data_6I33
#
_model_server_result.job_id            GPapZa7oVzUWhI-plQ9F7w 
_model_server_result.datetime_utc      '2025-03-05 22:01:24' 
_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          6i33 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1101}' 
#
_entry.id    6I33 
#
_exptl.entry_id    6I33 
_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    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          97.87 
_cell.angle_gamma         90 
_cell.entry_id            6I33 
_cell.length_a            85.81 
_cell.length_b            123.51 
_cell.length_c            99.51 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6I33 
_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,N,O,P 
_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
? 2 C 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 711 A LYS 754 1_555 C C4A PLP . A PLP 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 0.876 sing 
covale ? covale2 B NZ LYS 711 B LYS 754 1_555 J C4A PLP . B PLP 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.042 sing 
#
_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 273 n y 
N1 C6 PLP sing 274 n y 
C2 C2A PLP sing 275 n n 
C2 C3 PLP sing 276 n y 
C2A H2A1 PLP sing 277 n n 
C2A H2A2 PLP sing 278 n n 
C2A H2A3 PLP sing 279 n n 
C3 O3 PLP sing 280 n n 
C3 C4 PLP doub 281 n y 
O3 HO3 PLP sing 282 n n 
C4 C4A PLP sing 283 n n 
C4 C5 PLP sing 284 n y 
C4A O4A PLP doub 285 n n 
C4A H4A PLP sing 286 n n 
C5 C6 PLP doub 287 n y 
C5 C5A PLP sing 288 n n 
C6 H6 PLP sing 289 n n 
C5A O4P PLP sing 290 n n 
C5A H5A1 PLP sing 291 n n 
C5A H5A2 PLP sing 292 n n 
O4P P PLP sing 293 n n 
P O1P PLP doub 294 n n 
P O2P PLP sing 295 n n 
P O3P PLP sing 296 n n 
O2P HOP2 PLP sing 297 n n 
O3P HOP3 PLP sing 298 n n 
#
_atom_sites.entry_id                     6I33 
_atom_sites.fract_transf_matrix[1][1]    0.011654 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001611 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008097 
_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]    0.010145 
_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 PLP A 1 1101 2000 PLP PLP . 
D 3 EDO A 1 1102 3001 EDO EDO . 
E 3 EDO A 1 1103 3002 EDO EDO . 
F 3 EDO A 1 1104 3003 EDO EDO . 
G 3 EDO A 1 1105 3004 EDO EDO . 
H 3 EDO A 1 1106 3005 EDO EDO . 
I 4 BCT A 1 1107 5001 BCT BCT . 
J 2 PLP B 1 1101 2000 PLP PLP . 
K 3 EDO B 1 1102 3001 EDO EDO . 
L 3 EDO B 1 1103 3002 EDO EDO . 
M 3 EDO B 1 1104 3003 EDO EDO . 
N 3 EDO B 1 1105 3004 EDO EDO . 
O 5 HOH A 1 1201 107 HOH HOH . 
O 5 HOH A 2 1202 162 HOH HOH . 
O 5 HOH A 3 1203 5 HOH HOH . 
O 5 HOH A 4 1204 37 HOH HOH . 
O 5 HOH A 5 1205 31 HOH HOH . 
O 5 HOH A 6 1206 4 HOH HOH . 
O 5 HOH A 7 1207 163 HOH HOH . 
O 5 HOH A 8 1208 116 HOH HOH . 
O 5 HOH A 9 1209 164 HOH HOH . 
O 5 HOH A 10 1210 9 HOH HOH . 
O 5 HOH A 11 1211 75 HOH HOH . 
O 5 HOH A 12 1212 38 HOH HOH . 
O 5 HOH A 13 1213 134 HOH HOH . 
O 5 HOH A 14 1214 94 HOH HOH . 
O 5 HOH A 15 1215 104 HOH HOH . 
O 5 HOH A 16 1216 15 HOH HOH . 
O 5 HOH A 17 1217 77 HOH HOH . 
O 5 HOH A 18 1218 18 HOH HOH . 
O 5 HOH A 19 1219 59 HOH HOH . 
O 5 HOH A 20 1220 76 HOH HOH . 
O 5 HOH A 21 1221 82 HOH HOH . 
O 5 HOH A 22 1222 21 HOH HOH . 
O 5 HOH A 23 1223 85 HOH HOH . 
O 5 HOH A 24 1224 47 HOH HOH . 
O 5 HOH A 25 1225 80 HOH HOH . 
O 5 HOH A 26 1226 87 HOH HOH . 
O 5 HOH A 27 1227 92 HOH HOH . 
O 5 HOH A 28 1228 10 HOH HOH . 
O 5 HOH A 29 1229 8 HOH HOH . 
O 5 HOH A 30 1230 100 HOH HOH . 
O 5 HOH A 31 1231 137 HOH HOH . 
O 5 HOH A 32 1232 128 HOH HOH . 
O 5 HOH A 33 1233 147 HOH HOH . 
O 5 HOH A 34 1234 12 HOH HOH . 
O 5 HOH A 35 1235 129 HOH HOH . 
O 5 HOH A 36 1236 117 HOH HOH . 
O 5 HOH A 37 1237 146 HOH HOH . 
O 5 HOH A 38 1238 6 HOH HOH . 
O 5 HOH A 39 1239 39 HOH HOH . 
O 5 HOH A 40 1240 97 HOH HOH . 
O 5 HOH A 41 1241 152 HOH HOH . 
O 5 HOH A 42 1242 2 HOH HOH . 
O 5 HOH A 43 1243 95 HOH HOH . 
O 5 HOH A 44 1244 53 HOH HOH . 
O 5 HOH A 45 1245 149 HOH HOH . 
O 5 HOH A 46 1246 86 HOH HOH . 
O 5 HOH A 47 1247 66 HOH HOH . 
O 5 HOH A 48 1248 132 HOH HOH . 
O 5 HOH A 49 1249 63 HOH HOH . 
O 5 HOH A 50 1250 96 HOH HOH . 
O 5 HOH A 51 1251 1 HOH HOH . 
O 5 HOH A 52 1252 143 HOH HOH . 
O 5 HOH A 53 1253 29 HOH HOH . 
O 5 HOH A 54 1254 52 HOH HOH . 
O 5 HOH A 55 1255 33 HOH HOH . 
O 5 HOH A 56 1256 148 HOH HOH . 
O 5 HOH A 57 1257 65 HOH HOH . 
O 5 HOH A 58 1258 138 HOH HOH . 
O 5 HOH A 59 1259 20 HOH HOH . 
O 5 HOH A 60 1260 150 HOH HOH . 
O 5 HOH A 61 1261 32 HOH HOH . 
O 5 HOH A 62 1262 124 HOH HOH . 
O 5 HOH A 63 1263 114 HOH HOH . 
O 5 HOH A 64 1264 84 HOH HOH . 
O 5 HOH A 65 1265 62 HOH HOH . 
O 5 HOH A 66 1266 19 HOH HOH . 
O 5 HOH A 67 1267 36 HOH HOH . 
O 5 HOH A 68 1268 130 HOH HOH . 
O 5 HOH A 69 1269 7 HOH HOH . 
O 5 HOH A 70 1270 3 HOH HOH . 
O 5 HOH A 71 1271 30 HOH HOH . 
O 5 HOH A 72 1272 13 HOH HOH . 
O 5 HOH A 73 1273 120 HOH HOH . 
O 5 HOH A 74 1274 108 HOH HOH . 
O 5 HOH A 75 1275 46 HOH HOH . 
O 5 HOH A 76 1276 34 HOH HOH . 
O 5 HOH A 77 1277 121 HOH HOH . 
O 5 HOH A 78 1278 14 HOH HOH . 
O 5 HOH A 79 1279 54 HOH HOH . 
O 5 HOH A 80 1280 60 HOH HOH . 
O 5 HOH A 81 1281 89 HOH HOH . 
O 5 HOH A 82 1282 125 HOH HOH . 
O 5 HOH A 83 1283 110 HOH HOH . 
O 5 HOH A 84 1284 127 HOH HOH . 
O 5 HOH A 85 1285 126 HOH HOH . 
O 5 HOH A 86 1286 136 HOH HOH . 
O 5 HOH A 87 1287 22 HOH HOH . 
O 5 HOH A 88 1288 99 HOH HOH . 
O 5 HOH A 89 1289 118 HOH HOH . 
O 5 HOH A 90 1290 88 HOH HOH . 
O 5 HOH A 91 1291 142 HOH HOH . 
O 5 HOH A 92 1292 61 HOH HOH . 
O 5 HOH A 93 1293 72 HOH HOH . 
O 5 HOH A 94 1294 93 HOH HOH . 
O 5 HOH A 95 1295 68 HOH HOH . 
O 5 HOH A 96 1296 131 HOH HOH . 
O 5 HOH A 97 1297 161 HOH HOH . 
O 5 HOH A 98 1298 40 HOH HOH . 
O 5 HOH A 99 1299 78 HOH HOH . 
O 5 HOH A 100 1300 123 HOH HOH . 
O 5 HOH A 101 1301 122 HOH HOH . 
O 5 HOH A 102 1302 28 HOH HOH . 
O 5 HOH A 103 1303 16 HOH HOH . 
O 5 HOH A 104 1304 41 HOH HOH . 
O 5 HOH A 105 1305 35 HOH HOH . 
O 5 HOH A 106 1306 113 HOH HOH . 
O 5 HOH A 107 1307 91 HOH HOH . 
O 5 HOH A 108 1308 141 HOH HOH . 
O 5 HOH A 109 1309 135 HOH HOH . 
O 5 HOH A 110 1310 119 HOH HOH . 
O 5 HOH A 111 1311 17 HOH HOH . 
O 5 HOH A 112 1312 71 HOH HOH . 
O 5 HOH A 113 1313 115 HOH HOH . 
O 5 HOH A 114 1314 73 HOH HOH . 
O 5 HOH A 115 1315 145 HOH HOH . 
O 5 HOH A 116 1316 106 HOH HOH . 
O 5 HOH A 117 1317 48 HOH HOH . 
O 5 HOH A 118 1318 112 HOH HOH . 
O 5 HOH A 119 1319 144 HOH HOH . 
O 5 HOH A 120 1320 151 HOH HOH . 
O 5 HOH A 121 1321 74 HOH HOH . 
O 5 HOH A 122 1322 98 HOH HOH . 
P 5 HOH B 1 1201 79 HOH HOH . 
P 5 HOH B 2 1202 101 HOH HOH . 
P 5 HOH B 3 1203 133 HOH HOH . 
P 5 HOH B 4 1204 140 HOH HOH . 
P 5 HOH B 5 1205 139 HOH HOH . 
P 5 HOH B 6 1206 156 HOH HOH . 
P 5 HOH B 7 1207 44 HOH HOH . 
P 5 HOH B 8 1208 55 HOH HOH . 
P 5 HOH B 9 1209 155 HOH HOH . 
P 5 HOH B 10 1210 50 HOH HOH . 
P 5 HOH B 11 1211 109 HOH HOH . 
P 5 HOH B 12 1212 58 HOH HOH . 
P 5 HOH B 13 1213 23 HOH HOH . 
P 5 HOH B 14 1214 51 HOH HOH . 
P 5 HOH B 15 1215 70 HOH HOH . 
P 5 HOH B 16 1216 154 HOH HOH . 
P 5 HOH B 17 1217 64 HOH HOH . 
P 5 HOH B 18 1218 103 HOH HOH . 
P 5 HOH B 19 1219 24 HOH HOH . 
P 5 HOH B 20 1220 83 HOH HOH . 
P 5 HOH B 21 1221 43 HOH HOH . 
P 5 HOH B 22 1222 11 HOH HOH . 
P 5 HOH B 23 1223 165 HOH HOH . 
P 5 HOH B 24 1224 67 HOH HOH . 
P 5 HOH B 25 1225 81 HOH HOH . 
P 5 HOH B 26 1226 158 HOH HOH . 
P 5 HOH B 27 1227 56 HOH HOH . 
P 5 HOH B 28 1228 160 HOH HOH . 
P 5 HOH B 29 1229 157 HOH HOH . 
P 5 HOH B 30 1230 57 HOH HOH . 
P 5 HOH B 31 1231 153 HOH HOH . 
P 5 HOH B 32 1232 27 HOH HOH . 
P 5 HOH B 33 1233 25 HOH HOH . 
P 5 HOH B 34 1234 26 HOH HOH . 
P 5 HOH B 35 1235 111 HOH HOH . 
P 5 HOH B 36 1236 102 HOH HOH . 
P 5 HOH B 37 1237 69 HOH HOH . 
P 5 HOH B 38 1238 159 HOH HOH . 
P 5 HOH B 39 1239 42 HOH HOH . 
P 5 HOH B 40 1240 49 HOH HOH . 
P 5 HOH B 41 1241 105 HOH HOH . 
P 5 HOH B 42 1242 90 HOH HOH . 
P 5 HOH B 43 1243 45 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 . . . C 2 3.033 -25.83 -57.618 1 70.71 ? N1 PLP 1101 A 1 
HETATM 2 C C2 PLP . . . C 2 2.418 -25.612 -56.465 1 69.72 ? C2 PLP 1101 A 1 
HETATM 3 C C2A PLP . . . C 2 0.933 -25.741 -56.369 1 66.96 ? C2A PLP 1101 A 1 
HETATM 4 C C3 PLP . . . C 2 3.226 -25.235 -55.295 1 64.57 ? C3 PLP 1101 A 1 
HETATM 5 O O3 PLP . . . C 2 2.687 -25.001 -54.107 1 65.2 ? O3 PLP 1101 A 1 
HETATM 6 C C4 PLP . . . C 2 4.67 -25.111 -55.38 1 65.2 ? C4 PLP 1101 A 1 
HETATM 7 C C4A PLP . . . C 2 5.369 -24.742 -54.136 1 52.09 ? C4A PLP 1101 A 1 
HETATM 8 C C5 PLP . . . C 2 5.244 -25.373 -56.712 1 67.84 ? C5 PLP 1101 A 1 
HETATM 9 C C6 PLP . . . C 2 4.362 -25.713 -57.728 1 70.54 ? C6 PLP 1101 A 1 
HETATM 10 C C5A PLP . . . C 2 6.701 -25.296 -57.092 1 68.23 ? C5A PLP 1101 A 1 
HETATM 11 O O4P PLP . . . C 2 7.641 -25.553 -56.059 1 65.75 ? O4P PLP 1101 A 1 
HETATM 12 P P PLP . . . C 2 9.03 -24.85 -56.033 1 53.48 ? P PLP 1101 A 1 
HETATM 13 O O1P PLP . . . C 2 9.504 -24.76 -57.391 1 53.33 ? O1P PLP 1101 A 1 
HETATM 14 O O2P PLP . . . C 2 9.709 -25.865 -55.252 1 59.75 ? O2P PLP 1101 A 1 
HETATM 15 O O3P PLP . . . C 2 8.807 -23.568 -55.424 1 47.22 ? O3P PLP 1101 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           15 
#