data_5V8V # _model_server_result.job_id aeiB3B2v6LBnX46pIhWa5A _model_server_result.datetime_utc '2024-11-17 01:43:01' _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 5v8v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 5V8V # _exptl.entry_id 5V8V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _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 90 _cell.entry_id 5V8V _cell.length_a 54.367 _cell.length_b 99.014 _cell.length_c 147.031 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V8V _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 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 ? 2 C N N ? 2 F 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 48 A CYS 117 1_555 A SG CYS 55 A CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 214 A CYS 283 1_555 A SG CYS 218 A CYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 256 A CYS 325 1_555 A SG CYS 293 A CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 B SG CYS 48 B CYS 117 1_555 B SG CYS 55 B CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 B SG CYS 214 B CYS 283 1_555 B SG CYS 218 B CYS 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 256 B CYS 325 1_555 B SG CYS 293 B CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? covale ? covale1 A ND2 ASN 72 A ASN 141 1_555 C C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale2 B ND2 ASN 72 B ASN 141 1_555 F C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 319 n n C1 O1 NAG sing 320 n n C1 O5 NAG sing 321 n n C1 H1 NAG sing 322 n n C2 C3 NAG sing 323 n n C2 N2 NAG sing 324 n n C2 H2 NAG sing 325 n n C3 C4 NAG sing 326 n n C3 O3 NAG sing 327 n n C3 H3 NAG sing 328 n n C4 C5 NAG sing 329 n n C4 O4 NAG sing 330 n n C4 H4 NAG sing 331 n n C5 C6 NAG sing 332 n n C5 O5 NAG sing 333 n n C5 H5 NAG sing 334 n n C6 O6 NAG sing 335 n n C6 H61 NAG sing 336 n n C6 H62 NAG sing 337 n n C7 C8 NAG sing 338 n n C7 N2 NAG sing 339 n n C7 O7 NAG doub 340 n n C8 H81 NAG sing 341 n n C8 H82 NAG sing 342 n n C8 H83 NAG sing 343 n n N2 HN2 NAG sing 344 n n O1 HO1 NAG sing 345 n n O3 HO3 NAG sing 346 n n O4 HO4 NAG sing 347 n n O6 HO6 NAG sing 348 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 5V8V _atom_sites.fract_transf_matrix[1][1] 0.018394 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0101 _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] 0.006801 _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 C 2 NAG A 1 501 1 NAG NAG . D 3 90D A 1 502 3 90D 811 . E 3 90D A 1 503 4 90D 811 . F 2 NAG B 1 501 2 NAG NAG . G 3 90D B 1 502 1 90D 811 . H 3 90D B 1 503 2 90D 811 . I 4 HOH A 1 601 44 HOH HOH . I 4 HOH A 2 602 82 HOH HOH . I 4 HOH A 3 603 81 HOH HOH . I 4 HOH A 4 604 56 HOH HOH . I 4 HOH A 5 605 16 HOH HOH . I 4 HOH A 6 606 41 HOH HOH . I 4 HOH A 7 607 72 HOH HOH . I 4 HOH A 8 608 12 HOH HOH . I 4 HOH A 9 609 37 HOH HOH . I 4 HOH A 10 610 38 HOH HOH . I 4 HOH A 11 611 61 HOH HOH . I 4 HOH A 12 612 73 HOH HOH . I 4 HOH A 13 613 10 HOH HOH . I 4 HOH A 14 614 23 HOH HOH . I 4 HOH A 15 615 13 HOH HOH . I 4 HOH A 16 616 14 HOH HOH . I 4 HOH A 17 617 30 HOH HOH . I 4 HOH A 18 618 26 HOH HOH . I 4 HOH A 19 619 45 HOH HOH . I 4 HOH A 20 620 80 HOH HOH . I 4 HOH A 21 621 77 HOH HOH . I 4 HOH A 22 622 70 HOH HOH . I 4 HOH A 23 623 11 HOH HOH . I 4 HOH A 24 624 51 HOH HOH . I 4 HOH A 25 625 47 HOH HOH . I 4 HOH A 26 626 27 HOH HOH . I 4 HOH A 27 627 21 HOH HOH . I 4 HOH A 28 628 8 HOH HOH . I 4 HOH A 29 629 19 HOH HOH . I 4 HOH A 30 630 65 HOH HOH . I 4 HOH A 31 631 2 HOH HOH . I 4 HOH A 32 632 57 HOH HOH . I 4 HOH A 33 633 40 HOH HOH . I 4 HOH A 34 634 52 HOH HOH . I 4 HOH A 35 635 85 HOH HOH . I 4 HOH A 36 636 64 HOH HOH . I 4 HOH A 37 637 63 HOH HOH . I 4 HOH A 38 638 32 HOH HOH . I 4 HOH A 39 639 86 HOH HOH . I 4 HOH A 40 640 3 HOH HOH . I 4 HOH A 41 641 22 HOH HOH . I 4 HOH A 42 642 66 HOH HOH . I 4 HOH A 43 643 60 HOH HOH . I 4 HOH A 44 644 62 HOH HOH . I 4 HOH A 45 645 74 HOH HOH . J 4 HOH B 1 601 18 HOH HOH . J 4 HOH B 2 602 83 HOH HOH . J 4 HOH B 3 603 68 HOH HOH . J 4 HOH B 4 604 67 HOH HOH . J 4 HOH B 5 605 6 HOH HOH . J 4 HOH B 6 606 29 HOH HOH . J 4 HOH B 7 607 54 HOH HOH . J 4 HOH B 8 608 78 HOH HOH . J 4 HOH B 9 609 15 HOH HOH . J 4 HOH B 10 610 31 HOH HOH . J 4 HOH B 11 611 53 HOH HOH . J 4 HOH B 12 612 71 HOH HOH . J 4 HOH B 13 613 84 HOH HOH . J 4 HOH B 14 614 5 HOH HOH . J 4 HOH B 15 615 75 HOH HOH . J 4 HOH B 16 616 69 HOH HOH . J 4 HOH B 17 617 79 HOH HOH . J 4 HOH B 18 618 59 HOH HOH . J 4 HOH B 19 619 50 HOH HOH . J 4 HOH B 20 620 36 HOH HOH . J 4 HOH B 21 621 49 HOH HOH . J 4 HOH B 22 622 48 HOH HOH . J 4 HOH B 23 623 35 HOH HOH . J 4 HOH B 24 624 43 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 10.162 32.116 52.121 1 74.52 ? C1 NAG 501 B 1 HETATM 2 C C2 NAG . . . F 2 10.271 32.522 53.581 1 79.19 ? C2 NAG 501 B 1 HETATM 3 C C3 NAG . . . F 2 11.302 31.653 54.276 1 88.13 ? C3 NAG 501 B 1 HETATM 4 C C4 NAG . . . F 2 10.78 30.229 54.399 1 93.77 ? C4 NAG 501 B 1 HETATM 5 C C5 NAG . . . F 2 10.114 29.755 53.101 1 89.31 ? C5 NAG 501 B 1 HETATM 6 C C6 NAG . . . F 2 8.615 29.564 53.213 1 84.76 ? C6 NAG 501 B 1 HETATM 7 C C7 NAG . . . F 2 9.741 34.918 53.554 1 79.21 ? C7 NAG 501 B 1 HETATM 8 C C8 NAG . . . F 2 10.282 36.308 53.706 1 77.91 ? C8 NAG 501 B 1 HETATM 9 N N2 NAG . . . F 2 10.626 33.926 53.7 1 79.32 ? N2 NAG 501 B 1 HETATM 10 O O3 NAG . . . F 2 11.579 32.182 55.567 1 89.52 ? O3 NAG 501 B 1 HETATM 11 O O4 NAG . . . F 2 11.856 29.354 54.72 1 95.6 ? O4 NAG 501 B 1 HETATM 12 O O5 NAG . . . F 2 10.359 30.637 51.985 1 86.32 ? O5 NAG 501 B 1 HETATM 13 O O6 NAG . . . F 2 8.274 28.201 53.432 1 78.41 ? O6 NAG 501 B 1 HETATM 14 O O7 NAG . . . F 2 8.556 34.702 53.314 1 74.05 ? O7 NAG 501 B 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #