data_5AYF
#
_model_server_result.job_id            kjjIOk_Yv0FqJJe7q4Zilw 
_model_server_result.datetime_utc      '2024-10-12 12:27:23' 
_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          5ayf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":402}' 
#
_entry.id    5AYF 
#
_exptl.entry_id    5AYF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              287.398 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "4-(dibenzo[1,2-a:2',1'-d][7]annulen-11-ylidene)-1-methyl-piperidine" 
_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         90 
_cell.entry_id            5AYF 
_cell.length_a            102.463 
_cell.length_b            39.366 
_cell.length_c            67.275 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5AYF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_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 
#
_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 UNK 236 A UNK 339 1_555 A N UNK 237 A UNK 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale2 A C UNK 237 A UNK 340 1_555 A N UNK 238 A UNK 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale3 A C UNK 238 A UNK 341 1_555 A N UNK 239 A UNK 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale4 A C UNK 239 A UNK 342 1_555 A N UNK 240 A UNK 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale5 A C UNK 240 A UNK 343 1_555 A N UNK 241 A UNK 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
#
_chem_comp.formula           'C21 H21 N' 
_chem_comp.formula_weight    287.398 
_chem_comp.id                C7H 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "4-(dibenzo[1,2-a:2',1'-d][7]annulen-11-ylidene)-1-methyl-piperidine" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Cyproheptadine 
#
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
C7 C6 C7H doub 70 n y 
C7 C8 C7H sing 71 n y 
C6 C14 C7H sing 72 n y 
C3 C4 C7H doub 73 n y 
C3 C2 C7H sing 74 n y 
C4 C13 C7H sing 75 n y 
C8 C9 C7H doub 76 n y 
C14 C5 C7H sing 77 n n 
C14 C15 C7H doub 78 n y 
C2 C1 C7H doub 79 n y 
C13 C5 C7H sing 80 n n 
C13 C12 C7H doub 81 n y 
C5 C16 C7H doub 82 n n 
C16 C20 C7H sing 83 n n 
C16 C17 C7H sing 84 n n 
C20 C19 C7H sing 85 n n 
C17 C18 C7H sing 86 n n 
C9 C15 C7H sing 87 n y 
N C19 C7H sing 88 n n 
N C18 C7H sing 89 n n 
N C21 C7H sing 90 n n 
C15 C10 C7H sing 91 n n 
C1 C12 C7H sing 92 n y 
C12 C11 C7H sing 93 n n 
C10 C11 C7H doub 94 n n 
C17 H2 C7H sing 95 n n 
C17 H3 C7H sing 96 n n 
C18 H4 C7H sing 97 n n 
C18 H5 C7H sing 98 n n 
C21 H6 C7H sing 99 n n 
C21 H7 C7H sing 100 n n 
C21 H8 C7H sing 101 n n 
C19 H9 C7H sing 102 n n 
C19 H10 C7H sing 103 n n 
C20 H11 C7H sing 104 n n 
C20 H12 C7H sing 105 n n 
C4 H13 C7H sing 106 n n 
C3 H14 C7H sing 107 n n 
C2 H15 C7H sing 108 n n 
C1 H16 C7H sing 109 n n 
C11 H17 C7H sing 110 n n 
C10 H18 C7H sing 111 n n 
C6 H19 C7H sing 112 n n 
C7 H20 C7H sing 113 n n 
C8 H21 C7H sing 114 n n 
C9 H22 C7H sing 115 n n 
#
_atom_sites.entry_id                     5AYF 
_atom_sites.fract_transf_matrix[1][1]    0.00976 
_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]    0.025403 
_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]    0.014864 
_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 SAM A 1 401 401 SAM SAM . 
C 3 C7H A 1 402 501 C7H C7D . 
D 4 TRS A 1 403 601 TRS TRS . 
E 5 HOH A 1 501 61 HOH HOH . 
E 5 HOH A 2 502 82 HOH HOH . 
E 5 HOH A 3 503 59 HOH HOH . 
E 5 HOH A 4 504 3 HOH HOH . 
E 5 HOH A 5 505 22 HOH HOH . 
E 5 HOH A 6 506 169 HOH HOH . 
E 5 HOH A 7 507 160 HOH HOH . 
E 5 HOH A 8 508 20 HOH HOH . 
E 5 HOH A 9 509 1 HOH HOH . 
E 5 HOH A 10 510 26 HOH HOH . 
E 5 HOH A 11 511 18 HOH HOH . 
E 5 HOH A 12 512 36 HOH HOH . 
E 5 HOH A 13 513 113 HOH HOH . 
E 5 HOH A 14 514 29 HOH HOH . 
E 5 HOH A 15 515 77 HOH HOH . 
E 5 HOH A 16 516 71 HOH HOH . 
E 5 HOH A 17 517 118 HOH HOH . 
E 5 HOH A 18 518 138 HOH HOH . 
E 5 HOH A 19 519 49 HOH HOH . 
E 5 HOH A 20 520 35 HOH HOH . 
E 5 HOH A 21 521 6 HOH HOH . 
E 5 HOH A 22 522 152 HOH HOH . 
E 5 HOH A 23 523 155 HOH HOH . 
E 5 HOH A 24 524 179 HOH HOH . 
E 5 HOH A 25 525 37 HOH HOH . 
E 5 HOH A 26 526 98 HOH HOH . 
E 5 HOH A 27 527 21 HOH HOH . 
E 5 HOH A 28 528 39 HOH HOH . 
E 5 HOH A 29 529 46 HOH HOH . 
E 5 HOH A 30 530 7 HOH HOH . 
E 5 HOH A 31 531 9 HOH HOH . 
E 5 HOH A 32 532 140 HOH HOH . 
E 5 HOH A 33 533 63 HOH HOH . 
E 5 HOH A 34 534 143 HOH HOH . 
E 5 HOH A 35 535 10 HOH HOH . 
E 5 HOH A 36 536 4 HOH HOH . 
E 5 HOH A 37 537 84 HOH HOH . 
E 5 HOH A 38 538 135 HOH HOH . 
E 5 HOH A 39 539 66 HOH HOH . 
E 5 HOH A 40 540 5 HOH HOH . 
E 5 HOH A 41 541 47 HOH HOH . 
E 5 HOH A 42 542 172 HOH HOH . 
E 5 HOH A 43 543 11 HOH HOH . 
E 5 HOH A 44 544 103 HOH HOH . 
E 5 HOH A 45 545 12 HOH HOH . 
E 5 HOH A 46 546 117 HOH HOH . 
E 5 HOH A 47 547 51 HOH HOH . 
E 5 HOH A 48 548 64 HOH HOH . 
E 5 HOH A 49 549 161 HOH HOH . 
E 5 HOH A 50 550 41 HOH HOH . 
E 5 HOH A 51 551 48 HOH HOH . 
E 5 HOH A 52 552 62 HOH HOH . 
E 5 HOH A 53 553 19 HOH HOH . 
E 5 HOH A 54 554 24 HOH HOH . 
E 5 HOH A 55 555 177 HOH HOH . 
E 5 HOH A 56 556 8 HOH HOH . 
E 5 HOH A 57 557 28 HOH HOH . 
E 5 HOH A 58 558 17 HOH HOH . 
E 5 HOH A 59 559 153 HOH HOH . 
E 5 HOH A 60 560 125 HOH HOH . 
E 5 HOH A 61 561 94 HOH HOH . 
E 5 HOH A 62 562 54 HOH HOH . 
E 5 HOH A 63 563 75 HOH HOH . 
E 5 HOH A 64 564 148 HOH HOH . 
E 5 HOH A 65 565 120 HOH HOH . 
E 5 HOH A 66 566 126 HOH HOH . 
E 5 HOH A 67 567 68 HOH HOH . 
E 5 HOH A 68 568 134 HOH HOH . 
E 5 HOH A 69 569 85 HOH HOH . 
E 5 HOH A 70 570 102 HOH HOH . 
E 5 HOH A 71 571 173 HOH HOH . 
E 5 HOH A 72 572 69 HOH HOH . 
E 5 HOH A 73 573 33 HOH HOH . 
E 5 HOH A 74 574 13 HOH HOH . 
E 5 HOH A 75 575 73 HOH HOH . 
E 5 HOH A 76 576 30 HOH HOH . 
E 5 HOH A 77 577 25 HOH HOH . 
E 5 HOH A 78 578 90 HOH HOH . 
E 5 HOH A 79 579 79 HOH HOH . 
E 5 HOH A 80 580 14 HOH HOH . 
E 5 HOH A 81 581 87 HOH HOH . 
E 5 HOH A 82 582 81 HOH HOH . 
E 5 HOH A 83 583 78 HOH HOH . 
E 5 HOH A 84 584 115 HOH HOH . 
E 5 HOH A 85 585 104 HOH HOH . 
E 5 HOH A 86 586 109 HOH HOH . 
E 5 HOH A 87 587 168 HOH HOH . 
E 5 HOH A 88 588 57 HOH HOH . 
E 5 HOH A 89 589 65 HOH HOH . 
E 5 HOH A 90 590 43 HOH HOH . 
E 5 HOH A 91 591 42 HOH HOH . 
E 5 HOH A 92 592 34 HOH HOH . 
E 5 HOH A 93 593 15 HOH HOH . 
E 5 HOH A 94 594 86 HOH HOH . 
E 5 HOH A 95 595 50 HOH HOH . 
E 5 HOH A 96 596 60 HOH HOH . 
E 5 HOH A 97 597 40 HOH HOH . 
E 5 HOH A 98 598 38 HOH HOH . 
E 5 HOH A 99 599 96 HOH HOH . 
E 5 HOH A 100 600 74 HOH HOH . 
E 5 HOH A 101 601 158 HOH HOH . 
E 5 HOH A 102 602 174 HOH HOH . 
E 5 HOH A 103 603 16 HOH HOH . 
E 5 HOH A 104 604 2 HOH HOH . 
E 5 HOH A 105 605 32 HOH HOH . 
E 5 HOH A 106 606 93 HOH HOH . 
E 5 HOH A 107 607 149 HOH HOH . 
E 5 HOH A 108 608 141 HOH HOH . 
E 5 HOH A 109 609 127 HOH HOH . 
E 5 HOH A 110 610 70 HOH HOH . 
E 5 HOH A 111 611 55 HOH HOH . 
E 5 HOH A 112 612 128 HOH HOH . 
E 5 HOH A 113 613 76 HOH HOH . 
E 5 HOH A 114 614 133 HOH HOH . 
E 5 HOH A 115 615 67 HOH HOH . 
E 5 HOH A 116 616 123 HOH HOH . 
E 5 HOH A 117 617 72 HOH HOH . 
E 5 HOH A 118 618 80 HOH HOH . 
E 5 HOH A 119 619 122 HOH HOH . 
E 5 HOH A 120 620 31 HOH HOH . 
E 5 HOH A 121 621 116 HOH HOH . 
E 5 HOH A 122 622 89 HOH HOH . 
E 5 HOH A 123 623 27 HOH HOH . 
E 5 HOH A 124 624 111 HOH HOH . 
E 5 HOH A 125 625 110 HOH HOH . 
E 5 HOH A 126 626 157 HOH HOH . 
E 5 HOH A 127 627 95 HOH HOH . 
E 5 HOH A 128 628 106 HOH HOH . 
E 5 HOH A 129 629 139 HOH HOH . 
E 5 HOH A 130 630 53 HOH HOH . 
E 5 HOH A 131 631 100 HOH HOH . 
E 5 HOH A 132 632 175 HOH HOH . 
E 5 HOH A 133 633 91 HOH HOH . 
E 5 HOH A 134 634 156 HOH HOH . 
E 5 HOH A 135 635 107 HOH HOH . 
E 5 HOH A 136 636 92 HOH HOH . 
E 5 HOH A 137 637 52 HOH HOH . 
E 5 HOH A 138 638 146 HOH HOH . 
E 5 HOH A 139 639 145 HOH HOH . 
E 5 HOH A 140 640 119 HOH HOH . 
E 5 HOH A 141 641 170 HOH HOH . 
E 5 HOH A 142 642 164 HOH HOH . 
E 5 HOH A 143 643 108 HOH HOH . 
E 5 HOH A 144 644 99 HOH HOH . 
E 5 HOH A 145 645 97 HOH HOH . 
E 5 HOH A 146 646 124 HOH HOH . 
E 5 HOH A 147 647 132 HOH HOH . 
E 5 HOH A 148 648 144 HOH HOH . 
E 5 HOH A 149 649 56 HOH HOH . 
E 5 HOH A 150 650 114 HOH HOH . 
E 5 HOH A 151 651 167 HOH HOH . 
E 5 HOH A 152 652 142 HOH HOH . 
E 5 HOH A 153 653 151 HOH HOH . 
E 5 HOH A 154 654 44 HOH HOH . 
E 5 HOH A 155 655 121 HOH HOH . 
E 5 HOH A 156 656 178 HOH HOH . 
E 5 HOH A 157 657 147 HOH HOH . 
E 5 HOH A 158 658 101 HOH HOH . 
E 5 HOH A 159 659 136 HOH HOH . 
E 5 HOH A 160 660 171 HOH HOH . 
E 5 HOH A 161 661 88 HOH HOH . 
E 5 HOH A 162 662 130 HOH HOH . 
E 5 HOH A 163 663 176 HOH HOH . 
E 5 HOH A 164 664 162 HOH HOH . 
E 5 HOH A 165 665 105 HOH HOH . 
E 5 HOH A 166 666 137 HOH HOH . 
E 5 HOH A 167 667 154 HOH HOH . 
E 5 HOH A 168 668 23 HOH HOH . 
E 5 HOH A 169 669 150 HOH HOH . 
E 5 HOH A 170 670 112 HOH HOH . 
E 5 HOH A 171 671 163 HOH HOH . 
E 5 HOH A 172 672 45 HOH HOH . 
E 5 HOH A 173 673 58 HOH HOH . 
E 5 HOH A 174 674 131 HOH HOH . 
E 5 HOH A 175 675 166 HOH HOH . 
E 5 HOH A 176 676 83 HOH HOH . 
E 5 HOH A 177 677 129 HOH HOH . 
E 5 HOH A 178 678 165 HOH HOH . 
E 5 HOH A 179 679 159 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 N N C7H . . . C 3 33.924 -3.531 15.549 1 35.4 ? N C7H 402 A 1 
HETATM 2 C C17 C7H . . . C 3 36.276 -3.772 14.993 1 33.84 ? C17 C7H 402 A 1 
HETATM 3 C C18 C7H . . . C 3 35.278 -3.17 15.972 1 33.44 ? C18 C7H 402 A 1 
HETATM 4 C C21 C7H . . . C 3 32.943 -2.735 16.301 1 33.21 ? C21 C7H 402 A 1 
HETATM 5 C C19 C7H . . . C 3 33.748 -4.961 15.835 1 35.03 ? C19 C7H 402 A 1 
HETATM 6 C C20 C7H . . . C 3 34.654 -5.769 14.901 1 41.53 ? C20 C7H 402 A 1 
HETATM 7 C C16 C7H . . . C 3 36.093 -5.27 14.891 1 40.51 ? C16 C7H 402 A 1 
HETATM 8 C C5 C7H . . . C 3 37.157 -6.109 14.78 1 41.39 ? C5 C7H 402 A 1 
HETATM 9 C C13 C7H . . . C 3 38.571 -5.595 14.762 1 41.41 ? C13 C7H 402 A 1 
HETATM 10 C C4 C7H . . . C 3 39.019 -4.768 13.728 1 38.7 ? C4 C7H 402 A 1 
HETATM 11 C C3 C7H . . . C 3 40.317 -4.283 13.705 1 43.54 ? C3 C7H 402 A 1 
HETATM 12 C C2 C7H . . . C 3 41.192 -4.644 14.718 1 45.89 ? C2 C7H 402 A 1 
HETATM 13 C C1 C7H . . . C 3 40.761 -5.484 15.741 1 47.46 ? C1 C7H 402 A 1 
HETATM 14 C C12 C7H . . . C 3 39.458 -5.969 15.762 1 46.77 ? C12 C7H 402 A 1 
HETATM 15 C C11 C7H . . . C 3 39.074 -6.856 16.89 1 43.63 ? C11 C7H 402 A 1 
HETATM 16 C C10 C7H . . . C 3 38.263 -7.915 16.828 1 41.56 ? C10 C7H 402 A 1 
HETATM 17 C C15 C7H . . . C 3 37.545 -8.434 15.636 1 45.64 ? C15 C7H 402 A 1 
HETATM 18 C C14 C7H . . . C 3 37 -7.602 14.666 1 44.88 ? C14 C7H 402 A 1 
HETATM 19 C C6 C7H . . . C 3 36.337 -8.165 13.569 1 46.07 ? C6 C7H 402 A 1 
HETATM 20 C C7 C7H . . . C 3 36.186 -9.541 13.46 1 48.33 ? C7 C7H 402 A 1 
HETATM 21 C C8 C7H . . . C 3 36.72 -10.364 14.444 1 52.73 ? C8 C7H 402 A 1 
HETATM 22 C C9 C7H . . . C 3 37.391 -9.812 15.528 1 48.54 ? C9 C7H 402 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           32 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           22 
#