data_5YJM
#
_model_server_result.job_id            jeoeTSD52wM_TXYcu01WUg 
_model_server_result.datetime_utc      '2024-11-14 10:23:18' 
_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          5yjm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    5YJM 
#
_exptl.entry_id    5YJM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              65.409 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'ZINC ION' 
_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            5YJM 
_cell.length_a            75.089 
_cell.length_b            75.089 
_cell.length_c            49.75 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YJM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        78 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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                             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
disulf ? disulf1 A SG CYS 30 A CYS 42 1_555 A SG CYS 46 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
disulf ? disulf2 A SG CYS 123 A CYS 136 1_555 A SG CYS 188 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? 
disulf ? disulf3 A SG CYS 154 A CYS 168 1_555 A SG CYS 167 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? 
covale ? covale1 A ND2 ASN 59 A ASN 72 1_555 B C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? 
covale ? covale2 A ND2 ASN 82 A ASN 95 1_555 C C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? 
metalc ? metalc1 A NE2 HIS 10 A HIS 25 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc2 A OE2 GLU 64 A GLU 77 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? 
metalc ? metalc3 A OE2 GLU 71 A GLU 84 1_555 D ZN ZN . A ZN 303 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
metalc ? metalc4 A NZ LYS 96 A LYS 109 1_555 D ZN ZN . A ZN 303 2_544 ? ? ? ? ? ? ? ? ? ? ? ? 1.746 ? 
#
_chem_comp.formula           'Zn 2' 
_chem_comp.formula_weight    65.409 
_chem_comp.id                ZN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'ZINC ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5YJM 
_atom_sites.fract_transf_matrix[1][1]    0.013318 
_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]    0.013318 
_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]    0.020101 
_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 NAG A 1 301 301 NAG NAG . 
C 2 NAG A 1 302 302 NAG NAG . 
D 3 ZN A 1 303 303 ZN ZN . 
E 4 8W3 A 1 304 401 8W3 ASB . 
F 5 HOH A 1 401 34 HOH HOH . 
F 5 HOH A 2 402 78 HOH HOH . 
F 5 HOH A 3 403 52 HOH HOH . 
F 5 HOH A 4 404 45 HOH HOH . 
F 5 HOH A 5 405 16 HOH HOH . 
F 5 HOH A 6 406 59 HOH HOH . 
F 5 HOH A 7 407 4 HOH HOH . 
F 5 HOH A 8 408 56 HOH HOH . 
F 5 HOH A 9 409 17 HOH HOH . 
F 5 HOH A 10 410 20 HOH HOH . 
F 5 HOH A 11 411 42 HOH HOH . 
F 5 HOH A 12 412 67 HOH HOH . 
F 5 HOH A 13 413 3 HOH HOH . 
F 5 HOH A 14 414 60 HOH HOH . 
F 5 HOH A 15 415 77 HOH HOH . 
F 5 HOH A 16 416 68 HOH HOH . 
F 5 HOH A 17 417 24 HOH HOH . 
F 5 HOH A 18 418 43 HOH HOH . 
F 5 HOH A 19 419 27 HOH HOH . 
F 5 HOH A 20 420 30 HOH HOH . 
F 5 HOH A 21 421 10 HOH HOH . 
F 5 HOH A 22 422 9 HOH HOH . 
F 5 HOH A 23 423 35 HOH HOH . 
F 5 HOH A 24 424 6 HOH HOH . 
F 5 HOH A 25 425 11 HOH HOH . 
F 5 HOH A 26 426 47 HOH HOH . 
F 5 HOH A 27 427 8 HOH HOH . 
F 5 HOH A 28 428 19 HOH HOH . 
F 5 HOH A 29 429 50 HOH HOH . 
F 5 HOH A 30 430 53 HOH HOH . 
F 5 HOH A 31 431 84 HOH HOH . 
F 5 HOH A 32 432 15 HOH HOH . 
F 5 HOH A 33 433 29 HOH HOH . 
F 5 HOH A 34 434 1 HOH HOH . 
F 5 HOH A 35 435 87 HOH HOH . 
F 5 HOH A 36 436 58 HOH HOH . 
F 5 HOH A 37 437 51 HOH HOH . 
F 5 HOH A 38 438 70 HOH HOH . 
F 5 HOH A 39 439 12 HOH HOH . 
F 5 HOH A 40 440 44 HOH HOH . 
F 5 HOH A 41 441 49 HOH HOH . 
F 5 HOH A 42 442 55 HOH HOH . 
F 5 HOH A 43 443 14 HOH HOH . 
F 5 HOH A 44 444 48 HOH HOH . 
F 5 HOH A 45 445 2 HOH HOH . 
F 5 HOH A 46 446 25 HOH HOH . 
F 5 HOH A 47 447 64 HOH HOH . 
F 5 HOH A 48 448 40 HOH HOH . 
F 5 HOH A 49 449 37 HOH HOH . 
F 5 HOH A 50 450 13 HOH HOH . 
F 5 HOH A 51 451 32 HOH HOH . 
F 5 HOH A 52 452 33 HOH HOH . 
F 5 HOH A 53 453 7 HOH HOH . 
F 5 HOH A 54 454 23 HOH HOH . 
F 5 HOH A 55 455 63 HOH HOH . 
F 5 HOH A 56 456 71 HOH HOH . 
F 5 HOH A 57 457 5 HOH HOH . 
F 5 HOH A 58 458 36 HOH HOH . 
F 5 HOH A 59 459 31 HOH HOH . 
F 5 HOH A 60 460 21 HOH HOH . 
F 5 HOH A 61 461 81 HOH HOH . 
F 5 HOH A 62 462 65 HOH HOH . 
F 5 HOH A 63 463 74 HOH HOH . 
F 5 HOH A 64 464 38 HOH HOH . 
F 5 HOH A 65 465 86 HOH HOH . 
F 5 HOH A 66 466 88 HOH HOH . 
F 5 HOH A 67 467 66 HOH HOH . 
F 5 HOH A 68 468 28 HOH HOH . 
F 5 HOH A 69 469 73 HOH HOH . 
F 5 HOH A 70 470 18 HOH HOH . 
F 5 HOH A 71 471 57 HOH HOH . 
F 5 HOH A 72 472 72 HOH HOH . 
F 5 HOH A 73 473 22 HOH HOH . 
F 5 HOH A 74 474 80 HOH HOH . 
F 5 HOH A 75 475 76 HOH HOH . 
F 5 HOH A 76 476 39 HOH HOH . 
F 5 HOH A 77 477 26 HOH HOH . 
F 5 HOH A 78 478 83 HOH HOH . 
F 5 HOH A 79 479 79 HOH HOH . 
F 5 HOH A 80 480 75 HOH HOH . 
F 5 HOH A 81 481 46 HOH HOH . 
F 5 HOH A 82 482 69 HOH HOH . 
F 5 HOH A 83 483 41 HOH HOH . 
F 5 HOH A 84 484 54 HOH HOH . 
F 5 HOH A 85 485 62 HOH HOH . 
F 5 HOH A 86 486 85 HOH HOH . 
F 5 HOH A 87 487 61 HOH HOH . 
F 5 HOH A 88 488 82 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           ZN 
_atom_site.label_atom_id         ZN 
_atom_site.label_comp_id         ZN 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         D 
_atom_site.label_entity_id       3 
_atom_site.Cartn_x               1.596 
_atom_site.Cartn_y               -32.656 
_atom_site.Cartn_z               13.181 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        21.03 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          ZN 
_atom_site.auth_comp_id          ZN 
_atom_site.auth_seq_id           303 
_atom_site.auth_asym_id          A 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           1 
#