data_7RBY # _model_server_result.job_id 1XS_TvzghZeLNy0PqmIixA _model_server_result.datetime_utc '2024-10-28 12:23:55' _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 7rby # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1001}' # _entry.id 7RBY # _exptl.entry_id 7RBY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 91.34 _cell.angle_gamma 90 _cell.entry_id 7RBY _cell.length_a 32.702 _cell.length_b 59.004 _cell.length_c 216.879 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RBY _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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_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 ? 3 E N N ? 3 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 8 A CYS 336 1_555 A SG CYS 33 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? disulf ? disulf2 A SG CYS 51 A CYS 379 1_555 A SG CYS 104 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf3 A SG CYS 63 A CYS 391 1_555 A SG CYS 197 A CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? disulf ? disulf4 A SG CYS 152 A CYS 480 1_555 A SG CYS 160 A CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 22 B CYS 22 1_555 B SG CYS 96 B CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? disulf ? disulf6 B SG CYS 50 B CYS 50 1_555 B SG CYS 112 B CYS 100 1_555 ? ? ? H ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf7 C SG CYS 8 C CYS 336 1_555 C SG CYS 33 C CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf8 C SG CYS 51 C CYS 379 1_555 C SG CYS 104 C CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf9 C SG CYS 63 C CYS 391 1_555 C SG CYS 197 C CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf10 C SG CYS 152 C CYS 480 1_555 C SG CYS 160 C CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf11 D SG CYS 22 D CYS 22 1_555 D SG CYS 96 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf12 D SG CYS 50 D CYS 50 1_555 D SG CYS 112 D CYS 100 1_555 ? ? ? H ? ? ? ? ? ? ? ? 1.988 ? covale ? covale1 A ND2 ASN 15 A ASN 343 1_555 E C1 NAG . A NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 C ND2 ASN 15 C ASN 343 1_555 F C1 NAG . C NAG 1001 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 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 7RBY _atom_sites.fract_transf_matrix[1][1] 0.030579 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000715 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016948 _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] 0.004612 _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 3 NAG A 1 1001 1001 NAG NAG . F 3 NAG C 1 1001 1001 NAG NAG . G 4 MG C 1 1002 1 MG MG . H 5 HOH A 1 1101 10 HOH HOH . I 5 HOH B 1 201 8 HOH HOH . J 5 HOH C 1 1101 4 HOH HOH . J 5 HOH C 2 1102 5 HOH HOH . J 5 HOH C 3 1103 2 HOH HOH . K 5 HOH D 1 201 6 HOH HOH . K 5 HOH D 2 202 9 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 . . . E 3 -12.378 -10.658 -113.063 1 50.87 ? C1 NAG 1001 A 1 HETATM 2 C C2 NAG . . . E 3 -12.897 -9.699 -114.17 1 62.64 ? C2 NAG 1001 A 1 HETATM 3 C C3 NAG . . . E 3 -14.411 -9.875 -114.396 1 65.05 ? C3 NAG 1001 A 1 HETATM 4 C C4 NAG . . . E 3 -14.782 -11.346 -114.56 1 60.29 ? C4 NAG 1001 A 1 HETATM 5 C C5 NAG . . . E 3 -14.249 -12.116 -113.361 1 55.02 ? C5 NAG 1001 A 1 HETATM 6 C C6 NAG . . . E 3 -14.633 -13.575 -113.339 1 48.52 ? C6 NAG 1001 A 1 HETATM 7 C C7 NAG . . . E 3 -12.148 -7.406 -114.682 1 50.32 ? C7 NAG 1001 A 1 HETATM 8 C C8 NAG . . . E 3 -11.938 -7.878 -116.093 1 63.3 ? C8 NAG 1001 A 1 HETATM 9 N N2 NAG . . . E 3 -12.6 -8.319 -113.816 1 51.97 ? N2 NAG 1001 A 1 HETATM 10 O O3 NAG . . . E 3 -14.805 -9.12 -115.539 1 47.42 ? O3 NAG 1001 A 1 HETATM 11 O O4 NAG . . . E 3 -16.193 -11.526 -114.64 1 48.79 ? O4 NAG 1001 A 1 HETATM 12 O O5 NAG . . . E 3 -12.818 -12.02 -113.338 1 41.56 ? O5 NAG 1001 A 1 HETATM 13 O O6 NAG . . . E 3 -15.609 -13.812 -112.332 1 51.98 ? O6 NAG 1001 A 1 HETATM 14 O O7 NAG . . . E 3 -11.91 -6.251 -114.338 1 49.61 ? O7 NAG 1001 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 224 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #