data_1J0A
#
_model_server_result.job_id            gcTTCQvN3xGWEOdkMmjVZA 
_model_server_result.datetime_utc      '2024-12-27 05:37:40' 
_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          1j0a 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":501}' 
#
_entry.id    1J0A 
#
_exptl.entry_id    1J0A 
_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    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         120 
_cell.entry_id            1J0A 
_cell.length_a            122.34 
_cell.length_b            122.34 
_cell.length_c            115.031 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1J0A 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 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
? dimeric 2 author_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA hexameric 6 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,D,E,F,K 1 1,2 
B,C,G,H,I,J,L,M 2 1 
A,D,E,F,K 3 3,4 
B,C,G,H,I,J,L,M 3 1,5 
#
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' 5_675 x-y+1,-y+2,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 211.899096 38.343667 
3 'crystal symmetry operation' 3_565 -x+y,-x+1,z+1/3 -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -61.17 105.949548 38.343667 
4 'crystal symmetry operation' 6_655 -x+1,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 122.34 0 76.687333 
5 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 115.031 
#
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 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 54 A LYS 54 1_555 E C4A PLP . A PLP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? 
covale ? covale2 B NZ LYS 54 B LYS 54 1_555 H C4A PLP . B PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? 
covale ? covale3 C NZ LYS 54 C LYS 54 1_555 J C4A PLP . C PLP 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
#
_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 258 n y 
N1 C6 PLP sing 259 n y 
C2 C2A PLP sing 260 n n 
C2 C3 PLP sing 261 n y 
C2A H2A1 PLP sing 262 n n 
C2A H2A2 PLP sing 263 n n 
C2A H2A3 PLP sing 264 n n 
C3 O3 PLP sing 265 n n 
C3 C4 PLP doub 266 n y 
O3 HO3 PLP sing 267 n n 
C4 C4A PLP sing 268 n n 
C4 C5 PLP sing 269 n y 
C4A O4A PLP doub 270 n n 
C4A H4A PLP sing 271 n n 
C5 C6 PLP doub 272 n y 
C5 C5A PLP sing 273 n n 
C6 H6 PLP sing 274 n n 
C5A O4P PLP sing 275 n n 
C5A H5A1 PLP sing 276 n n 
C5A H5A2 PLP sing 277 n n 
O4P P PLP sing 278 n n 
P O1P PLP doub 279 n n 
P O2P PLP sing 280 n n 
P O3P PLP sing 281 n n 
O2P HOP2 PLP sing 282 n n 
O3P HOP3 PLP sing 283 n n 
#
_atom_sites.entry_id                     1J0A 
_atom_sites.fract_transf_matrix[1][1]    0.008174 
_atom_sites.fract_transf_matrix[1][2]    0.004719 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009438 
_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]    0.008693 
_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 SO4 A 1 701 701 SO4 SO4 . 
E 3 PLP A 1 401 401 PLP PLP . 
F 4 IPA A 1 1747 1747 IPA IOH . 
G 2 SO4 B 1 702 702 SO4 SO4 . 
H 3 PLP B 1 501 501 PLP PLP . 
I 2 SO4 C 1 703 703 SO4 SO4 . 
J 3 PLP C 1 601 601 PLP PLP . 
K 5 HOH A 1 1748 2 HOH HOH . 
K 5 HOH A 2 1749 3 HOH HOH . 
K 5 HOH A 3 1750 7 HOH HOH . 
K 5 HOH A 4 1751 9 HOH HOH . 
K 5 HOH A 5 1752 15 HOH HOH . 
K 5 HOH A 6 1753 16 HOH HOH . 
K 5 HOH A 7 1754 17 HOH HOH . 
K 5 HOH A 8 1755 21 HOH HOH . 
K 5 HOH A 9 1756 26 HOH HOH . 
K 5 HOH A 10 1757 27 HOH HOH . 
K 5 HOH A 11 1758 29 HOH HOH . 
K 5 HOH A 12 1759 30 HOH HOH . 
K 5 HOH A 13 1760 32 HOH HOH . 
K 5 HOH A 14 1761 35 HOH HOH . 
K 5 HOH A 15 1762 39 HOH HOH . 
K 5 HOH A 16 1763 40 HOH HOH . 
K 5 HOH A 17 1764 45 HOH HOH . 
K 5 HOH A 18 1765 46 HOH HOH . 
K 5 HOH A 19 1766 50 HOH HOH . 
K 5 HOH A 20 1767 51 HOH HOH . 
K 5 HOH A 21 1768 56 HOH HOH . 
K 5 HOH A 22 1769 57 HOH HOH . 
K 5 HOH A 23 1770 62 HOH HOH . 
K 5 HOH A 24 1771 69 HOH HOH . 
K 5 HOH A 25 1772 78 HOH HOH . 
K 5 HOH A 26 1773 81 HOH HOH . 
K 5 HOH A 27 1774 83 HOH HOH . 
K 5 HOH A 28 1775 85 HOH HOH . 
K 5 HOH A 29 1776 86 HOH HOH . 
K 5 HOH A 30 1777 87 HOH HOH . 
K 5 HOH A 31 1778 88 HOH HOH . 
K 5 HOH A 32 1779 89 HOH HOH . 
K 5 HOH A 33 1780 90 HOH HOH . 
K 5 HOH A 34 1781 91 HOH HOH . 
K 5 HOH A 35 1782 92 HOH HOH . 
K 5 HOH A 36 1783 93 HOH HOH . 
K 5 HOH A 37 1784 94 HOH HOH . 
L 5 HOH B 1 703 10 HOH HOH . 
L 5 HOH B 2 704 11 HOH HOH . 
L 5 HOH B 3 705 13 HOH HOH . 
L 5 HOH B 4 706 18 HOH HOH . 
L 5 HOH B 5 707 20 HOH HOH . 
L 5 HOH B 6 708 24 HOH HOH . 
L 5 HOH B 7 709 25 HOH HOH . 
L 5 HOH B 8 710 28 HOH HOH . 
L 5 HOH B 9 711 31 HOH HOH . 
L 5 HOH B 10 712 33 HOH HOH . 
L 5 HOH B 11 713 34 HOH HOH . 
L 5 HOH B 12 714 37 HOH HOH . 
L 5 HOH B 13 715 38 HOH HOH . 
L 5 HOH B 14 716 42 HOH HOH . 
L 5 HOH B 15 717 47 HOH HOH . 
L 5 HOH B 16 718 53 HOH HOH . 
L 5 HOH B 17 719 59 HOH HOH . 
L 5 HOH B 18 720 60 HOH HOH . 
L 5 HOH B 19 721 63 HOH HOH . 
L 5 HOH B 20 722 66 HOH HOH . 
L 5 HOH B 21 723 67 HOH HOH . 
L 5 HOH B 22 724 68 HOH HOH . 
L 5 HOH B 23 725 70 HOH HOH . 
L 5 HOH B 24 726 71 HOH HOH . 
L 5 HOH B 25 727 74 HOH HOH . 
L 5 HOH B 26 728 75 HOH HOH . 
L 5 HOH B 27 729 76 HOH HOH . 
L 5 HOH B 28 730 82 HOH HOH . 
M 5 HOH C 1 704 1 HOH HOH . 
M 5 HOH C 2 705 4 HOH HOH . 
M 5 HOH C 3 706 5 HOH HOH . 
M 5 HOH C 4 707 6 HOH HOH . 
M 5 HOH C 5 708 8 HOH HOH . 
M 5 HOH C 6 709 12 HOH HOH . 
M 5 HOH C 7 710 14 HOH HOH . 
M 5 HOH C 8 711 19 HOH HOH . 
M 5 HOH C 9 712 22 HOH HOH . 
M 5 HOH C 10 713 23 HOH HOH . 
M 5 HOH C 11 714 36 HOH HOH . 
M 5 HOH C 12 715 41 HOH HOH . 
M 5 HOH C 13 716 43 HOH HOH . 
M 5 HOH C 14 717 44 HOH HOH . 
M 5 HOH C 15 718 48 HOH HOH . 
M 5 HOH C 16 719 49 HOH HOH . 
M 5 HOH C 17 720 52 HOH HOH . 
M 5 HOH C 18 721 54 HOH HOH . 
M 5 HOH C 19 722 55 HOH HOH . 
M 5 HOH C 20 723 58 HOH HOH . 
M 5 HOH C 21 724 61 HOH HOH . 
M 5 HOH C 22 725 64 HOH HOH . 
M 5 HOH C 23 726 65 HOH HOH . 
M 5 HOH C 24 727 72 HOH HOH . 
M 5 HOH C 25 728 73 HOH HOH . 
M 5 HOH C 26 729 77 HOH HOH . 
M 5 HOH C 27 730 79 HOH HOH . 
M 5 HOH C 28 731 80 HOH HOH . 
M 5 HOH C 29 732 84 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 . . . H 3 48.569 46.797 41.048 1 38.19 ? N1 PLP 501 B 1 
HETATM 2 C C2 PLP . . . H 3 47.918 47.704 40.207 1 37.95 ? C2 PLP 501 B 1 
HETATM 3 C C2A PLP . . . H 3 46.965 47.193 39.124 1 37.5 ? C2A PLP 501 B 1 
HETATM 4 C C3 PLP . . . H 3 48.152 49.058 40.37 1 43.73 ? C3 PLP 501 B 1 
HETATM 5 O O3 PLP . . . H 3 47.526 49.974 39.567 1 47.08 ? O3 PLP 501 B 1 
HETATM 6 C C4 PLP . . . H 3 49.051 49.491 41.372 1 41.54 ? C4 PLP 501 B 1 
HETATM 7 C C4A PLP . . . H 3 49.278 51.007 41.493 1 39.7 ? C4A PLP 501 B 1 
HETATM 8 C C5 PLP . . . H 3 49.713 48.527 42.22 1 40.41 ? C5 PLP 501 B 1 
HETATM 9 C C6 PLP . . . H 3 49.453 47.188 42.043 1 38.84 ? C6 PLP 501 B 1 
HETATM 10 C C5A PLP . . . H 3 50.703 48.933 43.296 1 40.45 ? C5A PLP 501 B 1 
HETATM 11 O O4P PLP . . . H 3 50.309 49.436 44.534 1 41.34 ? O4P PLP 501 B 1 
HETATM 12 P P PLP . . . H 3 51.387 49.945 45.549 1 44.52 ? P PLP 501 B 1 
HETATM 13 O O1P PLP . . . H 3 52.303 48.816 45.814 1 46.06 ? O1P PLP 501 B 1 
HETATM 14 O O2P PLP . . . H 3 50.495 50.404 46.8 1 37.53 ? O2P PLP 501 B 1 
HETATM 15 O O3P PLP . . . H 3 51.978 51.159 44.945 1 42.41 ? O3P PLP 501 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           15 
#