data_4YHU # _model_server_result.job_id PL1MAcZdsOrmSke8gFAILg _model_server_result.datetime_utc '2024-10-19 17:21:21' _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 4yhu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":502}' # _entry.id 4YHU # _exptl.entry_id 4YHU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 88.906 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'YTTRIUM (III) ION' _entity.pdbx_number_of_molecules 4 _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 4YHU _cell.length_a 87.663 _cell.length_b 161.205 _cell.length_c 105.214 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YHU _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,H 1 1 B,F,I 2 1 C,G,J 3 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 ? 2 D N N ? 2 E N N ? 2 F N N ? 2 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 OE1 GLU 94 A GLU 386 1_555 E Y YT3 . A YT3 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc2 A OE2 GLU 94 A GLU 386 1_555 E Y YT3 . A YT3 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? metalc ? metalc3 A OD1 ASP 113 A ASP 405 1_555 D Y YT3 . A YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc4 A OD2 ASP 113 A ASP 405 1_555 D Y YT3 . A YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? metalc ? metalc5 A OD1 ASP 126 A ASP 418 1_555 D Y YT3 . A YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? metalc ? metalc6 A OD2 ASP 126 A ASP 418 1_555 D Y YT3 . A YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc7 D Y YT3 . A YT3 501 1_555 H O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc8 D Y YT3 . A YT3 501 1_555 H O HOH . A HOH 616 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc9 D Y YT3 . A YT3 501 4_555 B OE1 GLU 115 B GLU 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc10 D Y YT3 . A YT3 501 4_555 B OE2 GLU 115 B GLU 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc11 D Y YT3 . A YT3 501 1_555 I O HOH . B HOH 613 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc12 B OD1 ASP 113 B ASP 405 1_555 F Y YT3 . B YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc13 B OD2 ASP 113 B ASP 405 1_555 F Y YT3 . B YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.121 ? metalc ? metalc14 B OD1 ASP 126 B ASP 418 1_555 F Y YT3 . B YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.142 ? metalc ? metalc15 F Y YT3 . B YT3 501 1_555 I O HOH . B HOH 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.447 ? metalc ? metalc16 C OD2 ASP 113 C ASP 405 1_555 G Y YT3 . C YT3 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? # _chem_comp.formula 'Y 3' _chem_comp.formula_weight 88.906 _chem_comp.id YT3 _chem_comp.mon_nstd_flag . _chem_comp.name 'YTTRIUM (III) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4YHU _atom_sites.fract_transf_matrix[1][1] 0.011407 _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] 0.006203 _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] 0.009504 _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 D 2 YT3 A 1 501 1 YT3 YT3 . E 2 YT3 A 1 502 4 YT3 YT3 . F 2 YT3 B 1 501 2 YT3 YT3 . G 2 YT3 C 1 501 3 YT3 YT3 . H 3 HOH A 1 601 16 HOH HOH . H 3 HOH A 2 602 60 HOH HOH . H 3 HOH A 3 603 2 HOH HOH . H 3 HOH A 4 604 74 HOH HOH . H 3 HOH A 5 605 91 HOH HOH . H 3 HOH A 6 606 92 HOH HOH . H 3 HOH A 7 607 32 HOH HOH . H 3 HOH A 8 608 36 HOH HOH . H 3 HOH A 9 609 12 HOH HOH . H 3 HOH A 10 610 66 HOH HOH . H 3 HOH A 11 611 88 HOH HOH . H 3 HOH A 12 612 59 HOH HOH . H 3 HOH A 13 613 54 HOH HOH . H 3 HOH A 14 614 86 HOH HOH . H 3 HOH A 15 615 57 HOH HOH . H 3 HOH A 16 616 77 HOH HOH . H 3 HOH A 17 617 26 HOH HOH . H 3 HOH A 18 618 11 HOH HOH . H 3 HOH A 19 619 13 HOH HOH . H 3 HOH A 20 620 75 HOH HOH . H 3 HOH A 21 621 10 HOH HOH . H 3 HOH A 22 622 90 HOH HOH . H 3 HOH A 23 623 18 HOH HOH . H 3 HOH A 24 624 78 HOH HOH . H 3 HOH A 25 625 61 HOH HOH . H 3 HOH A 26 626 27 HOH HOH . H 3 HOH A 27 627 22 HOH HOH . H 3 HOH A 28 628 58 HOH HOH . H 3 HOH A 29 629 37 HOH HOH . H 3 HOH A 30 630 39 HOH HOH . H 3 HOH A 31 631 34 HOH HOH . H 3 HOH A 32 632 1 HOH HOH . H 3 HOH A 33 633 71 HOH HOH . H 3 HOH A 34 634 53 HOH HOH . H 3 HOH A 35 635 72 HOH HOH . H 3 HOH A 36 636 15 HOH HOH . H 3 HOH A 37 637 84 HOH HOH . H 3 HOH A 38 638 55 HOH HOH . H 3 HOH A 39 639 43 HOH HOH . I 3 HOH B 1 601 93 HOH HOH . I 3 HOH B 2 602 31 HOH HOH . I 3 HOH B 3 603 7 HOH HOH . I 3 HOH B 4 604 40 HOH HOH . I 3 HOH B 5 605 79 HOH HOH . I 3 HOH B 6 606 70 HOH HOH . I 3 HOH B 7 607 97 HOH HOH . I 3 HOH B 8 608 80 HOH HOH . I 3 HOH B 9 609 9 HOH HOH . I 3 HOH B 10 610 95 HOH HOH . I 3 HOH B 11 611 23 HOH HOH . I 3 HOH B 12 612 81 HOH HOH . I 3 HOH B 13 613 76 HOH HOH . I 3 HOH B 14 614 3 HOH HOH . I 3 HOH B 15 615 30 HOH HOH . I 3 HOH B 16 616 67 HOH HOH . I 3 HOH B 17 617 17 HOH HOH . I 3 HOH B 18 618 96 HOH HOH . I 3 HOH B 19 619 94 HOH HOH . I 3 HOH B 20 620 6 HOH HOH . I 3 HOH B 21 621 29 HOH HOH . I 3 HOH B 22 622 56 HOH HOH . I 3 HOH B 23 623 62 HOH HOH . I 3 HOH B 24 624 45 HOH HOH . I 3 HOH B 25 625 41 HOH HOH . I 3 HOH B 26 626 44 HOH HOH . I 3 HOH B 27 627 21 HOH HOH . I 3 HOH B 28 628 48 HOH HOH . I 3 HOH B 29 629 82 HOH HOH . I 3 HOH B 30 630 20 HOH HOH . I 3 HOH B 31 631 83 HOH HOH . I 3 HOH B 32 632 46 HOH HOH . I 3 HOH B 33 633 73 HOH HOH . I 3 HOH B 34 634 24 HOH HOH . I 3 HOH B 35 635 47 HOH HOH . I 3 HOH B 36 636 5 HOH HOH . I 3 HOH B 37 637 42 HOH HOH . I 3 HOH B 38 638 49 HOH HOH . I 3 HOH B 39 639 64 HOH HOH . I 3 HOH B 40 640 25 HOH HOH . I 3 HOH B 41 641 50 HOH HOH . J 3 HOH C 1 601 19 HOH HOH . J 3 HOH C 2 602 69 HOH HOH . J 3 HOH C 3 603 28 HOH HOH . J 3 HOH C 4 604 14 HOH HOH . J 3 HOH C 5 605 65 HOH HOH . J 3 HOH C 6 606 87 HOH HOH . J 3 HOH C 7 607 35 HOH HOH . J 3 HOH C 8 608 63 HOH HOH . J 3 HOH C 9 609 38 HOH HOH . J 3 HOH C 10 610 68 HOH HOH . J 3 HOH C 11 611 4 HOH HOH . J 3 HOH C 12 612 8 HOH HOH . J 3 HOH C 13 613 89 HOH HOH . J 3 HOH C 14 614 52 HOH HOH . J 3 HOH C 15 615 85 HOH HOH . J 3 HOH C 16 616 33 HOH HOH . J 3 HOH C 17 617 51 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol Y _atom_site.label_atom_id Y _atom_site.label_comp_id YT3 _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 2 _atom_site.Cartn_x 51.363 _atom_site.Cartn_y 17.946 _atom_site.Cartn_z -16.318 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 118.66 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id Y _atom_site.auth_comp_id YT3 _atom_site.auth_seq_id 502 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #