data_7D0S
#
_model_server_result.job_id            rmt80vAjsBQKxMyR6hOLiA 
_model_server_result.datetime_utc      '2024-11-16 19:56:06' 
_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          7d0s 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":701}' 
#
_entry.id    7D0S 
#
_exptl.entry_id    7D0S 
_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          122.88 
_cell.angle_gamma         90 
_cell.entry_id            7D0S 
_cell.length_a            127.098 
_cell.length_b            39.565 
_cell.length_c            88.328 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7D0S 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 
_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 
#
_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 
#
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 C HIS 96 A HIS 431 1_555 A N ALY 97 A ALY 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale2 A C ALY 97 A ALY 432 1_555 A N THR 98 A THR 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? 
metalc ? metalc1 A SG CYS 33 A CYS 368 1_555 D ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? 
metalc ? metalc2 A SG CYS 36 A CYS 371 1_555 D ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? 
metalc ? metalc3 A NE2 HIS 49 A HIS 384 1_555 D ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? 
metalc ? metalc4 A SG CYS 53 A CYS 388 1_555 D ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? 
#
_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 305 n y 
C8 N7 SCA doub 306 n y 
C8 H8 SCA sing 307 n n 
N9 C4 SCA sing 308 n y 
N9 C1' SCA sing 309 n n 
C4 C5 SCA sing 310 n y 
C4 N3 SCA doub 311 n y 
C5 N7 SCA sing 312 n y 
C5 C6 SCA doub 313 n y 
N3 C2 SCA sing 314 n y 
C2 N1 SCA doub 315 n y 
C2 H2 SCA sing 316 n n 
N1 C6 SCA sing 317 n y 
C6 N6 SCA sing 318 n n 
N6 HN61 SCA sing 319 n n 
N6 HN62 SCA sing 320 n n 
C1' C2' SCA sing 321 n n 
C1' O4' SCA sing 322 n n 
C1' H1' SCA sing 323 n n 
C2' O2' SCA sing 324 n n 
C2' C3' SCA sing 325 n n 
C2' H2' SCA sing 326 n n 
O2' HO2' SCA sing 327 n n 
C3' O3' SCA sing 328 n n 
C3' C4' SCA sing 329 n n 
C3' H3' SCA sing 330 n n 
O3' P3 SCA sing 331 n n 
C4' O4' SCA sing 332 n n 
C4' C5' SCA sing 333 n n 
C4' H4' SCA sing 334 n n 
C5' O5' SCA sing 335 n n 
C5' "H5'1" SCA sing 336 n n 
C5' "H5'2" SCA sing 337 n n 
O5' P1 SCA sing 338 n n 
P1 O11 SCA sing 339 n n 
P1 O12 SCA doub 340 n n 
P1 O6 SCA sing 341 n n 
O11 HOB SCA sing 342 n n 
O6 P2 SCA sing 343 n n 
P2 O21 SCA doub 344 n n 
P2 O22 SCA sing 345 n n 
P2 O7 SCA sing 346 n n 
O22 HOM SCA sing 347 n n 
O7 CPB SCA sing 348 n n 
CPB CPA SCA sing 349 n n 
CPB HPB1 SCA sing 350 n n 
CPB HPB2 SCA sing 351 n n 
CPA CP7 SCA sing 352 n n 
CPA CP9 SCA sing 353 n n 
CPA CP8 SCA sing 354 n n 
CP7 OP3 SCA sing 355 n n 
CP7 CP6 SCA sing 356 n n 
CP7 H7 SCA sing 357 n n 
CP9 H91 SCA sing 358 n n 
CP9 H92 SCA sing 359 n n 
CP9 H93 SCA sing 360 n n 
CP8 H81 SCA sing 361 n n 
CP8 H82 SCA sing 362 n n 
CP8 H83 SCA sing 363 n n 
OP3 HO3 SCA sing 364 n n 
CP6 OP2 SCA doub 365 n n 
CP6 NP2 SCA sing 366 n n 
NP2 CP5 SCA sing 367 n n 
NP2 HN2 SCA sing 368 n n 
CP5 CP4 SCA sing 369 n n 
CP5 H51 SCA sing 370 n n 
CP5 H52 SCA sing 371 n n 
CP4 CP3 SCA sing 372 n n 
CP4 H41 SCA sing 373 n n 
CP4 H42 SCA sing 374 n n 
CP3 OP1 SCA doub 375 n n 
CP3 NP1 SCA sing 376 n n 
NP1 CP2 SCA sing 377 n n 
NP1 HN1 SCA sing 378 n n 
CP2 CP1 SCA sing 379 n n 
CP2 H21 SCA sing 380 n n 
CP2 H22 SCA sing 381 n n 
CP1 S SCA sing 382 n n 
CP1 H11 SCA sing 383 n n 
CP1 H12 SCA sing 384 n n 
P3 O31 SCA doub 385 n n 
P3 O32 SCA sing 386 n n 
P3 O33 SCA sing 387 n n 
O32 HOW SCA sing 388 n n 
O33 HOX SCA sing 389 n n 
S CS1 SCA sing 390 n n 
CS1 OS1 SCA doub 391 n n 
CS1 CS2 SCA sing 392 n n 
CS2 CS3 SCA sing 393 n n 
CS2 HS21 SCA sing 394 n n 
CS2 HS22 SCA sing 395 n n 
CS3 CS4 SCA sing 396 n n 
CS3 HS31 SCA sing 397 n n 
CS3 HS32 SCA sing 398 n n 
CS4 OS4 SCA sing 399 n n 
CS4 OS5 SCA doub 400 n n 
OS4 HO4 SCA sing 401 n n 
#
_atom_sites.entry_id                     7D0S 
_atom_sites.fract_transf_matrix[1][1]    0.007868 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.005087 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.025275 
_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]    0.013482 
_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 3 SCA A 1 701 1 SCA SCA . 
D 4 ZN A 1 702 1 ZN ZN . 
E 5 HOH A 1 801 3 HOH HOH . 
E 5 HOH A 2 802 2 HOH HOH . 
E 5 HOH A 3 803 1 HOH HOH . 
E 5 HOH A 4 804 4 HOH HOH . 
E 5 HOH A 5 805 5 HOH HOH . 
E 5 HOH A 6 806 7 HOH HOH . 
E 5 HOH A 7 807 10 HOH HOH . 
E 5 HOH A 8 808 6 HOH HOH . 
E 5 HOH A 9 809 9 HOH HOH . 
E 5 HOH A 10 810 11 HOH HOH . 
F 5 HOH B 1 101 8 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 3 196.066 3.168 95.251 1 67.22 ? C8 SCA 701 A 1 
HETATM 2 N N9 SCA . . . C 3 194.921 3.744 95.645 1 66.64 ? N9 SCA 701 A 1 
HETATM 3 C C4 SCA . . . C 3 195.2 4.601 96.612 1 77.08 ? C4 SCA 701 A 1 
HETATM 4 C C5 SCA . . . C 3 196.531 4.568 96.813 1 79.36 ? C5 SCA 701 A 1 
HETATM 5 N N7 SCA . . . C 3 197.061 3.688 95.968 1 77.58 ? N7 SCA 701 A 1 
HETATM 6 N N3 SCA . . . C 3 194.42 5.408 97.338 1 77.55 ? N3 SCA 701 A 1 
HETATM 7 C C2 SCA . . . C 3 194.978 6.207 98.291 1 74.99 ? C2 SCA 701 A 1 
HETATM 8 N N1 SCA . . . C 3 196.305 6.18 98.495 1 75.19 ? N1 SCA 701 A 1 
HETATM 9 C C6 SCA . . . C 3 197.085 5.381 97.771 1 80.72 ? C6 SCA 701 A 1 
HETATM 10 N N6 SCA . . . C 3 198.408 5.641 98.269 1 81.23 ? N6 SCA 701 A 1 
HETATM 11 C C1' SCA . . . C 3 193.655 3.462 95.133 1 59.74 ? C1' SCA 701 A 1 
HETATM 12 C C2' SCA . . . C 3 193.496 3.821 93.839 1 57.44 ? C2' SCA 701 A 1 
HETATM 13 O O2' SCA . . . C 3 192.975 5.211 93.615 1 55.36 ? O2' SCA 701 A 1 
HETATM 14 C C3' SCA . . . C 3 192.46 2.768 93.395 1 58.42 ? C3' SCA 701 A 1 
HETATM 15 O O3' SCA . . . C 3 191.315 3.055 93.933 1 61.78 ? O3' SCA 701 A 1 
HETATM 16 C C4' SCA . . . C 3 192.945 1.418 94.093 1 49 ? C4' SCA 701 A 1 
HETATM 17 O O4' SCA . . . C 3 193.534 1.788 95.196 1 52.27 ? O4' SCA 701 A 1 
HETATM 18 C C5' SCA . . . C 3 193.949 0.588 93.228 1 57.56 ? C5' SCA 701 A 1 
HETATM 19 O O5' SCA . . . C 3 194.56 1.379 92.247 1 60.35 ? O5' SCA 701 A 1 
HETATM 20 P P1 SCA . . . C 3 195.84 0.79 91.461 1 52.46 ? P1 SCA 701 A 1 
HETATM 21 O O11 SCA . . . C 3 196.423 1.93 90.694 1 38.79 ? O11 SCA 701 A 1 
HETATM 22 O O12 SCA . . . C 3 195.497 -0.427 90.614 1 44.02 ? O12 SCA 701 A 1 
HETATM 23 O O6 SCA . . . C 3 196.772 0.242 92.683 1 47.35 ? O6 SCA 701 A 1 
HETATM 24 P P2 SCA . . . C 3 198.451 0.292 92.644 1 46.62 ? P2 SCA 701 A 1 
HETATM 25 O O21 SCA . . . C 3 198.823 1.626 93.348 1 48.09 ? O21 SCA 701 A 1 
HETATM 26 O O22 SCA . . . C 3 199.044 0.253 91.259 1 43.63 ? O22 SCA 701 A 1 
HETATM 27 O O7 SCA . . . C 3 198.865 -0.994 93.536 1 40.45 ? O7 SCA 701 A 1 
HETATM 28 C CPB SCA . . . C 3 198.273 -1.09 94.827 1 51.07 ? CPB SCA 701 A 1 
HETATM 29 C CPA SCA . . . C 3 199.18 -1.989 95.746 1 42.46 ? CPA SCA 701 A 1 
HETATM 30 C CP7 SCA . . . C 3 200.438 -1.062 96.068 1 54.75 ? CP7 SCA 701 A 1 
HETATM 31 C CP9 SCA . . . C 3 198.397 -2.367 97.002 1 50.08 ? CP9 SCA 701 A 1 
HETATM 32 C CP8 SCA . . . C 3 199.616 -3.271 94.934 1 36.25 ? CP8 SCA 701 A 1 
HETATM 33 O OP3 SCA . . . C 3 200.044 0.076 96.8 1 50.23 ? OP3 SCA 701 A 1 
HETATM 34 C CP6 SCA . . . C 3 201.552 -1.669 96.822 1 50.58 ? CP6 SCA 701 A 1 
HETATM 35 O OP2 SCA . . . C 3 202.328 -2.391 96.275 1 58 ? OP2 SCA 701 A 1 
HETATM 36 N NP2 SCA . . . C 3 201.737 -1.291 98.233 1 49.88 ? NP2 SCA 701 A 1 
HETATM 37 C CP5 SCA . . . C 3 202.924 -1.838 99.009 1 54.13 ? CP5 SCA 701 A 1 
HETATM 38 C CP4 SCA . . . C 3 202.779 -3.322 99.201 1 56.18 ? CP4 SCA 701 A 1 
HETATM 39 C CP3 SCA . . . C 3 201.381 -3.596 99.783 1 60.08 ? CP3 SCA 701 A 1 
HETATM 40 O OP1 SCA . . . C 3 200.884 -2.802 100.553 1 53.31 ? OP1 SCA 701 A 1 
HETATM 41 N NP1 SCA . . . C 3 200.726 -4.823 99.379 1 68.58 ? NP1 SCA 701 A 1 
HETATM 42 C CP2 SCA . . . C 3 199.384 -5.154 99.86 1 77.75 ? CP2 SCA 701 A 1 
HETATM 43 C CP1 SCA . . . C 3 199.431 -5.637 101.346 1 104.63 ? CP1 SCA 701 A 1 
HETATM 44 P P3 SCA . . . C 3 190.006 3.438 93.029 1 68.24 ? P3 SCA 701 A 1 
HETATM 45 O O31 SCA . . . C 3 189.912 2.584 91.738 1 69.95 ? O31 SCA 701 A 1 
HETATM 46 O O32 SCA . . . C 3 190.195 4.867 92.671 1 70.8 ? O32 SCA 701 A 1 
HETATM 47 O O33 SCA . . . C 3 188.811 3.209 93.92 1 70.95 ? O33 SCA 701 A 1 
HETATM 48 S S SCA . . . C 3 198.061 -6.899 101.469 1 116.19 ? S SCA 701 A 1 
HETATM 49 C CS1 SCA . . . C 3 198.865 -8.507 101.735 1 129.4 ? CS1 SCA 701 A 1 
HETATM 50 O OS1 SCA . . . C 3 198.197 -9.526 101.844 1 131.5 ? OS1 SCA 701 A 1 
HETATM 51 C CS2 SCA . . . C 3 200.445 -8.615 101.797 1 128.97 ? CS2 SCA 701 A 1 
HETATM 52 C CS3 SCA . . . C 3 201.02 -8.39 103.235 1 114.74 ? CS3 SCA 701 A 1 
HETATM 53 C CS4 SCA . . . C 3 201.45 -9.758 103.811 1 115.18 ? CS4 SCA 701 A 1 
HETATM 54 O OS4 SCA . . . C 3 202.692 -10.118 103.731 1 117.94 ? OS4 SCA 701 A 1 
HETATM 55 O OS5 SCA . . . C 3 200.608 -10.534 104.331 1 113.84 ? OS5 SCA 701 A 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           301 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           55 
#