data_3NK3 # _model_server_result.job_id -IarF3bSLugfCvjUqqC0kg _model_server_result.datetime_utc '2025-03-06 01:50:35' _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 3nk3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":910}' # _entry.id 3NK3 # _exptl.entry_id 3NK3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 189.1 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CITRATE ANION' _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 3NK3 _cell.length_a 98.385 _cell.length_b 98.385 _cell.length_c 257.369 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NK3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GAL _pdbx_entity_branch_link.comp_id_2 A2G _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 3 n E A2G 1 E 1 A2G A 900 A2G 3 n E GAL 2 E 2 GAL A 901 GAL # 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 8 A CYS 58 1_555 A SG CYS 102 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? disulf ? disulf2 A SG CYS 40 A CYS 90 1_555 A SG CYS 61 A CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf3 A SG CYS 179 A CYS 229 1_555 A SG CYS 245 A CYS 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 201 A CYS 251 1_555 A SG CYS 285 A CYS 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf5 A SG CYS 263 A CYS 313 1_555 A SG CYS 282 A CYS 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf6 A SG CYS 284 A CYS 334 1_555 A SG CYS 290 A CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf7 B SG CYS 8 B CYS 58 1_555 B SG CYS 102 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? disulf ? disulf8 B SG CYS 40 B CYS 90 1_555 B SG CYS 61 B CYS 111 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? disulf ? disulf9 B SG CYS 179 B CYS 229 1_555 B SG CYS 245 B CYS 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf10 B SG CYS 201 B CYS 251 1_555 B SG CYS 285 B CYS 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 B SG CYS 263 B CYS 313 1_555 B SG CYS 282 B CYS 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf12 B SG CYS 284 B CYS 334 1_555 B SG CYS 290 B CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A OG1 THR 118 A THR 168 1_555 E C1 A2G . E A2G 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 ? covale ? covale2 E O3 A2G . E A2G 1 1_555 E C1 GAL . E GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? # _chem_comp.formula 'C6 H5 O7 -3' _chem_comp.formula_weight 189.1 _chem_comp.id FLC _chem_comp.mon_nstd_flag . _chem_comp.name 'CITRATE ANION' _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 CAC CA FLC sing 113 n n CAC OA1 FLC doub 114 n n CAC OA2 FLC sing 115 n n CA CB FLC sing 116 n n CA HA1 FLC sing 117 n n CA HA2 FLC sing 118 n n CB CBC FLC sing 119 n n CB CG FLC sing 120 n n CB OHB FLC sing 121 n n CBC OB1 FLC doub 122 n n CBC OB2 FLC sing 123 n n CG CGC FLC sing 124 n n CG HG1 FLC sing 125 n n CG HG2 FLC sing 126 n n CGC OG1 FLC doub 127 n n CGC OG2 FLC sing 128 n n OHB HOB FLC sing 129 n n # _atom_sites.entry_id 3NK3 _atom_sites.fract_transf_matrix[1][1] 0.010164 _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] 0.010164 _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] 0.003885 _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 F 4 FLC C 1 910 910 FLC FLC . G 5 HOH A 1 2 2 HOH HOH . G 5 HOH A 2 5 5 HOH HOH . G 5 HOH A 3 6 6 HOH HOH . G 5 HOH A 4 7 7 HOH HOH . G 5 HOH A 5 9 9 HOH HOH . G 5 HOH A 6 10 10 HOH HOH . G 5 HOH A 7 12 12 HOH HOH . G 5 HOH A 8 16 16 HOH HOH . G 5 HOH A 9 17 17 HOH HOH . G 5 HOH A 10 20 20 HOH HOH . G 5 HOH A 11 21 21 HOH HOH . G 5 HOH A 12 24 24 HOH HOH . G 5 HOH A 13 25 25 HOH HOH . G 5 HOH A 14 26 26 HOH HOH . G 5 HOH A 15 30 30 HOH HOH . G 5 HOH A 16 31 31 HOH HOH . G 5 HOH A 17 32 32 HOH HOH . G 5 HOH A 18 34 34 HOH HOH . G 5 HOH A 19 35 35 HOH HOH . G 5 HOH A 20 37 37 HOH HOH . G 5 HOH A 21 38 38 HOH HOH . G 5 HOH A 22 42 42 HOH HOH . G 5 HOH A 23 43 43 HOH HOH . G 5 HOH A 24 44 44 HOH HOH . G 5 HOH A 25 46 46 HOH HOH . G 5 HOH A 26 348 348 HOH HOH . G 5 HOH A 27 349 349 HOH HOH . G 5 HOH A 28 350 350 HOH HOH . G 5 HOH A 29 351 351 HOH HOH . G 5 HOH A 30 352 352 HOH HOH . G 5 HOH A 31 353 353 HOH HOH . G 5 HOH A 32 354 354 HOH HOH . G 5 HOH A 33 355 355 HOH HOH . G 5 HOH A 34 356 356 HOH HOH . G 5 HOH A 35 357 357 HOH HOH . G 5 HOH A 36 358 358 HOH HOH . G 5 HOH A 37 359 359 HOH HOH . G 5 HOH A 38 360 360 HOH HOH . G 5 HOH A 39 361 361 HOH HOH . G 5 HOH A 40 362 362 HOH HOH . G 5 HOH A 41 363 363 HOH HOH . G 5 HOH A 42 364 364 HOH HOH . G 5 HOH A 43 365 365 HOH HOH . G 5 HOH A 44 366 366 HOH HOH . G 5 HOH A 45 367 367 HOH HOH . G 5 HOH A 46 368 368 HOH HOH . G 5 HOH A 47 369 369 HOH HOH . G 5 HOH A 48 370 370 HOH HOH . G 5 HOH A 49 371 371 HOH HOH . G 5 HOH A 50 372 372 HOH HOH . G 5 HOH A 51 373 373 HOH HOH . G 5 HOH A 52 374 374 HOH HOH . G 5 HOH A 53 375 375 HOH HOH . G 5 HOH A 54 376 376 HOH HOH . G 5 HOH A 55 377 377 HOH HOH . G 5 HOH A 56 378 378 HOH HOH . G 5 HOH A 57 379 379 HOH HOH . G 5 HOH A 58 380 380 HOH HOH . G 5 HOH A 59 381 381 HOH HOH . G 5 HOH A 60 382 382 HOH HOH . G 5 HOH A 61 383 383 HOH HOH . G 5 HOH A 62 384 384 HOH HOH . H 5 HOH B 1 1 1 HOH HOH . H 5 HOH B 2 3 3 HOH HOH . H 5 HOH B 3 4 4 HOH HOH . H 5 HOH B 4 8 8 HOH HOH . H 5 HOH B 5 11 11 HOH HOH . H 5 HOH B 6 13 13 HOH HOH . H 5 HOH B 7 14 14 HOH HOH . H 5 HOH B 8 15 15 HOH HOH . H 5 HOH B 9 18 18 HOH HOH . H 5 HOH B 10 19 19 HOH HOH . H 5 HOH B 11 22 22 HOH HOH . H 5 HOH B 12 27 27 HOH HOH . H 5 HOH B 13 29 29 HOH HOH . H 5 HOH B 14 33 33 HOH HOH . H 5 HOH B 15 36 36 HOH HOH . H 5 HOH B 16 39 39 HOH HOH . H 5 HOH B 17 40 40 HOH HOH . H 5 HOH B 18 41 41 HOH HOH . H 5 HOH B 19 45 45 HOH HOH . H 5 HOH B 20 47 47 HOH HOH . H 5 HOH B 21 48 48 HOH HOH . H 5 HOH B 22 49 49 HOH HOH . H 5 HOH B 23 50 50 HOH HOH . H 5 HOH B 24 348 348 HOH HOH . H 5 HOH B 25 349 349 HOH HOH . H 5 HOH B 26 350 350 HOH HOH . H 5 HOH B 27 351 351 HOH HOH . H 5 HOH B 28 352 352 HOH HOH . H 5 HOH B 29 353 353 HOH HOH . H 5 HOH B 30 354 354 HOH HOH . H 5 HOH B 31 355 355 HOH HOH . H 5 HOH B 32 356 356 HOH HOH . H 5 HOH B 33 357 357 HOH HOH . H 5 HOH B 34 358 358 HOH HOH . H 5 HOH B 35 359 359 HOH HOH . H 5 HOH B 36 360 360 HOH HOH . H 5 HOH B 37 361 361 HOH HOH . H 5 HOH B 38 362 362 HOH HOH . H 5 HOH B 39 363 363 HOH HOH . H 5 HOH B 40 364 364 HOH HOH . H 5 HOH B 41 365 365 HOH HOH . H 5 HOH B 42 366 366 HOH HOH . H 5 HOH B 43 367 367 HOH HOH . H 5 HOH B 44 368 368 HOH HOH . H 5 HOH B 45 369 369 HOH HOH . H 5 HOH B 46 370 370 HOH HOH . H 5 HOH B 47 371 371 HOH HOH . H 5 HOH B 48 372 372 HOH HOH . H 5 HOH B 49 373 373 HOH HOH . H 5 HOH B 50 374 374 HOH HOH . H 5 HOH B 51 375 375 HOH HOH . H 5 HOH B 52 376 376 HOH HOH . H 5 HOH B 53 377 377 HOH HOH . H 5 HOH B 54 378 378 HOH HOH . H 5 HOH B 55 379 379 HOH HOH . H 5 HOH B 56 380 380 HOH HOH . H 5 HOH B 57 381 381 HOH HOH . I 5 HOH C 1 23 23 HOH HOH . I 5 HOH C 2 28 28 HOH HOH . I 5 HOH C 3 54 54 HOH HOH . I 5 HOH C 4 67 67 HOH HOH . I 5 HOH C 5 68 68 HOH HOH . I 5 HOH C 6 102 102 HOH HOH . I 5 HOH C 7 118 118 HOH HOH . J 5 HOH D 1 75 75 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 CAC FLC . . . F 4 38.705 77.119 89.145 1 58.19 ? CAC FLC 910 C 1 HETATM 2 C CA FLC . . . F 4 37.404 76.814 89.872 1 64.05 ? CA FLC 910 C 1 HETATM 3 C CB FLC . . . F 4 36.556 75.725 89.215 1 73.19 ? CB FLC 910 C 1 HETATM 4 C CBC FLC . . . F 4 36.869 75.728 87.771 1 72.92 ? CBC FLC 910 C 1 HETATM 5 C CG FLC . . . F 4 35.079 76.067 89.407 1 75.76 ? CG FLC 910 C 1 HETATM 6 C CGC FLC . . . F 4 34.218 75.505 88.292 1 94.17 ? CGC FLC 910 C 1 HETATM 7 O OA1 FLC . . . F 4 39.573 76.229 89.037 1 54.4 ? OA1 FLC 910 C 1 HETATM 8 O OA2 FLC . . . F 4 38.886 78.269 88.694 1 52.62 ? OA2 FLC 910 C 1 HETATM 9 O OB1 FLC . . . F 4 37.386 74.68 87.295 1 70.55 ? OB1 FLC 910 C 1 HETATM 10 O OB2 FLC . . . F 4 36.613 76.794 87.173 1 74.9 ? OB2 FLC 910 C 1 HETATM 11 O OG1 FLC . . . F 4 33.679 74.398 88.475 1 81.25 ? OG1 FLC 910 C 1 HETATM 12 O OG2 FLC . . . F 4 34.063 76.157 87.229 1 99.25 ? OG2 FLC 910 C 1 HETATM 13 O OHB FLC . . . F 4 36.885 74.391 89.66 1 79.19 ? OHB FLC 910 C 1 HETATM 14 H HA1 FLC . . . F 4 36.813 77.73 89.934 1 76.57 ? HA1 FLC 910 C 1 HETATM 15 H HA2 FLC . . . F 4 37.636 76.509 90.895 1 76.57 ? HA2 FLC 910 C 1 HETATM 16 H HG1 FLC . . . F 4 34.962 77.152 89.441 1 90.63 ? HG1 FLC 910 C 1 HETATM 17 H HG2 FLC . . . F 4 34.737 75.666 90.363 1 90.63 ? HG2 FLC 910 C 1 HETATM 18 H HOB FLC . . . F 4 37.808 74.198 89.445 1 94.74 ? HOB FLC 910 C 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 18 #