data_1NCC # _model_server_result.job_id apofHRFGq7PbBcbsDdCdTg _model_server_result.datetime_utc '2024-11-25 17:03:58' _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 1ncc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":476}' # _entry.id 1NCC # _exptl.entry_id 1NCC _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 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 90 _cell.entry_id 1NCC _cell.length_a 167 _cell.length_b 167 _cell.length_c 124 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NCC _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 4 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _pdbx_struct_assembly.details author_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 1,2,3,4 # 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' 4_555 y+1/2,-x+1/2,z 0 1 0 -1 0 0 0 0 1 83.5 83.5 0 3 'crystal symmetry operation' 3_545 -y+1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 83.5 -83.5 0 4 'crystal symmetry operation' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 167 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 E N N ? 5 F N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 5 4 MAN MAN C1 O1 . O2 HO2 . sing 5 ? 4 6 5 MAN MAN C1 O1 . O2 HO2 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 4 n D NAG 1 A 1 NAG N 200 NAG 4 n D NAG 2 A 2 NAG N 200 NAG 4 n D BMA 3 A 3 BMA N 200 MAN 4 n D MAN 4 A 4 MAN N 200 MAN 4 n D MAN 5 A 5 MAN N 200 MAN 4 n D MAN 6 A 6 MAN N 200 MAN # 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 12 N CYS 92 1_555 A SG CYS 338 N CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 44 N CYS 124 1_555 A SG CYS 49 N CYS 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? disulf ? disulf3 A SG CYS 96 N CYS 175 1_555 A SG CYS 114 N CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 A SG CYS 104 N CYS 183 1_555 A SG CYS 151 N CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf5 A SG CYS 153 N CYS 232 1_555 A SG CYS 158 N CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? disulf ? disulf6 A SG CYS 199 N CYS 278 1_555 A SG CYS 212 N CYS 291 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf7 A SG CYS 201 N CYS 280 1_555 A SG CYS 210 N CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf8 A SG CYS 239 N CYS 318 1_555 A SG CYS 257 N CYS 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf9 A SG CYS 342 N CYS 421 1_555 A SG CYS 368 N CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? disulf ? disulf10 B SG CYS 23 L CYS 23 1_555 B SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? disulf ? disulf11 B SG CYS 134 L CYS 134 1_555 B SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf12 B SG CYS 214 L CYS 214 1_555 C SG CYS 135 H CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf13 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? disulf ? disulf14 C SG CYS 147 H CYS 142 1_555 C SG CYS 202 H CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? covale ? covale1 A ND2 ASN 6 N ASN 86 1_555 E C1 NAG . N NAG 475 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.562 ? covale ? covale2 A ND2 ASN 66 N ASN 146 1_555 F C1 NAG . N NAG 476 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 A ND2 ASN 121 N ASN 200 1_555 D C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 D O4 NAG . A NAG 2 1_555 D C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale6 D O3 BMA . A BMA 3 1_555 D C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale7 D O2 MAN . A MAN 4 1_555 D C1 MAN . A MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale8 D O2 MAN . A MAN 5 1_555 D C1 MAN . A MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? metalc ? metalc1 G CA CA . N CA 1 1_555 A O ASP 214 N ASP 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? metalc ? metalc2 G CA CA . N CA 1 1_555 A O GLY 218 N GLY 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? metalc ? metalc3 G CA CA . N CA 1 1_555 A OD2 ASP 245 N ASP 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.554 ? metalc ? metalc4 G CA CA . N CA 1 1_555 A OD1 ASP 245 N ASP 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.019 ? metalc ? metalc5 G CA CA . N CA 1 1_555 A O ASN 267 N ASN 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? # _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 283 n n C1 O1 NAG sing 284 n n C1 O5 NAG sing 285 n n C1 H1 NAG sing 286 n n C2 C3 NAG sing 287 n n C2 N2 NAG sing 288 n n C2 H2 NAG sing 289 n n C3 C4 NAG sing 290 n n C3 O3 NAG sing 291 n n C3 H3 NAG sing 292 n n C4 C5 NAG sing 293 n n C4 O4 NAG sing 294 n n C4 H4 NAG sing 295 n n C5 C6 NAG sing 296 n n C5 O5 NAG sing 297 n n C5 H5 NAG sing 298 n n C6 O6 NAG sing 299 n n C6 H61 NAG sing 300 n n C6 H62 NAG sing 301 n n C7 C8 NAG sing 302 n n C7 N2 NAG sing 303 n n C7 O7 NAG doub 304 n n C8 H81 NAG sing 305 n n C8 H82 NAG sing 306 n n C8 H83 NAG sing 307 n n N2 HN2 NAG sing 308 n n O1 HO1 NAG sing 309 n n O3 HO3 NAG sing 310 n n O4 HO4 NAG sing 311 n n O6 HO6 NAG sing 312 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 1NCC _atom_sites.fract_transf_matrix[1][1] 0.005988 _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] 0.005988 _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] 0.008065 _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 5 NAG N 1 475 86 NAG NAG A F 5 NAG N 1 476 146 NAG NAG A G 6 CA N 1 1 1 CA CA . # 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 . . A F 5 63.91 0.599 108.888 1 20.97 ? C1 NAG 476 N 1 HETATM 2 C C2 NAG . . A F 5 62.471 0.826 108.513 1 22.72 ? C2 NAG 476 N 1 HETATM 3 C C3 NAG . . A F 5 62.359 0.55 106.986 1 23.25 ? C3 NAG 476 N 1 HETATM 4 C C4 NAG . . A F 5 63.322 1.579 106.293 1 22.13 ? C4 NAG 476 N 1 HETATM 5 C C5 NAG . . A F 5 64.757 1.341 106.779 1 21.3 ? C5 NAG 476 N 1 HETATM 6 C C6 NAG . . A F 5 65.868 2.199 106.117 1 21.6 ? C6 NAG 476 N 1 HETATM 7 C C7 NAG . . A F 5 61.509 -1.286 109.414 1 25.42 ? C7 NAG 476 N 1 HETATM 8 C C8 NAG . . A F 5 60.46 -1.987 110.259 1 26.25 ? C8 NAG 476 N 1 HETATM 9 N N2 NAG . . A F 5 61.513 0.043 109.296 1 24.79 ? N2 NAG 476 N 1 HETATM 10 O O3 NAG . . A F 5 61.004 0.635 106.516 1 25.01 ? O3 NAG 476 N 1 HETATM 11 O O4 NAG . . A F 5 63.253 1.481 104.877 1 22.99 ? O4 NAG 476 N 1 HETATM 12 O O5 NAG . . A F 5 64.73 1.56 108.189 1 20.91 ? O5 NAG 476 N 1 HETATM 13 O O6 NAG . . A F 5 67.062 2.232 106.889 1 22.15 ? O6 NAG 476 N 1 HETATM 14 O O7 NAG . . A F 5 62.341 -1.98 108.829 1 27.29 ? O7 NAG 476 N 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #