data_6MJQ # _model_server_result.job_id DnhQIHCyjGA5Kh3x1MzbGg _model_server_result.datetime_utc '2024-11-16 09:59:32' _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 6mjq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":302}' # _entry.id 6MJQ # _exptl.entry_id 6MJQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 9 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.02 _cell.angle_gamma 90 _cell.entry_id 6MJQ _cell.length_a 78.967 _cell.length_b 191.858 _cell.length_c 150.957 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MJQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 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,B,C,D,I,J,N,O,P,Q,W,X,Y,Z 1 1 E,F,G,H,K,L,M,R,S,T,U,V,AA,BA,CA,DA 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 ? 9 O N N ? 9 U N N ? 9 V N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide 7 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 4 1 FUC NAG C1 O1 . O6 HO6 . sing 5 ? 7 2 1 NAG NAG C1 O1 . O4 HO4 . sing 6 ? 7 3 2 BMA NAG C1 O1 . O4 HO4 . sing 7 ? 7 4 3 MAN BMA C1 O1 . O3 HO3 . sing 8 ? 7 5 1 FUC NAG C1 O1 . O6 HO6 . 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 5 n I NAG 1 I 1 NAG E 501 NAG 5 n I NAG 2 I 2 NAG E 517 NAG 6 n J NAG 1 J 1 NAG E 511 NAG 6 n J NAG 2 J 2 NAG E 514 NAG 6 n J BMA 3 J 3 BMA E 516 BMA 6 n J FUC 4 J 4 FUC E 515 FUC 5 n K NAG 1 K 1 NAG A 500 NAG 5 n K NAG 2 K 2 NAG A 516 NAG 5 n L NAG 1 L 1 NAG A 501 NAG 5 n L NAG 2 L 2 NAG A 517 NAG 7 n M NAG 1 M 1 NAG A 511 NAG 7 n M NAG 2 M 2 NAG A 512 NAG 7 n M BMA 3 M 3 BMA A 514 BMA 7 n M MAN 4 M 4 MAN A 515 MAN 7 n M FUC 5 M 5 FUC A 513 FUC # 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 24 C CYS 23 1_555 A SG CYS 91 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 138 C CYS 137 1_555 A SG CYS 188 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 A SG CYS 163 C CYS 162 1_555 B SG CYS 169 D CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 B SG CYS 24 D CYS 23 1_555 B SG CYS 92 D CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 143 D CYS 142 1_555 B SG CYS 208 D CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 C SG CYS 104 A CYS 104 1_555 C SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf7 C SG CYS 208 A CYS 208 1_555 C SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf8 D SG CYS 25 B CYS 25 1_555 D SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 E SG CYS 104 E CYS 104 1_555 E SG CYS 168 E CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf10 E SG CYS 208 E CYS 208 1_555 E SG CYS 263 E CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 F SG CYS 24 G CYS 23 1_555 F SG CYS 91 G CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 F SG CYS 138 G CYS 137 1_555 F SG CYS 188 G CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf13 F SG CYS 163 G CYS 162 1_555 G SG CYS 169 H CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf14 G SG CYS 24 H CYS 23 1_555 G SG CYS 92 H CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 G SG CYS 143 H CYS 142 1_555 G SG CYS 208 H CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf16 H SG CYS 25 F CYS 25 1_555 H SG CYS 80 F CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 C ND2 ASN 20 A ASN 20 1_555 P C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 C ND2 ASN 42 A ASN 42 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 C ND2 ASN 165 A ASN 165 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 E ND2 ASN 20 E ASN 20 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale5 E ND2 ASN 42 E ASN 42 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 E ND2 ASN 165 E ASN 165 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale9 J O6 NAG . J NAG 1 1_555 J C1 FUC . J FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale13 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale14 M O6 NAG . M NAG 1 1_555 M C1 FUC . M FUC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale15 M O4 NAG . M NAG 2 1_555 M C1 BMA . M BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale16 M O3 BMA . M BMA 3 1_555 M C1 MAN . M MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? metalc ? metalc1 B O ARG 37 D ARG 36 1_555 O NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc2 B O GLY 43 D GLY 42 1_555 O NA NA . D NA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? metalc ? metalc3 G O ARG 37 H ARG 36 1_555 V NA NA . H NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? metalc ? metalc4 G O GLY 43 H GLY 42 1_555 V NA NA . H NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? # _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 6MJQ _atom_sites.fract_transf_matrix[1][1] 0.012664 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000005 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005212 _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] 0.006624 _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 N 8 GOL C 1 301 607 GOL GOL . O 9 NA D 1 301 1 NA NA . P 10 NAG A 1 301 500 NAG NAG . Q 11 JUD A 1 308 1 JUD 295 . R 8 GOL E 1 310 606 GOL GOL . S 11 JUD E 1 311 2 JUD 295 . T 8 GOL H 1 301 609 GOL GOL . U 9 NA H 1 302 3 NA NA . V 9 NA H 1 303 4 NA NA . W 12 HOH C 1 401 23 HOH HOH . W 12 HOH C 2 402 135 HOH HOH . W 12 HOH C 3 403 165 HOH HOH . W 12 HOH C 4 404 27 HOH HOH . W 12 HOH C 5 405 49 HOH HOH . W 12 HOH C 6 406 12 HOH HOH . W 12 HOH C 7 407 51 HOH HOH . W 12 HOH C 8 408 176 HOH HOH . W 12 HOH C 9 409 4 HOH HOH . W 12 HOH C 10 410 15 HOH HOH . W 12 HOH C 11 411 53 HOH HOH . W 12 HOH C 12 412 91 HOH HOH . W 12 HOH C 13 413 93 HOH HOH . W 12 HOH C 14 414 149 HOH HOH . X 12 HOH D 1 401 76 HOH HOH . X 12 HOH D 2 402 137 HOH HOH . X 12 HOH D 3 403 299 HOH HOH . X 12 HOH D 4 404 191 HOH HOH . X 12 HOH D 5 405 68 HOH HOH . X 12 HOH D 6 406 64 HOH HOH . X 12 HOH D 7 407 101 HOH HOH . X 12 HOH D 8 408 31 HOH HOH . X 12 HOH D 9 409 41 HOH HOH . X 12 HOH D 10 410 116 HOH HOH . X 12 HOH D 11 411 104 HOH HOH . X 12 HOH D 12 412 94 HOH HOH . Y 12 HOH A 1 401 118 HOH HOH . Y 12 HOH A 2 402 24 HOH HOH . Y 12 HOH A 3 403 29 HOH HOH . Y 12 HOH A 4 404 57 HOH HOH . Y 12 HOH A 5 405 62 HOH HOH . Y 12 HOH A 6 406 99 HOH HOH . Y 12 HOH A 7 407 44 HOH HOH . Y 12 HOH A 8 408 166 HOH HOH . Y 12 HOH A 9 409 48 HOH HOH . Y 12 HOH A 10 410 18 HOH HOH . Y 12 HOH A 11 411 194 HOH HOH . Y 12 HOH A 12 412 36 HOH HOH . Y 12 HOH A 13 413 9 HOH HOH . Y 12 HOH A 14 414 75 HOH HOH . Y 12 HOH A 15 415 6 HOH HOH . Z 12 HOH B 1 101 16 HOH HOH . Z 12 HOH B 2 102 140 HOH HOH . Z 12 HOH B 3 103 63 HOH HOH . Z 12 HOH B 4 104 34 HOH HOH . Z 12 HOH B 5 105 121 HOH HOH . Z 12 HOH B 6 106 45 HOH HOH . AA 12 HOH E 1 401 30 HOH HOH . AA 12 HOH E 2 402 21 HOH HOH . AA 12 HOH E 3 403 120 HOH HOH . AA 12 HOH E 4 404 43 HOH HOH . AA 12 HOH E 5 405 148 HOH HOH . AA 12 HOH E 6 406 87 HOH HOH . AA 12 HOH E 7 407 61 HOH HOH . AA 12 HOH E 8 408 33 HOH HOH . AA 12 HOH E 9 409 117 HOH HOH . AA 12 HOH E 10 410 40 HOH HOH . AA 12 HOH E 11 411 38 HOH HOH . AA 12 HOH E 12 412 132 HOH HOH . AA 12 HOH E 13 413 14 HOH HOH . AA 12 HOH E 14 414 72 HOH HOH . AA 12 HOH E 15 415 82 HOH HOH . BA 12 HOH G 1 301 129 HOH HOH . BA 12 HOH G 2 302 113 HOH HOH . BA 12 HOH G 3 303 8 HOH HOH . BA 12 HOH G 4 304 97 HOH HOH . BA 12 HOH G 5 305 46 HOH HOH . BA 12 HOH G 6 306 5 HOH HOH . BA 12 HOH G 7 307 112 HOH HOH . BA 12 HOH G 8 308 26 HOH HOH . BA 12 HOH G 9 309 56 HOH HOH . BA 12 HOH G 10 310 130 HOH HOH . CA 12 HOH H 1 401 32 HOH HOH . CA 12 HOH H 2 402 147 HOH HOH . CA 12 HOH H 3 403 35 HOH HOH . CA 12 HOH H 4 404 168 HOH HOH . CA 12 HOH H 5 405 74 HOH HOH . CA 12 HOH H 6 406 222 HOH HOH . CA 12 HOH H 7 407 167 HOH HOH . CA 12 HOH H 8 408 114 HOH HOH . CA 12 HOH H 9 409 142 HOH HOH . CA 12 HOH H 10 410 22 HOH HOH . CA 12 HOH H 11 411 115 HOH HOH . CA 12 HOH H 12 412 20 HOH HOH . CA 12 HOH H 13 413 141 HOH HOH . CA 12 HOH H 14 414 125 HOH HOH . CA 12 HOH H 15 415 127 HOH HOH . CA 12 HOH H 16 416 144 HOH HOH . CA 12 HOH H 17 417 301 HOH HOH . DA 12 HOH F 1 101 77 HOH HOH . DA 12 HOH F 2 102 155 HOH HOH . DA 12 HOH F 3 103 69 HOH HOH . DA 12 HOH F 4 104 80 HOH HOH . DA 12 HOH F 5 105 17 HOH HOH . DA 12 HOH F 6 106 177 HOH HOH . DA 12 HOH F 7 107 153 HOH HOH . DA 12 HOH F 8 108 105 HOH HOH . DA 12 HOH F 9 109 47 HOH HOH . DA 12 HOH F 10 110 139 HOH HOH . DA 12 HOH F 11 111 96 HOH HOH . DA 12 HOH F 12 112 71 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 U _atom_site.label_entity_id 9 _atom_site.Cartn_x -102.51 _atom_site.Cartn_y -34.258 _atom_site.Cartn_z 181.853 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 57.2 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 302 _atom_site.auth_asym_id H _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #