data_8VTK
#
_model_server_result.job_id            NRFSWdVcxwkIgz67oDjIeQ 
_model_server_result.datetime_utc      '2025-08-02 10:44:40' 
_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          8vtk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":302}' 
#
_entry.id    8VTK 
#
_exptl.entry_id    8VTK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              889.215 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'BACTERIOPHEOPHYTIN A' 
_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          90 
_cell.angle_gamma         120 
_cell.entry_id            8VTK 
_cell.length_a            140.95 
_cell.length_b            140.95 
_cell.length_c            186.72 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VTK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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,Q,R,S 
_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
? 5 E N N 
? 5 G 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 C C LEU 208 M LEU 209 1_555 C N 2L5 209 M 2L5 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? 
covale ? covale2 C C 2L5 209 M 2L5 210 1_555 C N GLY 210 M GLY 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? 
#
_chem_comp.formula           'C55 H76 N4 O6' 
_chem_comp.formula_weight    889.215 
_chem_comp.id                BPH 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'BACTERIOPHEOPHYTIN A' 
_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
O1D CGD BPH doub 241 n n 
CGD O2D BPH sing 242 n n 
CGD CBD BPH sing 243 n n 
O2D CED BPH sing 244 n n 
CBD CHA BPH sing 245 n n 
CBD CAD BPH sing 246 n n 
CHA C4D BPH doub 247 n y 
CHA C1A BPH sing 248 n y 
C4D C3D BPH sing 249 n y 
C4D ND BPH sing 250 n y 
C3D CAD BPH sing 251 n n 
C3D C2D BPH doub 252 n y 
CAD OBD BPH doub 253 n n 
C2D CMD BPH sing 254 n n 
C2D C1D BPH sing 255 n y 
C1D ND BPH sing 256 n y 
C1D CHD BPH doub 257 n y 
CHD C4C BPH sing 258 n y 
C4C C3C BPH sing 259 n n 
C4C NC BPH doub 260 n y 
C3C CAC BPH sing 261 n n 
C3C C2C BPH sing 262 n n 
CAC CBC BPH sing 263 n n 
C2C CMC BPH sing 264 n n 
C2C C1C BPH sing 265 n n 
C1C NC BPH sing 266 n y 
C1C CHC BPH doub 267 n y 
CHC C4B BPH sing 268 n y 
C4B C3B BPH doub 269 n y 
C4B NB BPH sing 270 n y 
C3B CAB BPH sing 271 n n 
C3B C2B BPH sing 272 n y 
CAB CBB BPH sing 273 n n 
CAB OBB BPH doub 274 n n 
C2B CMB BPH sing 275 n n 
C2B C1B BPH doub 276 n y 
C1B NB BPH sing 277 n y 
C1B CHB BPH sing 278 n y 
CHB C4A BPH doub 279 n y 
C4A C3A BPH sing 280 n n 
C4A NA BPH sing 281 n y 
C3A CMA BPH sing 282 n n 
C3A C2A BPH sing 283 n n 
C2A C1A BPH sing 284 n n 
C2A CAA BPH sing 285 n n 
C1A NA BPH doub 286 n y 
CAA CBA BPH sing 287 n n 
CBA CGA BPH sing 288 n n 
CGA O1A BPH doub 289 n n 
CGA O2A BPH sing 290 n n 
O2A C1 BPH sing 291 n n 
C1 C2 BPH sing 292 n n 
C2 C3 BPH doub 293 e n 
C3 C4 BPH sing 294 n n 
C3 C5 BPH sing 295 n n 
C5 C6 BPH sing 296 n n 
C6 C7 BPH sing 297 n n 
C7 C8 BPH sing 298 n n 
C8 C9 BPH sing 299 n n 
C8 C10 BPH sing 300 n n 
C10 C11 BPH sing 301 n n 
C11 C12 BPH sing 302 n n 
C12 C13 BPH sing 303 n n 
C13 C14 BPH sing 304 n n 
C13 C15 BPH sing 305 n n 
C15 C16 BPH sing 306 n n 
C16 C17 BPH sing 307 n n 
C17 C18 BPH sing 308 n n 
C18 C19 BPH sing 309 n n 
C18 C20 BPH sing 310 n n 
CED HED1 BPH sing 311 n n 
CED HED2 BPH sing 312 n n 
CED HED3 BPH sing 313 n n 
CBD HBD BPH sing 314 n n 
CMD HMD1 BPH sing 315 n n 
CMD HMD2 BPH sing 316 n n 
CMD HMD3 BPH sing 317 n n 
ND HD BPH sing 318 n n 
CHD HHD BPH sing 319 n n 
C3C H3C BPH sing 320 n n 
CAC HAC1 BPH sing 321 n n 
CAC HAC2 BPH sing 322 n n 
CBC HBC1 BPH sing 323 n n 
CBC HBC2 BPH sing 324 n n 
CBC HBC3 BPH sing 325 n n 
C2C H2C BPH sing 326 n n 
CMC HMC1 BPH sing 327 n n 
CMC HMC2 BPH sing 328 n n 
CMC HMC3 BPH sing 329 n n 
CHC HHC BPH sing 330 n n 
CBB HBB1 BPH sing 331 n n 
CBB HBB2 BPH sing 332 n n 
CBB HBB3 BPH sing 333 n n 
CMB HMB1 BPH sing 334 n n 
CMB HMB2 BPH sing 335 n n 
CMB HMB3 BPH sing 336 n n 
NB HB BPH sing 337 n n 
CHB HHB BPH sing 338 n n 
C3A H3A BPH sing 339 n n 
CMA HMA1 BPH sing 340 n n 
CMA HMA2 BPH sing 341 n n 
CMA HMA3 BPH sing 342 n n 
C2A H2A BPH sing 343 n n 
CAA HAA1 BPH sing 344 n n 
CAA HAA2 BPH sing 345 n n 
CBA HBA1 BPH sing 346 n n 
CBA HBA2 BPH sing 347 n n 
C1 H1C1 BPH sing 348 n n 
C1 H1C2 BPH sing 349 n n 
C2 H2 BPH sing 350 n n 
C4 H4C1 BPH sing 351 n n 
C4 H4C2 BPH sing 352 n n 
C4 H4C3 BPH sing 353 n n 
C5 H5C1 BPH sing 354 n n 
C5 H5C2 BPH sing 355 n n 
C6 H6C1 BPH sing 356 n n 
C6 H6C2 BPH sing 357 n n 
C7 H7C1 BPH sing 358 n n 
C7 H7C2 BPH sing 359 n n 
C8 H8 BPH sing 360 n n 
C9 H9C1 BPH sing 361 n n 
C9 H9C2 BPH sing 362 n n 
C9 H9C3 BPH sing 363 n n 
C10 H101 BPH sing 364 n n 
C10 H102 BPH sing 365 n n 
C11 H111 BPH sing 366 n n 
C11 H112 BPH sing 367 n n 
C12 H121 BPH sing 368 n n 
C12 H122 BPH sing 369 n n 
C13 H13 BPH sing 370 n n 
C14 H141 BPH sing 371 n n 
C14 H142 BPH sing 372 n n 
C14 H143 BPH sing 373 n n 
C15 H151 BPH sing 374 n n 
C15 H152 BPH sing 375 n n 
C16 H161 BPH sing 376 n n 
C16 H162 BPH sing 377 n n 
C17 H171 BPH sing 378 n n 
C17 H172 BPH sing 379 n n 
C18 H18 BPH sing 380 n n 
C19 H191 BPH sing 381 n n 
C19 H192 BPH sing 382 n n 
C19 H193 BPH sing 383 n n 
C20 H201 BPH sing 384 n n 
C20 H202 BPH sing 385 n n 
C20 H203 BPH sing 386 n n 
#
_atom_sites.entry_id                     8VTK 
_atom_sites.fract_transf_matrix[1][1]    0.007095 
_atom_sites.fract_transf_matrix[1][2]    0.004096 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008192 
_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]    0.005356 
_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 4 FE L 1 301 406 FE FE . 
E 5 BPH L 1 302 407 BPH BPH . 
F 6 BCL L 1 303 301 BCL BCL . 
G 5 BPH L 1 304 302 BPH BPH . 
H 7 U10 L 1 305 303 U10 U10 . 
I 6 BCL L 1 306 304 BCL BCL . 
J 8 CL L 1 307 306 CL CL . 
K 6 BCL M 1 401 401 BCL BCL . 
L 9 LDA M 1 402 403 LDA LDA . 
M 9 LDA M 1 403 405 LDA LDA . 
N 10 SPO M 1 404 409 SPO SPO . 
O 11 CDL M 1 405 410 CDL CDL . 
P 6 BCL M 1 406 305 BCL BCL . 
Q 12 HOH H 1 301 3 HOH HOH . 
Q 12 HOH H 2 302 7 HOH HOH . 
Q 12 HOH H 3 303 2 HOH HOH . 
Q 12 HOH H 4 304 12 HOH HOH . 
Q 12 HOH H 5 305 9 HOH HOH . 
R 12 HOH L 1 401 15 HOH HOH . 
R 12 HOH L 2 402 6 HOH HOH . 
R 12 HOH L 3 403 11 HOH HOH . 
R 12 HOH L 4 404 1 HOH HOH . 
S 12 HOH M 1 501 13 HOH HOH . 
S 12 HOH M 2 502 8 HOH HOH . 
S 12 HOH M 3 503 14 HOH HOH . 
S 12 HOH M 4 504 17 HOH HOH . 
S 12 HOH M 5 505 16 HOH HOH . 
S 12 HOH M 6 506 19 HOH HOH . 
S 12 HOH M 7 507 20 HOH HOH . 
S 12 HOH M 8 508 10 HOH HOH . 
S 12 HOH M 9 509 5 HOH HOH . 
S 12 HOH M 10 510 18 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 O O1D BPH . . . E 5 -28.93 40.144 -1.237 1 54.01 ? O1D BPH 302 L 1 
HETATM 2 C CGD BPH . . . E 5 -30.013 39.622 -1.052 1 53.56 ? CGD BPH 302 L 1 
HETATM 3 O O2D BPH . . . E 5 -31.139 40.288 -1.291 1 48.31 ? O2D BPH 302 L 1 
HETATM 4 C CED BPH . . . E 5 -31.064 41.592 -1.878 1 36.99 ? CED BPH 302 L 1 
HETATM 5 C CBD BPH . . . E 5 -30.216 38.235 -0.56 1 54.38 ? CBD BPH 302 L 1 
HETATM 6 C CHA BPH . . . E 5 -31.216 37.383 -1.369 1 53.82 ? CHA BPH 302 L 1 
HETATM 7 C C4D BPH . . . E 5 -32.17 36.961 -0.4 1 50.7 ? C4D BPH 302 L 1 
HETATM 8 C C3D BPH . . . E 5 -31.978 37.439 0.901 1 56.91 ? C3D BPH 302 L 1 
HETATM 9 C CAD BPH . . . E 5 -30.766 38.182 0.891 1 52.25 ? CAD BPH 302 L 1 
HETATM 10 O OBD BPH . . . E 5 -30.17 38.726 1.798 1 51.05 ? OBD BPH 302 L 1 
HETATM 11 C C2D BPH . . . E 5 -33.028 36.937 1.699 1 58.98 ? C2D BPH 302 L 1 
HETATM 12 C CMD BPH . . . E 5 -33.328 37.186 3.179 1 53.67 ? CMD BPH 302 L 1 
HETATM 13 C C1D BPH . . . E 5 -33.798 36.126 0.82 1 56.83 ? C1D BPH 302 L 1 
HETATM 14 N ND BPH . . . E 5 -33.269 36.152 -0.496 1 49.13 ? ND BPH 302 L 1 
HETATM 15 C CHD BPH . . . E 5 -34.999 35.377 1.114 1 55.91 ? CHD BPH 302 L 1 
HETATM 16 C C4C BPH . . . E 5 -35.836 34.719 0.221 1 58.66 ? C4C BPH 302 L 1 
HETATM 17 C C3C BPH . . . E 5 -37.259 34.193 0.492 1 53.24 ? C3C BPH 302 L 1 
HETATM 18 C CAC BPH . . . E 5 -37.487 33.229 1.665 1 50.02 ? CAC BPH 302 L 1 
HETATM 19 C CBC BPH . . . E 5 -37.074 33.776 3.015 1 55.06 ? CBC BPH 302 L 1 
HETATM 20 C C2C BPH . . . E 5 -37.59 33.44 -0.812 1 52.66 ? C2C BPH 302 L 1 
HETATM 21 C CMC BPH . . . E 5 -39.001 33.628 -1.354 1 45.39 ? CMC BPH 302 L 1 
HETATM 22 C C1C BPH . . . E 5 -36.545 33.95 -1.748 1 57.37 ? C1C BPH 302 L 1 
HETATM 23 N NC BPH . . . E 5 -35.544 34.644 -1.129 1 58.78 ? NC BPH 302 L 1 
HETATM 24 C CHC BPH . . . E 5 -36.503 33.647 -3.114 1 50.06 ? CHC BPH 302 L 1 
HETATM 25 C C4B BPH . . . E 5 -35.715 34.097 -4.18 1 52.5 ? C4B BPH 302 L 1 
HETATM 26 C C3B BPH . . . E 5 -35.955 33.868 -5.574 1 56.42 ? C3B BPH 302 L 1 
HETATM 27 C CAB BPH . . . E 5 -37.02 33.069 -6.111 1 57.22 ? CAB BPH 302 L 1 
HETATM 28 C CBB BPH . . . E 5 -38.444 33.3 -5.705 1 50.69 ? CBB BPH 302 L 1 
HETATM 29 O OBB BPH . . . E 5 -36.812 32.158 -6.932 1 56.5 ? OBB BPH 302 L 1 
HETATM 30 C C2B BPH . . . E 5 -34.94 34.522 -6.259 1 54.98 ? C2B BPH 302 L 1 
HETATM 31 C CMB BPH . . . E 5 -34.769 34.663 -7.743 1 51.48 ? CMB BPH 302 L 1 
HETATM 32 C C1B BPH . . . E 5 -34.063 35.053 -5.302 1 52.95 ? C1B BPH 302 L 1 
HETATM 33 N NB BPH . . . E 5 -34.549 34.804 -4.014 1 53.44 ? NB BPH 302 L 1 
HETATM 34 C CHB BPH . . . E 5 -32.898 35.767 -5.559 1 52.12 ? CHB BPH 302 L 1 
HETATM 35 C C4A BPH . . . E 5 -32.075 36.442 -4.69 1 57.7 ? C4A BPH 302 L 1 
HETATM 36 C C3A BPH . . . E 5 -31.055 37.477 -5.072 1 54.06 ? C3A BPH 302 L 1 
HETATM 37 C CMA BPH . . . E 5 -31.745 38.779 -5.413 1 43.47 ? CMA BPH 302 L 1 
HETATM 38 C C2A BPH . . . E 5 -30.228 37.589 -3.785 1 51.31 ? C2A BPH 302 L 1 
HETATM 39 C C1A BPH . . . E 5 -31.252 37.205 -2.738 1 58.33 ? C1A BPH 302 L 1 
HETATM 40 N NA BPH . . . E 5 -32.303 36.484 -3.318 1 62.39 ? NA BPH 302 L 1 
HETATM 41 C CAA BPH . . . E 5 -29.056 36.63 -3.795 1 49.48 ? CAA BPH 302 L 1 
HETATM 42 C CBA BPH . . . E 5 -28.185 37.121 -4.909 1 54.34 ? CBA BPH 302 L 1 
HETATM 43 C CGA BPH . . . E 5 -27.05 36.241 -5.292 1 64.08 ? CGA BPH 302 L 1 
HETATM 44 O O1A BPH . . . E 5 -26.894 35.166 -4.837 1 64.94 ? O1A BPH 302 L 1 
HETATM 45 O O2A BPH . . . E 5 -26.219 36.824 -6.215 1 65.38 ? O2A BPH 302 L 1 
HETATM 46 C C1 BPH . . . E 5 -25.08 36.078 -6.716 1 64.31 ? C1 BPH 302 L 1 
HETATM 47 C C2 BPH . . . E 5 -25.223 36.217 -8.217 1 68.26 ? C2 BPH 302 L 1 
HETATM 48 C C3 BPH . . . E 5 -24.6 37.205 -8.757 1 70.53 ? C3 BPH 302 L 1 
HETATM 49 C C4 BPH . . . E 5 -23.741 38.202 -7.954 1 71.79 ? C4 BPH 302 L 1 
HETATM 50 C C5 BPH . . . E 5 -24.654 37.469 -10.265 1 69 ? C5 BPH 302 L 1 
HETATM 51 C C6 BPH . . . E 5 -25.816 36.882 -11.055 1 70.81 ? C6 BPH 302 L 1 
HETATM 52 C C7 BPH . . . E 5 -25.748 37.387 -12.52 1 85.32 ? C7 BPH 302 L 1 
HETATM 53 C C8 BPH . . . E 5 -26.848 38.293 -13.147 1 82.88 ? C8 BPH 302 L 1 
HETATM 54 C C9 BPH . . . E 5 -28.147 37.51 -13.42 1 70.55 ? C9 BPH 302 L 1 
HETATM 55 C C10 BPH . . . E 5 -26.378 38.903 -14.472 1 74.93 ? C10 BPH 302 L 1 
#
_model_server_stats.io_time_ms              126 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    46 
_model_server_stats.query_time_ms           245 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           55 
#