data_2I6Q # _model_server_result.job_id '_SsW_roS0XtJrZ-CZusfIA' _model_server_result.datetime_utc '2025-03-04 15:30:10' _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 2i6q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1004}' # _entry.id 2I6Q # _exptl.entry_id 2I6Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 102.046 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MALONATE 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 109.55 _cell.angle_gamma 90 _cell.entry_id 2I6Q _cell.length_a 51.482 _cell.length_b 77.185 _cell.length_c 70.858 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2I6Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,G _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 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 1313 NAG 2 n B NAG 2 B 2 NAG A 1314 NAG 2 n B FUC 3 B 3 FUC A 1315 FCA 3 n C NAG 1 C 1 NAG A 1447 NAG 3 n C NAG 2 C 2 NAG A 1448 NAG 3 n C BMA 3 C 3 BMA A 1449 MAN # 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 228 A CYS 443 1_555 A SG CYS 346 A CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf2 A SG CYS 257 A CYS 472 1_555 A SG CYS 273 A CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 349 A CYS 564 1_555 A SG CYS 365 A CYS 580 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf4 A SG CYS 403 A CYS 618 1_555 A SG CYS 430 A CYS 645 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 A SG CYS 440 A CYS 655 1_555 A SG CYS 470 A CYS 685 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 98 A ASN 313 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 A ND2 ASN 232 A ASN 447 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 A ND2 ASN 386 A ASN 601 1_555 D C1 NAG . A NAG 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale5 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A OG SER 27 A SER 242 1_555 E MN MN . A MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc2 A OG SER 29 A SER 244 1_555 E MN MN . A MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc3 A OG1 THR 102 A THR 317 1_555 E MN MN . A MN 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc4 E MN MN . A MN 1001 1_555 G O HOH . A HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? metalc ? metalc5 E MN MN . A MN 1001 1_555 G O HOH . A HOH 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc6 E MN MN . A MN 1001 1_555 F O8 MLI . A MLI 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? # _chem_comp.formula 'C3 H2 O4 -2' _chem_comp.formula_weight 102.046 _chem_comp.id MLI _chem_comp.mon_nstd_flag . _chem_comp.name 'MALONATE ION' _chem_comp.type non-polymer _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 C1 C2 MLI sing 284 n n C1 C3 MLI sing 285 n n C1 H11 MLI sing 286 n n C1 H12 MLI sing 287 n n C2 O6 MLI doub 288 n n C2 O7 MLI sing 289 n n C3 O8 MLI doub 290 n n C3 O9 MLI sing 291 n n # _atom_sites.entry_id 2I6Q _atom_sites.fract_transf_matrix[1][1] 0.019424 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006897 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012956 _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] 0.014976 _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 NAG A 1 1601 1601 NAG NAG . E 5 MN A 1 1001 1001 MN MN . F 6 MLI A 1 1004 1004 MLI MLI . G 7 HOH A 1 1 1 HOH HOH . G 7 HOH A 2 2 2 HOH HOH . G 7 HOH A 3 3 3 HOH HOH . G 7 HOH A 4 4 4 HOH HOH . G 7 HOH A 5 5 5 HOH HOH . G 7 HOH A 6 6 6 HOH HOH . G 7 HOH A 7 7 7 HOH HOH . G 7 HOH A 8 8 8 HOH HOH . G 7 HOH A 9 9 9 HOH HOH . G 7 HOH A 10 10 10 HOH HOH . G 7 HOH A 11 11 11 HOH HOH . G 7 HOH A 12 12 12 HOH HOH . G 7 HOH A 13 13 13 HOH HOH . G 7 HOH A 14 14 14 HOH HOH . G 7 HOH A 15 15 15 HOH HOH . G 7 HOH A 16 16 16 HOH HOH . G 7 HOH A 17 17 17 HOH HOH . G 7 HOH A 18 18 18 HOH HOH . G 7 HOH A 19 19 19 HOH HOH . G 7 HOH A 20 20 20 HOH HOH . G 7 HOH A 21 21 21 HOH HOH . G 7 HOH A 22 22 22 HOH HOH . G 7 HOH A 23 23 23 HOH HOH . G 7 HOH A 24 24 24 HOH HOH . G 7 HOH A 25 25 25 HOH HOH . G 7 HOH A 26 26 26 HOH HOH . G 7 HOH A 27 28 28 HOH HOH . G 7 HOH A 28 29 29 HOH HOH . G 7 HOH A 29 30 30 HOH HOH . G 7 HOH A 30 31 31 HOH HOH . G 7 HOH A 31 32 32 HOH HOH . G 7 HOH A 32 33 33 HOH HOH . G 7 HOH A 33 34 34 HOH HOH . G 7 HOH A 34 36 36 HOH HOH . G 7 HOH A 35 37 37 HOH HOH . G 7 HOH A 36 38 38 HOH HOH . G 7 HOH A 37 39 39 HOH HOH . G 7 HOH A 38 40 40 HOH HOH . G 7 HOH A 39 41 41 HOH HOH . G 7 HOH A 40 42 42 HOH HOH . G 7 HOH A 41 43 43 HOH HOH . G 7 HOH A 42 45 45 HOH HOH . G 7 HOH A 43 46 46 HOH HOH . G 7 HOH A 44 47 47 HOH HOH . G 7 HOH A 45 49 49 HOH HOH . G 7 HOH A 46 50 50 HOH HOH . G 7 HOH A 47 52 52 HOH HOH . G 7 HOH A 48 54 54 HOH HOH . G 7 HOH A 49 56 56 HOH HOH . G 7 HOH A 50 57 57 HOH HOH . G 7 HOH A 51 58 58 HOH HOH . G 7 HOH A 52 59 59 HOH HOH . G 7 HOH A 53 60 60 HOH HOH . G 7 HOH A 54 62 62 HOH HOH . G 7 HOH A 55 64 64 HOH HOH . G 7 HOH A 56 66 66 HOH HOH . G 7 HOH A 57 67 67 HOH HOH . G 7 HOH A 58 68 68 HOH HOH . G 7 HOH A 59 69 69 HOH HOH . G 7 HOH A 60 70 70 HOH HOH . G 7 HOH A 61 72 72 HOH HOH . G 7 HOH A 62 74 74 HOH HOH . G 7 HOH A 63 77 77 HOH HOH . G 7 HOH A 64 79 79 HOH HOH . G 7 HOH A 65 80 80 HOH HOH . G 7 HOH A 66 81 81 HOH HOH . G 7 HOH A 67 83 83 HOH HOH . G 7 HOH A 68 84 84 HOH HOH . G 7 HOH A 69 87 87 HOH HOH . G 7 HOH A 70 90 90 HOH HOH . G 7 HOH A 71 92 92 HOH HOH . G 7 HOH A 72 93 93 HOH HOH . G 7 HOH A 73 96 96 HOH HOH . G 7 HOH A 74 100 100 HOH HOH . G 7 HOH A 75 102 102 HOH HOH . G 7 HOH A 76 106 106 HOH HOH . G 7 HOH A 77 107 107 HOH HOH . G 7 HOH A 78 108 108 HOH HOH . G 7 HOH A 79 109 109 HOH HOH . G 7 HOH A 80 111 111 HOH HOH . G 7 HOH A 81 112 112 HOH HOH . G 7 HOH A 82 114 114 HOH HOH . G 7 HOH A 83 115 115 HOH HOH . G 7 HOH A 84 120 120 HOH HOH . G 7 HOH A 85 121 121 HOH HOH . G 7 HOH A 86 123 123 HOH HOH . G 7 HOH A 87 125 125 HOH HOH . G 7 HOH A 88 126 126 HOH HOH . G 7 HOH A 89 128 128 HOH HOH . G 7 HOH A 90 132 132 HOH HOH . G 7 HOH A 91 135 135 HOH HOH . G 7 HOH A 92 136 136 HOH HOH . G 7 HOH A 93 137 137 HOH HOH . G 7 HOH A 94 139 139 HOH HOH . G 7 HOH A 95 141 141 HOH HOH . G 7 HOH A 96 142 142 HOH HOH . G 7 HOH A 97 147 147 HOH HOH . G 7 HOH A 98 149 149 HOH HOH . G 7 HOH A 99 151 151 HOH HOH . G 7 HOH A 100 153 153 HOH HOH . G 7 HOH A 101 157 157 HOH HOH . G 7 HOH A 102 158 158 HOH HOH . G 7 HOH A 103 160 160 HOH HOH . G 7 HOH A 104 161 161 HOH HOH . G 7 HOH A 105 164 164 HOH HOH . G 7 HOH A 106 166 166 HOH HOH . G 7 HOH A 107 169 169 HOH HOH . G 7 HOH A 108 171 171 HOH HOH . G 7 HOH A 109 175 175 HOH HOH . G 7 HOH A 110 177 177 HOH HOH . G 7 HOH A 111 186 186 HOH HOH . G 7 HOH A 112 187 187 HOH HOH . G 7 HOH A 113 188 188 HOH HOH . G 7 HOH A 114 189 189 HOH HOH . G 7 HOH A 115 190 190 HOH HOH . G 7 HOH A 116 191 191 HOH HOH . G 7 HOH A 117 192 192 HOH HOH . G 7 HOH A 118 193 193 HOH HOH . G 7 HOH A 119 194 194 HOH HOH . G 7 HOH A 120 195 195 HOH HOH . G 7 HOH A 121 196 196 HOH HOH . G 7 HOH A 122 197 197 HOH HOH . G 7 HOH A 123 198 198 HOH HOH . G 7 HOH A 124 199 199 HOH HOH . G 7 HOH A 125 200 200 HOH HOH . G 7 HOH A 126 201 201 HOH HOH . G 7 HOH A 127 202 202 HOH HOH . G 7 HOH A 128 204 204 HOH HOH . G 7 HOH A 129 205 205 HOH HOH . G 7 HOH A 130 206 206 HOH HOH . G 7 HOH A 131 207 207 HOH HOH . G 7 HOH A 132 1002 1002 HOH HOH . G 7 HOH A 133 1003 1003 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 C C1 MLI . . . F 6 -15.971 -20.972 56.541 1 13.82 ? C1 MLI 1004 A 1 HETATM 2 C C2 MLI . . . F 6 -16.273 -20.495 57.944 1 14.94 ? C2 MLI 1004 A 1 HETATM 3 C C3 MLI . . . F 6 -15.133 -19.943 55.814 1 13.04 ? C3 MLI 1004 A 1 HETATM 4 O O6 MLI . . . F 6 -15.647 -21.006 58.901 1 14.25 ? O6 MLI 1004 A 1 HETATM 5 O O7 MLI . . . F 6 -17.14 -19.606 58.09 1 15.67 ? O7 MLI 1004 A 1 HETATM 6 O O8 MLI . . . F 6 -15.116 -19.972 54.566 1 11.18 ? O8 MLI 1004 A 1 HETATM 7 O O9 MLI . . . F 6 -14.486 -19.101 56.477 1 11.85 ? O9 MLI 1004 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 365 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 7 #