data_5CZV # _model_server_result.job_id rTYw6mVvyTkHqeNdL7YrRg _model_server_result.datetime_utc '2024-11-22 12:00:10' _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 5czv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":5004}' # _entry.id 5CZV # _exptl.entry_id 5CZV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 113.17 _cell.angle_gamma 90 _cell.entry_id 5CZV _cell.length_a 91.917 _cell.length_b 104.349 _cell.length_c 92.849 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CZV _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 15 A CYS 1392 1_555 A SG CYS 28 A CYS 1405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 24 A CYS 1401 1_555 A SG CYS 40 A CYS 1417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 51 A CYS 1428 1_555 A SG CYS 74 A CYS 1451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf4 A SG CYS 56 A CYS 1433 1_555 A SG CYS 69 A CYS 1446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf5 A SG CYS 65 A CYS 1442 1_555 A SG CYS 81 A CYS 1458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf6 A SG CYS 90 A CYS 1467 1_555 A SG CYS 116 A CYS 1493 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf7 A SG CYS 98 A CYS 1475 1_555 A SG CYS 111 A CYS 1488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf8 A SG CYS 107 A CYS 1484 1_555 A SG CYS 123 A CYS 1500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf9 A SG CYS 214 A CYS 1591 1_555 A SG CYS 223 A CYS 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 B SG CYS 143 H CYS 143 1_555 B SG CYS 199 H CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 C SG CYS 23 L CYS 23 1_555 C SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf13 C SG CYS 134 L CYS 134 1_555 C SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 61 A ASN 1438 1_555 G C1 NAG . A NAG 5004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? metalc ? metalc1 A O LYS 18 A LYS 1395 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc2 A OD1 ASP 21 A ASP 1398 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc3 A O ARG 23 A ARG 1400 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc4 A OD2 ASP 25 A ASP 1402 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? metalc ? metalc5 A OD1 ASP 36 A ASP 1413 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc6 A OD2 ASP 36 A ASP 1413 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc7 A OD2 ASP 39 A ASP 1416 1_555 D CA CA . A CA 5001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc8 A O LEU 59 A LEU 1436 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc9 A OD1 ASN 62 A ASN 1439 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc10 A O ARG 64 A ARG 1441 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc11 A OD2 ASP 66 A ASP 1443 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc12 A OD1 ASP 77 A ASP 1454 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc13 A OD2 ASP 77 A ASP 1454 1_555 E CA CA . A CA 5002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc14 A O HIS 101 A HIS 1478 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc15 A OD1 ASP 104 A ASP 1481 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc16 A O ARG 106 A ARG 1483 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc17 A OD2 ASP 108 A ASP 1485 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc18 A OD1 ASP 119 A ASP 1496 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc19 A OD2 ASP 119 A ASP 1496 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.535 ? metalc ? metalc20 A OD2 ASP 122 A ASP 1499 1_555 F CA CA . A CA 5003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 5CZV _atom_sites.fract_transf_matrix[1][1] 0.010879 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004656 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009583 _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] 0.011715 _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 CA A 1 5001 5001 CA CA . E 4 CA A 1 5002 5002 CA CA . F 4 CA A 1 5003 5003 CA CA . G 5 NAG A 1 5004 5004 NAG NAG . H 6 HOH A 1 5101 9 HOH HOH . H 6 HOH A 2 5102 1 HOH HOH . I 6 HOH H 1 301 8 HOH HOH . I 6 HOH H 2 302 7 HOH HOH . J 6 HOH L 1 301 5 HOH HOH . J 6 HOH L 2 302 3 HOH HOH . J 6 HOH L 3 303 2 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 . . . G 5 -5.145 -30.039 -34.962 1 112.44 ? C1 NAG 5004 A 1 HETATM 2 C C2 NAG . . . G 5 -4.733 -31.508 -34.824 1 112.93 ? C2 NAG 5004 A 1 HETATM 3 C C3 NAG . . . G 5 -5.778 -32.256 -35.656 1 113.5 ? C3 NAG 5004 A 1 HETATM 4 C C4 NAG . . . G 5 -7.186 -31.993 -35.123 1 114.96 ? C4 NAG 5004 A 1 HETATM 5 C C5 NAG . . . G 5 -7.481 -30.492 -35.112 1 112.91 ? C5 NAG 5004 A 1 HETATM 6 C C6 NAG . . . G 5 -8.786 -30.133 -34.437 1 114.46 ? C6 NAG 5004 A 1 HETATM 7 C C7 NAG . . . G 5 -2.404 -32.328 -34.606 1 113.08 ? C7 NAG 5004 A 1 HETATM 8 C C8 NAG . . . G 5 -1.14 -32.625 -35.354 1 114.22 ? C8 NAG 5004 A 1 HETATM 9 N N2 NAG . . . G 5 -3.396 -31.774 -35.331 1 111.96 ? N2 NAG 5004 A 1 HETATM 10 O O3 NAG . . . G 5 -5.511 -33.653 -35.645 1 114.47 ? O3 NAG 5004 A 1 HETATM 11 O O4 NAG . . . G 5 -8.149 -32.687 -35.916 1 115.38 ? O4 NAG 5004 A 1 HETATM 12 O O5 NAG . . . G 5 -6.441 -29.805 -34.396 1 110.82 ? O5 NAG 5004 A 1 HETATM 13 O O6 NAG . . . G 5 -9.906 -30.796 -35.028 1 115.64 ? O6 NAG 5004 A 1 HETATM 14 O O7 NAG . . . G 5 -2.522 -32.572 -33.407 1 113.55 ? O7 NAG 5004 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #