data_8IBB
#
_model_server_result.job_id            5Un4WhxDyt_5LGd30cbaQw 
_model_server_result.datetime_utc      '2024-12-22 09:29:22' 
_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          8ibb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"RA","auth_seq_id":201}' 
#
_entry.id    8IBB 
#
_exptl.entry_id    8IBB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              584.703 
_entity.id                          29 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    24-meric 
_pdbx_struct_assembly.oligomeric_count      24 
_pdbx_struct_assembly.details               author_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,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA 
_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    ? 
_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                      29 
_struct_asym.id                             RA 
_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
disulf ? disulf1 J SG CYS 20 Y CYS 20 1_555 J SG CYS 77 Y CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf2 J SG CYS 97 Y CYS 97 1_555 J SG CYS 117 Y CYS 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
disulf ? disulf3 M SG CYS 33 e CYS 33 1_555 M SG CYS 66 e CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf4 M SG CYS 43 e CYS 43 1_555 M SG CYS 56 e CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf5 W SG CYS 59 o CYS 59 1_555 W SG CYS 90 o CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf6 W SG CYS 69 o CYS 69 1_555 W SG CYS 80 o CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? 
disulf ? disulf7 X SG CYS 77 p CYS 77 1_555 X SG CYS 84 p CYS 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf8 X SG CYS 113 p CYS 113 1_555 X SG CYS 125 p CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
#
_chem_comp.formula           'C25 H49 N2 O9 P S' 
_chem_comp.formula_weight    584.703 
_chem_comp.id                EHZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{S})-3-oxidanyltetradecanethioate' 
_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
O7 P1 EHZ sing 514 n n 
O9 P1 EHZ doub 515 n n 
P1 O6 EHZ sing 516 n n 
O6 C20 EHZ sing 517 n n 
C20 C17 EHZ sing 518 n n 
O5 C16 EHZ sing 519 n n 
C19 C17 EHZ sing 520 n n 
C17 C16 EHZ sing 521 n n 
C17 C18 EHZ sing 522 n n 
C16 C15 EHZ sing 523 n n 
C15 O4 EHZ doub 524 n n 
C15 N2 EHZ sing 525 n n 
N2 C14 EHZ sing 526 n n 
C13 C14 EHZ sing 527 n n 
C13 C12 EHZ sing 528 n n 
N1 C12 EHZ sing 529 n n 
N1 C11 EHZ sing 530 n n 
C12 O3 EHZ doub 531 n n 
C11 C10 EHZ sing 532 n n 
O2 C9 EHZ doub 533 n n 
C10 S1 EHZ sing 534 n n 
C7 C6 EHZ sing 535 n n 
C7 C8 EHZ sing 536 n n 
C7 O1 EHZ sing 537 n n 
C9 S1 EHZ sing 538 n n 
C9 C8 EHZ sing 539 n n 
C6 C5 EHZ sing 540 n n 
C22 C21 EHZ sing 541 n n 
C1 C21 EHZ sing 542 n n 
C1 C2 EHZ sing 543 n n 
C3 C2 EHZ sing 544 n n 
C3 C4 EHZ sing 545 n n 
C5 C4 EHZ sing 546 n n 
O1 H1 EHZ sing 547 n n 
C1 H2 EHZ sing 548 n n 
C1 H3 EHZ sing 549 n n 
C2 H4 EHZ sing 550 n n 
C2 H5 EHZ sing 551 n n 
C3 H6 EHZ sing 552 n n 
C3 H7 EHZ sing 553 n n 
C4 H8 EHZ sing 554 n n 
C4 H9 EHZ sing 555 n n 
C5 H10 EHZ sing 556 n n 
C5 H11 EHZ sing 557 n n 
C6 H12 EHZ sing 558 n n 
C6 H13 EHZ sing 559 n n 
C7 H14 EHZ sing 560 n n 
C8 H15 EHZ sing 561 n n 
C8 H16 EHZ sing 562 n n 
C10 H17 EHZ sing 563 n n 
C10 H18 EHZ sing 564 n n 
C11 H19 EHZ sing 565 n n 
C11 H20 EHZ sing 566 n n 
C13 H21 EHZ sing 567 n n 
C13 H22 EHZ sing 568 n n 
C14 H23 EHZ sing 569 n n 
C14 H24 EHZ sing 570 n n 
C16 H25 EHZ sing 571 n n 
C18 H26 EHZ sing 572 n n 
C18 H27 EHZ sing 573 n n 
C18 H28 EHZ sing 574 n n 
C19 H29 EHZ sing 575 n n 
C19 H30 EHZ sing 576 n n 
C19 H31 EHZ sing 577 n n 
C20 H32 EHZ sing 578 n n 
C20 H33 EHZ sing 579 n n 
C21 H34 EHZ sing 580 n n 
C21 H35 EHZ sing 581 n n 
C22 H36 EHZ sing 582 n n 
C22 H37 EHZ sing 583 n n 
N1 H39 EHZ sing 584 n n 
N2 H40 EHZ sing 585 n n 
O5 H41 EHZ sing 586 n n 
O7 H42 EHZ sing 587 n n 
P1 OP3 EHZ sing 588 n n 
C22 C23 EHZ sing 589 n n 
C23 C24 EHZ sing 590 n n 
C24 C25 EHZ sing 591 n n 
OP3 H44 EHZ sing 592 n n 
C23 H45 EHZ sing 593 n n 
C23 H46 EHZ sing 594 n n 
C24 H47 EHZ sing 595 n n 
C24 H48 EHZ sing 596 n n 
C25 H49 EHZ sing 597 n n 
C25 H50 EHZ sing 598 n n 
C25 H51 EHZ sing 599 n n 
#
_atom_sites.entry_id                     8IBB 
_atom_sites.fract_transf_matrix[1][1]    1 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    1 
_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]    1 
_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
Y 25 3PE D 1 501 501 3PE 3PE . 
Z 25 3PE K 1 101 202 3PE 3PE . 
AA 25 3PE L 1 701 701 3PE 3PE . 
BA 25 3PE L 1 702 702 3PE 3PE . 
CA 25 3PE L 1 703 703 3PE 3PE . 
DA 26 CDL L 1 704 704 CDL CDL . 
EA 26 CDL L 1 705 706 CDL CDL . 
FA 27 PC1 L 1 706 709 PC1 PC1 . 
GA 25 3PE M 1 501 502 3PE 3PE . 
HA 25 3PE M 1 502 503 3PE 3PE . 
IA 25 3PE M 1 503 504 3PE 3PE . 
JA 25 3PE O 1 401 505 3PE 3PE . 
KA 28 ADP O 1 402 401 ADP ADP . 
LA 26 CDL d 1 201 507 CDL CDL . 
MA 26 CDL h 1 201 705 CDL CDL . 
NA 25 3PE i 1 201 699 3PE 3PE . 
OA 25 3PE j 1 700 700 3PE 3PE . 
PA 25 3PE m 1 201 506 3PE 3PE . 
QA 25 3PE m 1 202 201 3PE 3PE . 
RA 29 EHZ n 1 201 201 EHZ EHZ . 
#
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 O1 EHZ . . . RA 29 140.719 240.391 238.084 1 60.02 0 O1 EHZ 201 n 1 
HETATM 2 C C2 EHZ . . . RA 29 139.999 244.427 233.258 1 60.02 0 C2 EHZ 201 n 1 
HETATM 3 C C3 EHZ . . . RA 29 139.748 243.043 233.844 1 60.02 0 C3 EHZ 201 n 1 
HETATM 4 C C4 EHZ . . . RA 29 140.158 243.039 235.311 1 60.02 0 C4 EHZ 201 n 1 
HETATM 5 O O2 EHZ . . . RA 29 141.361 241.525 240.21 1 60.02 0 O2 EHZ 201 n 1 
HETATM 6 C C5 EHZ . . . RA 29 140.664 241.656 235.703 1 60.02 0 C5 EHZ 201 n 1 
HETATM 7 C C6 EHZ . . . RA 29 141.881 241.82 236.603 1 60.02 0 C6 EHZ 201 n 1 
HETATM 8 C C7 EHZ . . . RA 29 141.978 240.612 237.525 1 60.02 0 C7 EHZ 201 n 1 
HETATM 9 C C8 EHZ . . . RA 29 142.983 240.895 238.635 1 60.02 0 C8 EHZ 201 n 1 
HETATM 10 C C10 EHZ . . . RA 29 143.874 240.652 242.49 1 60.02 0 C10 EHZ 201 n 1 
HETATM 11 C C11 EHZ . . . RA 29 144.68 239.663 243.318 1 60.02 0 C11 EHZ 201 n 1 
HETATM 12 C C12 EHZ . . . RA 29 146.884 239.601 244.414 1 60.02 0 C12 EHZ 201 n 1 
HETATM 13 C C13 EHZ . . . RA 29 148.348 239.973 244.552 1 60.02 0 C13 EHZ 201 n 1 
HETATM 14 C C14 EHZ . . . RA 29 148.555 240.109 246.054 1 60.02 0 C14 EHZ 201 n 1 
HETATM 15 C C15 EHZ . . . RA 29 150.254 240.298 247.824 1 60.02 0 C15 EHZ 201 n 1 
HETATM 16 C C16 EHZ . . . RA 29 151.692 240.427 248.302 1 60.02 0 C16 EHZ 201 n 1 
HETATM 17 C C17 EHZ . . . RA 29 151.982 241.864 248.734 1 60.02 0 C17 EHZ 201 n 1 
HETATM 18 C C18 EHZ . . . RA 29 152.207 241.92 250.241 1 60.02 0 C18 EHZ 201 n 1 
HETATM 19 C C19 EHZ . . . RA 29 153.233 242.358 248.018 1 60.02 0 C19 EHZ 201 n 1 
HETATM 20 C C20 EHZ . . . RA 29 150.821 242.786 248.387 1 60.02 0 C20 EHZ 201 n 1 
HETATM 21 C C9 EHZ . . . RA 29 142.294 240.836 239.994 1 60.02 0 C9 EHZ 201 n 1 
HETATM 22 N N1 EHZ . . . RA 29 146.065 240.08 243.329 1 60.02 0 N1 EHZ 201 n 1 
HETATM 23 N N2 EHZ . . . RA 29 149.951 240.224 246.412 1 60.02 0 N2 EHZ 201 n 1 
HETATM 24 O O3 EHZ . . . RA 29 146.393 238.912 245.236 1 60.02 0 O3 EHZ 201 n 1 
HETATM 25 O O4 EHZ . . . RA 29 149.377 240.249 248.612 1 60.02 0 O4 EHZ 201 n 1 
HETATM 26 O O5 EHZ . . . RA 29 151.877 239.556 249.382 1 60.02 0 O5 EHZ 201 n 1 
HETATM 27 O O6 EHZ . . . RA 29 151.144 244.09 248.765 1 60.02 0 O6 EHZ 201 n 1 
HETATM 28 O O7 EHZ . . . RA 29 150.769 244.884 246.222 1 60.02 0 O7 EHZ 201 n 1 
HETATM 29 O O9 EHZ . . . RA 29 151.268 246.574 248.111 1 60.02 -1 O9 EHZ 201 n 1 
HETATM 30 P P1 EHZ . . . RA 29 150.608 245.308 247.802 1 60.02 0 P1 EHZ 201 n 1 
HETATM 31 S S1 EHZ . . . RA 29 142.897 239.717 241.286 1 60.02 0 S1 EHZ 201 n 1 
HETATM 32 O OP3 EHZ . . . RA 29 149.229 245.649 248.113 1 60.02 0 OP3 EHZ 201 n 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    47 
_model_server_stats.query_time_ms           377 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           32 
#