data_6PY2 # _model_server_result.job_id jp4zGmJWqINlSx44bmIWgw _model_server_result.datetime_utc '2024-11-15 08:27:48' _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 6py2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":302}' # _entry.id 6PY2 # _exptl.entry_id 6PY2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 6PY2 _cell.length_a 75.28 _cell.length_b 275.14 _cell.length_c 141.55 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PY2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,K,L,M,N _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 F N N ? 6 G N N ? 6 I 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 132 A CYS 106 1_555 A SG CYS 188 A CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 B SG CYS 47 B CYS 15 1_555 B SG CYS 111 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 B SG CYS 149 B CYS 117 1_555 B SG CYS 205 B CYS 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 D SG CYS 23 D CYS 23 1_555 D SG CYS 90 D CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 D SG CYS 135 D CYS 135 1_555 D SG CYS 185 D CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf6 D SG CYS 160 D CYS 160 1_555 E SG CYS 172 E CYS 172 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 E SG CYS 22 E CYS 22 1_555 E SG CYS 91 E CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf8 E SG CYS 146 E CYS 146 1_555 E SG CYS 211 E CYS 211 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 103 A ASN 77 1_555 F C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale2 A ND2 ASN 143 A ASN 117 1_555 G C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 B ND2 ASN 51 B ASN 19 1_555 I C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? # _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 250 n n C1 O1 NAG sing 251 n n C1 O5 NAG sing 252 n n C1 H1 NAG sing 253 n n C2 C3 NAG sing 254 n n C2 N2 NAG sing 255 n n C2 H2 NAG sing 256 n n C3 C4 NAG sing 257 n n C3 O3 NAG sing 258 n n C3 H3 NAG sing 259 n n C4 C5 NAG sing 260 n n C4 O4 NAG sing 261 n n C4 H4 NAG sing 262 n n C5 C6 NAG sing 263 n n C5 O5 NAG sing 264 n n C5 H5 NAG sing 265 n n C6 O6 NAG sing 266 n n C6 H61 NAG sing 267 n n C6 H62 NAG sing 268 n n C7 C8 NAG sing 269 n n C7 N2 NAG sing 270 n n C7 O7 NAG doub 271 n n C8 H81 NAG sing 272 n n C8 H82 NAG sing 273 n n C8 H83 NAG sing 274 n n N2 HN2 NAG sing 275 n n O1 HO1 NAG sing 276 n n O3 HO3 NAG sing 277 n n O4 HO4 NAG sing 278 n n O6 HO6 NAG sing 279 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 6PY2 _atom_sites.fract_transf_matrix[1][1] 0.013284 _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] 0.003635 _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] 0.007065 _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 F 6 NAG A 1 301 1 NAG NAG . G 6 NAG A 1 302 2 NAG NAG . H 7 GOL A 1 303 2 GOL GOL . I 6 NAG B 1 301 3 NAG NAG . J 7 GOL E 1 301 1 GOL GOL . K 8 HOH A 1 401 5 HOH HOH . K 8 HOH A 2 402 1 HOH HOH . K 8 HOH A 3 403 3 HOH HOH . K 8 HOH A 4 404 17 HOH HOH . K 8 HOH A 5 405 11 HOH HOH . K 8 HOH A 6 406 12 HOH HOH . K 8 HOH A 7 407 7 HOH HOH . L 8 HOH B 1 401 21 HOH HOH . L 8 HOH B 2 402 13 HOH HOH . L 8 HOH B 3 403 16 HOH HOH . M 8 HOH D 1 301 6 HOH HOH . M 8 HOH D 2 302 2 HOH HOH . M 8 HOH D 3 303 14 HOH HOH . M 8 HOH D 4 304 10 HOH HOH . M 8 HOH D 5 305 9 HOH HOH . M 8 HOH D 6 306 8 HOH HOH . N 8 HOH E 1 401 20 HOH HOH . N 8 HOH E 2 402 4 HOH HOH . N 8 HOH E 3 403 19 HOH HOH . N 8 HOH E 4 404 15 HOH HOH . N 8 HOH E 5 405 18 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 6 56.089 8.719 16.113 1 84.54 ? C1 NAG 302 A 1 HETATM 2 C C2 NAG . . . G 6 56.493 9.205 17.51 1 82.33 ? C2 NAG 302 A 1 HETATM 3 C C3 NAG . . . G 6 57.658 10.19 17.417 1 90.58 ? C3 NAG 302 A 1 HETATM 4 C C4 NAG . . . G 6 58.811 9.579 16.633 1 94.83 ? C4 NAG 302 A 1 HETATM 5 C C5 NAG . . . G 6 58.319 9.121 15.265 1 96.57 ? C5 NAG 302 A 1 HETATM 6 C C6 NAG . . . G 6 59.385 8.419 14.456 1 94.55 ? C6 NAG 302 A 1 HETATM 7 C C7 NAG . . . G 6 55.116 9.636 19.497 1 64.64 ? C7 NAG 302 A 1 HETATM 8 C C8 NAG . . . G 6 53.91 10.343 20.037 1 69.17 ? C8 NAG 302 A 1 HETATM 9 N N2 NAG . . . G 6 55.365 9.814 18.196 1 73.66 ? N2 NAG 302 A 1 HETATM 10 O O3 NAG . . . G 6 58.089 10.541 18.727 1 89.78 ? O3 NAG 302 A 1 HETATM 11 O O4 NAG . . . G 6 59.854 10.533 16.465 1 98.21 ? O4 NAG 302 A 1 HETATM 12 O O5 NAG . . . G 6 57.241 8.188 15.431 1 92.98 ? O5 NAG 302 A 1 HETATM 13 O O6 NAG . . . G 6 58.969 7.119 14.058 1 92.94 ? O6 NAG 302 A 1 HETATM 14 O O7 NAG . . . G 6 55.83 8.933 20.206 1 51.93 ? O7 NAG 302 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 36 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 14 #