data_3WPH # _model_server_result.job_id csM2hdn4fWbSNb_qiAzy4Q _model_server_result.datetime_utc '2025-02-05 07:54:08' _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 3wph # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 3WPH # _exptl.entry_id 3WPH _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.54 _cell.angle_gamma 90 _cell.entry_id 3WPH _cell.length_a 136.41 _cell.length_b 130.1 _cell.length_c 71.33 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WPH _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 14 A CYS 35 1_555 A SG CYS 24 A CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 77 A CYS 98 1_555 A SG CYS 89 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf3 A SG CYS 157 A CYS 178 1_555 A SG CYS 163 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 A SG CYS 234 A CYS 255 1_555 A SG CYS 247 A CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 237 A CYS 258 1_555 A SG CYS 244 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 450 A CYS 471 1_555 A SG CYS 480 A CYS 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 A SG CYS 744 A CYS 765 1_555 A SG CYS 770 A CYS 791 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 A SG CYS 746 A CYS 767 1_555 A SG CYS 789 A CYS 810 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? covale ? covale1 A ND2 ASN 311 A ASN 332 1_555 D C1 NAG . A NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.502 ? covale ? covale2 A ND2 ASN 711 A ASN 732 1_555 C C1 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.539 ? hydrog WATSON-CRICK hydrog1 B N3 DC 1 B DC 1 1_555 B N1 DG 9 B DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N4 DC 1 B DC 1 1_555 B O6 DG 9 B DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O2 DC 1 B DC 1 1_555 B N2 DG 9 B DG 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N3 DC 2 B DC 2 1_555 B N1 DG 8 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N4 DC 2 B DC 2 1_555 B O6 DG 8 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O2 DC 2 B DC 2 1_555 B N2 DG 8 B DG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog7 B N3 DT 3 B DT 3 1_555 B O4 DT 7 B DT 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_16_PAIR hydrog8 B O2 DT 3 B DT 3 1_555 B N3 DT 7 B DT 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 386 n n C1 O1 NAG sing 387 n n C1 O5 NAG sing 388 n n C1 H1 NAG sing 389 n n C2 C3 NAG sing 390 n n C2 N2 NAG sing 391 n n C2 H2 NAG sing 392 n n C3 C4 NAG sing 393 n n C3 O3 NAG sing 394 n n C3 H3 NAG sing 395 n n C4 C5 NAG sing 396 n n C4 O4 NAG sing 397 n n C4 H4 NAG sing 398 n n C5 C6 NAG sing 399 n n C5 O5 NAG sing 400 n n C5 H5 NAG sing 401 n n C6 O6 NAG sing 402 n n C6 H61 NAG sing 403 n n C6 H62 NAG sing 404 n n C7 C8 NAG sing 405 n n C7 N2 NAG sing 406 n n C7 O7 NAG doub 407 n n C8 H81 NAG sing 408 n n C8 H82 NAG sing 409 n n C8 H83 NAG sing 410 n n N2 HN2 NAG sing 411 n n O1 HO1 NAG sing 412 n n O3 HO3 NAG sing 413 n n O4 HO4 NAG sing 414 n n O6 HO6 NAG sing 415 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 3WPH _atom_sites.fract_transf_matrix[1][1] 0.007331 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000197 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007686 _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] 0.014024 _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 1 901 1 NAG NAG . D 3 NAG A 1 902 2 NAG NAG . E 4 SO4 A 1 903 1 SO4 SO4 . F 4 SO4 A 1 904 3 SO4 SO4 . G 4 SO4 B 1 101 2 SO4 SO4 . H 5 HOH A 1 1001 1 HOH HOH . H 5 HOH A 2 1002 2 HOH HOH . H 5 HOH A 3 1003 3 HOH HOH . H 5 HOH A 4 1004 4 HOH HOH . H 5 HOH A 5 1005 5 HOH HOH . H 5 HOH A 6 1006 7 HOH HOH . H 5 HOH A 7 1007 9 HOH HOH . H 5 HOH A 8 1008 10 HOH HOH . H 5 HOH A 9 1009 11 HOH HOH . H 5 HOH A 10 1010 13 HOH HOH . H 5 HOH A 11 1011 14 HOH HOH . H 5 HOH A 12 1012 15 HOH HOH . H 5 HOH A 13 1013 16 HOH HOH . H 5 HOH A 14 1014 17 HOH HOH . H 5 HOH A 15 1015 18 HOH HOH . H 5 HOH A 16 1016 19 HOH HOH . H 5 HOH A 17 1017 20 HOH HOH . H 5 HOH A 18 1018 21 HOH HOH . H 5 HOH A 19 1019 22 HOH HOH . H 5 HOH A 20 1020 23 HOH HOH . H 5 HOH A 21 1021 24 HOH HOH . H 5 HOH A 22 1022 25 HOH HOH . H 5 HOH A 23 1023 26 HOH HOH . H 5 HOH A 24 1024 27 HOH HOH . H 5 HOH A 25 1025 28 HOH HOH . H 5 HOH A 26 1026 29 HOH HOH . H 5 HOH A 27 1027 30 HOH HOH . H 5 HOH A 28 1028 31 HOH HOH . H 5 HOH A 29 1029 32 HOH HOH . H 5 HOH A 30 1030 33 HOH HOH . H 5 HOH A 31 1031 34 HOH HOH . H 5 HOH A 32 1032 35 HOH HOH . H 5 HOH A 33 1033 36 HOH HOH . H 5 HOH A 34 1034 37 HOH HOH . H 5 HOH A 35 1035 38 HOH HOH . H 5 HOH A 36 1036 39 HOH HOH . H 5 HOH A 37 1037 40 HOH HOH . H 5 HOH A 38 1038 41 HOH HOH . H 5 HOH A 39 1039 42 HOH HOH . H 5 HOH A 40 1040 44 HOH HOH . H 5 HOH A 41 1041 45 HOH HOH . H 5 HOH A 42 1042 47 HOH HOH . H 5 HOH A 43 1043 48 HOH HOH . H 5 HOH A 44 1044 49 HOH HOH . H 5 HOH A 45 1045 51 HOH HOH . H 5 HOH A 46 1046 52 HOH HOH . H 5 HOH A 47 1047 53 HOH HOH . H 5 HOH A 48 1048 54 HOH HOH . H 5 HOH A 49 1049 55 HOH HOH . H 5 HOH A 50 1050 56 HOH HOH . H 5 HOH A 51 1051 57 HOH HOH . H 5 HOH A 52 1052 58 HOH HOH . H 5 HOH A 53 1053 59 HOH HOH . H 5 HOH A 54 1054 60 HOH HOH . H 5 HOH A 55 1055 61 HOH HOH . H 5 HOH A 56 1056 62 HOH HOH . H 5 HOH A 57 1057 63 HOH HOH . H 5 HOH A 58 1058 64 HOH HOH . H 5 HOH A 59 1059 65 HOH HOH . H 5 HOH A 60 1060 66 HOH HOH . H 5 HOH A 61 1061 67 HOH HOH . H 5 HOH A 62 1062 68 HOH HOH . H 5 HOH A 63 1063 71 HOH HOH . H 5 HOH A 64 1064 72 HOH HOH . H 5 HOH A 65 1065 73 HOH HOH . H 5 HOH A 66 1066 74 HOH HOH . H 5 HOH A 67 1067 75 HOH HOH . H 5 HOH A 68 1068 78 HOH HOH . H 5 HOH A 69 1069 79 HOH HOH . H 5 HOH A 70 1070 80 HOH HOH . H 5 HOH A 71 1071 81 HOH HOH . H 5 HOH A 72 1072 82 HOH HOH . H 5 HOH A 73 1073 83 HOH HOH . H 5 HOH A 74 1074 86 HOH HOH . H 5 HOH A 75 1075 87 HOH HOH . H 5 HOH A 76 1076 88 HOH HOH . H 5 HOH A 77 1077 89 HOH HOH . H 5 HOH A 78 1078 90 HOH HOH . H 5 HOH A 79 1079 91 HOH HOH . H 5 HOH A 80 1080 92 HOH HOH . H 5 HOH A 81 1081 93 HOH HOH . H 5 HOH A 82 1082 94 HOH HOH . H 5 HOH A 83 1083 95 HOH HOH . H 5 HOH A 84 1084 96 HOH HOH . H 5 HOH A 85 1085 97 HOH HOH . H 5 HOH A 86 1086 98 HOH HOH . H 5 HOH A 87 1087 99 HOH HOH . H 5 HOH A 88 1088 100 HOH HOH . H 5 HOH A 89 1089 101 HOH HOH . H 5 HOH A 90 1090 102 HOH HOH . H 5 HOH A 91 1091 103 HOH HOH . H 5 HOH A 92 1092 104 HOH HOH . H 5 HOH A 93 1093 105 HOH HOH . H 5 HOH A 94 1094 106 HOH HOH . H 5 HOH A 95 1095 107 HOH HOH . H 5 HOH A 96 1096 108 HOH HOH . H 5 HOH A 97 1097 109 HOH HOH . H 5 HOH A 98 1098 110 HOH HOH . H 5 HOH A 99 1099 111 HOH HOH . H 5 HOH A 100 1100 112 HOH HOH . H 5 HOH A 101 1101 113 HOH HOH . H 5 HOH A 102 1102 114 HOH HOH . H 5 HOH A 103 1103 115 HOH HOH . H 5 HOH A 104 1104 116 HOH HOH . H 5 HOH A 105 1105 117 HOH HOH . H 5 HOH A 106 1106 118 HOH HOH . H 5 HOH A 107 1107 119 HOH HOH . H 5 HOH A 108 1108 120 HOH HOH . H 5 HOH A 109 1109 121 HOH HOH . H 5 HOH A 110 1110 122 HOH HOH . H 5 HOH A 111 1111 123 HOH HOH . H 5 HOH A 112 1112 124 HOH HOH . H 5 HOH A 113 1113 125 HOH HOH . H 5 HOH A 114 1114 126 HOH HOH . H 5 HOH A 115 1115 127 HOH HOH . H 5 HOH A 116 1116 128 HOH HOH . H 5 HOH A 117 1117 129 HOH HOH . H 5 HOH A 118 1118 130 HOH HOH . H 5 HOH A 119 1119 131 HOH HOH . H 5 HOH A 120 1120 134 HOH HOH . H 5 HOH A 121 1121 135 HOH HOH . H 5 HOH A 122 1122 136 HOH HOH . H 5 HOH A 123 1123 137 HOH HOH . H 5 HOH A 124 1124 138 HOH HOH . H 5 HOH A 125 1125 139 HOH HOH . H 5 HOH A 126 1126 140 HOH HOH . H 5 HOH A 127 1127 141 HOH HOH . H 5 HOH A 128 1128 142 HOH HOH . H 5 HOH A 129 1129 143 HOH HOH . H 5 HOH A 130 1130 144 HOH HOH . H 5 HOH A 131 1131 145 HOH HOH . H 5 HOH A 132 1132 146 HOH HOH . H 5 HOH A 133 1133 147 HOH HOH . H 5 HOH A 134 1134 148 HOH HOH . H 5 HOH A 135 1135 149 HOH HOH . H 5 HOH A 136 1136 150 HOH HOH . I 5 HOH B 1 201 6 HOH HOH . I 5 HOH B 2 202 8 HOH HOH . I 5 HOH B 3 203 12 HOH HOH . I 5 HOH B 4 204 43 HOH HOH . I 5 HOH B 5 205 46 HOH HOH . I 5 HOH B 6 206 50 HOH HOH . I 5 HOH B 7 207 69 HOH HOH . I 5 HOH B 8 208 70 HOH HOH . I 5 HOH B 9 209 76 HOH HOH . I 5 HOH B 10 210 77 HOH HOH . I 5 HOH B 11 211 84 HOH HOH . I 5 HOH B 12 212 85 HOH HOH . I 5 HOH B 13 213 132 HOH HOH . I 5 HOH B 14 214 133 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 . . . C 3 38.342 -0.943 2.244 1 39.93 ? C1 NAG 901 A 1 HETATM 2 C C2 NAG . . . C 3 38.23 -1.024 3.772 1 40.77 ? C2 NAG 901 A 1 HETATM 3 C C3 NAG . . . C 3 37.109 -1.957 4.205 1 42.83 ? C3 NAG 901 A 1 HETATM 4 C C4 NAG . . . C 3 35.814 -1.651 3.469 1 44.97 ? C4 NAG 901 A 1 HETATM 5 C C5 NAG . . . C 3 36.033 -1.604 1.956 1 43.21 ? C5 NAG 901 A 1 HETATM 6 C C6 NAG . . . C 3 34.774 -1.12 1.242 1 44.5 ? C6 NAG 901 A 1 HETATM 7 C C7 NAG . . . C 3 40.352 -0.747 4.958 1 40.25 ? C7 NAG 901 A 1 HETATM 8 C C8 NAG . . . C 3 41.767 -1.248 5.026 1 34.75 ? C8 NAG 901 A 1 HETATM 9 N N2 NAG . . . C 3 39.478 -1.522 4.321 1 42.08 ? N2 NAG 901 A 1 HETATM 10 O O3 NAG . . . C 3 36.895 -1.827 5.591 1 44.84 ? O3 NAG 901 A 1 HETATM 11 O O4 NAG . . . C 3 34.894 -2.678 3.768 1 46.18 ? O4 NAG 901 A 1 HETATM 12 O O5 NAG . . . C 3 37.091 -0.729 1.604 1 37.83 ? O5 NAG 901 A 1 HETATM 13 O O6 NAG . . . C 3 33.627 -1.728 1.794 1 49.11 ? O6 NAG 901 A 1 HETATM 14 O O7 NAG . . . C 3 40.044 0.325 5.475 1 44.16 ? O7 NAG 901 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #