data_5K7X # _model_server_result.job_id CvxKXgHzuk2_EGIsBC--NQ _model_server_result.datetime_utc '2024-11-15 14:39:26' _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 5k7x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":403}' # _entry.id 5K7X # _exptl.entry_id 5K7X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 6 _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 5K7X _cell.length_a 105.348 _cell.length_b 130.549 _cell.length_c 168.673 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5K7X _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,J,K,L,M,N,EA,FA 1 1 C,D,O,P,Q,R,S,T,U,V,GA,HA 2 1 E,F,W,X,Y,Z,AA,BA,CA,DA,IA,JA 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 ? 5 J N N ? 5 N N N ? 5 R N N ? 5 V N N ? 5 Z N N ? 5 DA 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 OD1 ASP 14 A ASP 13 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc2 A O GLY 43 A GLY 42 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc3 G O1G GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc4 G O3B GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc5 G O2A GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.853 ? metalc ? metalc6 I O HDA . A HDA 402 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc7 B OD1 ASP 14 B ASP 13 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc8 B O GLY 43 B GLY 42 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc9 K O1G GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc10 K O3B GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc11 K O2A GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc12 M O HDA . B HDA 402 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc13 C OD1 ASP 14 C ASP 13 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc14 C O GLY 43 C GLY 42 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc15 O O1G GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc16 O O3B GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc17 O O2A GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? metalc ? metalc18 Q O HDA . C HDA 402 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc19 D OD1 ASP 14 D ASP 13 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc20 D O GLY 43 D GLY 42 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc21 S O1G GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc22 S O3B GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc23 S O2A GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc24 U O HDA . D HDA 402 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc25 E OD1 ASP 14 E ASP 13 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc26 E O GLY 43 E GLY 42 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc27 W O1G GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc28 W O3B GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc29 W O2A GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc30 Y O HDA . E HDA 402 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc31 F OD1 ASP 14 F ASP 13 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc32 F O GLY 43 F GLY 42 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc33 AA O1G GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc34 AA O3B GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc35 AA O2A GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.858 ? metalc ? metalc36 CA O HDA . F HDA 402 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5K7X _atom_sites.fract_transf_matrix[1][1] 0.009492 _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] 0.00766 _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] 0.005929 _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 G 2 GTP A 1 400 400 GTP GTP . H 3 IMP A 1 401 401 IMP IMP . I 4 HDA A 1 402 402 HDA HDA . J 5 MG A 1 403 403 MG MG . K 2 GTP B 1 400 400 GTP GTP . L 3 IMP B 1 401 401 IMP IMP . M 4 HDA B 1 402 402 HDA HDA . N 5 MG B 1 403 403 MG MG . O 2 GTP C 1 400 400 GTP GTP . P 3 IMP C 1 401 401 IMP IMP . Q 4 HDA C 1 402 402 HDA HDA . R 5 MG C 1 403 403 MG MG . S 2 GTP D 1 400 400 GTP GTP . T 3 IMP D 1 401 401 IMP IMP . U 4 HDA D 1 402 402 HDA HDA . V 5 MG D 1 403 403 MG MG . W 2 GTP E 1 400 400 GTP GTP . X 3 IMP E 1 401 401 IMP IMP . Y 4 HDA E 1 402 402 HDA HDA . Z 5 MG E 1 403 403 MG MG . AA 2 GTP F 1 400 400 GTP GTP . BA 3 IMP F 1 401 401 IMP IMP . CA 4 HDA F 1 402 402 HDA HDA . DA 5 MG F 1 403 403 MG MG . EA 6 HOH A 1 501 6 HOH HOH . EA 6 HOH A 2 502 55 HOH HOH . EA 6 HOH A 3 503 19 HOH HOH . EA 6 HOH A 4 504 2 HOH HOH . EA 6 HOH A 5 505 4 HOH HOH . EA 6 HOH A 6 506 53 HOH HOH . EA 6 HOH A 7 507 1 HOH HOH . EA 6 HOH A 8 508 58 HOH HOH . EA 6 HOH A 9 509 29 HOH HOH . EA 6 HOH A 10 510 52 HOH HOH . FA 6 HOH B 1 501 28 HOH HOH . FA 6 HOH B 2 502 47 HOH HOH . FA 6 HOH B 3 503 35 HOH HOH . FA 6 HOH B 4 504 57 HOH HOH . FA 6 HOH B 5 505 32 HOH HOH . FA 6 HOH B 6 506 10 HOH HOH . FA 6 HOH B 7 507 22 HOH HOH . FA 6 HOH B 8 508 39 HOH HOH . FA 6 HOH B 9 509 33 HOH HOH . FA 6 HOH B 10 510 54 HOH HOH . FA 6 HOH B 11 511 20 HOH HOH . FA 6 HOH B 12 512 51 HOH HOH . FA 6 HOH B 13 513 48 HOH HOH . GA 6 HOH C 1 501 25 HOH HOH . GA 6 HOH C 2 502 12 HOH HOH . GA 6 HOH C 3 503 7 HOH HOH . GA 6 HOH C 4 504 37 HOH HOH . GA 6 HOH C 5 505 41 HOH HOH . GA 6 HOH C 6 506 17 HOH HOH . GA 6 HOH C 7 507 46 HOH HOH . GA 6 HOH C 8 508 11 HOH HOH . GA 6 HOH C 9 509 56 HOH HOH . GA 6 HOH C 10 510 18 HOH HOH . GA 6 HOH C 11 511 13 HOH HOH . GA 6 HOH C 12 512 26 HOH HOH . HA 6 HOH D 1 501 31 HOH HOH . HA 6 HOH D 2 502 45 HOH HOH . HA 6 HOH D 3 503 9 HOH HOH . HA 6 HOH D 4 504 16 HOH HOH . HA 6 HOH D 5 505 43 HOH HOH . IA 6 HOH E 1 501 34 HOH HOH . IA 6 HOH E 2 502 44 HOH HOH . IA 6 HOH E 3 503 42 HOH HOH . IA 6 HOH E 4 504 49 HOH HOH . IA 6 HOH E 5 505 30 HOH HOH . IA 6 HOH E 6 506 38 HOH HOH . JA 6 HOH F 1 501 50 HOH HOH . JA 6 HOH F 2 502 15 HOH HOH . JA 6 HOH F 3 503 40 HOH HOH . JA 6 HOH F 4 504 36 HOH HOH . JA 6 HOH F 5 505 21 HOH HOH . JA 6 HOH F 6 506 24 HOH HOH . JA 6 HOH F 7 507 14 HOH HOH . JA 6 HOH F 8 508 27 HOH HOH . JA 6 HOH F 9 509 5 HOH HOH . JA 6 HOH F 10 510 3 HOH HOH . JA 6 HOH F 11 511 23 HOH HOH . JA 6 HOH F 12 512 8 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id Z _atom_site.label_entity_id 5 _atom_site.Cartn_x 3.773 _atom_site.Cartn_y 40.333 _atom_site.Cartn_z 6.365 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 69.01 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 403 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #