data_7JPE
#
_model_server_result.job_id            r6H8CQXNdrLF7KBNwQtaEQ 
_model_server_result.datetime_utc      '2024-11-01 03:45:54' 
_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":"D","auth_seq_id":302}' 
#
_entry.id    7JPE 
#
_exptl.entry_id    7JPE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              398.437 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYLMETHIONINE 
_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                      4 
_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
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           'C15 H22 N6 O5 S' 
_chem_comp.formula_weight    398.437 
_chem_comp.id                SAM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              S-ADENOSYLMETHIONINE 
_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
N CA SAM sing 412 n n 
N HN1 SAM sing 413 n n 
N HN2 SAM sing 414 n n 
CA C SAM sing 415 n n 
CA CB SAM sing 416 n n 
CA HA SAM sing 417 n n 
C O SAM doub 418 n n 
C OXT SAM sing 419 n n 
CB CG SAM sing 420 n n 
CB HB1 SAM sing 421 n n 
CB HB2 SAM sing 422 n n 
CG SD SAM sing 423 n n 
CG HG1 SAM sing 424 n n 
CG HG2 SAM sing 425 n n 
SD CE SAM sing 426 n n 
SD C5' SAM sing 427 n n 
CE HE1 SAM sing 428 n n 
CE HE2 SAM sing 429 n n 
CE HE3 SAM sing 430 n n 
C5' C4' SAM sing 431 n n 
C5' "H5'1" SAM sing 432 n n 
C5' "H5'2" SAM sing 433 n n 
C4' O4' SAM sing 434 n n 
C4' C3' SAM sing 435 n n 
C4' H4' SAM sing 436 n n 
O4' C1' SAM sing 437 n n 
C3' O3' SAM sing 438 n n 
C3' C2' SAM sing 439 n n 
C3' H3' SAM sing 440 n n 
O3' HO3' SAM sing 441 n n 
C2' O2' SAM sing 442 n n 
C2' C1' SAM sing 443 n n 
C2' H2' SAM sing 444 n n 
O2' HO2' SAM sing 445 n n 
C1' N9 SAM sing 446 n n 
C1' H1' SAM sing 447 n n 
N9 C8 SAM sing 448 n y 
N9 C4 SAM sing 449 n y 
C8 N7 SAM doub 450 n y 
C8 H8 SAM sing 451 n n 
N7 C5 SAM sing 452 n y 
C5 C6 SAM sing 453 n y 
C5 C4 SAM doub 454 n y 
C6 N6 SAM sing 455 n n 
C6 N1 SAM doub 456 n y 
N6 HN61 SAM sing 457 n n 
N6 HN62 SAM sing 458 n n 
N1 C2 SAM sing 459 n y 
C2 N3 SAM doub 460 n y 
C2 H2 SAM sing 461 n n 
N3 C4 SAM sing 462 n y 
#
_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 N N SAM . . . D 4 60.996 -65.776 2.355 1 25.37 ? N SAM 302 A 1 
HETATM 2 C CA SAM . . . D 4 61.069 -67.193 1.888 1 24.45 ? CA SAM 302 A 1 
HETATM 3 C C SAM . . . D 4 62.309 -67.86 2.502 1 24.35 ? C SAM 302 A 1 
HETATM 4 O O SAM . . . D 4 62.691 -67.522 3.623 1 23.44 ? O SAM 302 A 1 
HETATM 5 O OXT SAM . . . D 4 62.953 -68.74 1.926 1 24.75 ? OXT SAM 302 A 1 
HETATM 6 C CB SAM . . . D 4 61.122 -67.266 0.355 1 23.4 ? CB SAM 302 A 1 
HETATM 7 C CG SAM . . . D 4 59.849 -66.761 -0.318 1 23.53 ? CG SAM 302 A 1 
HETATM 8 S SD SAM . . . D 4 59.892 -66.988 -2.11 1 23.73 ? SD SAM 302 A 1 
HETATM 9 C CE SAM . . . D 4 61.113 -65.768 -2.563 1 25.06 ? CE SAM 302 A 1 
HETATM 10 C C5' SAM . . . D 4 58.372 -66.126 -2.563 1 22.3 ? C5' SAM 302 A 1 
HETATM 11 C C4' SAM . . . D 4 57.125 -66.777 -2 1 22.43 ? C4' SAM 302 A 1 
HETATM 12 O O4' SAM . . . D 4 55.986 -65.934 -2.274 1 21.61 ? O4' SAM 302 A 1 
HETATM 13 C C3' SAM . . . D 4 56.773 -68.153 -2.583 1 22.71 ? C3' SAM 302 A 1 
HETATM 14 O O3' SAM . . . D 4 56.968 -69.171 -1.606 1 22.05 ? O3' SAM 302 A 1 
HETATM 15 C C2' SAM . . . D 4 55.299 -68.021 -3.007 1 22.79 ? C2' SAM 302 A 1 
HETATM 16 O O2' SAM . . . D 4 54.509 -69.131 -2.635 1 22.57 ? O2' SAM 302 A 1 
HETATM 17 C C1' SAM . . . D 4 54.857 -66.764 -2.267 1 22.6 ? C1' SAM 302 A 1 
HETATM 18 N N9 SAM . . . D 4 53.736 -66.073 -2.891 1 24.03 ? N9 SAM 302 A 1 
HETATM 19 C C8 SAM . . . D 4 53.665 -65.605 -4.18 1 25.54 ? C8 SAM 302 A 1 
HETATM 20 N N7 SAM . . . D 4 52.515 -65.049 -4.472 1 25.04 ? N7 SAM 302 A 1 
HETATM 21 C C5 SAM . . . D 4 51.773 -65.164 -3.306 1 25.95 ? C5 SAM 302 A 1 
HETATM 22 C C6 SAM . . . D 4 50.461 -64.767 -2.975 1 25.87 ? C6 SAM 302 A 1 
HETATM 23 N N6 SAM . . . D 4 49.632 -64.169 -3.827 1 24.86 ? N6 SAM 302 A 1 
HETATM 24 N N1 SAM . . . D 4 50.026 -65.036 -1.72 1 25.33 ? N1 SAM 302 A 1 
HETATM 25 C C2 SAM . . . D 4 50.864 -65.648 -0.872 1 24.92 ? C2 SAM 302 A 1 
HETATM 26 N N3 SAM . . . D 4 52.111 -66.068 -1.071 1 23.62 ? N3 SAM 302 A 1 
HETATM 27 C C4 SAM . . . D 4 52.515 -65.794 -2.323 1 24.93 ? C4 SAM 302 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           24 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#