data_6EJJ # _model_server_result.job_id uBfPPWF0fqjfKzC4Z7Xu3w _model_server_result.datetime_utc '2024-11-23 23:27:22' _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 6ejj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":403}' # _entry.id 6EJJ # _exptl.entry_id 6EJJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 90.28 _cell.angle_gamma 90 _cell.entry_id 6EJJ _cell.length_a 60.51 _cell.length_b 125.78 _cell.length_c 71.01 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6EJJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,H,I,N 1 1 B,D,J,K,L,M,O 2 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 ? 4 F N N ? 4 G N N ? 4 K N N ? 4 L N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type 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 A2G NDG C1 O1 . O3 HO3 . sing 2 ? 2 3 2 A2G A2G 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 C NDG 1 C 1 NDG C 1 LLO 2 n C A2G 2 C 2 A2G C 1 LLO 2 n C A2G 3 C 3 A2G C 1 LLO 2 n D NDG 1 D 1 NDG C 2 LLO 2 n D A2G 2 D 2 A2G C 2 LLO 2 n D A2G 3 D 3 A2G C 2 LLO # 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 I O34 BUE . A BUE 408 1_555 C C1 NDG . C NDG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale2 M O36 BUE . B BUE 407 1_555 D C1 NDG . D NDG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale3 C O3 NDG . C NDG 1 1_555 C C1 A2G . C A2G 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? covale ? covale4 C O4 A2G . C A2G 2 1_555 C C1 A2G . C A2G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale5 D O3 NDG . D NDG 1 1_555 D C1 A2G . D A2G 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? covale ? covale6 D O4 A2G . D A2G 2 1_555 D C1 A2G . D A2G 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? metalc ? metalc1 A OE2 GLU 267 A GLU 267 1_555 G NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.693 ? metalc ? metalc2 F NA NA . A NA 402 1_555 I O36 BUE . A BUE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? metalc ? metalc3 F NA NA . A NA 402 1_555 I O37 BUE . A BUE 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc4 F NA NA . A NA 402 1_555 N O HOH . A HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc5 B O ILE 189 B ILE 189 1_555 K NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.07 ? metalc ? metalc6 J O2A UDP . B UDP 401 1_555 K NA NA . B NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? metalc ? metalc7 L NA NA . B NA 403 1_555 M O34 BUE . B BUE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc8 L NA NA . B NA 403 1_555 M O37 BUE . B BUE 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 6EJJ _atom_sites.fract_transf_matrix[1][1] 0.016526 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000082 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00795 _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] 0.014083 _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 E 3 UDP A 1 401 1 UDP LIG . F 4 NA A 1 402 3 NA NA . G 4 NA A 1 403 6 NA NA . H 5 CL A 1 404 1 CL CL . I 6 BUE A 1 408 1 BUE LLO . J 3 UDP B 1 401 2 UDP LIG . K 4 NA B 1 402 4 NA NA . L 4 NA B 1 403 5 NA NA . M 6 BUE B 1 407 2 BUE LLO . N 7 HOH A 1 501 18 HOH HOH . N 7 HOH A 2 502 54 HOH HOH . N 7 HOH A 3 503 72 HOH HOH . N 7 HOH A 4 504 67 HOH HOH . N 7 HOH A 5 505 4 HOH HOH . N 7 HOH A 6 506 21 HOH HOH . N 7 HOH A 7 507 16 HOH HOH . N 7 HOH A 8 508 66 HOH HOH . N 7 HOH A 9 509 70 HOH HOH . N 7 HOH A 10 510 69 HOH HOH . N 7 HOH A 11 511 40 HOH HOH . N 7 HOH A 12 512 57 HOH HOH . N 7 HOH A 13 513 73 HOH HOH . N 7 HOH A 14 514 48 HOH HOH . N 7 HOH A 15 515 56 HOH HOH . N 7 HOH A 16 516 63 HOH HOH . N 7 HOH A 17 517 51 HOH HOH . N 7 HOH A 18 518 19 HOH HOH . N 7 HOH A 19 519 68 HOH HOH . N 7 HOH A 20 520 3 HOH HOH . N 7 HOH A 21 521 5 HOH HOH . N 7 HOH A 22 522 7 HOH HOH . N 7 HOH A 23 523 6 HOH HOH . N 7 HOH A 24 524 71 HOH HOH . N 7 HOH A 25 525 65 HOH HOH . O 7 HOH B 1 501 38 HOH HOH . O 7 HOH B 2 502 53 HOH HOH . O 7 HOH B 3 503 37 HOH HOH . O 7 HOH B 4 504 62 HOH HOH . O 7 HOH B 5 505 29 HOH HOH . O 7 HOH B 6 506 35 HOH HOH . O 7 HOH B 7 507 2 HOH HOH . O 7 HOH B 8 508 30 HOH HOH . O 7 HOH B 9 509 23 HOH HOH . O 7 HOH B 10 510 20 HOH HOH . O 7 HOH B 11 511 17 HOH HOH . O 7 HOH B 12 512 12 HOH HOH . O 7 HOH B 13 513 75 HOH HOH . O 7 HOH B 14 514 52 HOH HOH . O 7 HOH B 15 515 1 HOH HOH . O 7 HOH B 16 516 13 HOH HOH . O 7 HOH B 17 517 43 HOH HOH . O 7 HOH B 18 518 22 HOH HOH . O 7 HOH B 19 519 42 HOH HOH . O 7 HOH B 20 520 74 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id L _atom_site.label_entity_id 4 _atom_site.Cartn_x 78.777 _atom_site.Cartn_y 26.92 _atom_site.Cartn_z 5.639 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 71.54 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 403 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 1 #