data_5JCD # _model_server_result.job_id fTfb8tNKchuqv6cc1j2O6A _model_server_result.datetime_utc '2024-10-20 00:25:18' _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 5jcd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 5JCD # _exptl.entry_id 5JCD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 99.02 _cell.angle_gamma 90 _cell.entry_id 5JCD _cell.length_a 47.772 _cell.length_b 77.274 _cell.length_c 111.391 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JCD _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 ? monomeric 1 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,H 1 1 B,F,G,I 2 1 C,J 3 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 ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G 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 5 A CYS 33 1_555 A SG CYS 72 A CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf2 A SG CYS 13 A CYS 41 1_555 A SG CYS 136 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf3 A SG CYS 70 A CYS 98 1_555 A SG CYS 134 A CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf4 B SG CYS 5 B CYS 33 1_555 B SG CYS 72 B CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf5 B SG CYS 13 B CYS 41 1_555 B SG CYS 136 B CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 B SG CYS 70 B CYS 98 1_555 B SG CYS 134 B CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 C SG CYS 5 C CYS 33 1_555 C SG CYS 72 C CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf8 C SG CYS 13 C CYS 41 1_555 C SG CYS 136 C CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf9 C SG CYS 70 C CYS 98 1_555 C SG CYS 134 C CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? covale ? covale1 A ND2 ASN 61 A ASN 89 1_555 E C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 156 A ASN 184 1_555 D C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale3 B ND2 ASN 35 B ASN 63 1_555 F C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale4 B ND2 ASN 156 B ASN 184 1_555 G C1 NAG . B NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.468 ? # _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 ? # 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 5JCD _atom_sites.fract_transf_matrix[1][1] 0.020933 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003323 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012941 _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] 0.00909 _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 2 NAG A 1 301 301 NAG NAG . E 2 NAG A 1 302 302 NAG NAG . F 2 NAG B 1 301 302 NAG NAG . G 2 NAG B 1 302 303 NAG NAG . H 3 HOH A 1 401 401 HOH HOH . H 3 HOH A 2 402 402 HOH HOH . H 3 HOH A 3 403 403 HOH HOH . H 3 HOH A 4 404 404 HOH HOH . H 3 HOH A 5 405 405 HOH HOH . H 3 HOH A 6 406 406 HOH HOH . H 3 HOH A 7 407 407 HOH HOH . H 3 HOH A 8 408 408 HOH HOH . H 3 HOH A 9 409 409 HOH HOH . H 3 HOH A 10 410 410 HOH HOH . H 3 HOH A 11 411 411 HOH HOH . H 3 HOH A 12 412 412 HOH HOH . H 3 HOH A 13 413 413 HOH HOH . H 3 HOH A 14 414 414 HOH HOH . H 3 HOH A 15 415 415 HOH HOH . H 3 HOH A 16 416 416 HOH HOH . H 3 HOH A 17 417 417 HOH HOH . H 3 HOH A 18 418 418 HOH HOH . H 3 HOH A 19 419 419 HOH HOH . H 3 HOH A 20 420 420 HOH HOH . H 3 HOH A 21 421 421 HOH HOH . H 3 HOH A 22 422 422 HOH HOH . H 3 HOH A 23 423 423 HOH HOH . H 3 HOH A 24 424 424 HOH HOH . H 3 HOH A 25 425 425 HOH HOH . H 3 HOH A 26 426 426 HOH HOH . H 3 HOH A 27 427 427 HOH HOH . H 3 HOH A 28 428 428 HOH HOH . H 3 HOH A 29 429 429 HOH HOH . H 3 HOH A 30 430 430 HOH HOH . H 3 HOH A 31 431 431 HOH HOH . H 3 HOH A 32 432 432 HOH HOH . H 3 HOH A 33 433 433 HOH HOH . H 3 HOH A 34 434 434 HOH HOH . H 3 HOH A 35 435 435 HOH HOH . H 3 HOH A 36 436 436 HOH HOH . H 3 HOH A 37 437 437 HOH HOH . I 3 HOH B 1 401 401 HOH HOH . I 3 HOH B 2 402 402 HOH HOH . I 3 HOH B 3 403 403 HOH HOH . I 3 HOH B 4 404 404 HOH HOH . I 3 HOH B 5 405 405 HOH HOH . I 3 HOH B 6 406 406 HOH HOH . I 3 HOH B 7 407 407 HOH HOH . I 3 HOH B 8 408 408 HOH HOH . I 3 HOH B 9 409 409 HOH HOH . I 3 HOH B 10 410 410 HOH HOH . I 3 HOH B 11 411 411 HOH HOH . I 3 HOH B 12 412 412 HOH HOH . I 3 HOH B 13 413 413 HOH HOH . I 3 HOH B 14 414 414 HOH HOH . I 3 HOH B 15 415 415 HOH HOH . I 3 HOH B 16 416 416 HOH HOH . I 3 HOH B 17 417 417 HOH HOH . I 3 HOH B 18 418 418 HOH HOH . I 3 HOH B 19 419 419 HOH HOH . I 3 HOH B 20 420 420 HOH HOH . I 3 HOH B 21 421 421 HOH HOH . I 3 HOH B 22 422 422 HOH HOH . I 3 HOH B 23 423 423 HOH HOH . I 3 HOH B 24 424 424 HOH HOH . I 3 HOH B 25 425 425 HOH HOH . I 3 HOH B 26 426 426 HOH HOH . I 3 HOH B 27 427 427 HOH HOH . I 3 HOH B 28 428 428 HOH HOH . I 3 HOH B 29 429 429 HOH HOH . I 3 HOH B 30 430 430 HOH HOH . I 3 HOH B 31 431 431 HOH HOH . I 3 HOH B 32 432 432 HOH HOH . I 3 HOH B 33 433 433 HOH HOH . I 3 HOH B 34 434 434 HOH HOH . I 3 HOH B 35 435 435 HOH HOH . I 3 HOH B 36 436 436 HOH HOH . I 3 HOH B 37 437 437 HOH HOH . I 3 HOH B 38 438 438 HOH HOH . J 3 HOH C 1 301 301 HOH HOH . J 3 HOH C 2 302 302 HOH HOH . J 3 HOH C 3 303 303 HOH HOH . J 3 HOH C 4 304 304 HOH HOH . J 3 HOH C 5 305 305 HOH HOH . J 3 HOH C 6 306 306 HOH HOH . J 3 HOH C 7 307 307 HOH HOH . J 3 HOH C 8 308 308 HOH HOH . J 3 HOH C 9 309 309 HOH HOH . # 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 . . . F 2 39.996 24.13 71.505 1 61.39 ? C1 NAG 301 B 1 HETATM 2 C C2 NAG . . . F 2 41.079 23.25 72.151 1 60.51 ? C2 NAG 301 B 1 HETATM 3 C C3 NAG . . . F 2 42.175 22.966 71.138 1 71.43 ? C3 NAG 301 B 1 HETATM 4 C C4 NAG . . . F 2 41.565 22.214 69.974 1 75.35 ? C4 NAG 301 B 1 HETATM 5 C C5 NAG . . . F 2 40.462 23.057 69.34 1 74.28 ? C5 NAG 301 B 1 HETATM 6 C C7 NAG . . . F 2 41.276 23.421 74.581 1 70.61 ? C7 NAG 301 B 1 HETATM 7 C C8 NAG . . . F 2 40.697 22.037 74.701 1 68.09 ? C8 NAG 301 B 1 HETATM 8 N N2 NAG . . . F 2 41.638 23.838 73.357 1 63.24 ? N2 NAG 301 B 1 HETATM 9 O O3 NAG . . . F 2 43.231 22.223 71.703 1 71.48 ? O3 NAG 301 B 1 HETATM 10 O O4 NAG . . . F 2 42.593 21.943 69.048 1 84.34 ? O4 NAG 301 B 1 HETATM 11 O O5 NAG . . . F 2 39.526 23.562 70.288 1 73.75 ? O5 NAG 301 B 1 HETATM 12 O O7 NAG . . . F 2 41.392 24.117 75.592 1 64.89 ? O7 NAG 301 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 12 #