data_5L2K # _model_server_result.job_id rUgUQUXlEnaAcKKZZW7xxg _model_server_result.datetime_utc '2024-11-01 11:32:02' _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 5l2k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":302}' # _entry.id 5L2K # _exptl.entry_id 5L2K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 2 _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 120 _cell.entry_id 5L2K _cell.length_a 174.998 _cell.length_b 174.998 _cell.length_c 170.869 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L2K _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 PISA hexadecameric 16 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X 1 1 A,B,D,E,F,G,H,I,J,K,L,M,N,O,P,S,T,U,V,W 2 1,3,6,8 C,Q,R,X 2 2,4,5,7 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_544 -x+y,-x-1,z-1/3 -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 87.499 -151.552714 -56.956333 3 'crystal symmetry operation' 4_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 87.499 -151.552714 0 4 'crystal symmetry operation' 6_554 x-y,x,z-1/3 0.5 -0.866025 0 0.866025 0.5 0 0 0 1 0 0 -56.956333 5 'crystal symmetry operation' 8_545 x-y,-y-1,-z 1 0 0 0 -1 0 0 0 -1 87.499 -151.552714 0 6 'crystal symmetry operation' 9_554 -x,-x+y,-z-1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -56.956333 7 'crystal symmetry operation' 11_555 -x+y,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 12_544 x,x-y-1,-z-1/3 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 87.499 -151.552714 -56.956333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 8 N N N ? 8 T 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 disulf ? disulf1 A SG CYS 101 A CYS 102 1_555 A SG CYS 165 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf2 A SG CYS 130 A CYS 131 1_555 A SG CYS 144 A CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf3 A SG CYS 205 A CYS 206 1_555 A SG CYS 260 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 25 B CYS 27 1_555 B SG CYS 80 B CYS 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 C SG CYS 22 D CYS 23 1_555 C SG CYS 88 D CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 C SG CYS 133 D CYS 150 1_555 C SG CYS 183 D CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 C SG CYS 158 D CYS 175 1_555 D SG CYS 170 E CYS 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf8 D SG CYS 23 E CYS 23 1_555 D SG CYS 91 E CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 D SG CYS 144 E CYS 157 1_555 D SG CYS 209 E CYS 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 19 A ASN 20 1_555 F C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale2 A ND2 ASN 56 A ASN 57 1_555 E C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale3 A ND2 ASN 127 A ASN 128 1_555 G C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? # _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 5L2K _atom_sites.fract_transf_matrix[1][1] 0.005714 _atom_sites.fract_transf_matrix[1][2] 0.003299 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006598 _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] 0.005852 _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 5 NAG A 1 401 1011 NAG NAG . F 5 NAG A 1 402 1001 NAG NAG . G 5 NAG A 1 403 1002 NAG NAG . H 6 SO4 A 1 404 2 SO4 SO4 . I 6 SO4 A 1 405 4 SO4 SO4 . J 6 SO4 A 1 406 1 SO4 SO4 . K 7 CL A 1 407 1 CL CL . L 7 CL A 1 408 2 CL CL . M 7 CL A 1 409 4 CL CL . N 8 NA A 1 410 2 NA NA . O 9 6UL A 1 411 1 6UL 6UL . P 7 CL B 1 201 3 CL CL . Q 6 SO4 D 1 301 3 SO4 SO4 . R 10 CS D 1 302 1 CS CS . S 6 SO4 E 1 301 2 SO4 SO4 . T 8 NA E 1 302 1 NA NA . U 11 70E E 1 303 1 70E GMM . V 12 HOH A 1 501 7 HOH HOH . V 12 HOH A 2 502 1 HOH HOH . W 12 HOH B 1 301 11 HOH HOH . W 12 HOH B 2 302 12 HOH HOH . W 12 HOH B 3 303 13 HOH HOH . X 12 HOH D 1 401 9 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 T _atom_site.label_entity_id 8 _atom_site.Cartn_x -5.113 _atom_site.Cartn_y -88.58 _atom_site.Cartn_z 0.157 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 43.83 _atom_site.pdbx_formal_charge 1 _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 302 _atom_site.auth_asym_id E _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #