data_3F2D # _model_server_result.job_id Mje_vKfHYjoj-dwf8mh9_g _model_server_result.datetime_utc '2024-11-13 05:24:19' _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 3f2d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":3}' # _entry.id 3F2D # _exptl.entry_id 3F2D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 54.938 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MANGANESE (II) ION' _entity.pdbx_number_of_molecules 3 _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 3F2D _cell.length_a 115.997 _cell.length_b 139.479 _cell.length_c 184.074 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3F2D _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,K,L,M,N _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 ? 4 D N N ? 4 E N N ? 4 F 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 D MN MN . A MN 1 1_555 C OD2 ASP 559 A ASP 973 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc2 D MN MN . A MN 1 1_555 C OD2 ASP 561 A ASP 975 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc3 D MN MN . A MN 1 1_555 K O2A DGT . A DGT 1456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc4 D MN MN . A MN 1 1_555 K O2G DGT . A DGT 1456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc5 D MN MN . A MN 1 1_555 K O1B DGT . A DGT 1456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? metalc ? metalc6 D MN MN . A MN 1 1_555 N O HOH . A HOH 1457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc7 E MN MN . A MN 2 1_555 I O2 PO4 . A PO4 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.834 ? metalc ? metalc8 E MN MN . A MN 2 1_555 C OE2 GLU 179 A GLU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc9 E MN MN . A MN 2 1_555 C ND1 HIS 206 A HIS 620 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc10 E MN MN . A MN 2 1_555 C SG CYS 256 A CYS 670 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.6 ? metalc ? metalc11 F MN MN . A MN 3 1_555 I O1 PO4 . A PO4 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.813 ? metalc ? metalc12 F MN MN . A MN 3 1_555 C NE2 HIS 120 A HIS 346 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? metalc ? metalc13 F MN MN . A MN 3 1_555 C NE2 HIS 122 A HIS 348 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc14 F MN MN . A MN 3 1_555 C OE1 GLU 179 A GLU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc15 F MN MN . A MN 3 1_555 C OE2 GLU 179 A GLU 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.724 ? metalc ? metalc16 F MN MN . A MN 3 1_555 C OD1 ASN 329 A ASN 743 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc17 G ZN ZN . A ZN 4 1_555 C SG CYS 505 A CYS 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc18 G ZN ZN . A ZN 4 1_555 C SG CYS 508 A CYS 922 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc19 G ZN ZN . A ZN 4 1_555 C SG CYS 530 A CYS 944 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc20 G ZN ZN . A ZN 4 1_555 C SG CYS 533 A CYS 947 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc21 H ZN ZN . A ZN 5 1_555 I O4 PO4 . A PO4 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc22 H ZN ZN . A ZN 5 1_555 C OD1 ASP 129 A ASP 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? metalc ? metalc23 H ZN ZN . A ZN 5 1_555 C NE2 HIS 154 A HIS 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc24 H ZN ZN . A ZN 5 1_555 C NE2 HIS 331 A HIS 745 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? hydrog WATSON-CRICK hydrog1 A N1 DG 5 P DG 5 1_555 B N3 DC 18 T DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 5 P DG 5 1_555 B O2 DC 18 T DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 5 P DG 5 1_555 B N4 DC 18 T DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DA 6 P DA 6 1_555 B N3 DT 17 T DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N6 DA 6 P DA 6 1_555 B O4 DT 17 T DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 DG 7 P DG 7 1_555 B N3 DC 16 T DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N2 DG 7 P DG 7 1_555 B O2 DC 16 T DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O6 DG 7 P DG 7 1_555 B N4 DC 16 T DC 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog9 A N1 DA 8 P DA 8 1_555 B N3 DT 15 T DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 DC 9 P DC 9 1_555 B N1 DG 14 T DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N4 DC 9 P DC 9 1_555 B O6 DG 14 T DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O2 DC 9 P DC 9 1_555 B N2 DG 14 T DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DG 10 P DG 10 1_555 B N3 DC 13 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N2 DG 10 P DG 10 1_555 B O2 DC 13 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A O6 DG 10 P DG 10 1_555 B N4 DC 13 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N1 DG 11 P DG 11 1_555 B N3 DC 12 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N2 DG 11 P DG 11 1_555 B O2 DC 12 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O6 DG 11 P DG 11 1_555 B N4 DC 12 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N1 DG 12 P DG 12 1_555 B N3 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N2 DG 12 P DG 12 1_555 B O2 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O6 DG 12 P DG 12 1_555 B N4 DC 11 T DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N3 DC 13 P DC 13 1_555 B N1 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N4 DC 13 P DC 13 1_555 B O6 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O2 DC 13 P DC 13 1_555 B N2 DG 10 T DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N1 DA 14 P DA 14 1_555 B N3 DT 9 T DT 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N6 DA 14 P DA 14 1_555 B O4 DT 9 T DT 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N1 DA 15 P DA 15 1_555 B N3 DT 8 T DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N6 DA 15 P DA 15 1_555 B O4 DT 8 T DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A N3 DC 16 P DC 16 1_555 B N1 DG 7 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N4 DC 16 P DC 16 1_555 B O6 DG 7 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A O2 DC 16 P DC 16 1_555 B N2 DG 7 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A N3 DC 17 P DC 17 1_555 B N1 DG 6 T DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 A N4 DC 17 P DC 17 1_555 B O6 DG 6 T DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 A O2 DC 17 P DC 17 1_555 B N2 DG 6 T DG 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'Mn 2' _chem_comp.formula_weight 54.938 _chem_comp.id MN _chem_comp.mon_nstd_flag . _chem_comp.name 'MANGANESE (II) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3F2D _atom_sites.fract_transf_matrix[1][1] 0.008621 _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] 0.00717 _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] 0.005433 _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 4 MN A 1 1 1 MN MN . E 4 MN A 1 2 2 MN MN . F 4 MN A 1 3 3 MN MN . G 5 ZN A 1 4 4 ZN ZN . H 5 ZN A 1 5 5 ZN ZN . I 6 PO4 A 1 6 6 PO4 PO4 . J 6 PO4 A 1 7 7 PO4 PO4 . K 7 DGT A 1 1456 1 DGT DGT . L 8 HOH P 1 80 80 HOH HOH . M 8 HOH T 1 23 20 HOH HOH . M 8 HOH T 2 24 24 HOH HOH . M 8 HOH T 3 25 25 HOH HOH . M 8 HOH T 4 30 30 HOH HOH . M 8 HOH T 5 50 50 HOH HOH . M 8 HOH T 6 55 55 HOH HOH . M 8 HOH T 7 79 79 HOH HOH . M 8 HOH T 8 92 92 HOH HOH . N 8 HOH A 1 8 8 HOH HOH . N 8 HOH A 2 9 9 HOH HOH . N 8 HOH A 3 10 10 HOH HOH . N 8 HOH A 4 11 11 HOH HOH . N 8 HOH A 5 12 12 HOH HOH . N 8 HOH A 6 13 13 HOH HOH . N 8 HOH A 7 14 14 HOH HOH . N 8 HOH A 8 15 15 HOH HOH . N 8 HOH A 9 16 16 HOH HOH . N 8 HOH A 10 17 17 HOH HOH . N 8 HOH A 11 18 18 HOH HOH . N 8 HOH A 12 19 19 HOH HOH . N 8 HOH A 13 21 21 HOH HOH . N 8 HOH A 14 22 22 HOH HOH . N 8 HOH A 15 23 23 HOH HOH . N 8 HOH A 16 26 26 HOH HOH . N 8 HOH A 17 27 27 HOH HOH . N 8 HOH A 18 28 28 HOH HOH . N 8 HOH A 19 29 29 HOH HOH . N 8 HOH A 20 31 31 HOH HOH . N 8 HOH A 21 32 32 HOH HOH . N 8 HOH A 22 33 33 HOH HOH . N 8 HOH A 23 34 34 HOH HOH . N 8 HOH A 24 36 36 HOH HOH . N 8 HOH A 25 37 37 HOH HOH . N 8 HOH A 26 38 38 HOH HOH . N 8 HOH A 27 39 39 HOH HOH . N 8 HOH A 28 40 40 HOH HOH . N 8 HOH A 29 41 41 HOH HOH . N 8 HOH A 30 42 42 HOH HOH . N 8 HOH A 31 43 43 HOH HOH . N 8 HOH A 32 44 44 HOH HOH . N 8 HOH A 33 45 45 HOH HOH . N 8 HOH A 34 46 46 HOH HOH . N 8 HOH A 35 47 47 HOH HOH . N 8 HOH A 36 48 48 HOH HOH . N 8 HOH A 37 49 49 HOH HOH . N 8 HOH A 38 51 51 HOH HOH . N 8 HOH A 39 52 52 HOH HOH . N 8 HOH A 40 53 53 HOH HOH . N 8 HOH A 41 54 54 HOH HOH . N 8 HOH A 42 57 57 HOH HOH . N 8 HOH A 43 58 58 HOH HOH . N 8 HOH A 44 59 59 HOH HOH . N 8 HOH A 45 60 60 HOH HOH . N 8 HOH A 46 62 62 HOH HOH . N 8 HOH A 47 63 63 HOH HOH . N 8 HOH A 48 64 64 HOH HOH . N 8 HOH A 49 65 65 HOH HOH . N 8 HOH A 50 66 66 HOH HOH . N 8 HOH A 51 67 67 HOH HOH . N 8 HOH A 52 68 68 HOH HOH . N 8 HOH A 53 69 69 HOH HOH . N 8 HOH A 54 70 70 HOH HOH . N 8 HOH A 55 71 71 HOH HOH . N 8 HOH A 56 72 72 HOH HOH . N 8 HOH A 57 73 73 HOH HOH . N 8 HOH A 58 74 74 HOH HOH . N 8 HOH A 59 75 75 HOH HOH . N 8 HOH A 60 76 76 HOH HOH . N 8 HOH A 61 77 77 HOH HOH . N 8 HOH A 62 78 78 HOH HOH . N 8 HOH A 63 81 81 HOH HOH . N 8 HOH A 64 82 82 HOH HOH . N 8 HOH A 65 83 83 HOH HOH . N 8 HOH A 66 84 84 HOH HOH . N 8 HOH A 67 85 85 HOH HOH . N 8 HOH A 68 86 86 HOH HOH . N 8 HOH A 69 87 87 HOH HOH . N 8 HOH A 70 88 88 HOH HOH . N 8 HOH A 71 89 89 HOH HOH . N 8 HOH A 72 90 90 HOH HOH . N 8 HOH A 73 91 91 HOH HOH . N 8 HOH A 74 93 93 HOH HOH . N 8 HOH A 75 94 94 HOH HOH . N 8 HOH A 76 95 95 HOH HOH . N 8 HOH A 77 96 96 HOH HOH . N 8 HOH A 78 97 97 HOH HOH . N 8 HOH A 79 98 98 HOH HOH . N 8 HOH A 80 99 99 HOH HOH . N 8 HOH A 81 100 100 HOH HOH . N 8 HOH A 82 101 101 HOH HOH . N 8 HOH A 83 102 102 HOH HOH . N 8 HOH A 84 103 103 HOH HOH . N 8 HOH A 85 104 104 HOH HOH . N 8 HOH A 86 1457 1 HOH HOH . N 8 HOH A 87 1458 2 HOH HOH . N 8 HOH A 88 1459 3 HOH HOH . N 8 HOH A 89 1460 4 HOH HOH . N 8 HOH A 90 1461 5 HOH HOH . N 8 HOH A 91 1462 6 HOH HOH . N 8 HOH A 92 1463 7 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MN _atom_site.label_atom_id MN _atom_site.label_comp_id MN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 4 _atom_site.Cartn_x 27.828 _atom_site.Cartn_y 5.356 _atom_site.Cartn_z -49.008 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 36.9 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MN _atom_site.auth_comp_id MN _atom_site.auth_seq_id 3 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 1 #