data_3GXE # _model_server_result.job_id wxx_srwbSqduN5PEIOkS9A _model_server_result.datetime_utc '2024-11-03 06:42:59' _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 3gxe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1}' # _entry.id 3GXE # _exptl.entry_id 3GXE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _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 120 _cell.entry_id 3GXE _cell.length_a 56.57 _cell.length_b 56.57 _cell.length_c 152.661 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GXE _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 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 ? dimeric 2 author_defined_assembly 1 ? dimeric 2 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,B,E,H,I 1 1 C,D,F,G,J,K 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 ? 4 E N N ? 4 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 3 B CYS 518 1_555 A SG CYS 30 B CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 28 B CYS 543 1_555 A SG CYS 40 B CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 A SG CYS 46 B CYS 561 1_555 A SG CYS 74 B CYS 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 A SG CYS 72 B CYS 587 1_555 A SG CYS 84 B CYS 599 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 C SG CYS 3 A CYS 518 1_555 C SG CYS 30 A CYS 545 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 C SG CYS 28 A CYS 543 1_555 C SG CYS 40 A CYS 555 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 C SG CYS 46 A CYS 561 1_555 C SG CYS 74 A CYS 589 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 C SG CYS 72 A CYS 587 1_555 C SG CYS 84 A CYS 599 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 E C1 NAG . B NAG 1 1_555 A ND2 ASN 27 B ASN 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 B C LEU 8 F LEU 261 1_555 B N HZP 9 F HZP 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 B C HZP 9 F HZP 262 1_555 B N GLY 10 F GLY 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale4 F C1 NAG . A NAG 1 1_555 C ND2 ASN 27 A ASN 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 D C LEU 8 E LEU 261 1_555 D N HYP 9 E HYP 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 D C HYP 9 E HYP 262 1_555 D N GLY 10 E GLY 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? # _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 286 n n C1 O1 NAG sing 287 n n C1 O5 NAG sing 288 n n C1 H1 NAG sing 289 n n C2 C3 NAG sing 290 n n C2 N2 NAG sing 291 n n C2 H2 NAG sing 292 n n C3 C4 NAG sing 293 n n C3 O3 NAG sing 294 n n C3 H3 NAG sing 295 n n C4 C5 NAG sing 296 n n C4 O4 NAG sing 297 n n C4 H4 NAG sing 298 n n C5 C6 NAG sing 299 n n C5 O5 NAG sing 300 n n C5 H5 NAG sing 301 n n C6 O6 NAG sing 302 n n C6 H61 NAG sing 303 n n C6 H62 NAG sing 304 n n C7 C8 NAG sing 305 n n C7 N2 NAG sing 306 n n C7 O7 NAG doub 307 n n C8 H81 NAG sing 308 n n C8 H82 NAG sing 309 n n C8 H83 NAG sing 310 n n N2 HN2 NAG sing 311 n n O1 HO1 NAG sing 312 n n O3 HO3 NAG sing 313 n n O4 HO4 NAG sing 314 n n O6 HO6 NAG sing 315 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 3GXE _atom_sites.fract_transf_matrix[1][1] 0.017677 _atom_sites.fract_transf_matrix[1][2] 0.010206 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020412 _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] 0.00655 _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 4 NAG B 1 1 1 NAG NAG . F 4 NAG A 1 1 1 NAG NAG . G 5 GOL A 1 609 1 GOL GOL . H 6 HOH B 1 2 2 HOH HOH . H 6 HOH B 2 3 3 HOH HOH . H 6 HOH B 3 4 4 HOH HOH . H 6 HOH B 4 5 5 HOH HOH . H 6 HOH B 5 6 6 HOH HOH . H 6 HOH B 6 8 8 HOH HOH . H 6 HOH B 7 16 16 HOH HOH . H 6 HOH B 8 17 17 HOH HOH . H 6 HOH B 9 25 25 HOH HOH . H 6 HOH B 10 30 30 HOH HOH . H 6 HOH B 11 31 31 HOH HOH . H 6 HOH B 12 41 41 HOH HOH . H 6 HOH B 13 42 42 HOH HOH . H 6 HOH B 14 54 54 HOH HOH . H 6 HOH B 15 55 55 HOH HOH . H 6 HOH B 16 61 61 HOH HOH . H 6 HOH B 17 609 1 HOH HOH . H 6 HOH B 18 610 1 HOH HOH . H 6 HOH B 19 611 3 HOH HOH . H 6 HOH B 20 612 5 HOH HOH . H 6 HOH B 21 613 6 HOH HOH . I 6 HOH F 1 2 2 HOH HOH . I 6 HOH F 2 23 23 HOH HOH . J 6 HOH A 1 2 2 HOH HOH . J 6 HOH A 2 3 3 HOH HOH . J 6 HOH A 3 4 4 HOH HOH . J 6 HOH A 4 7 7 HOH HOH . J 6 HOH A 5 8 8 HOH HOH . J 6 HOH A 6 10 10 HOH HOH . J 6 HOH A 7 14 14 HOH HOH . J 6 HOH A 8 18 18 HOH HOH . J 6 HOH A 9 21 21 HOH HOH . J 6 HOH A 10 22 22 HOH HOH . J 6 HOH A 11 33 33 HOH HOH . J 6 HOH A 12 35 35 HOH HOH . J 6 HOH A 13 38 38 HOH HOH . J 6 HOH A 14 49 49 HOH HOH . J 6 HOH A 15 60 60 HOH HOH . J 6 HOH A 16 610 7 HOH HOH . J 6 HOH A 17 611 10 HOH HOH . J 6 HOH A 18 612 1 HOH HOH . K 6 HOH E 1 11 11 HOH HOH . K 6 HOH E 2 26 26 HOH HOH . K 6 HOH E 3 47 47 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 4 48.507 -22.201 -26.321 1 39.66 ? C1 NAG 1 A 1 HETATM 2 C C2 NAG . . . F 4 47.638 -23.332 -25.766 1 38.89 ? C2 NAG 1 A 1 HETATM 3 C C3 NAG . . . F 4 47.442 -23.237 -24.261 1 42.46 ? C3 NAG 1 A 1 HETATM 4 C C4 NAG . . . F 4 48.775 -23.027 -23.568 1 53.84 ? C4 NAG 1 A 1 HETATM 5 C C5 NAG . . . F 4 49.47 -21.812 -24.159 1 58.45 ? C5 NAG 1 A 1 HETATM 6 C C6 NAG . . . F 4 50.814 -21.594 -23.473 1 56.48 ? C6 NAG 1 A 1 HETATM 7 C C7 NAG . . . F 4 45.906 -24.418 -27.059 1 40.85 ? C7 NAG 1 A 1 HETATM 8 C C8 NAG . . . F 4 44.437 -24.472 -27.362 1 32.57 ? C8 NAG 1 A 1 HETATM 9 N N2 NAG . . . F 4 46.34 -23.342 -26.415 1 29.64 ? N2 NAG 1 A 1 HETATM 10 O O3 NAG . . . F 4 46.852 -24.428 -23.794 1 49.26 ? O3 NAG 1 A 1 HETATM 11 O O4 NAG . . . F 4 48.57 -22.826 -22.188 1 69.8 ? O4 NAG 1 A 1 HETATM 12 O O5 NAG . . . F 4 49.669 -21.978 -25.55 1 42.15 ? O5 NAG 1 A 1 HETATM 13 O O6 NAG . . . F 4 51.486 -20.507 -24.069 1 54.44 ? O6 NAG 1 A 1 HETATM 14 O O7 NAG . . . F 4 46.655 -25.333 -27.394 1 38.69 ? O7 NAG 1 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #