data_3SI8
#
_model_server_result.job_id            EvtCQ9MTUhX78BHxFfyHFw 
_model_server_result.datetime_utc      '2024-11-28 04:26:50' 
_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          3si8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":446}' 
#
_entry.id    3SI8 
#
_exptl.entry_id    3SI8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          8 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    5 
_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         90 
_cell.entry_id            3SI8 
_cell.length_a            61.236 
_cell.length_b            80.259 
_cell.length_c            139.759 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3SI8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_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,T,U,V,W,X,Y,Z 
_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
? 8 P N N 
? 8 Q N N 
? 8 R N N 
? 8 S N N 
? 8 T 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 B O3' DC 4 T DC 4 1_555 B P TTD 5 T TTD 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.606 ? 
covale ? covale2 B O3' TTD 5 T TTD 5 1_555 B P DA 6 T DA 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? 
metalc ? metalc1 A OD1 ASP 16 A ASP 13 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? 
metalc ? metalc2 A OD2 ASP 16 A ASP 13 1_555 V MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc3 A O MET 17 A MET 14 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
metalc ? metalc4 A OD1 ASP 118 A ASP 115 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc5 A OD2 ASP 118 A ASP 115 1_555 V MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? 
metalc ? metalc6 A OE2 GLU 119 A GLU 116 1_555 V MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.947 ? 
metalc ? metalc7 A NE2 HIS 396 A HIS 393 1_555 W CO CO . A CO 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? 
metalc ? metalc8 A NE2 HIS 400 A HIS 397 1_555 W CO CO . A CO 452 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.863 ? 
metalc ? metalc9 D O1G DZ4 . A DZ4 433 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc10 D O1A DZ4 . A DZ4 433 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc11 D O1B DZ4 . A DZ4 433 1_555 U MG MG . A MG 450 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc12 D O1A DZ4 . A DZ4 433 1_555 V MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? 
metalc ? metalc13 V MG MG . A MG 451 1_555 X O HOH . A HOH 495 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? 
metalc ? metalc14 V MG MG . A MG 451 1_555 C O3' DA 9 P DA 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? 
hydrog WATSON-CRICK hydrog1 B N1 DA 6 T DA 6 1_555 C N3 DT 8 P DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog2 B N6 DA 6 T DA 6 1_555 C O4 DT 8 P DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog3 B N3 DT 7 T DT 7 1_555 C N1 DA 7 P DA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog4 B O4 DT 7 T DT 7 1_555 C N6 DA 7 P DA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog5 B N1 DG 8 T DG 8 1_555 C N3 DC 6 P DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog6 B N2 DG 8 T DG 8 1_555 C O2 DC 6 P DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog7 B O6 DG 8 T DG 8 1_555 C N4 DC 6 P DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog8 B N1 DA 9 T DA 9 1_555 C N3 DT 5 P DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog9 B N6 DA 9 T DA 9 1_555 C O4 DT 5 P DT 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog10 B N3 DC 10 T DC 10 1_555 C N1 DG 4 P DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog11 B N4 DC 10 T DC 10 1_555 C O6 DG 4 P DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog12 B O2 DC 10 T DC 10 1_555 C N2 DG 4 P DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog13 B N1 DG 11 T DG 11 1_555 C N3 DC 3 P DC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog14 B N2 DG 11 T DG 11 1_555 C O2 DC 3 P DC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog15 B O6 DG 11 T DG 11 1_555 C N4 DC 3 P DC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog16 B N3 DC 12 T DC 12 1_555 C N1 DG 2 P DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog17 B N4 DC 12 T DC 12 1_555 C O6 DG 2 P DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
hydrog WATSON-CRICK hydrog18 B O2 DC 12 T DC 12 1_555 C N2 DG 2 P DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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
C1 O1 EDO sing 331 n n 
C1 C2 EDO sing 332 n n 
C1 H11 EDO sing 333 n n 
C1 H12 EDO sing 334 n n 
O1 HO1 EDO sing 335 n n 
C2 O2 EDO sing 336 n n 
C2 H21 EDO sing 337 n n 
C2 H22 EDO sing 338 n n 
O2 HO2 EDO sing 339 n n 
#
_atom_sites.entry_id                     3SI8 
_atom_sites.fract_transf_matrix[1][1]    0.01633 
_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]    0.01246 
_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]    0.007155 
_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 DZ4 A 1 433 1 DZ4 DZ4 . 
E 5 GOL A 1 434 1 GOL GOL . 
F 5 GOL A 1 435 2 GOL GOL . 
G 5 GOL A 1 436 3 GOL GOL . 
H 5 GOL A 1 437 4 GOL GOL . 
I 6 3D1 A 1 438 5 3D1 3D1 . 
J 5 GOL A 1 439 6 GOL GOL . 
K 5 GOL A 1 440 7 GOL GOL . 
L 5 GOL A 1 441 8 GOL GOL . 
M 5 GOL A 1 442 9 GOL GOL . 
N 7 DTT A 1 443 10 DTT DTT . 
O 7 DTT A 1 444 11 DTT DTT . 
P 8 EDO A 1 445 12 EDO EDO . 
Q 8 EDO A 1 446 13 EDO EDO . 
R 8 EDO A 1 447 14 EDO EDO . 
S 8 EDO A 1 448 15 EDO EDO . 
T 8 EDO A 1 449 16 EDO EDO . 
U 9 MG A 1 450 1 MG MG . 
V 9 MG A 1 451 2 MG MG . 
W 10 CO A 1 452 3 CO CO . 
X 11 HOH A 1 453 1 HOH HOH . 
X 11 HOH A 2 454 3 HOH HOH . 
X 11 HOH A 3 455 4 HOH HOH . 
X 11 HOH A 4 456 5 HOH HOH . 
X 11 HOH A 5 457 6 HOH HOH . 
X 11 HOH A 6 458 7 HOH HOH . 
X 11 HOH A 7 459 8 HOH HOH . 
X 11 HOH A 8 460 9 HOH HOH . 
X 11 HOH A 9 461 10 HOH HOH . 
X 11 HOH A 10 462 11 HOH HOH . 
X 11 HOH A 11 463 12 HOH HOH . 
X 11 HOH A 12 464 13 HOH HOH . 
X 11 HOH A 13 465 14 HOH HOH . 
X 11 HOH A 14 466 15 HOH HOH . 
X 11 HOH A 15 467 16 HOH HOH . 
X 11 HOH A 16 468 17 HOH HOH . 
X 11 HOH A 17 469 18 HOH HOH . 
X 11 HOH A 18 470 19 HOH HOH . 
X 11 HOH A 19 471 20 HOH HOH . 
X 11 HOH A 20 472 21 HOH HOH . 
X 11 HOH A 21 473 22 HOH HOH . 
X 11 HOH A 22 474 23 HOH HOH . 
X 11 HOH A 23 475 24 HOH HOH . 
X 11 HOH A 24 476 25 HOH HOH . 
X 11 HOH A 25 477 26 HOH HOH . 
X 11 HOH A 26 478 27 HOH HOH . 
X 11 HOH A 27 479 28 HOH HOH . 
X 11 HOH A 28 480 29 HOH HOH . 
X 11 HOH A 29 481 30 HOH HOH . 
X 11 HOH A 30 482 31 HOH HOH . 
X 11 HOH A 31 483 32 HOH HOH . 
X 11 HOH A 32 484 33 HOH HOH . 
X 11 HOH A 33 485 34 HOH HOH . 
X 11 HOH A 34 486 35 HOH HOH . 
X 11 HOH A 35 487 36 HOH HOH . 
X 11 HOH A 36 488 37 HOH HOH . 
X 11 HOH A 37 489 38 HOH HOH . 
X 11 HOH A 38 490 39 HOH HOH . 
X 11 HOH A 39 491 40 HOH HOH . 
X 11 HOH A 40 492 42 HOH HOH . 
X 11 HOH A 41 493 43 HOH HOH . 
X 11 HOH A 42 494 44 HOH HOH . 
X 11 HOH A 43 495 45 HOH HOH . 
X 11 HOH A 44 496 46 HOH HOH . 
X 11 HOH A 45 497 47 HOH HOH . 
X 11 HOH A 46 498 48 HOH HOH . 
X 11 HOH A 47 499 49 HOH HOH . 
X 11 HOH A 48 500 51 HOH HOH . 
X 11 HOH A 49 501 52 HOH HOH . 
X 11 HOH A 50 502 54 HOH HOH . 
X 11 HOH A 51 503 55 HOH HOH . 
X 11 HOH A 52 504 56 HOH HOH . 
X 11 HOH A 53 505 57 HOH HOH . 
X 11 HOH A 54 506 58 HOH HOH . 
X 11 HOH A 55 507 59 HOH HOH . 
X 11 HOH A 56 508 60 HOH HOH . 
X 11 HOH A 57 509 61 HOH HOH . 
X 11 HOH A 58 510 62 HOH HOH . 
X 11 HOH A 59 511 63 HOH HOH . 
X 11 HOH A 60 512 64 HOH HOH . 
X 11 HOH A 61 513 65 HOH HOH . 
X 11 HOH A 62 514 66 HOH HOH . 
X 11 HOH A 63 515 67 HOH HOH . 
X 11 HOH A 64 516 68 HOH HOH . 
X 11 HOH A 65 517 69 HOH HOH . 
X 11 HOH A 66 518 70 HOH HOH . 
X 11 HOH A 67 519 71 HOH HOH . 
X 11 HOH A 68 520 75 HOH HOH . 
X 11 HOH A 69 521 76 HOH HOH . 
X 11 HOH A 70 522 77 HOH HOH . 
X 11 HOH A 71 523 78 HOH HOH . 
X 11 HOH A 72 524 79 HOH HOH . 
X 11 HOH A 73 525 80 HOH HOH . 
X 11 HOH A 74 526 82 HOH HOH . 
X 11 HOH A 75 527 83 HOH HOH . 
X 11 HOH A 76 528 84 HOH HOH . 
X 11 HOH A 77 529 85 HOH HOH . 
X 11 HOH A 78 530 87 HOH HOH . 
X 11 HOH A 79 531 88 HOH HOH . 
X 11 HOH A 80 532 89 HOH HOH . 
X 11 HOH A 81 533 90 HOH HOH . 
X 11 HOH A 82 534 91 HOH HOH . 
X 11 HOH A 83 535 92 HOH HOH . 
X 11 HOH A 84 536 93 HOH HOH . 
X 11 HOH A 85 537 94 HOH HOH . 
X 11 HOH A 86 538 95 HOH HOH . 
X 11 HOH A 87 539 96 HOH HOH . 
X 11 HOH A 88 540 99 HOH HOH . 
X 11 HOH A 89 541 100 HOH HOH . 
X 11 HOH A 90 542 101 HOH HOH . 
X 11 HOH A 91 543 102 HOH HOH . 
X 11 HOH A 92 544 103 HOH HOH . 
X 11 HOH A 93 545 104 HOH HOH . 
X 11 HOH A 94 546 106 HOH HOH . 
X 11 HOH A 95 547 108 HOH HOH . 
X 11 HOH A 96 548 109 HOH HOH . 
X 11 HOH A 97 549 110 HOH HOH . 
X 11 HOH A 98 550 111 HOH HOH . 
X 11 HOH A 99 551 112 HOH HOH . 
X 11 HOH A 100 552 113 HOH HOH . 
X 11 HOH A 101 553 114 HOH HOH . 
X 11 HOH A 102 554 115 HOH HOH . 
X 11 HOH A 103 555 116 HOH HOH . 
X 11 HOH A 104 556 117 HOH HOH . 
X 11 HOH A 105 557 118 HOH HOH . 
X 11 HOH A 106 558 120 HOH HOH . 
X 11 HOH A 107 559 121 HOH HOH . 
X 11 HOH A 108 560 122 HOH HOH . 
X 11 HOH A 109 561 123 HOH HOH . 
X 11 HOH A 110 562 124 HOH HOH . 
X 11 HOH A 111 563 126 HOH HOH . 
X 11 HOH A 112 564 127 HOH HOH . 
Y 11 HOH T 1 41 41 HOH HOH . 
Y 11 HOH T 2 74 74 HOH HOH . 
Y 11 HOH T 3 86 86 HOH HOH . 
Y 11 HOH T 4 98 98 HOH HOH . 
Y 11 HOH T 5 105 105 HOH HOH . 
Y 11 HOH T 6 107 107 HOH HOH . 
Y 11 HOH T 7 119 119 HOH HOH . 
Z 11 HOH P 1 10 2 HOH HOH . 
Z 11 HOH P 2 50 50 HOH HOH . 
Z 11 HOH P 3 53 53 HOH HOH . 
Z 11 HOH P 4 72 72 HOH HOH . 
Z 11 HOH P 5 73 73 HOH HOH . 
Z 11 HOH P 6 81 81 HOH HOH . 
Z 11 HOH P 7 97 97 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 C1 EDO . . . Q 8 1.209 -10 -15.925 1 73.09 ? C1 EDO 446 A 1 
HETATM 2 O O1 EDO . . . Q 8 0.436 -10.607 -14.894 1 72.78 ? O1 EDO 446 A 1 
HETATM 3 C C2 EDO . . . Q 8 2.602 -9.677 -15.394 1 73.56 ? C2 EDO 446 A 1 
HETATM 4 O O2 EDO . . . Q 8 2.549 -8.507 -14.57 1 78.16 ? O2 EDO 446 A 1 
#
_model_server_stats.io_time_ms              64 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           296 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           4 
#