data_3VQA # _model_server_result.job_id c_Yz9Ci6QzcUK5z8OtZRTw _model_server_result.datetime_utc '2024-11-08 07:12:09' _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 3vqa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":302}' # _entry.id 3VQA # _exptl.entry_id 3VQA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 112.411 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CADMIUM ION' _entity.pdbx_number_of_molecules 4 _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 3VQA _cell.length_a 59.873 _cell.length_b 61.023 _cell.length_c 81.917 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VQA _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 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,K _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 ? 3 D N N ? 3 E N N ? 3 G N N ? 3 H N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 FRU _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 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _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 2 n C GLC 1 C 1 GLC F 1 SUC 2 n C FRU 2 C 2 FRU F 1 SUC # 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 C C1 GLC . C GLC 1 1_555 C O2 FRU . C FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 sing metalc ? metalc1 A SG CYS 11 A CYS 65 1_555 D CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc2 A SG CYS 11 A CYS 65 1_555 E CD CD . A CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc3 A NE2 HIS 13 A HIS 67 1_555 D CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc4 A OE1 GLU 38 A GLU 92 1_555 D CD CD . A CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc5 A OD2 ASP 62 A ASP 116 1_555 E CD CD . A CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc6 E CD CD . A CD 302 1_555 J O HOH . A HOH 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc7 B SG CYS 11 B CYS 65 1_555 G CD CD . B CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc8 B SG CYS 11 B CYS 65 1_555 H CD CD . B CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.557 ? metalc ? metalc9 B NE2 HIS 13 B HIS 67 1_555 H CD CD . B CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc10 B OE2 GLU 38 B GLU 92 1_555 G CD CD . B CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc11 B OE1 GLU 38 B GLU 92 1_555 H CD CD . B CD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc12 B OD2 ASP 62 B ASP 116 1_555 G CD CD . B CD 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc13 G CD CD . B CD 301 1_555 K O HOH . B HOH 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc14 G CD CD . B CD 301 1_555 K O HOH . B HOH 441 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc15 H CD CD . B CD 302 1_555 K O HOH . B HOH 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc16 H CD CD . B CD 302 1_555 K O HOH . B HOH 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc17 H CD CD . B CD 302 1_555 K O HOH . B HOH 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? # _chem_comp.formula 'Cd 2' _chem_comp.formula_weight 112.411 _chem_comp.id CD _chem_comp.mon_nstd_flag . _chem_comp.name 'CADMIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 3VQA _atom_sites.fract_transf_matrix[1][1] 0.016702 _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] 0.016387 _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] 0.012207 _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 3 CD A 1 301 3 CD CD . E 3 CD A 1 302 4 CD CD . F 4 SO4 A 1 303 1 SO4 SO4 . G 3 CD B 1 301 1 CD CD . H 3 CD B 1 302 2 CD CD . I 5 MWP B 1 303 1 MWP MWP . J 6 HOH A 1 401 3 HOH HOH . J 6 HOH A 2 402 5 HOH HOH . J 6 HOH A 3 403 9 HOH HOH . J 6 HOH A 4 404 12 HOH HOH . J 6 HOH A 5 405 15 HOH HOH . J 6 HOH A 6 406 16 HOH HOH . J 6 HOH A 7 407 18 HOH HOH . J 6 HOH A 8 408 19 HOH HOH . J 6 HOH A 9 409 21 HOH HOH . J 6 HOH A 10 410 23 HOH HOH . J 6 HOH A 11 411 25 HOH HOH . J 6 HOH A 12 412 26 HOH HOH . J 6 HOH A 13 413 29 HOH HOH . J 6 HOH A 14 414 32 HOH HOH . J 6 HOH A 15 415 35 HOH HOH . J 6 HOH A 16 416 37 HOH HOH . J 6 HOH A 17 417 39 HOH HOH . J 6 HOH A 18 418 40 HOH HOH . J 6 HOH A 19 419 43 HOH HOH . J 6 HOH A 20 420 45 HOH HOH . J 6 HOH A 21 421 47 HOH HOH . J 6 HOH A 22 422 48 HOH HOH . J 6 HOH A 23 423 49 HOH HOH . J 6 HOH A 24 424 51 HOH HOH . J 6 HOH A 25 425 53 HOH HOH . J 6 HOH A 26 426 55 HOH HOH . J 6 HOH A 27 427 56 HOH HOH . J 6 HOH A 28 428 58 HOH HOH . J 6 HOH A 29 429 59 HOH HOH . J 6 HOH A 30 430 63 HOH HOH . J 6 HOH A 31 431 67 HOH HOH . J 6 HOH A 32 432 73 HOH HOH . K 6 HOH B 1 401 1 HOH HOH . K 6 HOH B 2 402 2 HOH HOH . K 6 HOH B 3 403 4 HOH HOH . K 6 HOH B 4 404 6 HOH HOH . K 6 HOH B 5 405 7 HOH HOH . K 6 HOH B 6 406 8 HOH HOH . K 6 HOH B 7 407 10 HOH HOH . K 6 HOH B 8 408 11 HOH HOH . K 6 HOH B 9 409 13 HOH HOH . K 6 HOH B 10 410 14 HOH HOH . K 6 HOH B 11 411 17 HOH HOH . K 6 HOH B 12 412 20 HOH HOH . K 6 HOH B 13 413 22 HOH HOH . K 6 HOH B 14 414 24 HOH HOH . K 6 HOH B 15 415 27 HOH HOH . K 6 HOH B 16 416 28 HOH HOH . K 6 HOH B 17 417 30 HOH HOH . K 6 HOH B 18 418 31 HOH HOH . K 6 HOH B 19 419 33 HOH HOH . K 6 HOH B 20 420 34 HOH HOH . K 6 HOH B 21 421 36 HOH HOH . K 6 HOH B 22 422 38 HOH HOH . K 6 HOH B 23 423 41 HOH HOH . K 6 HOH B 24 424 42 HOH HOH . K 6 HOH B 25 425 46 HOH HOH . K 6 HOH B 26 426 52 HOH HOH . K 6 HOH B 27 427 54 HOH HOH . K 6 HOH B 28 428 57 HOH HOH . K 6 HOH B 29 429 61 HOH HOH . K 6 HOH B 30 430 64 HOH HOH . K 6 HOH B 31 431 65 HOH HOH . K 6 HOH B 32 432 66 HOH HOH . K 6 HOH B 33 433 68 HOH HOH . K 6 HOH B 34 434 69 HOH HOH . K 6 HOH B 35 435 70 HOH HOH . K 6 HOH B 36 436 71 HOH HOH . K 6 HOH B 37 437 72 HOH HOH . K 6 HOH B 38 438 74 HOH HOH . K 6 HOH B 39 439 75 HOH HOH . K 6 HOH B 40 440 76 HOH HOH . K 6 HOH B 41 441 77 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CD _atom_site.label_atom_id CD _atom_site.label_comp_id CD _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 3 _atom_site.Cartn_x 33.149 _atom_site.Cartn_y 11.755 _atom_site.Cartn_z 9.705 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 29.78 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CD _atom_site.auth_comp_id CD _atom_site.auth_seq_id 302 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #