data_5UHZ # _model_server_result.job_id Hr7NAtINOyTTXD4wF6usBw _model_server_result.datetime_utc '2024-12-01 05:37:36' _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 5uhz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 5UHZ # _exptl.entry_id 5UHZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 148.114 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-one _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.99 _cell.angle_gamma 90 _cell.entry_id 5UHZ _cell.length_a 138.763 _cell.length_b 114.183 _cell.length_c 66.158 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UHZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 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,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G N 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 O TRP 24 A TRP 24 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? metalc ? metalc2 A O LYS 25 A LYS 25 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? metalc ? metalc3 A O VAL 27 A VAL 27 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? metalc ? metalc4 A O ALA 30 A ALA 30 1_555 E MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc5 E MG MG . A MG 403 1_555 I O HOH . A HOH 557 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc6 B O TRP 24 B TRP 24 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc7 B O LYS 25 B LYS 25 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc8 B O VAL 27 B VAL 27 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? metalc ? metalc9 B O ALA 30 B ALA 30 1_555 H MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? # _chem_comp.formula 'C5 H8 O5' _chem_comp.formula_weight 148.114 _chem_comp.id 89Y _chem_comp.mon_nstd_flag . _chem_comp.name (3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-one _chem_comp.type d-saccharide _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 O5 C5 89Y sing 1 n n C5 C3 89Y sing 2 n n C3 C4 89Y sing 3 n n C3 O3 89Y sing 4 n n C3 C2 89Y sing 5 n n C4 O4 89Y sing 6 n n C2 O2 89Y sing 7 n n C2 C1 89Y sing 8 n n O4 C1 89Y sing 9 n n C1 O1 89Y doub 10 n n O2 H1 89Y sing 11 n n C2 H2 89Y sing 12 n n C4 H3 89Y sing 13 n n C4 H4 89Y sing 14 n n O3 H5 89Y sing 15 n n C5 H6 89Y sing 16 n n C5 H7 89Y sing 17 n n O5 H8 89Y sing 18 n n # _atom_sites.entry_id 5UHZ _atom_sites.fract_transf_matrix[1][1] 0.007207 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000629 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008758 _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] 0.015173 _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 2 NAD A 1 401 346 NAD NAD . D 3 89Y A 1 402 347 89Y 89Y . E 4 MG A 1 403 348 MG MG . F 2 NAD B 1 401 346 NAD NAD . G 3 89Y B 1 402 347 89Y 89Y . H 4 MG B 1 403 348 MG MG . I 5 HOH A 1 501 62 HOH HOH . I 5 HOH A 2 502 81 HOH HOH . I 5 HOH A 3 503 73 HOH HOH . I 5 HOH A 4 504 64 HOH HOH . I 5 HOH A 5 505 102 HOH HOH . I 5 HOH A 6 506 72 HOH HOH . I 5 HOH A 7 507 84 HOH HOH . I 5 HOH A 8 508 34 HOH HOH . I 5 HOH A 9 509 45 HOH HOH . I 5 HOH A 10 510 21 HOH HOH . I 5 HOH A 11 511 70 HOH HOH . I 5 HOH A 12 512 92 HOH HOH . I 5 HOH A 13 513 68 HOH HOH . I 5 HOH A 14 514 108 HOH HOH . I 5 HOH A 15 515 63 HOH HOH . I 5 HOH A 16 516 66 HOH HOH . I 5 HOH A 17 517 95 HOH HOH . I 5 HOH A 18 518 56 HOH HOH . I 5 HOH A 19 519 96 HOH HOH . I 5 HOH A 20 520 59 HOH HOH . I 5 HOH A 21 521 52 HOH HOH . I 5 HOH A 22 522 98 HOH HOH . I 5 HOH A 23 523 65 HOH HOH . I 5 HOH A 24 524 20 HOH HOH . I 5 HOH A 25 525 67 HOH HOH . I 5 HOH A 26 526 80 HOH HOH . I 5 HOH A 27 527 83 HOH HOH . I 5 HOH A 28 528 58 HOH HOH . I 5 HOH A 29 529 69 HOH HOH . I 5 HOH A 30 530 82 HOH HOH . I 5 HOH A 31 531 48 HOH HOH . I 5 HOH A 32 532 9 HOH HOH . I 5 HOH A 33 533 26 HOH HOH . I 5 HOH A 34 534 90 HOH HOH . I 5 HOH A 35 535 3 HOH HOH . I 5 HOH A 36 536 11 HOH HOH . I 5 HOH A 37 537 107 HOH HOH . I 5 HOH A 38 538 60 HOH HOH . I 5 HOH A 39 539 37 HOH HOH . I 5 HOH A 40 540 76 HOH HOH . I 5 HOH A 41 541 47 HOH HOH . I 5 HOH A 42 542 79 HOH HOH . I 5 HOH A 43 543 35 HOH HOH . I 5 HOH A 44 544 101 HOH HOH . I 5 HOH A 45 545 14 HOH HOH . I 5 HOH A 46 546 17 HOH HOH . I 5 HOH A 47 547 13 HOH HOH . I 5 HOH A 48 548 42 HOH HOH . I 5 HOH A 49 549 74 HOH HOH . I 5 HOH A 50 550 77 HOH HOH . I 5 HOH A 51 551 40 HOH HOH . I 5 HOH A 52 552 87 HOH HOH . I 5 HOH A 53 553 16 HOH HOH . I 5 HOH A 54 554 104 HOH HOH . I 5 HOH A 55 555 89 HOH HOH . I 5 HOH A 56 556 78 HOH HOH . I 5 HOH A 57 557 29 HOH HOH . I 5 HOH A 58 558 97 HOH HOH . I 5 HOH A 59 559 49 HOH HOH . I 5 HOH A 60 560 93 HOH HOH . J 5 HOH B 1 501 94 HOH HOH . J 5 HOH B 2 502 12 HOH HOH . J 5 HOH B 3 503 5 HOH HOH . J 5 HOH B 4 504 86 HOH HOH . J 5 HOH B 5 505 33 HOH HOH . J 5 HOH B 6 506 51 HOH HOH . J 5 HOH B 7 507 50 HOH HOH . J 5 HOH B 8 508 39 HOH HOH . J 5 HOH B 9 509 43 HOH HOH . J 5 HOH B 10 510 53 HOH HOH . J 5 HOH B 11 511 1 HOH HOH . J 5 HOH B 12 512 100 HOH HOH . J 5 HOH B 13 513 6 HOH HOH . J 5 HOH B 14 514 85 HOH HOH . J 5 HOH B 15 515 8 HOH HOH . J 5 HOH B 16 516 54 HOH HOH . J 5 HOH B 17 517 10 HOH HOH . J 5 HOH B 18 518 24 HOH HOH . J 5 HOH B 19 519 99 HOH HOH . J 5 HOH B 20 520 55 HOH HOH . J 5 HOH B 21 521 38 HOH HOH . J 5 HOH B 22 522 19 HOH HOH . J 5 HOH B 23 523 30 HOH HOH . J 5 HOH B 24 524 22 HOH HOH . J 5 HOH B 25 525 106 HOH HOH . J 5 HOH B 26 526 4 HOH HOH . J 5 HOH B 27 527 15 HOH HOH . J 5 HOH B 28 528 2 HOH HOH . J 5 HOH B 29 529 46 HOH HOH . J 5 HOH B 30 530 27 HOH HOH . J 5 HOH B 31 531 103 HOH HOH . J 5 HOH B 32 532 91 HOH HOH . J 5 HOH B 33 533 31 HOH HOH . J 5 HOH B 34 534 7 HOH HOH . J 5 HOH B 35 535 18 HOH HOH . J 5 HOH B 36 536 57 HOH HOH . J 5 HOH B 37 537 32 HOH HOH . J 5 HOH B 38 538 25 HOH HOH . J 5 HOH B 39 539 75 HOH HOH . J 5 HOH B 40 540 88 HOH HOH . J 5 HOH B 41 541 36 HOH HOH . J 5 HOH B 42 542 41 HOH HOH . J 5 HOH B 43 543 23 HOH HOH . J 5 HOH B 44 544 28 HOH HOH . J 5 HOH B 45 545 105 HOH HOH . J 5 HOH B 46 546 44 HOH HOH . J 5 HOH B 47 547 61 HOH HOH . J 5 HOH B 48 548 71 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 O O2 89Y . . . D 3 17.754 -24.927 10.008 1 57.7 ? O2 89Y 402 A 1 HETATM 2 C C2 89Y . . . D 3 17.203 -26.15 9.514 1 57.59 ? C2 89Y 402 A 1 HETATM 3 C C1 89Y . . . D 3 16.722 -27.03 10.612 1 57.7 ? C1 89Y 402 A 1 HETATM 4 O O1 89Y . . . D 3 17.336 -27.244 11.643 1 54.96 ? O1 89Y 402 A 1 HETATM 5 O O4 89Y . . . D 3 15.431 -27.605 10.299 1 61.97 ? O4 89Y 402 A 1 HETATM 6 C C4 89Y . . . D 3 15.03 -27.17 8.991 1 65.17 ? C4 89Y 402 A 1 HETATM 7 C C3 89Y . . . D 3 15.919 -25.956 8.689 1 59.98 ? C3 89Y 402 A 1 HETATM 8 O O3 89Y . . . D 3 15.192 -24.825 9.182 1 53.52 ? O3 89Y 402 A 1 HETATM 9 C C5 89Y . . . D 3 16.185 -25.73 7.199 1 60.42 ? C5 89Y 402 A 1 HETATM 10 O O5 89Y . . . D 3 17.326 -26.451 6.709 1 57.88 ? O5 89Y 402 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 10 #