HOH . 
N 4 HOH D 8 608 604 HOH HOH . 
N 4 HOH D 9 609 36 HOH HOH . 
N 4 HOH D 10 610 38 HOH HOH . 
N 4 HOH D 11 611 37 HOH HOH . 
N 4 HOH D 12 612 601 HOH HOH . 
N 4 HOH D 13 613 612 HOH HOH . 
N 4 HOH D 14 614 609 HOH HOH . 
N 4 HOH D 15 615 48 HOH HOH . 
N 4 HOH D 16 616 602 HOH HOH . 
N 4 HOH D 17 617 35 HOH HOH . 
N 4 HOH D 18 618 18 HOH HOH . 
N 4 HOH D 19 619 619 HOH HOH . 
N 4 HOH D 20 620 34 HOH HOH . 
N 4 HOH D 21 621 62 HOH HOH . 
N 4 HOH D 22 622 610 HOH HOH . 
N 4 HOH D 23 623 616 HOH HOH . 
N 4 HOH D 24 624 33 HOH HOH . 
N 4 HOH D 25 625 39 HOH HOH . 
N 4 HOH D 26 626 611 HOH HOH . 
N 4 HOH D 27 627 606 HOH HOH . 
N 4 HOH D 28 628 603 HOH HOH . 
N 4 HOH D 29 629 614 HOH HOH . 
N 4 HOH D 30 630 605 HOH HOH . 
N 4 HOH D 31 631 615 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 . . . G 2 -6.642 8.994 77.375 1 37.94 ? N1 PLP 502 B 1 
HETATM 2 C C2 PLP . . . G 2 -7.163 9.893 76.497 1 39.29 ? C2 PLP 502 B 1 
HETATM 3 C C2A PLP . . . G 2 -7.773 11.185 76.97 1 36.03 ? C2A PLP 502 B 1 
HETATM 4 C C3 PLP . . . G 2 -7.128 9.6 75.044 1 35.6 ? C3 PLP 502 B 1 
HETATM 5 O O3 PLP . . . G 2 -7.627 10.47 74.139 1 27.55 ? O3 PLP 502 B 1 
HETATM 6 C C4 PLP . . . G 2 -6.531 8.328 74.587 1 34.99 ? C4 PLP 502 B 1 
HETATM 7 C C4A PLP . . . G 2 -6.493 8.059 73.105 1 36.94 ? C4A PLP 502 B 1 
HETATM 8 C C5 PLP . . . G 2 -5.991 7.428 75.64 1 37.24 ? C5 PLP 502 B 1 
HETATM 9 C C6 PLP . . . G 2 -6.089 7.831 76.98 1 34.95 ? C6 PLP 502 B 1 
HETATM 10 C C5A PLP . . . G 2 -5.367 6.088 75.305 1 34.17 ? C5A PLP 502 B 1 
HETATM 11 O O4P PLP . . . G 2 -4.291 6.235 74.404 1 34.42 ? O4P PLP 502 B 1 
HETATM 12 P P PLP . . . G 2 -3.83 5.025 73.45 1 37.54 ? P PLP 502 B 1 
HETATM 13 O O1P PLP . . . G 2 -5.028 4.807 72.559 1 30.6 ? O1P PLP 502 B 1 
HETATM 14 O O2P PLP . . . G 2 -3.466 3.897 74.384 1 32.44 ? O2P PLP 502 B 1 
HETATM 15 O O3P PLP . . . G 2 -2.627 5.628 72.752 1 37.3 ? O3P PLP 502 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    50 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           15 
#