data_4F12 # _model_server_result.job_id R74dXmZGkUaWfyFRPegLUw _model_server_result.datetime_utc '2025-02-05 14:56:35' _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 4f12 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":802}' # _entry.id 4F12 # _exptl.entry_id 4F12 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 4F12 _cell.length_a 82.684 _cell.length_b 142.515 _cell.length_c 79.264 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F12 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N # _pdbx_entity_branch.entity_id 2 _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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 1 FUC NAG C1 O1 . O6 HO6 . 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 2 n B NAG 1 B 1 NAG B 804 NAG 2 n B NAG 2 B 2 NAG B 803 NAG 2 n B FUC 3 B 3 FUC B 805 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 67 A CYS 108 1_555 A SG CYS 94 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 196 A CYS 237 1_555 A SG CYS 225 A CYS 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 224 A CYS 265 1_555 A SG CYS 261 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 49 A ASN 90 1_555 C C1 NAG . A NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 A ND2 ASN 348 A ASN 389 1_555 D C1 NAG . A NAG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale3 A ND2 ASN 363 A ASN 404 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale4 A ND2 ASN 412 A ASN 453 1_555 E C1 NAG . A NAG 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale5 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale6 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? # _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 4F12 _atom_sites.fract_transf_matrix[1][1] 0.012094 _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] 0.007017 _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] 0.012616 _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 C 3 NAG A 1 801 801 NAG NAG . D 3 NAG A 1 802 802 NAG NAG . E 3 NAG A 1 806 806 NAG NAG . F 4 HOH A 1 901 1 HOH HOH . F 4 HOH A 2 902 2 HOH HOH . F 4 HOH A 3 903 3 HOH HOH . F 4 HOH A 4 904 4 HOH HOH . F 4 HOH A 5 905 5 HOH HOH . F 4 HOH A 6 906 6 HOH HOH . F 4 HOH A 7 907 7 HOH HOH . F 4 HOH A 8 908 8 HOH HOH . F 4 HOH A 9 909 9 HOH HOH . F 4 HOH A 10 910 10 HOH HOH . F 4 HOH A 11 911 11 HOH HOH . F 4 HOH A 12 912 12 HOH HOH . F 4 HOH A 13 913 13 HOH HOH . F 4 HOH A 14 914 14 HOH HOH . F 4 HOH A 15 915 15 HOH HOH . F 4 HOH A 16 916 16 HOH HOH . F 4 HOH A 17 917 17 HOH HOH . F 4 HOH A 18 918 18 HOH HOH . F 4 HOH A 19 919 19 HOH HOH . F 4 HOH A 20 920 20 HOH HOH . F 4 HOH A 21 921 21 HOH HOH . F 4 HOH A 22 922 22 HOH HOH . F 4 HOH A 23 923 23 HOH HOH . F 4 HOH A 24 924 24 HOH HOH . F 4 HOH A 25 925 25 HOH HOH . F 4 HOH A 26 926 26 HOH HOH . F 4 HOH A 27 927 27 HOH HOH . F 4 HOH A 28 928 28 HOH HOH . F 4 HOH A 29 929 29 HOH HOH . F 4 HOH A 30 930 30 HOH HOH . F 4 HOH A 31 931 31 HOH HOH . F 4 HOH A 32 932 32 HOH HOH . F 4 HOH A 33 933 33 HOH HOH . F 4 HOH A 34 934 34 HOH HOH . F 4 HOH A 35 935 35 HOH HOH . F 4 HOH A 36 936 36 HOH HOH . F 4 HOH A 37 937 37 HOH HOH . F 4 HOH A 38 938 38 HOH HOH . F 4 HOH A 39 939 39 HOH HOH . F 4 HOH A 40 940 40 HOH HOH . F 4 HOH A 41 941 41 HOH HOH . F 4 HOH A 42 942 42 HOH HOH . F 4 HOH A 43 943 43 HOH HOH . F 4 HOH A 44 944 44 HOH HOH . F 4 HOH A 45 945 45 HOH HOH . F 4 HOH A 46 946 46 HOH HOH . F 4 HOH A 47 947 47 HOH HOH . F 4 HOH A 48 948 48 HOH HOH . F 4 HOH A 49 949 49 HOH HOH . F 4 HOH A 50 950 50 HOH HOH . F 4 HOH A 51 951 51 HOH HOH . F 4 HOH A 52 952 52 HOH HOH . F 4 HOH A 53 953 53 HOH HOH . F 4 HOH A 54 954 54 HOH HOH . F 4 HOH A 55 955 55 HOH HOH . F 4 HOH A 56 956 56 HOH HOH . F 4 HOH A 57 957 57 HOH HOH . F 4 HOH A 58 958 58 HOH HOH . F 4 HOH A 59 959 59 HOH HOH . F 4 HOH A 60 960 60 HOH HOH . F 4 HOH A 61 961 61 HOH HOH . F 4 HOH A 62 962 62 HOH HOH . F 4 HOH A 63 963 63 HOH HOH . F 4 HOH A 64 964 64 HOH HOH . F 4 HOH A 65 965 65 HOH HOH . F 4 HOH A 66 966 66 HOH HOH . F 4 HOH A 67 967 67 HOH HOH . F 4 HOH A 68 968 68 HOH HOH . F 4 HOH A 69 969 69 HOH HOH . F 4 HOH A 70 970 70 HOH HOH . F 4 HOH A 71 971 71 HOH HOH . F 4 HOH A 72 972 72 HOH HOH . F 4 HOH A 73 973 73 HOH HOH . F 4 HOH A 74 974 74 HOH HOH . F 4 HOH A 75 975 75 HOH HOH . F 4 HOH A 76 976 76 HOH HOH . F 4 HOH A 77 977 77 HOH HOH . F 4 HOH A 78 978 78 HOH HOH . F 4 HOH A 79 979 79 HOH HOH . F 4 HOH A 80 980 80 HOH HOH . F 4 HOH A 81 981 81 HOH HOH . F 4 HOH A 82 982 82 HOH HOH . F 4 HOH A 83 983 83 HOH HOH . F 4 HOH A 84 984 84 HOH HOH . F 4 HOH A 85 985 85 HOH HOH . F 4 HOH A 86 986 86 HOH HOH . F 4 HOH A 87 987 87 HOH HOH . F 4 HOH A 88 988 88 HOH HOH . F 4 HOH A 89 989 89 HOH HOH . F 4 HOH A 90 990 90 HOH HOH . F 4 HOH A 91 991 91 HOH HOH . F 4 HOH A 92 992 92 HOH HOH . F 4 HOH A 93 993 93 HOH HOH . F 4 HOH A 94 994 94 HOH HOH . F 4 HOH A 95 995 95 HOH HOH . F 4 HOH A 96 996 96 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 . . . D 3 25.729 0.627 -8.965 1 74 ? C1 NAG 802 A 1 HETATM 2 C C2 NAG . . . D 3 27.1 0.244 -8.287 1 75.54 ? C2 NAG 802 A 1 HETATM 3 C C3 NAG . . . D 3 28.099 -0.372 -9.288 1 76.96 ? C3 NAG 802 A 1 HETATM 4 C C4 NAG . . . D 3 27.44 -1.54 -10.076 1 77.52 ? C4 NAG 802 A 1 HETATM 5 C C5 NAG . . . D 3 26.052 -1.071 -10.639 1 76.85 ? C5 NAG 802 A 1 HETATM 6 C C6 NAG . . . D 3 25.353 -2.148 -11.497 1 78.16 ? C6 NAG 802 A 1 HETATM 7 C C7 NAG . . . D 3 27.833 1.247 -6.089 1 78 ? C7 NAG 802 A 1 HETATM 8 C C8 NAG . . . D 3 28.43 2.481 -5.447 1 78.73 ? C8 NAG 802 A 1 HETATM 9 N N2 NAG . . . D 3 27.682 1.333 -7.464 1 76.46 ? N2 NAG 802 A 1 HETATM 10 O O3 NAG . . . D 3 29.268 -0.818 -8.551 1 79.13 ? O3 NAG 802 A 1 HETATM 11 O O4 NAG . . . D 3 28.331 -1.984 -11.133 1 79.54 ? O4 NAG 802 A 1 HETATM 12 O O5 NAG . . . D 3 25.144 -0.542 -9.605 1 75.33 ? O5 NAG 802 A 1 HETATM 13 O O6 NAG . . . D 3 25.557 -3.487 -11.006 1 80.17 ? O6 NAG 802 A 1 HETATM 14 O O7 NAG . . . D 3 27.513 0.252 -5.426 1 80.27 ? O7 NAG 802 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #