data_4PLN # _model_server_result.job_id 2uxja4pNZVPqyCxw8S8UVA _model_server_result.datetime_utc '2025-01-10 15:48:18' _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 4pln # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":503}' # _entry.id 4PLN # _exptl.entry_id 4PLN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.98 _cell.angle_gamma 90 _cell.entry_id 4PLN _cell.length_a 79.07 _cell.length_b 130.211 _cell.length_c 126.037 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PLN _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,L _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 E N N ? 3 F N N ? 3 G N N ? 3 I N N ? 3 J N N ? 3 K 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 18 A CYS 43 1_555 A SG CYS 28 A CYS 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf2 A SG CYS 47 A CYS 72 1_555 A SG CYS 71 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 55 A CYS 80 1_555 A SG CYS 68 A CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 A SG CYS 96 A CYS 121 1_555 A SG CYS 129 A CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 A SG CYS 158 A CYS 183 1_555 A SG CYS 180 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf6 A SG CYS 262 A CYS 287 1_555 A SG CYS 271 A CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 A SG CYS 264 A CYS 289 1_555 A SG CYS 281 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 A SG CYS 283 A CYS 308 1_555 A SG CYS 292 A CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf9 A SG CYS 295 A CYS 320 1_555 A SG CYS 315 A CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf10 A SG CYS 318 A CYS 343 1_555 A SG CYS 327 A CYS 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf11 A SG CYS 320 A CYS 345 1_555 A SG CYS 345 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf12 A SG CYS 348 A CYS 373 1_555 A SG CYS 357 A CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf13 A SG CYS 360 A CYS 385 1_555 A SG CYS 378 A CYS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf14 A SG CYS 381 A CYS 406 1_555 A SG CYS 393 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf15 A SG CYS 383 A CYS 408 1_555 A SG CYS 400 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf16 A SG CYS 402 A CYS 427 1_555 A SG CYS 411 A CYS 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf17 A SG CYS 414 A CYS 439 1_555 A SG CYS 428 A CYS 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf18 B SG CYS 18 B CYS 43 1_555 B SG CYS 28 B CYS 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? disulf ? disulf19 B SG CYS 47 B CYS 72 1_555 B SG CYS 71 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf20 B SG CYS 55 B CYS 80 1_555 B SG CYS 68 B CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf21 B SG CYS 96 B CYS 121 1_555 B SG CYS 129 B CYS 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf22 B SG CYS 158 B CYS 183 1_555 B SG CYS 180 B CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf23 B SG CYS 262 B CYS 287 1_555 B SG CYS 271 B CYS 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf24 B SG CYS 264 B CYS 289 1_555 B SG CYS 281 B CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? disulf ? disulf25 B SG CYS 283 B CYS 308 1_555 B SG CYS 292 B CYS 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? disulf ? disulf26 B SG CYS 295 B CYS 320 1_555 B SG CYS 315 B CYS 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf27 B SG CYS 318 B CYS 343 1_555 B SG CYS 327 B CYS 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf28 B SG CYS 320 B CYS 345 1_555 B SG CYS 345 B CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf29 B SG CYS 348 B CYS 373 1_555 B SG CYS 357 B CYS 382 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf30 B SG CYS 360 B CYS 385 1_555 B SG CYS 378 B CYS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf31 B SG CYS 381 B CYS 406 1_555 B SG CYS 393 B CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf32 B SG CYS 383 B CYS 408 1_555 B SG CYS 400 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf33 B SG CYS 402 B CYS 427 1_555 B SG CYS 411 B CYS 436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf34 B SG CYS 414 B CYS 439 1_555 B SG CYS 428 B CYS 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 72 A ASN 97 1_555 E C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale2 A ND2 ASN 93 A ASN 118 1_555 F C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale3 A ND2 ASN 108 A ASN 133 1_555 G C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 B ND2 ASN 72 B ASN 97 1_555 I C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale5 B ND2 ASN 93 B ASN 118 1_555 J C1 NAG . B NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale6 B ND2 ASN 108 B ASN 133 1_555 K C1 NAG . B NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A O PHE 84 A PHE 109 1_555 H CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? metalc ? metalc2 A OD1 ASP 87 A ASP 112 1_555 H CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc3 A O THR 95 A THR 120 1_555 H CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc4 A OG1 THR 95 A THR 120 1_555 H CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc5 A O SER 254 A SER 279 1_555 H CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc6 B O PHE 84 B PHE 109 1_555 L CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc7 B OD1 ASP 87 B ASP 112 1_555 L CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc8 B O THR 95 B THR 120 1_555 L CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc9 B OG1 THR 95 B THR 120 1_555 L CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc10 B O SER 254 B SER 279 1_555 L CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 4PLN _atom_sites.fract_transf_matrix[1][1] 0.012647 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002225 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00768 _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] 0.008056 _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 NAG A 1 501 971 NAG NAG . F 3 NAG A 1 502 1181 NAG NAG . G 3 NAG A 1 503 1331 NAG NAG . H 4 CA A 1 504 1 CA CA . I 3 NAG B 1 501 971 NAG NAG . J 3 NAG B 1 502 1181 NAG NAG . K 3 NAG B 1 503 1331 NAG NAG . L 4 CA B 1 504 1 CA CA . # 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 . . . K 3 19.026 -41.192 -8.641 1 31.18 ? C1 NAG 503 B 1 HETATM 2 C C2 NAG . . . K 3 18.711 -41.826 -7.295 1 28.98 ? C2 NAG 503 B 1 HETATM 3 C C3 NAG . . . K 3 19.961 -42.496 -6.726 1 34.15 ? C3 NAG 503 B 1 HETATM 4 C C4 NAG . . . K 3 20.604 -43.426 -7.745 1 55.54 ? C4 NAG 503 B 1 HETATM 5 C C5 NAG . . . K 3 20.792 -42.718 -9.084 1 45.98 ? C5 NAG 503 B 1 HETATM 6 C C6 NAG . . . K 3 21.271 -43.648 -10.174 1 43.14 ? C6 NAG 503 B 1 HETATM 7 C C7 NAG . . . K 3 16.905 -40.755 -6.025 1 31.98 ? C7 NAG 503 B 1 HETATM 8 C C8 NAG . . . K 3 16.557 -39.685 -5.039 1 40.33 ? C8 NAG 503 B 1 HETATM 9 N N2 NAG . . . K 3 18.196 -40.845 -6.364 1 33.13 ? N2 NAG 503 B 1 HETATM 10 O O3 NAG . . . K 3 19.591 -43.228 -5.561 1 36.1 ? O3 NAG 503 B 1 HETATM 11 O O4 NAG . . . K 3 21.878 -43.865 -7.279 1 44.82 ? O4 NAG 503 B 1 HETATM 12 O O5 NAG . . . K 3 19.541 -42.171 -9.525 1 39.55 ? O5 NAG 503 B 1 HETATM 13 O O6 NAG . . . K 3 20.618 -43.374 -11.405 1 52.36 ? O6 NAG 503 B 1 HETATM 14 O O7 NAG . . . K 3 16.061 -41.5 -6.504 1 35.16 ? O7 NAG 503 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 142 _model_server_stats.query_time_ms 394 _model_server_stats.encode_time_ms 45 _model_server_stats.element_count 14 #