data_4NE9 # _model_server_result.job_id -nsQGLTqLA22be1lHTPNnQ _model_server_result.datetime_utc '2024-11-30 11:49:14' _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 4ne9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":901}' # _entry.id 4NE9 # _exptl.entry_id 4NE9 _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 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 4NE9 _cell.length_a 126.398 _cell.length_b 131.392 _cell.length_c 134.634 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NE9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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 trimeric 3 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,E,F,I,L 1 1 B,C,D,G,H,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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 FUC _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 F NAG 1 E 1 NAG A 901 NAG 4 n F FUC 2 E 2 FUC A 906 FUC # 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 71 A CYS 223 1_555 A SG CYS 103 A CYS 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf2 A SG CYS 171 A CYS 323 1_555 A SG CYS 206 A CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? disulf ? disulf3 A SG CYS 223 A CYS 375 1_555 A SG CYS 226 A CYS 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf4 A SG CYS 305 A CYS 457 1_555 A SG CYS 375 A CYS 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 A SG CYS 325 A CYS 477 1_555 A SG CYS 374 A CYS 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 A SG CYS 334 A CYS 486 1_555 A SG CYS 357 A CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf7 A SG CYS 382 A CYS 534 1_555 A SG CYS 449 A CYS 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf8 A SG CYS 400 A CYS 552 1_555 A SG CYS 448 A CYS 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf9 A SG CYS 410 A CYS 562 1_555 A SG CYS 436 A CYS 588 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf10 A SG CYS 456 A CYS 608 1_555 A SG CYS 527 A CYS 679 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 A SG CYS 474 A CYS 626 1_555 A SG CYS 526 A CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf12 A SG CYS 483 A CYS 635 1_555 A SG CYS 502 A CYS 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf13 B SG CYS 71 B CYS 223 1_555 B SG CYS 103 B CYS 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf14 B SG CYS 171 B CYS 323 1_555 B SG CYS 206 B CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf15 B SG CYS 223 B CYS 375 1_555 B SG CYS 226 B CYS 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf16 B SG CYS 305 B CYS 457 1_555 B SG CYS 375 B CYS 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf17 B SG CYS 325 B CYS 477 1_555 B SG CYS 374 B CYS 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf18 B SG CYS 334 B CYS 486 1_555 B SG CYS 357 B CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf19 B SG CYS 382 B CYS 534 1_555 B SG CYS 449 B CYS 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf20 B SG CYS 400 B CYS 552 1_555 B SG CYS 448 B CYS 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf21 B SG CYS 410 B CYS 562 1_555 B SG CYS 436 B CYS 588 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf22 B SG CYS 456 B CYS 608 1_555 B SG CYS 527 B CYS 679 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf23 B SG CYS 474 B CYS 626 1_555 B SG CYS 526 B CYS 678 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf24 B SG CYS 483 B CYS 635 1_555 B SG CYS 502 B CYS 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf25 D SG CYS 5 D CYS 5 1_555 D SG CYS 16 D CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf26 D SG CYS 12 D CYS 12 1_555 D SG CYS 25 D CYS 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? covale ? covale1 A ND2 ASN 381 A ASN 533 1_555 F C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 B ND2 ASN 381 B ASN 533 1_555 G C1 NAG . B NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 F O6 NAG . E NAG 1 1_555 F C1 FUC . E FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.404 ? metalc ? metalc1 D O THR 2 D THR 2 1_555 H CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.774 ? metalc ? metalc2 D OE1 GLU 4 D GLU 4 1_555 H CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.85 ? metalc ? metalc3 D OD1 ASP 18 D ASP 18 1_555 H CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? metalc ? metalc4 D O LEU 19 D LEU 19 1_555 H CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc5 D O GLY 22 D GLY 22 1_555 H CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? # _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 260 n n C1 O1 NAG sing 261 n n C1 O5 NAG sing 262 n n C1 H1 NAG sing 263 n n C2 C3 NAG sing 264 n n C2 N2 NAG sing 265 n n C2 H2 NAG sing 266 n n C3 C4 NAG sing 267 n n C3 O3 NAG sing 268 n n C3 H3 NAG sing 269 n n C4 C5 NAG sing 270 n n C4 O4 NAG sing 271 n n C4 H4 NAG sing 272 n n C5 C6 NAG sing 273 n n C5 O5 NAG sing 274 n n C5 H5 NAG sing 275 n n C6 O6 NAG sing 276 n n C6 H61 NAG sing 277 n n C6 H62 NAG sing 278 n n C7 C8 NAG sing 279 n n C7 N2 NAG sing 280 n n C7 O7 NAG doub 281 n n C8 H81 NAG sing 282 n n C8 H82 NAG sing 283 n n C8 H83 NAG sing 284 n n N2 HN2 NAG sing 285 n n O1 HO1 NAG sing 286 n n O3 HO3 NAG sing 287 n n O4 HO4 NAG sing 288 n n O6 HO6 NAG sing 289 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 4NE9 _atom_sites.fract_transf_matrix[1][1] 0.007912 _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] 0.007611 _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] 0.007428 _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 G 5 NAG B 1 901 901 NAG NAG . H 6 CA D 1 101 1 CA CA . I 7 HOH A 1 1001 1 HOH HOH . I 7 HOH A 2 1002 3 HOH HOH . I 7 HOH A 3 1003 4 HOH HOH . I 7 HOH A 4 1004 7 HOH HOH . I 7 HOH A 5 1005 9 HOH HOH . I 7 HOH A 6 1006 12 HOH HOH . I 7 HOH A 7 1007 13 HOH HOH . I 7 HOH A 8 1008 15 HOH HOH . I 7 HOH A 9 1009 19 HOH HOH . J 7 HOH B 1 1001 8 HOH HOH . J 7 HOH B 2 1002 14 HOH HOH . J 7 HOH B 3 1003 16 HOH HOH . J 7 HOH B 4 1004 22 HOH HOH . J 7 HOH B 5 1005 24 HOH HOH . K 7 HOH C 1 201 10 HOH HOH . K 7 HOH C 2 202 20 HOH HOH . K 7 HOH C 3 203 21 HOH HOH . K 7 HOH C 4 204 23 HOH HOH . L 7 HOH P 1 201 5 HOH HOH . L 7 HOH P 2 202 11 HOH HOH . L 7 HOH P 3 203 17 HOH HOH . L 7 HOH P 4 204 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 5 63.147 -0.141 -45.498 1 129.83 ? C1 NAG 901 B 1 HETATM 2 C C2 NAG . . . G 5 61.616 -0.125 -45.529 1 132.3 ? C2 NAG 901 B 1 HETATM 3 C C3 NAG . . . G 5 61.076 -0.432 -46.928 1 136.56 ? C3 NAG 901 B 1 HETATM 4 C C4 NAG . . . G 5 61.721 0.483 -47.967 1 138.69 ? C4 NAG 901 B 1 HETATM 5 C C5 NAG . . . G 5 63.245 0.406 -47.872 1 137.1 ? C5 NAG 901 B 1 HETATM 6 C C6 NAG . . . G 5 63.962 1.369 -48.797 1 138.65 ? C6 NAG 901 B 1 HETATM 7 C C7 NAG . . . G 5 60.586 -0.716 -43.366 1 125.92 ? C7 NAG 901 B 1 HETATM 8 C C8 NAG . . . G 5 60.33 -1.838 -42.405 1 123.25 ? C8 NAG 901 B 1 HETATM 9 N N2 NAG . . . G 5 61.095 -1.073 -44.556 1 129.11 ? N2 NAG 901 B 1 HETATM 10 O O3 NAG . . . G 5 59.663 -0.251 -46.949 1 137.85 ? O3 NAG 901 B 1 HETATM 11 O O4 NAG . . . G 5 61.287 0.112 -49.273 1 141.09 ? O4 NAG 901 B 1 HETATM 12 O O5 NAG . . . G 5 63.674 0.709 -46.532 1 134.08 ? O5 NAG 901 B 1 HETATM 13 O O6 NAG . . . G 5 63.752 2.736 -48.45 1 138.31 ? O6 NAG 901 B 1 HETATM 14 O O7 NAG . . . G 5 60.355 0.454 -43.074 1 124.94 ? O7 NAG 901 B 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #