data_1KGT
#
_model_server_result.job_id            3bSFZevIg4g8dLeSWNiEZw 
_model_server_result.datetime_utc      '2025-04-18 18:26:27' 
_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          1kgt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    1KGT 
#
_exptl.entry_id    1KGT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              867.607 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SUCCINYL-COENZYME A' 
_entity.pdbx_number_of_molecules    1 
_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            1KGT 
_cell.length_a            95.98 
_cell.length_b            95.98 
_cell.length_c            73.44 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1KGT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        146 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'H 3' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
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' 2_765 -y+2,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 143.97 83.121118 0 
3 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 166.242237 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C25 H40 N7 O19 P3 S' 
_chem_comp.formula_weight    867.607 
_chem_comp.id                SCA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SUCCINYL-COENZYME 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
C8 N9 SCA sing 299 n y 
C8 N7 SCA doub 300 n y 
C8 H8 SCA sing 301 n n 
N9 C4 SCA sing 302 n y 
N9 C1' SCA sing 303 n n 
C4 C5 SCA sing 304 n y 
C4 N3 SCA doub 305 n y 
C5 N7 SCA sing 306 n y 
C5 C6 SCA doub 307 n y 
N3 C2 SCA sing 308 n y 
C2 N1 SCA doub 309 n y 
C2 H2 SCA sing 310 n n 
N1 C6 SCA sing 311 n y 
C6 N6 SCA sing 312 n n 
N6 HN61 SCA sing 313 n n 
N6 HN62 SCA sing 314 n n 
C1' C2' SCA sing 315 n n 
C1' O4' SCA sing 316 n n 
C1' H1' SCA sing 317 n n 
C2' O2' SCA sing 318 n n 
C2' C3' SCA sing 319 n n 
C2' H2' SCA sing 320 n n 
O2' HO2' SCA sing 321 n n 
C3' O3' SCA sing 322 n n 
C3' C4' SCA sing 323 n n 
C3' H3' SCA sing 324 n n 
O3' P3 SCA sing 325 n n 
C4' O4' SCA sing 326 n n 
C4' C5' SCA sing 327 n n 
C4' H4' SCA sing 328 n n 
C5' O5' SCA sing 329 n n 
C5' "H5'1" SCA sing 330 n n 
C5' "H5'2" SCA sing 331 n n 
O5' P1 SCA sing 332 n n 
P1 O11 SCA sing 333 n n 
P1 O12 SCA doub 334 n n 
P1 O6 SCA sing 335 n n 
O11 HOB SCA sing 336 n n 
O6 P2 SCA sing 337 n n 
P2 O21 SCA doub 338 n n 
P2 O22 SCA sing 339 n n 
P2 O7 SCA sing 340 n n 
O22 HOM SCA sing 341 n n 
O7 CPB SCA sing 342 n n 
CPB CPA SCA sing 343 n n 
CPB HPB1 SCA sing 344 n n 
CPB HPB2 SCA sing 345 n n 
CPA CP7 SCA sing 346 n n 
CPA CP9 SCA sing 347 n n 
CPA CP8 SCA sing 348 n n 
CP7 OP3 SCA sing 349 n n 
CP7 CP6 SCA sing 350 n n 
CP7 H7 SCA sing 351 n n 
CP9 H91 SCA sing 352 n n 
CP9 H92 SCA sing 353 n n 
CP9 H93 SCA sing 354 n n 
CP8 H81 SCA sing 355 n n 
CP8 H82 SCA sing 356 n n 
CP8 H83 SCA sing 357 n n 
OP3 HO3 SCA sing 358 n n 
CP6 OP2 SCA doub 359 n n 
CP6 NP2 SCA sing 360 n n 
NP2 CP5 SCA sing 361 n n 
NP2 HN2 SCA sing 362 n n 
CP5 CP4 SCA sing 363 n n 
CP5 H51 SCA sing 364 n n 
CP5 H52 SCA sing 365 n n 
CP4 CP3 SCA sing 366 n n 
CP4 H41 SCA sing 367 n n 
CP4 H42 SCA sing 368 n n 
CP3 OP1 SCA doub 369 n n 
CP3 NP1 SCA sing 370 n n 
NP1 CP2 SCA sing 371 n n 
NP1 HN1 SCA sing 372 n n 
CP2 CP1 SCA sing 373 n n 
CP2 H21 SCA sing 374 n n 
CP2 H22 SCA sing 375 n n 
CP1 S SCA sing 376 n n 
CP1 H11 SCA sing 377 n n 
CP1 H12 SCA sing 378 n n 
P3 O31 SCA doub 379 n n 
P3 O32 SCA sing 380 n n 
P3 O33 SCA sing 381 n n 
O32 HOW SCA sing 382 n n 
O33 HOX SCA sing 383 n n 
S CS1 SCA sing 384 n n 
CS1 OS1 SCA doub 385 n n 
CS1 CS2 SCA sing 386 n n 
CS2 CS3 SCA sing 387 n n 
CS2 HS21 SCA sing 388 n n 
CS2 HS22 SCA sing 389 n n 
CS3 CS4 SCA sing 390 n n 
CS3 HS31 SCA sing 391 n n 
CS3 HS32 SCA sing 392 n n 
CS4 OS4 SCA sing 393 n n 
CS4 OS5 SCA doub 394 n n 
OS4 HO4 SCA sing 395 n n 
#
_atom_sites.entry_id                     1KGT 
_atom_sites.fract_transf_matrix[1][1]    0.010419 
_atom_sites.fract_transf_matrix[1][2]    0.006015 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01203 
_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]    0.013617 
_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
B 2 PML A 1 301 1 PML PIM . 
C 3 SCA A 1 302 2 SCA SCO . 
D 4 HOH A 1 303 1 HOH HOH . 
D 4 HOH A 2 304 2 HOH HOH . 
D 4 HOH A 3 305 6 HOH HOH . 
D 4 HOH A 4 306 7 HOH HOH . 
D 4 HOH A 5 307 9 HOH HOH . 
D 4 HOH A 6 308 10 HOH HOH . 
D 4 HOH A 7 309 11 HOH HOH . 
D 4 HOH A 8 310 12 HOH HOH . 
D 4 HOH A 9 311 13 HOH HOH . 
D 4 HOH A 10 312 14 HOH HOH . 
D 4 HOH A 11 313 15 HOH HOH . 
D 4 HOH A 12 314 16 HOH HOH . 
D 4 HOH A 13 315 17 HOH HOH . 
D 4 HOH A 14 316 18 HOH HOH . 
D 4 HOH A 15 317 19 HOH HOH . 
D 4 HOH A 16 318 20 HOH HOH . 
D 4 HOH A 17 319 21 HOH HOH . 
D 4 HOH A 18 320 22 HOH HOH . 
D 4 HOH A 19 321 24 HOH HOH . 
D 4 HOH A 20 322 25 HOH HOH . 
D 4 HOH A 21 323 26 HOH HOH . 
D 4 HOH A 22 324 28 HOH HOH . 
D 4 HOH A 23 325 29 HOH HOH . 
D 4 HOH A 24 326 30 HOH HOH . 
D 4 HOH A 25 327 31 HOH HOH . 
D 4 HOH A 26 328 32 HOH HOH . 
D 4 HOH A 27 329 33 HOH HOH . 
D 4 HOH A 28 330 37 HOH HOH . 
D 4 HOH A 29 331 38 HOH HOH . 
D 4 HOH A 30 332 41 HOH HOH . 
D 4 HOH A 31 333 42 HOH HOH . 
D 4 HOH A 32 334 43 HOH HOH . 
D 4 HOH A 33 335 45 HOH HOH . 
D 4 HOH A 34 336 47 HOH HOH . 
D 4 HOH A 35 337 48 HOH HOH . 
D 4 HOH A 36 338 49 HOH HOH . 
D 4 HOH A 37 339 50 HOH HOH . 
D 4 HOH A 38 340 51 HOH HOH . 
D 4 HOH A 39 341 56 HOH HOH . 
D 4 HOH A 40 342 57 HOH HOH . 
D 4 HOH A 41 343 58 HOH HOH . 
D 4 HOH A 42 344 59 HOH HOH . 
D 4 HOH A 43 345 61 HOH HOH . 
D 4 HOH A 44 346 62 HOH HOH . 
D 4 HOH A 45 347 64 HOH HOH . 
D 4 HOH A 46 348 65 HOH HOH . 
D 4 HOH A 47 349 66 HOH HOH . 
D 4 HOH A 48 350 67 HOH HOH . 
D 4 HOH A 49 351 71 HOH HOH . 
D 4 HOH A 50 352 72 HOH HOH . 
D 4 HOH A 51 353 73 HOH HOH . 
D 4 HOH A 52 354 76 HOH HOH . 
D 4 HOH A 53 355 79 HOH HOH . 
D 4 HOH A 54 356 80 HOH HOH . 
D 4 HOH A 55 357 82 HOH HOH . 
D 4 HOH A 56 358 86 HOH HOH . 
D 4 HOH A 57 359 91 HOH HOH . 
D 4 HOH A 58 360 102 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 C C8 SCA . . . C 3 60.051 89.869 20.645 1 47.37 ? C8 SCA 302 A 1 
HETATM 2 N N9 SCA . . . C 3 59.53 89.277 21.763 1 32.58 ? N9 SCA 302 A 1 
HETATM 3 C C4 SCA . . . C 3 58.757 88.255 21.377 1 85.99 ? C4 SCA 302 A 1 
HETATM 4 C C5 SCA . . . C 3 58.77 88.258 20.005 1 23.78 ? C5 SCA 302 A 1 
HETATM 5 N N7 SCA . . . C 3 59.602 89.284 19.547 1 34.46 ? N7 SCA 302 A 1 
HETATM 6 N N3 SCA . . . C 3 58.102 87.427 22.205 1 32.97 ? N3 SCA 302 A 1 
HETATM 7 C C2 SCA . . . C 3 57.445 86.535 21.52 1 51.27 ? C2 SCA 302 A 1 
HETATM 8 N N1 SCA . . . C 3 57.336 86.372 20.165 1 30.51 ? N1 SCA 302 A 1 
HETATM 9 C C6 SCA . . . C 3 58.002 87.245 19.364 1 47.87 ? C6 SCA 302 A 1 
HETATM 10 N N6 SCA . . . C 3 57.889 87.107 18.054 1 16.87 ? N6 SCA 302 A 1 
HETATM 11 C C1' SCA . . . C 3 59.693 89.646 23.137 1 27.22 ? C1' SCA 302 A 1 
HETATM 12 C C2' SCA . . . C 3 60.926 89.049 23.753 1 32.16 ? C2' SCA 302 A 1 
HETATM 13 O O2' SCA . . . C 3 60.667 87.726 24.257 1 38.4 ? O2' SCA 302 A 1 
HETATM 14 C C3' SCA . . . C 3 61.303 90.015 24.846 1 56.06 ? C3' SCA 302 A 1 
HETATM 15 O O3' SCA . . . C 3 60.819 89.615 26.104 1 55.18 ? O3' SCA 302 A 1 
HETATM 16 C C4' SCA . . . C 3 60.856 91.299 24.17 1 34.92 ? C4' SCA 302 A 1 
HETATM 17 O O4' SCA . . . C 3 59.875 91.018 23.159 1 37.28 ? O4' SCA 302 A 1 
HETATM 18 C C5' SCA . . . C 3 61.977 91.935 23.395 1 23.05 ? C5' SCA 302 A 1 
HETATM 19 O O5' SCA . . . C 3 62.279 91.071 22.283 1 26.23 ? O5' SCA 302 A 1 
HETATM 20 P P1 SCA . . . C 3 63.647 91.278 21.498 1 23.46 ? P1 SCA 302 A 1 
HETATM 21 O O11 SCA . . . C 3 64.107 90.039 20.836 1 43.29 ? O11 SCA 302 A 1 
HETATM 22 O O12 SCA . . . C 3 64.675 91.85 22.397 1 71.63 ? O12 SCA 302 A 1 
HETATM 23 O O6 SCA . . . C 3 63.26 92.345 20.446 1 29.65 ? O6 SCA 302 A 1 
HETATM 24 P P2 SCA . . . C 3 63.465 92.562 18.827 1 37.36 ? P2 SCA 302 A 1 
HETATM 25 O O21 SCA . . . C 3 64.269 91.499 18.188 1 42.32 ? O21 SCA 302 A 1 
HETATM 26 O O22 SCA . . . C 3 64.042 93.896 18.553 1 43.27 ? O22 SCA 302 A 1 
HETATM 27 O O7 SCA . . . C 3 61.915 92.508 18.396 1 35.66 ? O7 SCA 302 A 1 
HETATM 28 C CPB SCA . . . C 3 61.493 91.144 17.982 1 18.52 ? CPB SCA 302 A 1 
HETATM 29 C CPA SCA . . . C 3 60.78 91.121 16.608 1 50.67 ? CPA SCA 302 A 1 
HETATM 30 C CP7 SCA . . . C 3 60.584 89.662 16.142 1 8.48 ? CP7 SCA 302 A 1 
HETATM 31 C CP9 SCA . . . C 3 59.391 91.77 16.75 1 12.1 ? CP9 SCA 302 A 1 
HETATM 32 C CP8 SCA . . . C 3 61.555 91.871 15.525 1 11.34 ? CP8 SCA 302 A 1 
HETATM 33 O OP3 SCA . . . C 3 59.862 88.889 17.121 1 36.26 ? OP3 SCA 302 A 1 
HETATM 34 C CP6 SCA . . . C 3 59.745 89.677 14.845 1 40.32 ? CP6 SCA 302 A 1 
HETATM 35 O OP2 SCA . . . C 3 58.543 89.929 14.879 1 61.55 ? OP2 SCA 302 A 1 
HETATM 36 N NP2 SCA . . . C 3 60.374 89.411 13.745 1 21.89 ? NP2 SCA 302 A 1 
HETATM 37 C CP5 SCA . . . C 3 59.661 89.399 12.444 1 29.6 ? CP5 SCA 302 A 1 
HETATM 38 C CP4 SCA . . . C 3 60.094 88.259 11.525 1 17.96 ? CP4 SCA 302 A 1 
HETATM 39 C CP3 SCA . . . C 3 59.209 88.206 10.272 1 38.38 ? CP3 SCA 302 A 1 
HETATM 40 O OP1 SCA . . . C 3 57.987 88.216 10.37 1 29.53 ? OP1 SCA 302 A 1 
HETATM 41 N NP1 SCA . . . C 3 59.877 88.156 9.142 1 18.33 ? NP1 SCA 302 A 1 
HETATM 42 C CP2 SCA . . . C 3 59.204 88.094 7.851 1 26.38 ? CP2 SCA 302 A 1 
HETATM 43 C CP1 SCA . . . C 3 59.297 86.662 7.332 1 22.36 ? CP1 SCA 302 A 1 
HETATM 44 P P3 SCA . . . C 3 61.18 90.529 27.35 1 51.49 ? P3 SCA 302 A 1 
HETATM 45 O O31 SCA . . . C 3 61.175 91.951 26.926 1 47.58 ? O31 SCA 302 A 1 
HETATM 46 O O32 SCA . . . C 3 62.442 90.017 27.947 1 100 ? O32 SCA 302 A 1 
HETATM 47 O O33 SCA . . . C 3 60.139 90.361 28.375 1 47.32 ? O33 SCA 302 A 1 
HETATM 48 S S SCA . . . C 3 58.347 86.387 5.761 1 32.77 ? S SCA 302 A 1 
HETATM 49 C CS1 SCA . . . C 3 59.646 86.305 4.542 1 73.41 ? CS1 SCA 302 A 1 
HETATM 50 O OS1 SCA . . . C 3 60.741 87.012 4.699 1 71.72 ? OS1 SCA 302 A 1 
HETATM 51 C CS2 SCA . . . C 3 59.532 85.371 3.309 1 58.35 ? CS2 SCA 302 A 1 
HETATM 52 C CS3 SCA . . . C 3 58.953 84.03 3.719 1 71.86 ? CS3 SCA 302 A 1 
HETATM 53 C CS4 SCA . . . C 3 57.44 84.141 3.785 1 63.49 ? CS4 SCA 302 A 1 
HETATM 54 O OS4 SCA . . . C 3 56.875 84.712 2.861 1 60.26 ? OS4 SCA 302 A 1 
HETATM 55 O OS5 SCA . . . C 3 56.821 83.596 4.808 1 41.25 ? OS5 SCA 302 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           55 
#