data_6MN2
#
_model_server_result.job_id            8Ill4GZl4fiSw8AlmcfbvA 
_model_server_result.datetime_utc      '2024-11-16 20:47:47' 
_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          6mn2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":302}' 
#
_entry.id    6MN2 
#
_exptl.entry_id    6MN2 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              447.526 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside' 
_entity.pdbx_number_of_molecules    2 
_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            6MN2 
_cell.length_a            127.755 
_cell.length_b            127.755 
_cell.length_c            95.114 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6MN2 
_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,F,G,H,I,J,K,L,M,N 
_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
? 3 D N N 
? 3 J 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 C S1P COA . A COA 301 1_555 D N32 SIS . A SIS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.617 ? 
covale ? covale2 I S1P COA . B COA 301 1_555 J N32 SIS . B SIS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.618 ? 
#
_chem_comp.formula           'C19 H37 N5 O7' 
_chem_comp.formula_weight    447.526 
_chem_comp.id                SIS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Sisomicin 
#
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
O43 C43 SIS sing 379 n n 
C83 C43 SIS sing 380 n n 
C43 C53 SIS sing 381 n n 
C43 C33 SIS sing 382 n n 
N33 C33 SIS sing 383 n n 
N33 C93 SIS sing 384 n n 
C53 O53 SIS sing 385 n n 
C33 C23 SIS sing 386 n n 
O53 C13 SIS sing 387 n n 
C23 C13 SIS sing 388 n n 
C23 O23 SIS sing 389 n n 
C13 O62 SIS sing 390 n n 
O62 C62 SIS sing 391 n n 
O52 C52 SIS sing 392 n n 
C62 C52 SIS sing 393 n n 
C62 C12 SIS sing 394 n n 
N12 C12 SIS sing 395 n n 
C52 C42 SIS sing 396 n n 
C12 C22 SIS sing 397 n n 
C42 O11 SIS sing 398 n n 
C42 C32 SIS sing 399 n n 
C22 C32 SIS sing 400 n n 
C11 O11 SIS sing 401 n n 
C11 O51 SIS sing 402 n n 
C11 C21 SIS sing 403 n n 
N21 C21 SIS sing 404 n n 
O51 C51 SIS sing 405 n n 
C32 N32 SIS sing 406 n n 
C21 C31 SIS sing 407 n n 
C51 C61 SIS sing 408 n n 
C51 C41 SIS doub 409 n n 
N61 C61 SIS sing 410 n n 
C31 C41 SIS sing 411 n n 
C11 H1 SIS sing 412 n n 
C12 H2 SIS sing 413 n n 
C13 H3 SIS sing 414 n n 
C21 H4 SIS sing 415 n n 
C22 H5 SIS sing 416 n n 
C22 H6 SIS sing 417 n n 
C23 H7 SIS sing 418 n n 
C31 H8 SIS sing 419 n n 
C31 H9 SIS sing 420 n n 
C32 H10 SIS sing 421 n n 
C33 H11 SIS sing 422 n n 
C41 H12 SIS sing 423 n n 
C42 H13 SIS sing 424 n n 
C52 H14 SIS sing 425 n n 
C53 H15 SIS sing 426 n n 
C53 H16 SIS sing 427 n n 
C61 H17 SIS sing 428 n n 
C61 H18 SIS sing 429 n n 
C62 H19 SIS sing 430 n n 
C83 H20 SIS sing 431 n n 
C83 H21 SIS sing 432 n n 
C83 H22 SIS sing 433 n n 
C93 H23 SIS sing 434 n n 
C93 H24 SIS sing 435 n n 
C93 H25 SIS sing 436 n n 
N12 H26 SIS sing 437 n n 
N12 H27 SIS sing 438 n n 
N21 H29 SIS sing 439 n n 
N21 H30 SIS sing 440 n n 
N32 H32 SIS sing 441 n n 
N32 H33 SIS sing 442 n n 
N33 H35 SIS sing 443 n n 
N61 H37 SIS sing 444 n n 
N61 H38 SIS sing 445 n n 
O23 H40 SIS sing 446 n n 
O43 H41 SIS sing 447 n n 
O52 H42 SIS sing 448 n n 
#
_atom_sites.entry_id                     6MN2 
_atom_sites.fract_transf_matrix[1][1]    0.007827 
_atom_sites.fract_transf_matrix[1][2]    0.004519 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009038 
_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]    0.010514 
_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 COA A 1 301 301 COA COA . 
D 3 SIS A 1 302 302 SIS SIS . 
E 4 CL A 1 303 303 CL CL . 
F 4 CL A 1 304 304 CL CL . 
G 4 CL A 1 305 305 CL CL . 
H 5 PEG A 1 306 306 PEG PEG . 
I 2 COA B 1 301 301 COA COA . 
J 3 SIS B 1 302 302 SIS SIS . 
K 6 SO4 B 1 303 303 SO4 SO4 . 
L 5 PEG B 1 304 304 PEG PEG . 
M 7 HOH A 1 401 401 HOH HOH . 
M 7 HOH A 2 402 402 HOH HOH . 
M 7 HOH A 3 403 403 HOH HOH . 
M 7 HOH A 4 404 404 HOH HOH . 
M 7 HOH A 5 405 405 HOH HOH . 
M 7 HOH A 6 406 406 HOH HOH . 
M 7 HOH A 7 407 407 HOH HOH . 
M 7 HOH A 8 408 408 HOH HOH . 
M 7 HOH A 9 409 409 HOH HOH . 
M 7 HOH A 10 410 410 HOH HOH . 
M 7 HOH A 11 411 411 HOH HOH . 
M 7 HOH A 12 412 412 HOH HOH . 
M 7 HOH A 13 413 413 HOH HOH . 
M 7 HOH A 14 414 414 HOH HOH . 
M 7 HOH A 15 415 415 HOH HOH . 
M 7 HOH A 16 416 416 HOH HOH . 
M 7 HOH A 17 417 417 HOH HOH . 
M 7 HOH A 18 418 419 HOH HOH . 
M 7 HOH A 19 419 420 HOH HOH . 
M 7 HOH A 20 420 421 HOH HOH . 
M 7 HOH A 21 421 422 HOH HOH . 
M 7 HOH A 22 422 423 HOH HOH . 
M 7 HOH A 23 423 424 HOH HOH . 
M 7 HOH A 24 424 418 HOH HOH . 
M 7 HOH A 25 425 425 HOH HOH . 
M 7 HOH A 26 426 426 HOH HOH . 
M 7 HOH A 27 427 427 HOH HOH . 
M 7 HOH A 28 428 428 HOH HOH . 
M 7 HOH A 29 429 429 HOH HOH . 
M 7 HOH A 30 430 430 HOH HOH . 
M 7 HOH A 31 431 431 HOH HOH . 
M 7 HOH A 32 432 433 HOH HOH . 
M 7 HOH A 33 433 434 HOH HOH . 
M 7 HOH A 34 434 435 HOH HOH . 
M 7 HOH A 35 435 436 HOH HOH . 
M 7 HOH A 36 436 437 HOH HOH . 
M 7 HOH A 37 437 438 HOH HOH . 
M 7 HOH A 38 438 439 HOH HOH . 
M 7 HOH A 39 439 432 HOH HOH . 
M 7 HOH A 40 440 440 HOH HOH . 
M 7 HOH A 41 441 441 HOH HOH . 
M 7 HOH A 42 442 442 HOH HOH . 
M 7 HOH A 43 443 443 HOH HOH . 
M 7 HOH A 44 444 444 HOH HOH . 
M 7 HOH A 45 445 445 HOH HOH . 
M 7 HOH A 46 446 446 HOH HOH . 
M 7 HOH A 47 447 447 HOH HOH . 
M 7 HOH A 48 448 448 HOH HOH . 
M 7 HOH A 49 449 449 HOH HOH . 
M 7 HOH A 50 450 450 HOH HOH . 
M 7 HOH A 51 451 451 HOH HOH . 
M 7 HOH A 52 452 452 HOH HOH . 
M 7 HOH A 53 453 453 HOH HOH . 
M 7 HOH A 54 454 454 HOH HOH . 
M 7 HOH A 55 455 455 HOH HOH . 
M 7 HOH A 56 456 456 HOH HOH . 
M 7 HOH A 57 457 457 HOH HOH . 
M 7 HOH A 58 458 458 HOH HOH . 
M 7 HOH A 59 459 459 HOH HOH . 
M 7 HOH A 60 460 460 HOH HOH . 
M 7 HOH A 61 461 461 HOH HOH . 
M 7 HOH A 62 462 462 HOH HOH . 
M 7 HOH A 63 463 463 HOH HOH . 
M 7 HOH A 64 464 464 HOH HOH . 
M 7 HOH A 65 465 465 HOH HOH . 
M 7 HOH A 66 466 466 HOH HOH . 
M 7 HOH A 67 467 467 HOH HOH . 
M 7 HOH A 68 468 468 HOH HOH . 
M 7 HOH A 69 469 469 HOH HOH . 
M 7 HOH A 70 470 470 HOH HOH . 
M 7 HOH A 71 471 471 HOH HOH . 
M 7 HOH A 72 472 472 HOH HOH . 
M 7 HOH A 73 473 473 HOH HOH . 
M 7 HOH A 74 474 474 HOH HOH . 
M 7 HOH A 75 475 475 HOH HOH . 
M 7 HOH A 76 476 476 HOH HOH . 
M 7 HOH A 77 477 477 HOH HOH . 
M 7 HOH A 78 478 478 HOH HOH . 
M 7 HOH A 79 479 479 HOH HOH . 
N 7 HOH B 1 401 401 HOH HOH . 
N 7 HOH B 2 402 402 HOH HOH . 
N 7 HOH B 3 403 403 HOH HOH . 
N 7 HOH B 4 404 404 HOH HOH . 
N 7 HOH B 5 405 405 HOH HOH . 
N 7 HOH B 6 406 406 HOH HOH . 
N 7 HOH B 7 407 407 HOH HOH . 
N 7 HOH B 8 408 408 HOH HOH . 
N 7 HOH B 9 409 409 HOH HOH . 
N 7 HOH B 10 410 410 HOH HOH . 
N 7 HOH B 11 411 411 HOH HOH . 
N 7 HOH B 12 412 412 HOH HOH . 
N 7 HOH B 13 413 413 HOH HOH . 
N 7 HOH B 14 414 414 HOH HOH . 
N 7 HOH B 15 415 415 HOH HOH . 
N 7 HOH B 16 416 416 HOH HOH . 
N 7 HOH B 17 417 417 HOH HOH . 
N 7 HOH B 18 418 418 HOH HOH . 
N 7 HOH B 19 419 419 HOH HOH . 
N 7 HOH B 20 420 420 HOH HOH . 
N 7 HOH B 21 421 421 HOH HOH . 
N 7 HOH B 22 422 422 HOH HOH . 
N 7 HOH B 23 423 423 HOH HOH . 
N 7 HOH B 24 424 424 HOH HOH . 
N 7 HOH B 25 425 425 HOH HOH . 
N 7 HOH B 26 426 426 HOH HOH . 
N 7 HOH B 27 427 427 HOH HOH . 
N 7 HOH B 28 428 428 HOH HOH . 
N 7 HOH B 29 429 429 HOH HOH . 
N 7 HOH B 30 430 430 HOH HOH . 
N 7 HOH B 31 431 431 HOH HOH . 
N 7 HOH B 32 432 432 HOH HOH . 
N 7 HOH B 33 433 433 HOH HOH . 
N 7 HOH B 34 434 434 HOH HOH . 
N 7 HOH B 35 435 435 HOH HOH . 
N 7 HOH B 36 436 436 HOH HOH . 
N 7 HOH B 37 437 437 HOH HOH . 
N 7 HOH B 38 438 438 HOH HOH . 
N 7 HOH B 39 439 439 HOH HOH . 
N 7 HOH B 40 440 440 HOH HOH . 
N 7 HOH B 41 441 441 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 C11 SIS . . . D 3 194.397 290.476 10.603 1 52.81 ? C11 SIS 302 A 1 
HETATM 2 C C12 SIS . . . D 3 192.635 285.845 9.581 1 45.65 ? C12 SIS 302 A 1 
HETATM 3 C C13 SIS . . . D 3 189.408 286.751 9.164 1 43.31 ? C13 SIS 302 A 1 
HETATM 4 C C21 SIS . . . D 3 194.503 291.745 9.802 1 52.84 ? C21 SIS 302 A 1 
HETATM 5 C C22 SIS . . . D 3 193.86 286.043 10.502 1 46.78 ? C22 SIS 302 A 1 
HETATM 6 C C23 SIS . . . D 3 188.835 285.775 8.146 1 43.13 ? C23 SIS 302 A 1 
HETATM 7 C C31 SIS . . . D 3 195.765 291.681 8.948 1 53.55 ? C31 SIS 302 A 1 
HETATM 8 C C32 SIS . . . D 3 194.671 287.176 9.928 1 48.09 ? C32 SIS 302 A 1 
HETATM 9 C C33 SIS . . . D 3 188.832 286.428 6.75 1 42.59 ? C33 SIS 302 A 1 
HETATM 10 C C41 SIS . . . D 3 196.861 291.535 9.768 1 54.22 ? C41 SIS 302 A 1 
HETATM 11 C C42 SIS . . . D 3 193.766 288.433 9.964 1 48.85 ? C42 SIS 302 A 1 
HETATM 12 C C43 SIS . . . D 3 188.07 287.791 6.866 1 42.48 ? C43 SIS 302 A 1 
HETATM 13 C C51 SIS . . . D 3 196.756 290.687 10.865 1 54.88 ? C51 SIS 302 A 1 
HETATM 14 C C52 SIS . . . D 3 192.588 288.29 9.092 1 46.93 ? C52 SIS 302 A 1 
HETATM 15 C C53 SIS . . . D 3 188.725 288.602 7.948 1 42.99 ? C53 SIS 302 A 1 
HETATM 16 C C61 SIS . . . D 3 197.927 290.633 11.609 1 55.81 ? C61 SIS 302 A 1 
HETATM 17 C C62 SIS . . . D 3 191.838 287.108 9.514 1 45.16 ? C62 SIS 302 A 1 
HETATM 18 C C83 SIS . . . D 3 188.103 288.575 5.539 1 42.23 ? C83 SIS 302 A 1 
HETATM 19 C C93 SIS . . . D 3 186.848 285.383 5.38 1 42.15 ? C93 SIS 302 A 1 
HETATM 20 N N12 SIS . . . D 3 191.752 284.823 10.218 1 45.35 ? N12 SIS 302 A 1 
HETATM 21 N N21 SIS . . . D 3 193.323 291.977 8.97 1 53.35 ? N21 SIS 302 A 1 
HETATM 22 N N32 SIS . . . D 3 195.803 287.33 10.826 1 48.69 ? N32 SIS 302 A 1 
HETATM 23 N N33 SIS . . . D 3 188.295 285.547 5.706 1 42.2 ? N33 SIS 302 A 1 
HETATM 24 N N61 SIS . . . D 3 199.044 290.4 10.672 1 56.14 ? N61 SIS 302 A 1 
HETATM 25 O O11 SIS . . . D 3 194.385 289.588 9.469 1 51.65 ? O11 SIS 302 A 1 
HETATM 26 O O23 SIS . . . D 3 189.558 284.57 8.173 1 43.75 ? O23 SIS 302 A 1 
HETATM 27 O O43 SIS . . . D 3 186.729 287.546 7.337 1 42.49 ? O43 SIS 302 A 1 
HETATM 28 O O51 SIS . . . D 3 195.539 290.395 11.462 1 53.9 ? O51 SIS 302 A 1 
HETATM 29 O O52 SIS . . . D 3 191.795 289.482 9.129 1 46.94 ? O52 SIS 302 A 1 
HETATM 30 O O53 SIS . . . D 3 188.728 288.005 9.231 1 43.27 ? O53 SIS 302 A 1 
HETATM 31 O O62 SIS . . . D 3 190.733 287 8.689 1 43.57 ? O62 SIS 302 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           247 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           31 
#