data_7JPE
#
_model_server_result.job_id            AhKD59pGr4gFSJk5DpByXQ 
_model_server_result.datetime_utc      '2024-11-01 03:37:32' 
_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          7jpe 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":303}' 
#
_entry.id    7JPE 
#
_exptl.entry_id    7JPE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              458.235 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" 
_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         120 
_cell.entry_id            7JPE 
_cell.length_a            170.93 
_cell.length_b            170.93 
_cell.length_c            52.786 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7JPE 
_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 
_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                      5 
_struct_asym.id                             E 
_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
metalc ? metalc1 B SG CYS 77 B CYS 74 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? 
metalc ? metalc2 B SG CYS 80 B CYS 77 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? 
metalc ? metalc3 B NE2 HIS 86 B HIS 83 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc4 B SG CYS 93 B CYS 90 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc5 B SG CYS 120 B CYS 117 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc6 B SG CYS 123 B CYS 120 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? 
metalc ? metalc7 B SG CYS 131 B CYS 128 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? 
metalc ? metalc8 B SG CYS 133 B CYS 130 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? 
#
_chem_comp.formula           'C11 H18 N5 O11 P2 1' 
_chem_comp.formula_weight    458.235 
_chem_comp.id                M7G 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" 
_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
PA O1A M7G doub 304 n n 
PA O2A M7G sing 305 n n 
PA O3A M7G sing 306 n n 
PA O5' M7G sing 307 n n 
O2A HOA2 M7G sing 308 n n 
O3A PB M7G sing 309 n n 
O5' C5' M7G sing 310 n n 
PB O1B M7G doub 311 n n 
PB O2B M7G sing 312 n n 
PB O3B M7G sing 313 n n 
O2B HOB2 M7G sing 314 n n 
O3B HOB3 M7G sing 315 n n 
C5' C4' M7G sing 316 n n 
C5' "H5'1" M7G sing 317 n n 
C5' "H5'2" M7G sing 318 n n 
C4' O4' M7G sing 319 n n 
C4' C3' M7G sing 320 n n 
C4' H4' M7G sing 321 n n 
O4' C1' M7G sing 322 n n 
C3' O3' M7G sing 323 n n 
C3' C2' M7G sing 324 n n 
C3' H3' M7G sing 325 n n 
O3' HO3' M7G sing 326 n n 
C2' O2' M7G sing 327 n n 
C2' C1' M7G sing 328 n n 
C2' H2' M7G sing 329 n n 
O2' HO2' M7G sing 330 n n 
C1' N9 M7G sing 331 n n 
C1' H1' M7G sing 332 n n 
N9 C8 M7G sing 333 n y 
N9 C4 M7G sing 334 n y 
C8 N7 M7G doub 335 n y 
C8 H81 M7G sing 336 n n 
N7 CM7 M7G sing 337 n n 
N7 C5 M7G sing 338 n y 
CM7 HM71 M7G sing 339 n n 
CM7 HM72 M7G sing 340 n n 
CM7 HM73 M7G sing 341 n n 
C5 C6 M7G sing 342 n n 
C5 C4 M7G doub 343 n y 
C6 O6 M7G doub 344 n n 
C6 N1 M7G sing 345 n n 
N1 C2 M7G sing 346 n n 
N1 HN1 M7G sing 347 n n 
C2 N2 M7G sing 348 n n 
C2 N3 M7G doub 349 n n 
N2 HN21 M7G sing 350 n n 
N2 HN22 M7G sing 351 n n 
N3 C4 M7G sing 352 n n 
#
_atom_sites.entry_id                     7JPE 
_atom_sites.fract_transf_matrix[1][1]    0.00585 
_atom_sites.fract_transf_matrix[1][2]    0.003378 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006755 
_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]    0.018944 
_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 3 GTA A 1 301 303 GTA GTA . 
D 4 SAM A 1 302 403 SAM SAM . 
E 5 M7G A 1 303 503 M7G 8NK . 
F 6 ZN B 1 201 148 ZN ZN . 
G 6 ZN B 1 202 149 ZN ZN . 
H 7 HOH A 1 401 71 HOH HOH . 
H 7 HOH A 2 402 14 HOH HOH . 
H 7 HOH A 3 403 33 HOH HOH . 
H 7 HOH A 4 404 107 HOH HOH . 
H 7 HOH A 5 405 42 HOH HOH . 
H 7 HOH A 6 406 60 HOH HOH . 
H 7 HOH A 7 407 13 HOH HOH . 
H 7 HOH A 8 408 23 HOH HOH . 
H 7 HOH A 9 409 39 HOH HOH . 
H 7 HOH A 10 410 104 HOH HOH . 
H 7 HOH A 11 411 117 HOH HOH . 
H 7 HOH A 12 412 11 HOH HOH . 
H 7 HOH A 13 413 50 HOH HOH . 
H 7 HOH A 14 414 55 HOH HOH . 
H 7 HOH A 15 415 86 HOH HOH . 
H 7 HOH A 16 416 127 HOH HOH . 
H 7 HOH A 17 417 125 HOH HOH . 
H 7 HOH A 18 418 28 HOH HOH . 
H 7 HOH A 19 419 52 HOH HOH . 
H 7 HOH A 20 420 45 HOH HOH . 
H 7 HOH A 21 421 8 HOH HOH . 
H 7 HOH A 22 422 122 HOH HOH . 
H 7 HOH A 23 423 7 HOH HOH . 
H 7 HOH A 24 424 27 HOH HOH . 
H 7 HOH A 25 425 6 HOH HOH . 
H 7 HOH A 26 426 12 HOH HOH . 
H 7 HOH A 27 427 99 HOH HOH . 
H 7 HOH A 28 428 111 HOH HOH . 
H 7 HOH A 29 429 38 HOH HOH . 
H 7 HOH A 30 430 124 HOH HOH . 
H 7 HOH A 31 431 44 HOH HOH . 
H 7 HOH A 32 432 26 HOH HOH . 
H 7 HOH A 33 433 5 HOH HOH . 
H 7 HOH A 34 434 70 HOH HOH . 
H 7 HOH A 35 435 2 HOH HOH . 
H 7 HOH A 36 436 97 HOH HOH . 
H 7 HOH A 37 437 56 HOH HOH . 
H 7 HOH A 38 438 25 HOH HOH . 
H 7 HOH A 39 439 90 HOH HOH . 
H 7 HOH A 40 440 67 HOH HOH . 
H 7 HOH A 41 441 3 HOH HOH . 
H 7 HOH A 42 442 94 HOH HOH . 
H 7 HOH A 43 443 49 HOH HOH . 
H 7 HOH A 44 444 20 HOH HOH . 
H 7 HOH A 45 445 73 HOH HOH . 
H 7 HOH A 46 446 53 HOH HOH . 
H 7 HOH A 47 447 29 HOH HOH . 
H 7 HOH A 48 448 84 HOH HOH . 
H 7 HOH A 49 449 1 HOH HOH . 
H 7 HOH A 50 450 103 HOH HOH . 
H 7 HOH A 51 451 102 HOH HOH . 
H 7 HOH A 52 452 62 HOH HOH . 
H 7 HOH A 53 453 16 HOH HOH . 
H 7 HOH A 54 454 48 HOH HOH . 
H 7 HOH A 55 455 4 HOH HOH . 
H 7 HOH A 56 456 31 HOH HOH . 
H 7 HOH A 57 457 43 HOH HOH . 
H 7 HOH A 58 458 35 HOH HOH . 
H 7 HOH A 59 459 96 HOH HOH . 
H 7 HOH A 60 460 9 HOH HOH . 
H 7 HOH A 61 461 88 HOH HOH . 
H 7 HOH A 62 462 123 HOH HOH . 
H 7 HOH A 63 463 61 HOH HOH . 
H 7 HOH A 64 464 15 HOH HOH . 
H 7 HOH A 65 465 34 HOH HOH . 
H 7 HOH A 66 466 83 HOH HOH . 
H 7 HOH A 67 467 59 HOH HOH . 
H 7 HOH A 68 468 66 HOH HOH . 
H 7 HOH A 69 469 78 HOH HOH . 
H 7 HOH A 70 470 24 HOH HOH . 
H 7 HOH A 71 471 121 HOH HOH . 
H 7 HOH A 72 472 65 HOH HOH . 
H 7 HOH A 73 473 120 HOH HOH . 
H 7 HOH A 74 474 40 HOH HOH . 
H 7 HOH A 75 475 106 HOH HOH . 
H 7 HOH A 76 476 95 HOH HOH . 
H 7 HOH A 77 477 58 HOH HOH . 
H 7 HOH A 78 478 85 HOH HOH . 
H 7 HOH A 79 479 119 HOH HOH . 
H 7 HOH A 80 480 63 HOH HOH . 
H 7 HOH A 81 481 37 HOH HOH . 
H 7 HOH A 82 482 21 HOH HOH . 
H 7 HOH A 83 483 89 HOH HOH . 
H 7 HOH A 84 484 92 HOH HOH . 
H 7 HOH A 85 485 116 HOH HOH . 
H 7 HOH A 86 486 93 HOH HOH . 
H 7 HOH A 87 487 77 HOH HOH . 
H 7 HOH A 88 488 110 HOH HOH . 
H 7 HOH A 89 489 74 HOH HOH . 
H 7 HOH A 90 490 64 HOH HOH . 
H 7 HOH A 91 491 108 HOH HOH . 
H 7 HOH A 92 492 54 HOH HOH . 
H 7 HOH A 93 493 91 HOH HOH . 
H 7 HOH A 94 494 100 HOH HOH . 
H 7 HOH A 95 495 47 HOH HOH . 
H 7 HOH A 96 496 109 HOH HOH . 
H 7 HOH A 97 497 98 HOH HOH . 
H 7 HOH A 98 498 69 HOH HOH . 
H 7 HOH A 99 499 101 HOH HOH . 
H 7 HOH A 100 500 105 HOH HOH . 
H 7 HOH A 101 501 115 HOH HOH . 
H 7 HOH A 102 502 118 HOH HOH . 
H 7 HOH A 103 503 46 HOH HOH . 
H 7 HOH A 104 504 76 HOH HOH . 
I 7 HOH B 1 301 114 HOH HOH . 
I 7 HOH B 2 302 79 HOH HOH . 
I 7 HOH B 3 303 10 HOH HOH . 
I 7 HOH B 4 304 36 HOH HOH . 
I 7 HOH B 5 305 75 HOH HOH . 
I 7 HOH B 6 306 126 HOH HOH . 
I 7 HOH B 7 307 30 HOH HOH . 
I 7 HOH B 8 308 18 HOH HOH . 
I 7 HOH B 9 309 19 HOH HOH . 
I 7 HOH B 10 310 68 HOH HOH . 
I 7 HOH B 11 311 22 HOH HOH . 
I 7 HOH B 12 312 51 HOH HOH . 
I 7 HOH B 13 313 82 HOH HOH . 
I 7 HOH B 14 314 57 HOH HOH . 
I 7 HOH B 15 315 80 HOH HOH . 
I 7 HOH B 16 316 17 HOH HOH . 
I 7 HOH B 17 317 112 HOH HOH . 
I 7 HOH B 18 318 81 HOH HOH . 
I 7 HOH B 19 319 113 HOH HOH . 
I 7 HOH B 20 320 41 HOH HOH . 
I 7 HOH B 21 321 87 HOH HOH . 
I 7 HOH B 22 322 72 HOH HOH . 
I 7 HOH B 23 323 32 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 P PA M7G . . . E 5 70.862 -40.943 6.274 1 114.77 ? PA M7G 303 A 1 
HETATM 2 O O1A M7G . . . E 5 70.771 -42.363 6.728 1 106.04 ? O1A M7G 303 A 1 
HETATM 3 O O2A M7G . . . E 5 70.463 -40.646 4.866 1 104.42 ? O2A M7G 303 A 1 
HETATM 4 O O3A M7G . . . E 5 72.363 -40.413 6.514 1 114.46 ? O3A M7G 303 A 1 
HETATM 5 O O5' M7G . . . E 5 70.024 -40.006 7.279 1 103.26 ? O5' M7G 303 A 1 
HETATM 6 P PB M7G . . . E 5 73.271 -40.033 7.805 1 114.45 ? PB M7G 303 A 1 
HETATM 7 O O1B M7G . . . E 5 74.284 -41.145 7.945 1 111.69 ? O1B M7G 303 A 1 
HETATM 8 O O2B M7G . . . E 5 72.34 -39.946 8.992 1 110.45 ? O2B M7G 303 A 1 
HETATM 9 O O3B M7G . . . E 5 73.911 -38.707 7.469 1 106.21 ? O3B M7G 303 A 1 
HETATM 10 C C5' M7G . . . E 5 69.587 -38.685 6.856 1 82.93 ? C5' M7G 303 A 1 
HETATM 11 C C4' M7G . . . E 5 68.316 -38.309 7.581 1 78.14 ? C4' M7G 303 A 1 
HETATM 12 O O4' M7G . . . E 5 67.237 -39.186 7.155 1 77.08 ? O4' M7G 303 A 1 
HETATM 13 C C3' M7G . . . E 5 68.318 -38.465 9.109 1 75.83 ? C3' M7G 303 A 1 
HETATM 14 O O3' M7G . . . E 5 69.013 -37.418 9.774 1 79.34 ? O3' M7G 303 A 1 
HETATM 15 C C2' M7G . . . E 5 66.822 -38.519 9.368 1 72.11 ? C2' M7G 303 A 1 
HETATM 16 O O2' M7G . . . E 5 66.129 -37.307 9.153 1 62.75 ? O2' M7G 303 A 1 
HETATM 17 C C1' M7G . . . E 5 66.393 -39.46 8.258 1 67.45 ? C1' M7G 303 A 1 
HETATM 18 N N9 M7G . . . E 5 66.49 -40.876 8.655 1 56.65 ? N9 M7G 303 A 1 
HETATM 19 C C8 M7G . . . E 5 67.418 -41.747 8.264 1 54.7 ? C8 M7G 303 A 1 
HETATM 20 N N7 M7G . . . E 5 67.319 -42.857 8.987 1 51.03 ? N7 M7G 303 A 1 
HETATM 21 C CM7 M7G . . . E 5 68.278 -43.961 8.976 1 47.91 ? CM7 M7G 303 A 1 
HETATM 22 C C5 M7G . . . E 5 66.147 -42.772 9.732 1 47.18 ? C5 M7G 303 A 1 
HETATM 23 C C6 M7G . . . E 5 65.503 -43.686 10.56 1 43.81 ? C6 M7G 303 A 1 
HETATM 24 O O6 M7G . . . E 5 65.837 -44.828 10.84 1 43.13 ? O6 M7G 303 A 1 
HETATM 25 N N1 M7G . . . E 5 64.352 -43.143 11.084 1 45.26 ? N1 M7G 303 A 1 
HETATM 26 C C2 M7G . . . E 5 63.879 -41.88 10.844 1 46.68 ? C2 M7G 303 A 1 
HETATM 27 N N2 M7G . . . E 5 62.736 -41.532 11.447 1 44.3 ? N2 M7G 303 A 1 
HETATM 28 N N3 M7G . . . E 5 64.502 -41.024 10.056 1 46.51 ? N3 M7G 303 A 1 
HETATM 29 C C4 M7G . . . E 5 65.631 -41.519 9.516 1 48.29 ? C4 M7G 303 A 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           335 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           29 
#