data_4L8N
#
_model_server_result.job_id            j96vXCzhRaY6qOvxPtBkZg 
_model_server_result.datetime_utc      '2024-12-26 20:03:13' 
_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          4l8n 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    4L8N 
#
_exptl.entry_id    4L8N 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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            4L8N 
_cell.length_a            104.093 
_cell.length_b            104.093 
_cell.length_c            96.277 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4L8N 
_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    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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 32.092333 
#
_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 ALA 115 A ALA 134 1_555 A N MSE 116 A MSE 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
covale ? covale2 A C MSE 116 A MSE 135 1_555 A N TYR 117 A TYR 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale3 A C LYS 222 A LYS 241 1_555 A N MSE 223 A MSE 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? 
covale ? covale4 A C MSE 223 A MSE 242 1_555 A N GLU 224 A GLU 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale5 A C LEU 284 A LEU 303 1_555 A N MSE 285 A MSE 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? 
covale ? covale6 A C MSE 285 A MSE 304 1_555 A N CYS 286 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale7 A C CYS 286 A CYS 305 1_555 A N MSE 287 A MSE 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
covale ? covale8 A C MSE 287 A MSE 306 1_555 A N GLN 288 A GLN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.362 ? 
covale ? covale9 A C LYS 349 A LYS 368 1_555 A N MSE 350 A MSE 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale10 A C MSE 350 A MSE 369 1_555 A N ASP 351 A ASP 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.361 ? 
covale ? covale11 A C THR 368 A THR 387 1_555 A N MSE 369 A MSE 388 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.359 ? 
covale ? covale12 A C MSE 369 A MSE 388 1_555 A N GLN 370 A GLN 389 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? 
covale ? covale13 A C THR 376 A THR 395 1_555 A N MSE 377 A MSE 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.368 ? 
covale ? covale14 A C MSE 377 A MSE 396 1_555 A N PHE 378 A PHE 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale15 A C CYS 387 A CYS 406 1_555 A N MSE 388 A MSE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale16 A C MSE 388 A MSE 407 1_555 A N PHE 389 A PHE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
metalc ? metalc1 A OE2 GLU 239 A GLU 258 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? 
metalc ? metalc2 A OE1 GLU 239 A GLU 258 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? 
metalc ? metalc3 D MG MG . A MG 503 1_555 E O HOH . A HOH 683 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? 
metalc ? metalc4 D MG MG . A MG 503 1_555 E O HOH . A HOH 698 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? 
#
_chem_comp.formula           'C6 H14 O2' 
_chem_comp.formula_weight    118.174 
_chem_comp.id                MPD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (4S)-2-METHYL-2,4-PENTANEDIOL 
_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
C1 C2 MPD sing 226 n n 
C1 H11 MPD sing 227 n n 
C1 H12 MPD sing 228 n n 
C1 H13 MPD sing 229 n n 
C2 O2 MPD sing 230 n n 
C2 CM MPD sing 231 n n 
C2 C3 MPD sing 232 n n 
O2 HO2 MPD sing 233 n n 
CM HM1 MPD sing 234 n n 
CM HM2 MPD sing 235 n n 
CM HM3 MPD sing 236 n n 
C3 C4 MPD sing 237 n n 
C3 H31 MPD sing 238 n n 
C3 H32 MPD sing 239 n n 
C4 O4 MPD sing 240 n n 
C4 C5 MPD sing 241 n n 
C4 H4 MPD sing 242 n n 
O4 HO4 MPD sing 243 n n 
C5 H51 MPD sing 244 n n 
C5 H52 MPD sing 245 n n 
C5 H53 MPD sing 246 n n 
#
_atom_sites.entry_id                     4L8N 
_atom_sites.fract_transf_matrix[1][1]    0.009607 
_atom_sites.fract_transf_matrix[1][2]    0.005546 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011093 
_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]    0.010387 
_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 EOH A 1 501 501 EOH EOH . 
C 3 MPD A 1 502 502 MPD MPD . 
D 4 MG A 1 503 503 MG MG . 
E 5 HOH A 1 601 504 HOH HOH . 
E 5 HOH A 2 602 505 HOH HOH . 
E 5 HOH A 3 603 506 HOH HOH . 
E 5 HOH A 4 604 507 HOH HOH . 
E 5 HOH A 5 605 508 HOH HOH . 
E 5 HOH A 6 606 509 HOH HOH . 
E 5 HOH A 7 607 510 HOH HOH . 
E 5 HOH A 8 608 511 HOH HOH . 
E 5 HOH A 9 609 512 HOH HOH . 
E 5 HOH A 10 610 513 HOH HOH . 
E 5 HOH A 11 611 514 HOH HOH . 
E 5 HOH A 12 612 515 HOH HOH . 
E 5 HOH A 13 613 516 HOH HOH . 
E 5 HOH A 14 614 517 HOH HOH . 
E 5 HOH A 15 615 518 HOH HOH . 
E 5 HOH A 16 616 519 HOH HOH . 
E 5 HOH A 17 617 520 HOH HOH . 
E 5 HOH A 18 618 521 HOH HOH . 
E 5 HOH A 19 619 522 HOH HOH . 
E 5 HOH A 20 620 523 HOH HOH . 
E 5 HOH A 21 621 524 HOH HOH . 
E 5 HOH A 22 622 525 HOH HOH . 
E 5 HOH A 23 623 526 HOH HOH . 
E 5 HOH A 24 624 527 HOH HOH . 
E 5 HOH A 25 625 528 HOH HOH . 
E 5 HOH A 26 626 529 HOH HOH . 
E 5 HOH A 27 627 530 HOH HOH . 
E 5 HOH A 28 628 531 HOH HOH . 
E 5 HOH A 29 629 532 HOH HOH . 
E 5 HOH A 30 630 533 HOH HOH . 
E 5 HOH A 31 631 534 HOH HOH . 
E 5 HOH A 32 632 535 HOH HOH . 
E 5 HOH A 33 633 536 HOH HOH . 
E 5 HOH A 34 634 537 HOH HOH . 
E 5 HOH A 35 635 538 HOH HOH . 
E 5 HOH A 36 636 539 HOH HOH . 
E 5 HOH A 37 637 540 HOH HOH . 
E 5 HOH A 38 638 541 HOH HOH . 
E 5 HOH A 39 639 542 HOH HOH . 
E 5 HOH A 40 640 543 HOH HOH . 
E 5 HOH A 41 641 544 HOH HOH . 
E 5 HOH A 42 642 545 HOH HOH . 
E 5 HOH A 43 643 546 HOH HOH . 
E 5 HOH A 44 644 547 HOH HOH . 
E 5 HOH A 45 645 548 HOH HOH . 
E 5 HOH A 46 646 549 HOH HOH . 
E 5 HOH A 47 647 550 HOH HOH . 
E 5 HOH A 48 648 551 HOH HOH . 
E 5 HOH A 49 649 552 HOH HOH . 
E 5 HOH A 50 650 553 HOH HOH . 
E 5 HOH A 51 651 554 HOH HOH . 
E 5 HOH A 52 652 555 HOH HOH . 
E 5 HOH A 53 653 556 HOH HOH . 
E 5 HOH A 54 654 557 HOH HOH . 
E 5 HOH A 55 655 558 HOH HOH . 
E 5 HOH A 56 656 559 HOH HOH . 
E 5 HOH A 57 657 560 HOH HOH . 
E 5 HOH A 58 658 561 HOH HOH . 
E 5 HOH A 59 659 562 HOH HOH . 
E 5 HOH A 60 660 563 HOH HOH . 
E 5 HOH A 61 661 564 HOH HOH . 
E 5 HOH A 62 662 565 HOH HOH . 
E 5 HOH A 63 663 566 HOH HOH . 
E 5 HOH A 64 664 567 HOH HOH . 
E 5 HOH A 65 665 568 HOH HOH . 
E 5 HOH A 66 666 569 HOH HOH . 
E 5 HOH A 67 667 570 HOH HOH . 
E 5 HOH A 68 668 571 HOH HOH . 
E 5 HOH A 69 669 572 HOH HOH . 
E 5 HOH A 70 670 573 HOH HOH . 
E 5 HOH A 71 671 574 HOH HOH . 
E 5 HOH A 72 672 575 HOH HOH . 
E 5 HOH A 73 673 576 HOH HOH . 
E 5 HOH A 74 674 577 HOH HOH . 
E 5 HOH A 75 675 578 HOH HOH . 
E 5 HOH A 76 676 579 HOH HOH . 
E 5 HOH A 77 677 580 HOH HOH . 
E 5 HOH A 78 678 581 HOH HOH . 
E 5 HOH A 79 679 582 HOH HOH . 
E 5 HOH A 80 680 583 HOH HOH . 
E 5 HOH A 81 681 584 HOH HOH . 
E 5 HOH A 82 682 585 HOH HOH . 
E 5 HOH A 83 683 586 HOH HOH . 
E 5 HOH A 84 684 587 HOH HOH . 
E 5 HOH A 85 685 588 HOH HOH . 
E 5 HOH A 86 686 589 HOH HOH . 
E 5 HOH A 87 687 590 HOH HOH . 
E 5 HOH A 88 688 591 HOH HOH . 
E 5 HOH A 89 689 592 HOH HOH . 
E 5 HOH A 90 690 593 HOH HOH . 
E 5 HOH A 91 691 594 HOH HOH . 
E 5 HOH A 92 692 595 HOH HOH . 
E 5 HOH A 93 693 596 HOH HOH . 
E 5 HOH A 94 694 597 HOH HOH . 
E 5 HOH A 95 695 598 HOH HOH . 
E 5 HOH A 96 696 599 HOH HOH . 
E 5 HOH A 97 697 600 HOH HOH . 
E 5 HOH A 98 698 601 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 MPD . . . C 3 -35.022 -18.597 -1.896 1 87.72 ? C1 MPD 502 A 1 
HETATM 2 C C2 MPD . . . C 3 -34.074 -18.087 -0.827 1 88.47 ? C2 MPD 502 A 1 
HETATM 3 O O2 MPD . . . C 3 -34.354 -16.682 -0.682 1 88.09 ? O2 MPD 502 A 1 
HETATM 4 C CM MPD . . . C 3 -34.366 -18.743 0.516 1 87.75 ? CM MPD 502 A 1 
HETATM 5 C C3 MPD . . . C 3 -32.61 -18.431 -1.268 1 90.23 ? C3 MPD 502 A 1 
HETATM 6 C C4 MPD . . . C 3 -31.509 -17.393 -0.957 1 89.75 ? C4 MPD 502 A 1 
HETATM 7 O O4 MPD . . . C 3 -31.371 -17.237 0.46 1 92.11 ? O4 MPD 502 A 1 
HETATM 8 C C5 MPD . . . C 3 -30.19 -17.828 -1.551 1 86.94 ? C5 MPD 502 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           8 
#