data_6BSM
#
_model_server_result.job_id            DgaSaK73pOUr4MBbi9OdGg 
_model_server_result.datetime_utc      '2024-12-26 14:04:12' 
_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          6bsm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    6BSM 
#
_exptl.entry_id    6BSM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              407.461 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-({[(2R)-2-{[hydroxy(hydroxymethyl)amino]methyl}heptanoyl]amino}methyl)-7-methoxy-1-benzofuran-2-carboxamide 
_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            6BSM 
_cell.length_a            101.789 
_cell.length_b            101.789 
_cell.length_c            101.789 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6BSM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        198 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 3' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
#
_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                             D 
_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 A SG CYS 44 A CYS 43 1_555 A SG CYS 200 A CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? 
disulf ? disulf2 A SG CYS 64 A CYS 63 1_555 A SG CYS 86 A CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
disulf ? disulf3 A SG CYS 66 A CYS 65 1_555 A SG CYS 67 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
covale ? covale1 A C ACE 1 A ACE -1 1_555 A N ALA 2 A ALA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
metalc ? metalc1 A O ACE 1 A ACE -1 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc2 A NE2 HIS 94 A HIS 93 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
metalc ? metalc3 A NE2 HIS 98 A HIS 97 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
metalc ? metalc4 A NE2 HIS 104 A HIS 103 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
metalc ? metalc5 A OE1 GLU 105 A GLU 104 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? 
metalc ? metalc6 A OE2 GLU 105 A GLU 104 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc7 A NE2 GLN 193 A GLN 192 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? 
metalc ? metalc8 B ZN ZN . A ZN 301 1_555 D N08 E7D . A E7D 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? 
metalc ? metalc9 B ZN ZN . A ZN 301 1_555 D O09 E7D . A E7D 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? 
metalc ? metalc10 B ZN ZN . A ZN 301 1_555 D O11 E7D . A E7D 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc11 C ZN ZN . A ZN 302 1_555 E O HOH . A HOH 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? 
metalc ? metalc12 C ZN ZN . A ZN 302 1_555 E O HOH . A HOH 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc13 C ZN ZN . A ZN 302 1_555 E O HOH . A HOH 454 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? 
#
_chem_comp.formula           'C20 H29 N3 O6' 
_chem_comp.formula_weight    407.461 
_chem_comp.id                E7D 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-({[(2R)-2-{[hydroxy(hydroxymethyl)amino]methyl}heptanoyl]amino}methyl)-7-methoxy-1-benzofuran-2-carboxamide 
_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
C23 C24 E7D doub 89 n y 
C23 C22 E7D sing 90 n y 
C24 C25 E7D sing 91 n y 
C22 C21 E7D doub 92 n y 
C25 O26 E7D sing 93 n n 
C25 C28 E7D doub 94 n y 
C21 C28 E7D sing 95 n y 
C21 C20 E7D sing 96 n y 
O26 C27 E7D sing 97 n n 
C28 O29 E7D sing 98 n y 
C01 C02 E7D sing 99 n n 
C20 C19 E7D doub 100 n y 
O29 C19 E7D sing 101 n y 
C02 C03 E7D sing 102 n n 
C19 C17 E7D sing 103 n n 
C03 C04 E7D sing 104 n n 
C17 O18 E7D doub 105 n n 
C17 N16 E7D sing 106 n n 
C04 C05 E7D sing 107 n n 
N16 C15 E7D sing 108 n n 
C05 C06 E7D sing 109 n n 
C15 N14 E7D sing 110 n n 
O13 C12 E7D doub 111 n n 
N14 C12 E7D sing 112 n n 
C12 C06 E7D sing 113 n n 
C06 C07 E7D sing 114 n n 
C07 N08 E7D sing 115 n n 
N08 C10 E7D sing 116 n n 
N08 O09 E7D sing 117 n n 
C10 O11 E7D sing 118 n n 
C01 H1 E7D sing 119 n n 
C01 H2 E7D sing 120 n n 
C01 H3 E7D sing 121 n n 
C02 H4 E7D sing 122 n n 
C02 H5 E7D sing 123 n n 
C03 H6 E7D sing 124 n n 
C03 H7 E7D sing 125 n n 
C04 H8 E7D sing 126 n n 
C05 H9 E7D sing 127 n n 
C06 H10 E7D sing 128 n n 
C07 H11 E7D sing 129 n n 
C07 H12 E7D sing 130 n n 
O09 H13 E7D sing 131 n n 
C10 H14 E7D sing 132 n n 
N14 H15 E7D sing 133 n n 
C15 H16 E7D sing 134 n n 
C15 H17 E7D sing 135 n n 
N16 H18 E7D sing 136 n n 
C20 H19 E7D sing 137 n n 
C22 H20 E7D sing 138 n n 
C23 H21 E7D sing 139 n n 
C24 H22 E7D sing 140 n n 
C27 H23 E7D sing 141 n n 
C27 H24 E7D sing 142 n n 
C27 H25 E7D sing 143 n n 
C04 H26 E7D sing 144 n n 
C05 H27 E7D sing 145 n n 
C10 H28 E7D sing 146 n n 
O11 H29 E7D sing 147 n n 
#
_atom_sites.entry_id                     6BSM 
_atom_sites.fract_transf_matrix[1][1]    0.009824 
_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]    0.009824 
_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]    0.009824 
_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 ZN A 1 301 1 ZN ZN . 
C 2 ZN A 1 302 2 ZN ZN . 
D 3 E7D A 1 303 1 E7D 011 . 
E 4 HOH A 1 401 20 HOH HOH . 
E 4 HOH A 2 402 40 HOH HOH . 
E 4 HOH A 3 403 36 HOH HOH . 
E 4 HOH A 4 404 16 HOH HOH . 
E 4 HOH A 5 405 49 HOH HOH . 
E 4 HOH A 6 406 62 HOH HOH . 
E 4 HOH A 7 407 35 HOH HOH . 
E 4 HOH A 8 408 36 HOH HOH . 
E 4 HOH A 9 409 31 HOH HOH . 
E 4 HOH A 10 410 32 HOH HOH . 
E 4 HOH A 11 411 21 HOH HOH . 
E 4 HOH A 12 412 39 HOH HOH . 
E 4 HOH A 13 413 6 HOH HOH . 
E 4 HOH A 14 414 4 HOH HOH . 
E 4 HOH A 15 415 24 HOH HOH . 
E 4 HOH A 16 416 24 HOH HOH . 
E 4 HOH A 17 417 42 HOH HOH . 
E 4 HOH A 18 418 27 HOH HOH . 
E 4 HOH A 19 419 2 HOH HOH . 
E 4 HOH A 20 420 32 HOH HOH . 
E 4 HOH A 21 421 27 HOH HOH . 
E 4 HOH A 22 422 26 HOH HOH . 
E 4 HOH A 23 423 37 HOH HOH . 
E 4 HOH A 24 424 45 HOH HOH . 
E 4 HOH A 25 425 46 HOH HOH . 
E 4 HOH A 26 426 53 HOH HOH . 
E 4 HOH A 27 427 39 HOH HOH . 
E 4 HOH A 28 428 7 HOH HOH . 
E 4 HOH A 29 429 40 HOH HOH . 
E 4 HOH A 30 430 15 HOH HOH . 
E 4 HOH A 31 431 14 HOH HOH . 
E 4 HOH A 32 432 52 HOH HOH . 
E 4 HOH A 33 433 9 HOH HOH . 
E 4 HOH A 34 434 60 HOH HOH . 
E 4 HOH A 35 435 33 HOH HOH . 
E 4 HOH A 36 436 4 HOH HOH . 
E 4 HOH A 37 437 25 HOH HOH . 
E 4 HOH A 38 438 13 HOH HOH . 
E 4 HOH A 39 439 23 HOH HOH . 
E 4 HOH A 40 440 38 HOH HOH . 
E 4 HOH A 41 441 57 HOH HOH . 
E 4 HOH A 42 442 30 HOH HOH . 
E 4 HOH A 43 443 10 HOH HOH . 
E 4 HOH A 44 444 47 HOH HOH . 
E 4 HOH A 45 445 45 HOH HOH . 
E 4 HOH A 46 446 5 HOH HOH . 
E 4 HOH A 47 447 46 HOH HOH . 
E 4 HOH A 48 448 31 HOH HOH . 
E 4 HOH A 49 449 12 HOH HOH . 
E 4 HOH A 50 450 19 HOH HOH . 
E 4 HOH A 51 451 9 HOH HOH . 
E 4 HOH A 52 452 26 HOH HOH . 
E 4 HOH A 53 453 11 HOH HOH . 
E 4 HOH A 54 454 23 HOH HOH . 
E 4 HOH A 55 455 15 HOH HOH . 
E 4 HOH A 56 456 33 HOH HOH . 
E 4 HOH A 57 457 28 HOH HOH . 
E 4 HOH A 58 458 11 HOH HOH . 
E 4 HOH A 59 459 48 HOH HOH . 
E 4 HOH A 60 460 18 HOH HOH . 
E 4 HOH A 61 461 22 HOH HOH . 
E 4 HOH A 62 462 43 HOH HOH . 
E 4 HOH A 63 463 58 HOH HOH . 
E 4 HOH A 64 464 29 HOH HOH . 
E 4 HOH A 65 465 37 HOH HOH . 
E 4 HOH A 66 466 7 HOH HOH . 
E 4 HOH A 67 467 55 HOH HOH . 
E 4 HOH A 68 468 3 HOH HOH . 
E 4 HOH A 69 469 35 HOH HOH . 
E 4 HOH A 70 470 21 HOH HOH . 
E 4 HOH A 71 471 30 HOH HOH . 
E 4 HOH A 72 472 5 HOH HOH . 
E 4 HOH A 73 473 56 HOH HOH . 
E 4 HOH A 74 474 17 HOH HOH . 
E 4 HOH A 75 475 1 HOH HOH . 
E 4 HOH A 76 476 43 HOH HOH . 
E 4 HOH A 77 477 44 HOH HOH . 
E 4 HOH A 78 478 13 HOH HOH . 
E 4 HOH A 79 479 12 HOH HOH . 
E 4 HOH A 80 480 59 HOH HOH . 
E 4 HOH A 81 481 44 HOH HOH . 
E 4 HOH A 82 482 41 HOH HOH . 
E 4 HOH A 83 483 34 HOH HOH . 
E 4 HOH A 84 484 17 HOH HOH . 
E 4 HOH A 85 485 25 HOH HOH . 
E 4 HOH A 86 486 6 HOH HOH . 
E 4 HOH A 87 487 38 HOH HOH . 
E 4 HOH A 88 488 61 HOH HOH . 
E 4 HOH A 89 489 1 HOH HOH . 
E 4 HOH A 90 490 42 HOH HOH . 
E 4 HOH A 91 491 29 HOH HOH . 
E 4 HOH A 92 492 10 HOH HOH . 
E 4 HOH A 93 493 19 HOH HOH . 
E 4 HOH A 94 494 8 HOH HOH . 
E 4 HOH A 95 495 50 HOH HOH . 
E 4 HOH A 96 496 16 HOH HOH . 
E 4 HOH A 97 497 8 HOH HOH . 
E 4 HOH A 98 498 18 HOH HOH . 
E 4 HOH A 99 499 2 HOH HOH . 
E 4 HOH A 100 500 22 HOH HOH . 
E 4 HOH A 101 501 3 HOH HOH . 
E 4 HOH A 102 502 54 HOH HOH . 
E 4 HOH A 103 503 28 HOH HOH . 
E 4 HOH A 104 504 41 HOH HOH . 
E 4 HOH A 105 505 34 HOH HOH . 
E 4 HOH A 106 506 20 HOH HOH . 
E 4 HOH A 107 507 14 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 C01 E7D . . . D 3 19.286 -15.13 -26.689 1 65.05 ? C01 E7D 303 A 1 
HETATM 2 C C02 E7D . . . D 3 19.294 -14.328 -25.403 1 62.22 ? C02 E7D 303 A 1 
HETATM 3 C C03 E7D . . . D 3 19.208 -15.122 -24.068 1 59.38 ? C03 E7D 303 A 1 
HETATM 4 C C04 E7D . . . D 3 18.312 -14.502 -22.979 1 57.86 ? C04 E7D 303 A 1 
HETATM 5 C C05 E7D . . . D 3 18.04 -15.3 -21.715 1 55.52 ? C05 E7D 303 A 1 
HETATM 6 C C06 E7D . . . D 3 17.522 -14.506 -20.542 1 50.98 ? C06 E7D 303 A 1 
HETATM 7 C C07 E7D . . . D 3 17.076 -15.341 -19.318 1 49.13 ? C07 E7D 303 A 1 
HETATM 8 N N08 E7D . . . D 3 16.76 -14.5 -18.207 1 48.62 ? N08 E7D 303 A 1 
HETATM 9 O O09 E7D . . . D 3 17.655 -13.811 -17.594 1 46.69 ? O09 E7D 303 A 1 
HETATM 10 C C10 E7D . . . D 3 15.438 -14.352 -17.752 1 46.06 ? C10 E7D 303 A 1 
HETATM 11 O O11 E7D . . . D 3 15.249 -13.576 -16.793 1 41.44 ? O11 E7D 303 A 1 
HETATM 12 C C12 E7D . . . D 3 16.391 -13.594 -20.924 1 49.36 ? C12 E7D 303 A 1 
HETATM 13 O O13 E7D . . . D 3 15.267 -14.005 -21.177 1 48.04 ? O13 E7D 303 A 1 
HETATM 14 N N14 E7D . . . D 3 16.689 -12.145 -20.958 1 47.69 ? N14 E7D 303 A 1 
HETATM 15 C C15 E7D . . . D 3 15.643 -11.21 -21.317 1 47.29 ? C15 E7D 303 A 1 
HETATM 16 N N16 E7D . . . D 3 15.212 -11.434 -22.723 1 49.17 ? N16 E7D 303 A 1 
HETATM 17 C C17 E7D . . . D 3 16.154 -11.237 -23.743 1 49.95 ? C17 E7D 303 A 1 
HETATM 18 O O18 E7D . . . D 3 17.246 -10.896 -23.511 1 47.66 ? O18 E7D 303 A 1 
HETATM 19 C C19 E7D . . . D 3 15.647 -11.522 -25.145 1 50.35 ? C19 E7D 303 A 1 
HETATM 20 C C20 E7D . . . D 3 16.274 -11.114 -26.347 1 51.22 ? C20 E7D 303 A 1 
HETATM 21 C C21 E7D . . . D 3 15.44 -11.612 -27.403 1 54.7 ? C21 E7D 303 A 1 
HETATM 22 C C22 E7D . . . D 3 15.588 -11.499 -28.829 1 57.46 ? C22 E7D 303 A 1 
HETATM 23 C C23 E7D . . . D 3 14.622 -12.086 -29.681 1 55.54 ? C23 E7D 303 A 1 
HETATM 24 C C24 E7D . . . D 3 13.527 -12.776 -29.117 1 53.44 ? C24 E7D 303 A 1 
HETATM 25 C C25 E7D . . . D 3 13.358 -12.908 -27.699 1 55.62 ? C25 E7D 303 A 1 
HETATM 26 O O26 E7D . . . D 3 12.217 -13.619 -27.306 1 60.19 ? O26 E7D 303 A 1 
HETATM 27 C C27 E7D . . . D 3 11.808 -14.01 -26.021 1 58.54 ? C27 E7D 303 A 1 
HETATM 28 C C28 E7D . . . D 3 14.344 -12.303 -26.83 1 54.03 ? C28 E7D 303 A 1 
HETATM 29 O O29 E7D . . . D 3 14.498 -12.238 -25.423 1 54.12 ? O29 E7D 303 A 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           29 
#