data_3DVL # _model_server_result.job_id ychuhoDda9CfOO4ELoTEQw _model_server_result.datetime_utc '2024-11-14 18:01:04' _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 3dvl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":804}' # _entry.id 3DVL # _exptl.entry_id 3DVL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 2 _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 3DVL _cell.length_a 132.873 _cell.length_b 135.576 _cell.length_c 204.951 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DVL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA _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 ? 2 G N N ? 2 J N N ? 2 M N N ? 2 P N N ? 2 S N N ? 2 V 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 covale ? covale1 A C ILE 430 A ILE 430 1_555 A N SEP 431 A SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C SEP 431 A SEP 431 1_555 A N TPO 432 A TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale3 A C TPO 432 A TPO 432 1_555 A N ILE 433 A ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale4 B C ILE 430 B ILE 430 1_555 B N SEP 431 B SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale5 B C SEP 431 B SEP 431 1_555 B N TPO 432 B TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 B C TPO 432 B TPO 432 1_555 B N ILE 433 B ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale7 C C ILE 430 C ILE 430 1_555 C N SEP 431 C SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale8 C C SEP 431 C SEP 431 1_555 C N TPO 432 C TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 C C TPO 432 C TPO 432 1_555 C N ILE 433 C ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale10 D C ILE 430 D ILE 430 1_555 D N SEP 431 D SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale11 D C SEP 431 D SEP 431 1_555 D N TPO 432 D TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale12 D C TPO 432 D TPO 432 1_555 D N ILE 433 D ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale13 E C ILE 430 E ILE 430 1_555 E N SEP 431 E SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale14 E C SEP 431 E SEP 431 1_555 E N TPO 432 E TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale15 E C TPO 432 E TPO 432 1_555 E N ILE 433 E ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? covale ? covale16 F C ILE 430 F ILE 430 1_555 F N SEP 431 F SEP 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale17 F C SEP 431 F SEP 431 1_555 F N TPO 432 F TPO 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.311 ? covale ? covale18 F C TPO 432 F TPO 432 1_555 F N ILE 433 F ILE 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.245 ? metalc ? metalc1 B OE1 GLU 318 B GLU 318 1_555 J MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc2 C OG1 THR 295 C THR 295 1_555 M MG MG . C MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc3 D OG1 THR 295 D THR 295 1_555 P MG MG . D MG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? metalc ? metalc4 E OG1 THR 295 E THR 295 1_555 S MG MG . E MG 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? # _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 3DVL _atom_sites.fract_transf_matrix[1][1] 0.007526 _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] 0.007376 _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] 0.004879 _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 MG A 1 801 801 MG MG . H 3 ATP A 1 901 901 ATP ATP . I 3 ATP A 1 903 903 ATP ATP . J 2 MG B 1 802 802 MG MG . K 3 ATP B 1 901 901 ATP ATP . L 3 ATP B 1 903 903 ATP ATP . M 2 MG C 1 803 803 MG MG . N 3 ATP C 1 901 901 ATP ATP . O 3 ATP C 1 903 903 ATP ATP . P 2 MG D 1 804 804 MG MG . Q 3 ATP D 1 901 901 ATP ATP . R 3 ATP D 1 903 903 ATP ATP . S 2 MG E 1 805 805 MG MG . T 3 ATP E 1 901 901 ATP ATP . U 3 ATP E 1 903 903 ATP ATP . V 2 MG F 1 806 806 MG MG . W 3 ATP F 1 901 901 ATP ATP . X 3 ATP F 1 903 903 ATP ATP . Y 4 HOH A 1 520 4 HOH HOH . Y 4 HOH A 2 521 8 HOH HOH . Y 4 HOH A 3 522 11 HOH HOH . Y 4 HOH A 4 523 23 HOH HOH . Y 4 HOH A 5 524 30 HOH HOH . Y 4 HOH A 6 525 45 HOH HOH . Y 4 HOH A 7 526 63 HOH HOH . Z 4 HOH B 1 520 17 HOH HOH . Z 4 HOH B 2 521 21 HOH HOH . Z 4 HOH B 3 522 37 HOH HOH . Z 4 HOH B 4 523 38 HOH HOH . Z 4 HOH B 5 524 61 HOH HOH . AA 4 HOH C 1 520 16 HOH HOH . AA 4 HOH C 2 521 18 HOH HOH . AA 4 HOH C 3 522 32 HOH HOH . AA 4 HOH C 4 523 39 HOH HOH . AA 4 HOH C 5 524 43 HOH HOH . AA 4 HOH C 6 525 44 HOH HOH . AA 4 HOH C 7 526 46 HOH HOH . BA 4 HOH D 1 520 5 HOH HOH . BA 4 HOH D 2 521 7 HOH HOH . BA 4 HOH D 3 522 10 HOH HOH . BA 4 HOH D 4 523 12 HOH HOH . BA 4 HOH D 5 524 24 HOH HOH . BA 4 HOH D 6 525 29 HOH HOH . BA 4 HOH D 7 526 53 HOH HOH . BA 4 HOH D 8 527 57 HOH HOH . BA 4 HOH D 9 528 60 HOH HOH . BA 4 HOH D 10 529 64 HOH HOH . BA 4 HOH D 11 530 65 HOH HOH . BA 4 HOH D 12 531 72 HOH HOH . CA 4 HOH E 1 520 2 HOH HOH . CA 4 HOH E 2 521 3 HOH HOH . CA 4 HOH E 3 522 9 HOH HOH . CA 4 HOH E 4 523 19 HOH HOH . CA 4 HOH E 5 524 20 HOH HOH . CA 4 HOH E 6 525 36 HOH HOH . CA 4 HOH E 7 526 41 HOH HOH . CA 4 HOH E 8 527 51 HOH HOH . CA 4 HOH E 9 528 69 HOH HOH . CA 4 HOH E 10 529 73 HOH HOH . DA 4 HOH F 1 520 1 HOH HOH . DA 4 HOH F 2 521 6 HOH HOH . DA 4 HOH F 3 522 13 HOH HOH . DA 4 HOH F 4 523 14 HOH HOH . DA 4 HOH F 5 524 15 HOH HOH . DA 4 HOH F 6 525 22 HOH HOH . DA 4 HOH F 7 526 27 HOH HOH . DA 4 HOH F 8 527 31 HOH HOH . DA 4 HOH F 9 528 33 HOH HOH . DA 4 HOH F 10 529 35 HOH HOH . DA 4 HOH F 11 530 48 HOH HOH . DA 4 HOH F 12 531 49 HOH HOH . DA 4 HOH F 13 532 52 HOH HOH . DA 4 HOH F 14 533 54 HOH HOH . DA 4 HOH F 15 534 56 HOH HOH . DA 4 HOH F 16 535 58 HOH HOH . DA 4 HOH F 17 536 59 HOH HOH . DA 4 HOH F 18 537 62 HOH HOH . DA 4 HOH F 19 538 66 HOH HOH . DA 4 HOH F 20 539 67 HOH HOH . DA 4 HOH F 21 540 68 HOH HOH . DA 4 HOH F 22 541 70 HOH HOH . DA 4 HOH F 23 542 71 HOH HOH . DA 4 HOH F 24 543 74 HOH HOH . DA 4 HOH F 25 544 78 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 P _atom_site.label_entity_id 2 _atom_site.Cartn_x 74.441 _atom_site.Cartn_y 69.002 _atom_site.Cartn_z 6.749 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 18.84 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 804 _atom_site.auth_asym_id D _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #