data_7CSJ
#
_model_server_result.job_id            D-f7vFcBkuQmgXaa_s3AQg 
_model_server_result.datetime_utc      '2024-11-24 11:29:18' 
_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          7csj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    7CSJ 
#
_exptl.entry_id    7CSJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              477.595 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'gentamicin C1' 
_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            7CSJ 
_cell.length_a            54.486 
_cell.length_b            60.212 
_cell.length_c            116.955 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7CSJ 
_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    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,F,G 
_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                      2 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C21 H43 N5 O7' 
_chem_comp.formula_weight    477.595 
_chem_comp.id                51G 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'gentamicin C1' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '(1S,2S,3R,4S,6R)-4,6-diamino-3-({(2R,3R,6S)-3-amino-6-[(1R)-1-(methylamino)ethyl]tetrahydro-2H-pyran-2-yl}oxy)-2-hydrox ycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside' 
#
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
N3 C5 51G sing 1 n n 
C5 C4 51G sing 2 n n 
C5 C6 51G sing 3 n n 
C4 C3 51G sing 4 n n 
C3 C2 51G sing 5 n n 
C6 O 51G sing 6 n n 
C6 O1 51G sing 7 n n 
O5 C16 51G sing 8 n n 
O2 C12 51G sing 9 n n 
C C1 51G sing 10 n n 
O4 C17 51G sing 11 n n 
O4 C13 51G sing 12 n n 
C17 C16 51G sing 13 n n 
O C2 51G sing 14 n n 
C2 C1 51G sing 15 n n 
O1 C7 51G sing 16 n n 
C16 C18 51G sing 17 n n 
C16 C15 51G sing 18 n n 
C1 N4 51G sing 19 n n 
C13 C14 51G sing 20 n n 
C13 O3 51G sing 21 n n 
C12 C7 51G sing 22 n n 
C12 C11 51G sing 23 n n 
C7 C8 51G sing 24 n n 
C14 C15 51G sing 25 n n 
C14 O6 51G sing 26 n n 
C15 N 51G sing 27 n n 
O3 C11 51G sing 28 n n 
C11 C10 51G sing 29 n n 
N4 C20 51G sing 30 n n 
N C19 51G sing 31 n n 
C8 N2 51G sing 32 n n 
C8 C9 51G sing 33 n n 
C10 C9 51G sing 34 n n 
C10 N1 51G sing 35 n n 
O6 H1 51G sing 36 n n 
C14 H2 51G sing 37 n n 
C15 H3 51G sing 38 n n 
N H4 51G sing 39 n n 
C19 H6 51G sing 40 n n 
C19 H7 51G sing 41 n n 
C19 H8 51G sing 42 n n 
C18 H9 51G sing 43 n n 
C18 H10 51G sing 44 n n 
C18 H11 51G sing 45 n n 
O5 H12 51G sing 46 n n 
C17 H13 51G sing 47 n n 
C17 H14 51G sing 48 n n 
C13 H15 51G sing 49 n n 
C11 H16 51G sing 50 n n 
C10 H17 51G sing 51 n n 
N1 H18 51G sing 52 n n 
N1 H19 51G sing 53 n n 
C9 H21 51G sing 54 n n 
C9 H22 51G sing 55 n n 
C8 H23 51G sing 56 n n 
N2 H24 51G sing 57 n n 
N2 H25 51G sing 58 n n 
C12 H27 51G sing 59 n n 
O2 H28 51G sing 60 n n 
C7 H29 51G sing 61 n n 
C6 H30 51G sing 62 n n 
C5 H31 51G sing 63 n n 
N3 H32 51G sing 64 n n 
N3 H33 51G sing 65 n n 
C4 H35 51G sing 66 n n 
C4 H36 51G sing 67 n n 
C3 H37 51G sing 68 n n 
C3 H38 51G sing 69 n n 
C2 H39 51G sing 70 n n 
C1 H40 51G sing 71 n n 
C H41 51G sing 72 n n 
C H42 51G sing 73 n n 
C H43 51G sing 74 n n 
N4 H44 51G sing 75 n n 
C20 H46 51G sing 76 n n 
C20 H47 51G sing 77 n n 
C20 H48 51G sing 78 n n 
#
_atom_sites.entry_id                     7CSJ 
_atom_sites.fract_transf_matrix[1][1]    0.018353 
_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]    0.016608 
_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]    0.00855 
_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
C 2 51G A 1 301 300 51G 51G . 
D 3 COA A 1 302 501 COA COA . 
E 3 COA B 1 501 501 COA COA . 
F 4 HOH A 1 401 12 HOH HOH . 
F 4 HOH A 2 402 108 HOH HOH . 
F 4 HOH A 3 403 49 HOH HOH . 
F 4 HOH A 4 404 80 HOH HOH . 
F 4 HOH A 5 405 23 HOH HOH . 
F 4 HOH A 6 406 38 HOH HOH . 
F 4 HOH A 7 407 33 HOH HOH . 
F 4 HOH A 8 408 60 HOH HOH . 
F 4 HOH A 9 409 3 HOH HOH . 
F 4 HOH A 10 410 88 HOH HOH . 
F 4 HOH A 11 411 13 HOH HOH . 
F 4 HOH A 12 412 11 HOH HOH . 
F 4 HOH A 13 413 52 HOH HOH . 
F 4 HOH A 14 414 27 HOH HOH . 
F 4 HOH A 15 415 36 HOH HOH . 
F 4 HOH A 16 416 2 HOH HOH . 
F 4 HOH A 17 417 40 HOH HOH . 
F 4 HOH A 18 418 1 HOH HOH . 
F 4 HOH A 19 419 17 HOH HOH . 
F 4 HOH A 20 420 42 HOH HOH . 
F 4 HOH A 21 421 39 HOH HOH . 
F 4 HOH A 22 422 69 HOH HOH . 
F 4 HOH A 23 423 35 HOH HOH . 
F 4 HOH A 24 424 31 HOH HOH . 
F 4 HOH A 25 425 41 HOH HOH . 
F 4 HOH A 26 426 21 HOH HOH . 
F 4 HOH A 27 427 24 HOH HOH . 
F 4 HOH A 28 428 73 HOH HOH . 
F 4 HOH A 29 429 97 HOH HOH . 
F 4 HOH A 30 430 91 HOH HOH . 
F 4 HOH A 31 431 63 HOH HOH . 
F 4 HOH A 32 432 14 HOH HOH . 
F 4 HOH A 33 433 25 HOH HOH . 
F 4 HOH A 34 434 4 HOH HOH . 
F 4 HOH A 35 435 68 HOH HOH . 
F 4 HOH A 36 436 37 HOH HOH . 
F 4 HOH A 37 437 15 HOH HOH . 
F 4 HOH A 38 438 54 HOH HOH . 
F 4 HOH A 39 439 9 HOH HOH . 
F 4 HOH A 40 440 90 HOH HOH . 
F 4 HOH A 41 441 86 HOH HOH . 
F 4 HOH A 42 442 28 HOH HOH . 
F 4 HOH A 43 443 95 HOH HOH . 
F 4 HOH A 44 444 6 HOH HOH . 
F 4 HOH A 45 445 96 HOH HOH . 
F 4 HOH A 46 446 99 HOH HOH . 
F 4 HOH A 47 447 16 HOH HOH . 
F 4 HOH A 48 448 43 HOH HOH . 
F 4 HOH A 49 449 10 HOH HOH . 
F 4 HOH A 50 450 47 HOH HOH . 
F 4 HOH A 51 451 65 HOH HOH . 
F 4 HOH A 52 452 45 HOH HOH . 
F 4 HOH A 53 453 78 HOH HOH . 
F 4 HOH A 54 454 29 HOH HOH . 
F 4 HOH A 55 455 62 HOH HOH . 
F 4 HOH A 56 456 20 HOH HOH . 
F 4 HOH A 57 457 105 HOH HOH . 
F 4 HOH A 58 458 64 HOH HOH . 
F 4 HOH A 59 459 70 HOH HOH . 
F 4 HOH A 60 460 22 HOH HOH . 
F 4 HOH A 61 461 71 HOH HOH . 
F 4 HOH A 62 462 107 HOH HOH . 
F 4 HOH A 63 463 30 HOH HOH . 
F 4 HOH A 64 464 66 HOH HOH . 
F 4 HOH A 65 465 26 HOH HOH . 
F 4 HOH A 66 466 67 HOH HOH . 
F 4 HOH A 67 467 94 HOH HOH . 
F 4 HOH A 68 468 44 HOH HOH . 
F 4 HOH A 69 469 102 HOH HOH . 
F 4 HOH A 70 470 93 HOH HOH . 
F 4 HOH A 71 471 112 HOH HOH . 
F 4 HOH A 72 472 84 HOH HOH . 
F 4 HOH A 73 473 98 HOH HOH . 
F 4 HOH A 74 474 113 HOH HOH . 
G 4 HOH B 1 601 92 HOH HOH . 
G 4 HOH B 2 602 5 HOH HOH . 
G 4 HOH B 3 603 34 HOH HOH . 
G 4 HOH B 4 604 61 HOH HOH . 
G 4 HOH B 5 605 18 HOH HOH . 
G 4 HOH B 6 606 89 HOH HOH . 
G 4 HOH B 7 607 104 HOH HOH . 
G 4 HOH B 8 608 8 HOH HOH . 
G 4 HOH B 9 609 58 HOH HOH . 
G 4 HOH B 10 610 51 HOH HOH . 
G 4 HOH B 11 611 53 HOH HOH . 
G 4 HOH B 12 612 79 HOH HOH . 
G 4 HOH B 13 613 48 HOH HOH . 
G 4 HOH B 14 614 7 HOH HOH . 
G 4 HOH B 15 615 50 HOH HOH . 
G 4 HOH B 16 616 85 HOH HOH . 
G 4 HOH B 17 617 57 HOH HOH . 
G 4 HOH B 18 618 101 HOH HOH . 
G 4 HOH B 19 619 100 HOH HOH . 
G 4 HOH B 20 620 56 HOH HOH . 
G 4 HOH B 21 621 75 HOH HOH . 
G 4 HOH B 22 622 19 HOH HOH . 
G 4 HOH B 23 623 46 HOH HOH . 
G 4 HOH B 24 624 74 HOH HOH . 
G 4 HOH B 25 625 72 HOH HOH . 
G 4 HOH B 26 626 77 HOH HOH . 
G 4 HOH B 27 627 106 HOH HOH . 
G 4 HOH B 28 628 87 HOH HOH . 
G 4 HOH B 29 629 83 HOH HOH . 
G 4 HOH B 30 630 32 HOH HOH . 
G 4 HOH B 31 631 55 HOH HOH . 
G 4 HOH B 32 632 76 HOH HOH . 
G 4 HOH B 33 633 81 HOH HOH . 
G 4 HOH B 34 634 59 HOH HOH . 
G 4 HOH B 35 635 111 HOH HOH . 
G 4 HOH B 36 636 82 HOH HOH . 
G 4 HOH B 37 637 110 HOH HOH . 
G 4 HOH B 38 638 109 HOH HOH . 
G 4 HOH B 39 639 103 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 O O6 51G . . . C 2 1.988 -21.586 -35.711 1 36.88 ? O6 51G 301 A 1 
HETATM 2 C C14 51G . . . C 2 0.896 -20.832 -35.324 1 39.59 ? C14 51G 301 A 1 
HETATM 3 C C15 51G . . . C 2 1.257 -19.355 -35.382 1 40.99 ? C15 51G 301 A 1 
HETATM 4 N N 51G . . . C 2 1.575 -18.954 -36.733 1 41.22 ? N 51G 301 A 1 
HETATM 5 C C19 51G . . . C 2 2.544 -17.901 -36.789 1 46.41 ? C19 51G 301 A 1 
HETATM 6 C C16 51G . . . C 2 0.088 -18.523 -34.842 1 42.28 ? C16 51G 301 A 1 
HETATM 7 C C18 51G . . . C 2 0.43 -17.047 -34.765 1 43.69 ? C18 51G 301 A 1 
HETATM 8 O O5 51G . . . C 2 -0.975 -18.646 -35.765 1 41.64 ? O5 51G 301 A 1 
HETATM 9 C C17 51G . . . C 2 -0.366 -19.053 -33.485 1 39.38 ? C17 51G 301 A 1 
HETATM 10 O O4 51G . . . C 2 -0.634 -20.455 -33.513 1 34.15 ? O4 51G 301 A 1 
HETATM 11 C C13 51G . . . C 2 0.455 -21.214 -33.922 1 39.59 ? C13 51G 301 A 1 
HETATM 12 O O3 51G . . . C 2 1.521 -21.112 -33.026 1 37.48 ? O3 51G 301 A 1 
HETATM 13 C C11 51G . . . C 2 1.786 -22.299 -32.276 1 34.31 ? C11 51G 301 A 1 
HETATM 14 C C10 51G . . . C 2 3.284 -22.511 -32.279 1 33.31 ? C10 51G 301 A 1 
HETATM 15 N N1 51G . . . C 2 3.777 -22.661 -33.677 1 36.73 ? N1 51G 301 A 1 
HETATM 16 C C9 51G . . . C 2 3.627 -23.749 -31.474 1 32.67 ? C9 51G 301 A 1 
HETATM 17 C C8 51G . . . C 2 3.156 -23.563 -30.044 1 32.38 ? C8 51G 301 A 1 
HETATM 18 N N2 51G . . . C 2 3.57 -24.741 -29.234 1 29.64 ? N2 51G 301 A 1 
HETATM 19 C C12 51G . . . C 2 1.272 -22.175 -30.844 1 29.51 ? C12 51G 301 A 1 
HETATM 20 O O2 51G . . . C 2 -0.132 -22.007 -30.906 1 31.01 ? O2 51G 301 A 1 
HETATM 21 C C7 51G . . . C 2 1.649 -23.385 -30 1 26.71 ? C7 51G 301 A 1 
HETATM 22 O O1 51G . . . C 2 1.29 -23.28 -28.622 1 31.48 ? O1 51G 301 A 1 
HETATM 23 C C6 51G . . . C 2 -0.029 -23.443 -28.205 1 30.54 ? C6 51G 301 A 1 
HETATM 24 C C5 51G . . . C 2 -0.08 -23.381 -26.689 1 28.61 ? C5 51G 301 A 1 
HETATM 25 N N3 51G . . . C 2 0.599 -22.162 -26.17 1 29.58 ? N3 51G 301 A 1 
HETATM 26 C C4 51G . . . C 2 0.535 -24.619 -26.053 1 29.15 ? C4 51G 301 A 1 
HETATM 27 C C3 51G . . . C 2 -0.06 -25.866 -26.68 1 31.17 ? C3 51G 301 A 1 
HETATM 28 O O 51G . . . C 2 -0.596 -24.639 -28.682 1 28.35 ? O 51G 301 A 1 
HETATM 29 C C2 51G . . . C 2 0.036 -25.802 -28.186 1 31.52 ? C2 51G 301 A 1 
HETATM 30 C C1 51G . . . C 2 -0.672 -26.998 -28.805 1 35.42 ? C1 51G 301 A 1 
HETATM 31 C C 51G . . . C 2 -2.12 -27.066 -28.374 1 37.65 ? C 51G 301 A 1 
HETATM 32 N N4 51G . . . C 2 -0.574 -27.043 -30.268 1 37.88 ? N4 51G 301 A 1 
HETATM 33 C C20 51G . . . C 2 -1.678 -26.29 -30.852 1 41.63 ? C20 51G 301 A 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           33 
#