data_4NMM
#
_model_server_result.job_id            SJaNRnd94bjGFEfQmPRd9A 
_model_server_result.datetime_utc      '2025-07-07 19:01:02' 
_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          4nmm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":202}' 
#
_entry.id    4NMM 
#
_exptl.entry_id    4NMM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              528.305 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-O-[(S)-{[(S)-[2-(acetylamino)ethoxy](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]guanosine" 
_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            4NMM 
_cell.length_a            39.088 
_cell.length_b            42.022 
_cell.length_c            91.159 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NMM 
_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    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 
_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 SG CYS 13 A CYS 12 1_555 C C13 Y9Z . A Y9Z 202 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.804 ? 
metalc ? metalc1 A OG SER 18 A SER 17 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? 
metalc ? metalc2 B MG MG . A MG 201 1_555 C O8 Y9Z . A Y9Z 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.859 ? 
metalc ? metalc3 B MG MG . A MG 201 1_555 D O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? 
metalc ? metalc4 B MG MG . A MG 201 1_555 D O HOH . A HOH 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc5 B MG MG . A MG 201 1_555 D O HOH . A HOH 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
#
_chem_comp.formula           'C14 H22 N6 O12 P2' 
_chem_comp.formula_weight    528.305 
_chem_comp.id                Y9Z 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-O-[(S)-{[(S)-[2-(acetylamino)ethoxy](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]guanosine" 
_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
O C Y9Z doub 348 n n 
C N Y9Z sing 349 n n 
C C3 Y9Z sing 350 n n 
N C1 Y9Z sing 351 n n 
C3 N3 Y9Z sing 352 n y 
C3 C2 Y9Z doub 353 n y 
N3 C4 Y9Z doub 354 n y 
C1 N1 Y9Z sing 355 n n 
C1 N2 Y9Z doub 356 n n 
C4 N4 Y9Z sing 357 n y 
C2 N2 Y9Z sing 358 n n 
C2 N4 Y9Z sing 359 n y 
O1 C6 Y9Z sing 360 n n 
O9 P Y9Z doub 361 n n 
N4 C5 Y9Z sing 362 n n 
C6 C5 Y9Z sing 363 n n 
C6 C7 Y9Z sing 364 n n 
C5 O11 Y9Z sing 365 n n 
P O3 Y9Z sing 366 n n 
P O10 Y9Z sing 367 n n 
P O4 Y9Z sing 368 n n 
O3 C9 Y9Z sing 369 n n 
O8 P1 Y9Z doub 370 n n 
C7 O2 Y9Z sing 371 n n 
C7 C8 Y9Z sing 372 n n 
O11 C8 Y9Z sing 373 n n 
O4 P1 Y9Z sing 374 n n 
P1 O7 Y9Z sing 375 n n 
P1 O5 Y9Z sing 376 n n 
C8 C9 Y9Z sing 377 n n 
C11 C10 Y9Z sing 378 n n 
C11 N5 Y9Z sing 379 n n 
O5 C10 Y9Z sing 380 n n 
N5 C12 Y9Z sing 381 n n 
O6 C12 Y9Z doub 382 n n 
C12 C13 Y9Z sing 383 n n 
N H1 Y9Z sing 384 n n 
N1 H2 Y9Z sing 385 n n 
N1 H3 Y9Z sing 386 n n 
O1 H4 Y9Z sing 387 n n 
O2 H5 Y9Z sing 388 n n 
C4 H6 Y9Z sing 389 n n 
C5 H7 Y9Z sing 390 n n 
N5 H8 Y9Z sing 391 n n 
C6 H9 Y9Z sing 392 n n 
C7 H10 Y9Z sing 393 n n 
O7 H11 Y9Z sing 394 n n 
C8 H12 Y9Z sing 395 n n 
C9 H13 Y9Z sing 396 n n 
C9 H14 Y9Z sing 397 n n 
C10 H15 Y9Z sing 398 n n 
C10 H16 Y9Z sing 399 n n 
O10 H17 Y9Z sing 400 n n 
C11 H18 Y9Z sing 401 n n 
C11 H19 Y9Z sing 402 n n 
C13 H20 Y9Z sing 403 n n 
C13 H21 Y9Z sing 404 n n 
C13 H22 Y9Z sing 405 n n 
#
_atom_sites.entry_id                     4NMM 
_atom_sites.fract_transf_matrix[1][1]    0.025583 
_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]    0.023797 
_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]    0.01097 
_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 MG A 1 201 201 MG MG . 
C 3 Y9Z A 1 202 202 Y9Z Y9Z . 
D 4 HOH A 1 301 301 HOH HOH . 
D 4 HOH A 2 302 302 HOH HOH . 
D 4 HOH A 3 303 303 HOH HOH . 
D 4 HOH A 4 304 304 HOH HOH . 
D 4 HOH A 5 305 305 HOH HOH . 
D 4 HOH A 6 306 306 HOH HOH . 
D 4 HOH A 7 307 307 HOH HOH . 
D 4 HOH A 8 308 308 HOH HOH . 
D 4 HOH A 9 309 309 HOH HOH . 
D 4 HOH A 10 310 310 HOH HOH . 
D 4 HOH A 11 311 311 HOH HOH . 
D 4 HOH A 12 312 312 HOH HOH . 
D 4 HOH A 13 313 313 HOH HOH . 
D 4 HOH A 14 314 314 HOH HOH . 
D 4 HOH A 15 315 315 HOH HOH . 
D 4 HOH A 16 316 316 HOH HOH . 
D 4 HOH A 17 317 317 HOH HOH . 
D 4 HOH A 18 318 318 HOH HOH . 
D 4 HOH A 19 319 319 HOH HOH . 
D 4 HOH A 20 320 320 HOH HOH . 
D 4 HOH A 21 321 321 HOH HOH . 
D 4 HOH A 22 322 322 HOH HOH . 
D 4 HOH A 23 323 323 HOH HOH . 
D 4 HOH A 24 324 324 HOH HOH . 
D 4 HOH A 25 325 325 HOH HOH . 
D 4 HOH A 26 326 326 HOH HOH . 
D 4 HOH A 27 327 327 HOH HOH . 
D 4 HOH A 28 328 328 HOH HOH . 
D 4 HOH A 29 329 329 HOH HOH . 
D 4 HOH A 30 330 330 HOH HOH . 
D 4 HOH A 31 331 331 HOH HOH . 
D 4 HOH A 32 332 332 HOH HOH . 
D 4 HOH A 33 333 333 HOH HOH . 
D 4 HOH A 34 334 334 HOH HOH . 
D 4 HOH A 35 335 335 HOH HOH . 
D 4 HOH A 36 336 336 HOH HOH . 
D 4 HOH A 37 337 337 HOH HOH . 
D 4 HOH A 38 338 338 HOH HOH . 
D 4 HOH A 39 339 339 HOH HOH . 
D 4 HOH A 40 340 340 HOH HOH . 
D 4 HOH A 41 341 341 HOH HOH . 
D 4 HOH A 42 342 342 HOH HOH . 
D 4 HOH A 43 343 343 HOH HOH . 
D 4 HOH A 44 344 344 HOH HOH . 
D 4 HOH A 45 345 345 HOH HOH . 
D 4 HOH A 46 346 346 HOH HOH . 
D 4 HOH A 47 347 347 HOH HOH . 
D 4 HOH A 48 348 348 HOH HOH . 
D 4 HOH A 49 349 349 HOH HOH . 
D 4 HOH A 50 350 350 HOH HOH . 
D 4 HOH A 51 351 351 HOH HOH . 
D 4 HOH A 52 352 352 HOH HOH . 
D 4 HOH A 53 353 353 HOH HOH . 
D 4 HOH A 54 354 354 HOH HOH . 
D 4 HOH A 55 355 355 HOH HOH . 
D 4 HOH A 56 356 356 HOH HOH . 
D 4 HOH A 57 357 357 HOH HOH . 
D 4 HOH A 58 358 358 HOH HOH . 
D 4 HOH A 59 359 359 HOH HOH . 
D 4 HOH A 60 360 360 HOH HOH . 
D 4 HOH A 61 361 361 HOH HOH . 
D 4 HOH A 62 362 362 HOH HOH . 
D 4 HOH A 63 363 363 HOH HOH . 
D 4 HOH A 64 364 364 HOH HOH . 
D 4 HOH A 65 365 365 HOH HOH . 
D 4 HOH A 66 366 366 HOH HOH . 
D 4 HOH A 67 367 367 HOH HOH . 
D 4 HOH A 68 368 368 HOH HOH . 
D 4 HOH A 69 369 369 HOH HOH . 
D 4 HOH A 70 370 370 HOH HOH . 
D 4 HOH A 71 371 371 HOH HOH . 
D 4 HOH A 72 372 372 HOH HOH . 
D 4 HOH A 73 373 373 HOH HOH . 
D 4 HOH A 74 374 374 HOH HOH . 
D 4 HOH A 75 375 375 HOH HOH . 
D 4 HOH A 76 376 376 HOH HOH . 
D 4 HOH A 77 377 377 HOH HOH . 
D 4 HOH A 78 378 378 HOH HOH . 
D 4 HOH A 79 379 379 HOH HOH . 
D 4 HOH A 80 380 380 HOH HOH . 
D 4 HOH A 81 381 381 HOH HOH . 
D 4 HOH A 82 382 382 HOH HOH . 
D 4 HOH A 83 383 383 HOH HOH . 
D 4 HOH A 84 384 384 HOH HOH . 
D 4 HOH A 85 385 385 HOH HOH . 
D 4 HOH A 86 386 386 HOH HOH . 
D 4 HOH A 87 387 387 HOH HOH . 
D 4 HOH A 88 388 388 HOH HOH . 
D 4 HOH A 89 389 389 HOH HOH . 
D 4 HOH A 90 390 390 HOH HOH . 
D 4 HOH A 91 391 391 HOH HOH . 
D 4 HOH A 92 392 392 HOH HOH . 
D 4 HOH A 93 393 393 HOH HOH . 
D 4 HOH A 94 394 394 HOH HOH . 
D 4 HOH A 95 395 395 HOH HOH . 
D 4 HOH A 96 396 396 HOH HOH . 
D 4 HOH A 97 397 397 HOH HOH . 
D 4 HOH A 98 398 398 HOH HOH . 
D 4 HOH A 99 399 399 HOH HOH . 
D 4 HOH A 100 400 400 HOH HOH . 
D 4 HOH A 101 401 401 HOH HOH . 
D 4 HOH A 102 402 402 HOH HOH . 
D 4 HOH A 103 403 403 HOH HOH . 
D 4 HOH A 104 404 404 HOH HOH . 
D 4 HOH A 105 405 405 HOH HOH . 
D 4 HOH A 106 406 406 HOH HOH . 
D 4 HOH A 107 407 407 HOH HOH . 
D 4 HOH A 108 408 408 HOH HOH . 
D 4 HOH A 109 409 409 HOH HOH . 
D 4 HOH A 110 410 410 HOH HOH . 
D 4 HOH A 111 411 411 HOH HOH . 
D 4 HOH A 112 412 412 HOH HOH . 
D 4 HOH A 113 413 413 HOH HOH . 
D 4 HOH A 114 414 414 HOH HOH . 
D 4 HOH A 115 415 415 HOH HOH . 
D 4 HOH A 116 416 416 HOH HOH . 
D 4 HOH A 117 417 417 HOH HOH . 
D 4 HOH A 118 418 418 HOH HOH . 
D 4 HOH A 119 419 419 HOH HOH . 
D 4 HOH A 120 420 420 HOH HOH . 
D 4 HOH A 121 421 421 HOH HOH . 
D 4 HOH A 122 422 422 HOH HOH . 
D 4 HOH A 123 423 423 HOH HOH . 
D 4 HOH A 124 424 424 HOH HOH . 
D 4 HOH A 125 425 425 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 Y9Z . . . C 3 39.595 34.09 11.767 1 25.3 ? N Y9Z 202 A 1 
HETATM 2 C C Y9Z . . . C 3 40.765 34.642 11.469 1 24.43 ? C Y9Z 202 A 1 
HETATM 3 O O Y9Z . . . C 3 40.876 35.626 10.677 1 24.8 ? O Y9Z 202 A 1 
HETATM 4 P P Y9Z . . . C 3 47.906 32.902 14.876 1 26.91 ? P Y9Z 202 A 1 
HETATM 5 P P1 Y9Z . . . C 3 49.48 34.891 16.242 1 23.36 ? P1 Y9Z 202 A 1 
HETATM 6 C C1 Y9Z . . . C 3 39.476 33.028 12.609 1 25.1 ? C1 Y9Z 202 A 1 
HETATM 7 N N1 Y9Z . . . C 3 38.26 32.512 12.807 1 28.39 ? N1 Y9Z 202 A 1 
HETATM 8 O O1 Y9Z . . . C 3 43.783 29.688 13.281 1 26.86 ? O1 Y9Z 202 A 1 
HETATM 9 C C2 Y9Z . . . C 3 41.723 32.975 13.085 1 25.8 ? C2 Y9Z 202 A 1 
HETATM 10 N N2 Y9Z . . . C 3 40.485 32.493 13.31 1 24.56 ? N2 Y9Z 202 A 1 
HETATM 11 O O2 Y9Z . . . C 3 44.187 29.214 15.891 1 25.63 ? O2 Y9Z 202 A 1 
HETATM 12 C C3 Y9Z . . . C 3 41.93 34.104 12.161 1 21.75 ? C3 Y9Z 202 A 1 
HETATM 13 N N3 Y9Z . . . C 3 43.231 34.406 12.17 1 23.67 ? N3 Y9Z 202 A 1 
HETATM 14 O O3 Y9Z . . . C 3 46.373 32.592 15.096 1 26.87 ? O3 Y9Z 202 A 1 
HETATM 15 C C4 Y9Z . . . C 3 43.83 33.54 13.021 1 23.6 ? C4 Y9Z 202 A 1 
HETATM 16 N N4 Y9Z . . . C 3 42.934 32.682 13.515 1 26.25 ? N4 Y9Z 202 A 1 
HETATM 17 O O4 Y9Z . . . C 3 48.104 34.099 15.978 1 29.61 ? O4 Y9Z 202 A 1 
HETATM 18 C C5 Y9Z . . . C 3 43.18 31.629 14.505 1 25.93 ? C5 Y9Z 202 A 1 
HETATM 19 N N5 Y9Z . . . C 3 53.133 34.82 18.816 0.5 28.46 ? N5 Y9Z 202 A 1 
HETATM 20 O O5 Y9Z . . . C 3 49.981 34.397 17.633 1 28.96 ? O5 Y9Z 202 A 1 
HETATM 21 C C6 Y9Z . . . C 3 44.313 30.733 14.076 1 26.59 ? C6 Y9Z 202 A 1 
HETATM 22 O O6 Y9Z . . . C 3 52.486 36.92 19.399 0.5 20.7 ? O6 Y9Z 202 A 1 
HETATM 23 C C7 Y9Z . . . C 3 44.91 30.3 15.395 1 28.54 ? C7 Y9Z 202 A 1 
HETATM 24 O O7 Y9Z . . . C 3 49.14 36.419 16.422 1 20.83 -1 O7 Y9Z 202 A 1 
HETATM 25 C C8 Y9Z . . . C 3 44.635 31.489 16.301 1 27.51 ? C8 Y9Z 202 A 1 
HETATM 26 O O8 Y9Z . . . C 3 50.508 34.689 15.224 1 22.8 ? O8 Y9Z 202 A 1 
HETATM 27 C C9 Y9Z . . . C 3 45.892 32.342 16.423 1 27.41 ? C9 Y9Z 202 A 1 
HETATM 28 O O9 Y9Z . . . C 3 48.144 33.437 13.423 1 28.24 -1 O9 Y9Z 202 A 1 
HETATM 29 C C10 Y9Z . . . C 3 51.247 33.733 17.724 0.5 27.79 ? C10 Y9Z 202 A 1 
HETATM 30 O O10 Y9Z . . . C 3 48.769 31.786 15.25 1 26.34 ? O10 Y9Z 202 A 1 
HETATM 31 C C11 Y9Z . . . C 3 52.453 34.639 17.537 0.5 26.93 ? C11 Y9Z 202 A 1 
HETATM 32 O O11 Y9Z . . . C 3 43.56 32.251 15.719 1 26.66 ? O11 Y9Z 202 A 1 
HETATM 33 C C12 Y9Z . . . C 3 52.922 35.831 19.679 0.5 27.12 ? C12 Y9Z 202 A 1 
HETATM 34 C C13 Y9Z . . . C 3 53.132 35.472 21.147 0.5 29.02 ? C13 Y9Z 202 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           398 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           34 
#