data_2PLM
#
_model_server_result.job_id            eLV-BJQl7kJOab7pODKb-w 
_model_server_result.datetime_utc      '2024-11-02 13:41:44' 
_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          2plm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":408}' 
#
_entry.id    2PLM 
#
_exptl.entry_id    2PLM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              385.396 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-2-AMINO-4-({[(2S,3S,4R,5R)-3,4-DIHYDROXY-5-(6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)TETRAHYDROFURAN-2-YL]METHYL}THIO)BUTANOIC ACID' 
_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            2PLM 
_cell.length_a            113.278 
_cell.length_b            113.278 
_cell.length_c            80.298 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2PLM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D 1 1 
A,B,C,D 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 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
metalc ? metalc1 A NE2 HIS 55 A HIS 55 1_555 B ZN ZN . A ZN 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc2 A NE2 HIS 57 A HIS 57 1_555 B ZN ZN . A ZN 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? 
metalc ? metalc3 A NE2 HIS 200 A HIS 200 1_555 B ZN ZN . A ZN 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? 
metalc ? metalc4 A OD1 ASP 279 A ASP 279 1_555 B ZN ZN . A ZN 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc5 B ZN ZN . A ZN 407 1_555 D O HOH . A HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? 
#
_chem_comp.formula           'C14 H19 N5 O6 S' 
_chem_comp.formula_weight    385.396 
_chem_comp.id                SIB 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              '(2S)-2-AMINO-4-({[(2S,3S,4R,5R)-3,4-DIHYDROXY-5-(6-OXO-1,6-DIHYDRO-9H-PURIN-9-YL)TETRAHYDROFURAN-2-YL]METHYL}THIO)BUTANOIC ACID' 
_chem_comp.type              'l-peptide linking' 
_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 SIB sing 290 n n 
N H SIB sing 291 n n 
N H2 SIB sing 292 n n 
CA CB SIB sing 293 n n 
CA C SIB sing 294 n n 
CA HA SIB sing 295 n n 
CB CG SIB sing 296 n n 
CB HB2 SIB sing 297 n n 
CB HB3 SIB sing 298 n n 
CG SD SIB sing 299 n n 
CG HG2 SIB sing 300 n n 
CG HG3 SIB sing 301 n n 
SD C5' SIB sing 302 n n 
C O SIB doub 303 n n 
C OXT SIB sing 304 n n 
OXT HO SIB sing 305 n n 
C5' C4' SIB sing 306 n n 
C5' "H5'1" SIB sing 307 n n 
C5' "H5'2" SIB sing 308 n n 
C4' O4' SIB sing 309 n n 
C4' C3' SIB sing 310 n n 
C4' H4' SIB sing 311 n n 
O4' C1' SIB sing 312 n n 
C3' C2' SIB sing 313 n n 
C3' O3' SIB sing 314 n n 
C3' H3' SIB sing 315 n n 
O3' HO3' SIB sing 316 n n 
C2' C1' SIB sing 317 n n 
C2' O2' SIB sing 318 n n 
C2' H2' SIB sing 319 n n 
O2' HO2' SIB sing 320 n n 
C1' N9 SIB sing 321 n n 
C1' H1' SIB sing 322 n n 
N9 C4 SIB sing 323 n y 
N9 C8 SIB sing 324 n y 
C8 N7 SIB doub 325 n y 
C8 H8 SIB sing 326 n n 
N7 C5 SIB sing 327 n y 
C5 C4 SIB doub 328 n y 
C5 C6 SIB sing 329 n n 
C6 N1 SIB sing 330 n n 
C6 O6 SIB doub 331 n n 
N1 C2 SIB sing 332 n n 
N1 HN1 SIB sing 333 n n 
C2 N3 SIB doub 334 n n 
C2 HC2 SIB sing 335 n n 
N3 C4 SIB sing 336 n n 
#
_atom_sites.entry_id                     2PLM 
_atom_sites.fract_transf_matrix[1][1]    0.008828 
_atom_sites.fract_transf_matrix[1][2]    0.005097 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010194 
_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]    0.012454 
_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 ZN A 1 407 1 ZN ZN . 
C 3 SIB A 1 408 1 SIB SIH . 
D 4 HOH A 1 409 1 HOH HOH . 
D 4 HOH A 2 410 2 HOH HOH . 
D 4 HOH A 3 411 5 HOH HOH . 
D 4 HOH A 4 412 6 HOH HOH . 
D 4 HOH A 5 413 7 HOH HOH . 
D 4 HOH A 6 414 9 HOH HOH . 
D 4 HOH A 7 415 10 HOH HOH . 
D 4 HOH A 8 416 11 HOH HOH . 
D 4 HOH A 9 417 12 HOH HOH . 
D 4 HOH A 10 418 16 HOH HOH . 
D 4 HOH A 11 419 17 HOH HOH . 
D 4 HOH A 12 420 18 HOH HOH . 
D 4 HOH A 13 421 19 HOH HOH . 
D 4 HOH A 14 422 20 HOH HOH . 
D 4 HOH A 15 423 21 HOH HOH . 
D 4 HOH A 16 424 22 HOH HOH . 
D 4 HOH A 17 425 23 HOH HOH . 
D 4 HOH A 18 426 24 HOH HOH . 
D 4 HOH A 19 427 25 HOH HOH . 
D 4 HOH A 20 428 26 HOH HOH . 
D 4 HOH A 21 429 27 HOH HOH . 
D 4 HOH A 22 430 28 HOH HOH . 
D 4 HOH A 23 431 29 HOH HOH . 
D 4 HOH A 24 432 30 HOH HOH . 
D 4 HOH A 25 433 31 HOH HOH . 
D 4 HOH A 26 434 32 HOH HOH . 
D 4 HOH A 27 435 33 HOH HOH . 
D 4 HOH A 28 436 34 HOH HOH . 
D 4 HOH A 29 437 35 HOH HOH . 
D 4 HOH A 30 438 36 HOH HOH . 
D 4 HOH A 31 439 37 HOH HOH . 
D 4 HOH A 32 440 38 HOH HOH . 
D 4 HOH A 33 441 39 HOH HOH . 
D 4 HOH A 34 442 40 HOH HOH . 
D 4 HOH A 35 443 41 HOH HOH . 
D 4 HOH A 36 444 42 HOH HOH . 
D 4 HOH A 37 445 44 HOH HOH . 
D 4 HOH A 38 446 45 HOH HOH . 
D 4 HOH A 39 447 46 HOH HOH . 
D 4 HOH A 40 448 47 HOH HOH . 
D 4 HOH A 41 449 49 HOH HOH . 
D 4 HOH A 42 450 50 HOH HOH . 
D 4 HOH A 43 451 51 HOH HOH . 
D 4 HOH A 44 452 52 HOH HOH . 
D 4 HOH A 45 453 53 HOH HOH . 
D 4 HOH A 46 454 54 HOH HOH . 
D 4 HOH A 47 455 55 HOH HOH . 
D 4 HOH A 48 456 56 HOH HOH . 
D 4 HOH A 49 457 58 HOH HOH . 
D 4 HOH A 50 458 59 HOH HOH . 
D 4 HOH A 51 459 60 HOH HOH . 
D 4 HOH A 52 460 61 HOH HOH . 
D 4 HOH A 53 461 64 HOH HOH . 
D 4 HOH A 54 462 65 HOH HOH . 
D 4 HOH A 55 463 66 HOH HOH . 
D 4 HOH A 56 464 67 HOH HOH . 
D 4 HOH A 57 465 68 HOH HOH . 
D 4 HOH A 58 466 70 HOH HOH . 
D 4 HOH A 59 467 72 HOH HOH . 
D 4 HOH A 60 468 73 HOH HOH . 
D 4 HOH A 61 469 75 HOH HOH . 
D 4 HOH A 62 470 76 HOH HOH . 
D 4 HOH A 63 471 77 HOH HOH . 
D 4 HOH A 64 472 78 HOH HOH . 
D 4 HOH A 65 473 79 HOH HOH . 
D 4 HOH A 66 474 80 HOH HOH . 
D 4 HOH A 67 475 82 HOH HOH . 
D 4 HOH A 68 476 85 HOH HOH . 
D 4 HOH A 69 477 86 HOH HOH . 
D 4 HOH A 70 478 88 HOH HOH . 
D 4 HOH A 71 479 89 HOH HOH . 
D 4 HOH A 72 480 90 HOH HOH . 
D 4 HOH A 73 481 94 HOH HOH . 
D 4 HOH A 74 482 97 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 SIB . . . C 3 49.19 29.469 -0.732 1 33.59 ? N SIB 408 A 1 
HETATM 2 C CA SIB . . . C 3 49.415 28.572 -1.883 1 34.36 ? CA SIB 408 A 1 
HETATM 3 C CB SIB . . . C 3 49.612 29.379 -3.175 1 33.2 ? CB SIB 408 A 1 
HETATM 4 C CG SIB . . . C 3 48.379 30.217 -3.493 1 32.59 ? CG SIB 408 A 1 
HETATM 5 S SD SIB . . . C 3 46.936 29.147 -3.669 1 30.27 ? SD SIB 408 A 1 
HETATM 6 C C SIB . . . C 3 50.643 27.729 -1.661 1 34.42 ? C SIB 408 A 1 
HETATM 7 O OXT SIB . . . C 3 51.346 27.908 -0.693 1 35.59 ? OXT SIB 408 A 1 
HETATM 8 O O SIB . . . C 3 50.956 26.784 -2.55 1 34.69 ? O SIB 408 A 1 
HETATM 9 C C5' SIB . . . C 3 45.608 30.368 -3.678 1 29.75 ? C5' SIB 408 A 1 
HETATM 10 C C4' SIB . . . C 3 45.673 31.177 -2.391 1 28.51 ? C4' SIB 408 A 1 
HETATM 11 O O4' SIB . . . C 3 44.727 32.252 -2.435 1 29.84 ? O4' SIB 408 A 1 
HETATM 12 C C3' SIB . . . C 3 45.332 30.313 -1.16 1 28.95 ? C3' SIB 408 A 1 
HETATM 13 O O3' SIB . . . C 3 46.454 30.232 -0.273 1 27.2 ? O3' SIB 408 A 1 
HETATM 14 C C2' SIB . . . C 3 44.117 31.051 -0.558 1 29.81 ? C2' SIB 408 A 1 
HETATM 15 O O2' SIB . . . C 3 44.049 30.951 0.86 1 27.6 ? O2' SIB 408 A 1 
HETATM 16 C C1' SIB . . . C 3 44.372 32.475 -1.07 1 30.22 ? C1' SIB 408 A 1 
HETATM 17 N N9 SIB . . . C 3 43.194 33.35 -0.939 1 31.51 ? N9 SIB 408 A 1 
HETATM 18 C C8 SIB . . . C 3 41.914 32.996 -0.622 1 31.56 ? C8 SIB 408 A 1 
HETATM 19 N N7 SIB . . . C 3 41.153 34.044 -0.582 1 32.74 ? N7 SIB 408 A 1 
HETATM 20 C C5 SIB . . . C 3 41.886 35.135 -0.867 1 34.32 ? C5 SIB 408 A 1 
HETATM 21 C C6 SIB . . . C 3 41.616 36.519 -0.962 1 36.91 ? C6 SIB 408 A 1 
HETATM 22 O O6 SIB . . . C 3 40.359 36.981 -0.728 1 39.13 ? O6 SIB 408 A 1 
HETATM 23 N N1 SIB . . . C 3 42.633 37.367 -1.291 1 37.12 ? N1 SIB 408 A 1 
HETATM 24 C C2 SIB . . . C 3 43.882 36.919 -1.52 1 34.31 ? C2 SIB 408 A 1 
HETATM 25 N N3 SIB . . . C 3 44.174 35.616 -1.428 1 34.52 ? N3 SIB 408 A 1 
HETATM 26 C C4 SIB . . . C 3 43.213 34.705 -1.108 1 33.64 ? C4 SIB 408 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           324 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           26 
#