data_1AVD # _model_server_result.job_id txJR99EmpY41sYDnaLAuGg _model_server_result.datetime_utc '2024-11-15 10:58:00' _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 1avd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":600}' # _entry.id 1AVD # _exptl.entry_id 1AVD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _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 90 _cell.angle_gamma 90 _cell.entry_id 1AVD _cell.length_a 80.15 _cell.length_b 80.15 _cell.length_c 85.28 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AVD _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 80.15 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _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 4 A CYS 4 1_555 A SG CYS 83 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? disulf ? disulf2 B SG CYS 4 B CYS 4 1_555 B SG CYS 83 B CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? covale ? covale1 A ND2 ASN 17 A ASN 17 1_555 C C1 NAG . A NAG 600 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 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 270 n n C1 O1 NAG sing 271 n n C1 O5 NAG sing 272 n n C1 H1 NAG sing 273 n n C2 C3 NAG sing 274 n n C2 N2 NAG sing 275 n n C2 H2 NAG sing 276 n n C3 C4 NAG sing 277 n n C3 O3 NAG sing 278 n n C3 H3 NAG sing 279 n n C4 C5 NAG sing 280 n n C4 O4 NAG sing 281 n n C4 H4 NAG sing 282 n n C5 C6 NAG sing 283 n n C5 O5 NAG sing 284 n n C5 H5 NAG sing 285 n n C6 O6 NAG sing 286 n n C6 H61 NAG sing 287 n n C6 H62 NAG sing 288 n n C7 C8 NAG sing 289 n n C7 N2 NAG sing 290 n n C7 O7 NAG doub 291 n n C8 H81 NAG sing 292 n n C8 H82 NAG sing 293 n n C8 H83 NAG sing 294 n n N2 HN2 NAG sing 295 n n O1 HO1 NAG sing 296 n n O3 HO3 NAG sing 297 n n O4 HO4 NAG sing 298 n n O6 HO6 NAG sing 299 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 1AVD _atom_sites.fract_transf_matrix[1][1] 0.012477 _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] 0.012477 _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] 0.011726 _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 1 600 600 NAG NAG . D 3 BTN A 1 400 400 BTN BTN . E 3 BTN B 1 401 401 BTN BTN . F 4 HOH A 1 505 505 HOH HOH . F 4 HOH A 2 508 508 HOH HOH . F 4 HOH A 3 511 511 HOH HOH . F 4 HOH A 4 516 516 HOH HOH . F 4 HOH A 5 517 517 HOH HOH . F 4 HOH A 6 519 519 HOH HOH . F 4 HOH A 7 520 520 HOH HOH . F 4 HOH A 8 521 521 HOH HOH . F 4 HOH A 9 523 523 HOH HOH . F 4 HOH A 10 527 527 HOH HOH . F 4 HOH A 11 528 528 HOH HOH . F 4 HOH A 12 529 529 HOH HOH . F 4 HOH A 13 530 530 HOH HOH . F 4 HOH A 14 531 531 HOH HOH . F 4 HOH A 15 534 534 HOH HOH . F 4 HOH A 16 539 539 HOH HOH . F 4 HOH A 17 540 540 HOH HOH . F 4 HOH A 18 541 541 HOH HOH . F 4 HOH A 19 542 542 HOH HOH . G 4 HOH B 1 504 504 HOH HOH . G 4 HOH B 2 507 507 HOH HOH . G 4 HOH B 3 509 509 HOH HOH . G 4 HOH B 4 510 510 HOH HOH . G 4 HOH B 5 512 512 HOH HOH . G 4 HOH B 6 513 513 HOH HOH . G 4 HOH B 7 515 515 HOH HOH . G 4 HOH B 8 518 518 HOH HOH . G 4 HOH B 9 522 522 HOH HOH . G 4 HOH B 10 524 524 HOH HOH . G 4 HOH B 11 526 526 HOH HOH . G 4 HOH B 12 533 533 HOH HOH . G 4 HOH B 13 535 535 HOH HOH . G 4 HOH B 14 537 537 HOH HOH . G 4 HOH B 15 538 538 HOH HOH . G 4 HOH B 16 543 543 HOH HOH . G 4 HOH B 17 545 545 HOH HOH . G 4 HOH B 18 546 546 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 . . . C 2 36.097 24.731 18.551 1 74.64 ? C1 NAG 600 A 1 HETATM 2 C C2 NAG . . . C 2 36.841 24.28 17.298 1 90 ? C2 NAG 600 A 1 HETATM 3 C C3 NAG . . . C 2 38.191 24.996 17.307 1 69.64 ? C3 NAG 600 A 1 HETATM 4 C C4 NAG . . . C 2 37.93 26.507 17.335 1 90 ? C4 NAG 600 A 1 HETATM 5 C C5 NAG . . . C 2 37.118 26.889 18.595 1 89.74 ? C5 NAG 600 A 1 HETATM 6 C C6 NAG . . . C 2 36.636 28.326 18.719 1 90 ? C6 NAG 600 A 1 HETATM 7 C C7 NAG . . . C 2 35.948 22.08 16.874 1 90 ? C7 NAG 600 A 1 HETATM 8 C C8 NAG . . . C 2 34.96 22.767 15.881 1 31.98 ? C8 NAG 600 A 1 HETATM 9 N N2 NAG . . . C 2 36.989 22.845 17.232 1 90 ? N2 NAG 600 A 1 HETATM 10 O O3 NAG . . . C 2 38.879 24.744 16.078 0 27.99 ? O3 NAG 600 A 1 HETATM 11 O O4 NAG . . . C 2 39.175 27.211 17.276 1 67.6 ? O4 NAG 600 A 1 HETATM 12 O O5 NAG . . . C 2 35.883 26.133 18.477 1 90 ? O5 NAG 600 A 1 HETATM 13 O O6 NAG . . . C 2 35.31 28.501 19.242 1 60.41 ? O6 NAG 600 A 1 HETATM 14 O O7 NAG . . . C 2 35.767 20.938 17.325 0 27.99 ? O7 NAG 600 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #