data_8SNP # _model_server_result.job_id HJb3PwAu7_M357LWsqErBA _model_server_result.datetime_utc '2024-11-04 19:43:09' _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 8snp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":705}' # _entry.id 8SNP # _exptl.entry_id 8SNP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 8SNP _cell.length_a 69.5 _cell.length_b 69.5 _cell.length_c 333.641 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SNP _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 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 ? dimeric 2 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,B,C,D,E,F,G,H,I 1 1 A,B,C,D,E,F,G,H,I 1 2 A,B,C,D,E,F,G,H,I 2 1 # 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' 5_555 x-y,-y,-z+1/3 1 0 0 0 -1 0 0 0 -1 0 0 111.213667 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 H N N ? 5 I N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . sing 3 ? 3 2 1 NAG NAG 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 B NAG 1 D 1 NAG D 1 NAG 2 n B NAG 2 D 2 NAG D 2 NAG 2 n B FUC 3 D 3 FUC D 3 FUC 3 n C NAG 1 C 1 NAG C 1 NAG 3 n C NAG 2 C 2 NAG C 2 NAG # 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 41 A CYS 41 1_555 A SG CYS 51 A CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 70 A CYS 70 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 A SG CYS 78 A CYS 78 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 119 A CYS 119 1_555 A SG CYS 152 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 181 A CYS 181 1_555 A SG CYS 203 A CYS 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 285 A CYS 285 1_555 A SG CYS 294 A CYS 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 A SG CYS 287 A CYS 287 1_555 A SG CYS 304 A CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 A SG CYS 306 A CYS 306 1_555 A SG CYS 315 A CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 A SG CYS 318 A CYS 318 1_555 A SG CYS 338 A CYS 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf10 A SG CYS 341 A CYS 341 1_555 A SG CYS 350 A CYS 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf11 A SG CYS 343 A CYS 343 1_555 A SG CYS 368 A CYS 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf12 A SG CYS 371 A CYS 371 1_555 A SG CYS 380 A CYS 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 A SG CYS 383 A CYS 383 1_555 A SG CYS 401 A CYS 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf14 A SG CYS 404 A CYS 404 1_555 A SG CYS 416 A CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf15 A SG CYS 406 A CYS 406 1_555 A SG CYS 423 A CYS 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf16 A SG CYS 425 A CYS 425 1_555 A SG CYS 434 A CYS 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf17 A SG CYS 437 A CYS 437 1_555 A SG CYS 451 A CYS 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 95 A ASN 95 1_555 H C1 NAG . A NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 131 A ASN 131 1_555 B C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 A ND2 ASN 417 A ASN 417 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 B O4 NAG . D NAG 1 1_555 B C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale5 B O6 NAG . D NAG 1 1_555 B C1 FUC . D FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? metalc ? metalc1 A OD2 ASP 43 A ASP 43 1_555 D SM SM . A SM 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.987 ? metalc ? metalc2 A OD1 ASP 54 A ASP 54 1_555 F SM SM . A SM 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.002 ? metalc ? metalc3 A O PHE 107 A PHE 107 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc4 A OD1 ASP 110 A ASP 110 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? metalc ? metalc5 A OD1 ASN 112 A ASN 112 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.036 ? metalc ? metalc6 A ND2 ASN 112 A ASN 112 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? metalc ? metalc7 A O THR 118 A THR 118 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc8 A O GLU 262 A GLU 262 1_555 E SM SM . A SM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc9 A OE1 GLU 262 A GLU 262 1_555 E SM SM . A SM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.112 ? metalc ? metalc10 A OE2 GLU 262 A GLU 262 1_555 E SM SM . A SM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.939 ? metalc ? metalc11 A OD2 ASP 263 A ASP 263 1_555 E SM SM . A SM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.248 ? metalc ? metalc12 A O SER 277 A SER 277 1_555 G SM SM . A SM 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc13 A OD2 ASP 405 A ASP 405 1_555 E SM SM . A SM 702 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 NAG sing 258 n n C1 O1 NAG sing 259 n n C1 O5 NAG sing 260 n n C1 H1 NAG sing 261 n n C2 C3 NAG sing 262 n n C2 N2 NAG sing 263 n n C2 H2 NAG sing 264 n n C3 C4 NAG sing 265 n n C3 O3 NAG sing 266 n n C3 H3 NAG sing 267 n n C4 C5 NAG sing 268 n n C4 O4 NAG sing 269 n n C4 H4 NAG sing 270 n n C5 C6 NAG sing 271 n n C5 O5 NAG sing 272 n n C5 H5 NAG sing 273 n n C6 O6 NAG sing 274 n n C6 H61 NAG sing 275 n n C6 H62 NAG sing 276 n n C7 C8 NAG sing 277 n n C7 N2 NAG sing 278 n n C7 O7 NAG doub 279 n n C8 H81 NAG sing 280 n n C8 H82 NAG sing 281 n n C8 H83 NAG sing 282 n n N2 HN2 NAG sing 283 n n O1 HO1 NAG sing 284 n n O3 HO3 NAG sing 285 n n O4 HO4 NAG sing 286 n n O6 HO6 NAG sing 287 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8SNP _atom_sites.fract_transf_matrix[1][1] 0.014388 _atom_sites.fract_transf_matrix[1][2] 0.008307 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016614 _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] 0.002997 _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 4 SM A 1 701 701 SM SM . E 4 SM A 1 702 702 SM SM . F 4 SM A 1 703 703 SM SM . G 4 SM A 1 704 704 SM SM . H 5 NAG A 1 705 1 NAG NAG . I 5 NAG A 1 706 2 NAG NAG . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 NAG . . . H 5 17.786 -37.794 -27.076 1 144.15 ? C1 NAG 705 A 1 HETATM 2 C C2 NAG . . . H 5 16.78 -38.131 -28.144 1 136.41 ? C2 NAG 705 A 1 HETATM 3 C C3 NAG . . . H 5 15.477 -38.587 -27.487 1 140.43 ? C3 NAG 705 A 1 HETATM 4 C C4 NAG . . . H 5 15.72 -39.692 -26.466 1 167.09 ? C4 NAG 705 A 1 HETATM 5 C C5 NAG . . . H 5 16.919 -39.426 -25.557 1 162.4 ? C5 NAG 705 A 1 HETATM 6 C C6 NAG . . . H 5 17.373 -40.685 -24.845 1 155.01 ? C6 NAG 705 A 1 HETATM 7 C C7 NAG . . . H 5 16.878 -37.006 -30.335 1 135.82 ? C7 NAG 705 A 1 HETATM 8 C C8 NAG . . . H 5 16.484 -35.786 -31.113 1 135.75 ? C8 NAG 705 A 1 HETATM 9 N N2 NAG . . . H 5 16.525 -37.014 -29.044 1 141.09 ? N2 NAG 705 A 1 HETATM 10 O O3 NAG . . . H 5 14.597 -39.064 -28.502 1 124.87 ? O3 NAG 705 A 1 HETATM 11 O O4 NAG . . . H 5 14.562 -39.808 -25.639 1 168.51 ? O4 NAG 705 A 1 HETATM 12 O O5 NAG . . . H 5 18.055 -38.958 -26.298 1 148.21 ? O5 NAG 705 A 1 HETATM 13 O O6 NAG . . . H 5 17.791 -41.68 -25.772 1 128.02 ? O6 NAG 705 A 1 HETATM 14 O O7 NAG . . . H 5 17.503 -37.93 -30.846 1 92.65 ? O7 NAG 705 A 1 HETATM 15 H H2 NAG . . . H 5 17.147 -38.86 -28.679 1 164.83 ? H2 NAG 705 A 1 HETATM 16 H H3 NAG . . . H 5 15.08 -37.825 -27.025 1 169.65 ? H3 NAG 705 A 1 HETATM 17 H H4 NAG . . . H 5 15.904 -40.513 -26.961 1 201.64 ? H4 NAG 705 A 1 HETATM 18 H H5 NAG . . . H 5 16.673 -38.73 -24.919 1 196.02 ? H5 NAG 705 A 1 HETATM 19 H H61 NAG . . . H 5 18.118 -40.466 -24.253 1 187.15 ? H61 NAG 705 A 1 HETATM 20 H H62 NAG . . . H 5 16.634 -41.035 -24.312 1 187.15 ? H62 NAG 705 A 1 HETATM 21 H H81 NAG . . . H 5 16.892 -35.819 -31.999 1 164.03 ? H81 NAG 705 A 1 HETATM 22 H H82 NAG . . . H 5 15.513 -35.757 -31.203 1 164.03 ? H82 NAG 705 A 1 HETATM 23 H H83 NAG . . . H 5 16.791 -34.987 -30.643 1 164.03 ? H83 NAG 705 A 1 HETATM 24 H HN2 NAG . . . H 5 16.101 -36.28 -28.709 1 170.45 ? HN2 NAG 705 A 1 HETATM 25 H HO3 NAG . . . H 5 13.794 -39.221 -28.153 1 150.99 ? HO3 NAG 705 A 1 HETATM 26 H HO4 NAG . . . H 5 14.678 -40.417 -24.998 1 203.35 ? HO4 NAG 705 A 1 HETATM 27 H HO6 NAG . . . H 5 17.919 -42.448 -25.334 1 154.76 ? HO6 NAG 705 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 27 #