data_7RPK # _model_server_result.job_id fNY2e0UG1T5ExKXVxWi8Ug _model_server_result.datetime_utc '2024-11-21 18:45:38' _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 7rpk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"HA","auth_seq_id":2132}' # _entry.id 7RPK # _exptl.entry_id 7RPK _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA _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 ? _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 ? 7 HA N N ? 7 IA N N ? 7 JA N N ? 7 KA N N ? 7 LA 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 123 A CYS 292 1_555 A SG CYS 179 A CYS 348 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 A SG CYS 153 A CYS 322 1_555 A SG CYS 197 A CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 170 A CYS 339 1_555 A SG CYS 178 A CYS 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 215 A CYS 384 1_555 A SG CYS 248 A CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 228 A CYS 397 1_555 A SG CYS 241 A CYS 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 A SG CYS 660 A CYS 829 1_555 A SG CYS 680 A CYS 849 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 A SG CYS 694 A CYS 863 1_555 A SG CYS 703 A CYS 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf8 A SG CYS 702 A CYS 871 1_555 A SG CYS 718 A CYS 887 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? covale ? covale1 A ND2 ASN 193 A ASN 362 1_555 KA C1 NAG . A NAG 2135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale2 A ND2 ASN 221 A ASN 390 1_555 LA C1 NAG . A NAG 2136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale3 A ND2 ASN 306 A ASN 475 1_555 IA C1 NAG . A NAG 2133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 A ND2 ASN 665 A ASN 834 1_555 JA C1 NAG . A NAG 2134 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale5 A ND2 ASN 746 A ASN 915 1_555 HA C1 NAG . A NAG 2132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? metalc ? metalc1 A O GLY 398 A GLY 567 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc2 A OD1 ASP 402 A ASP 571 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc3 A OD2 ASP 402 A ASP 571 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc4 A O THR 441 A THR 610 1_555 EA NA NA . A NA 2129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc5 A OG1 THR 444 A THR 613 1_555 EA NA NA . A NA 2129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc6 A OG1 THR 445 A THR 614 1_555 EA NA NA . A NA 2129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc7 A O GLY 876 A GLY 1045 1_555 EA NA NA . A NA 2129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? metalc ? metalc8 A OD1 ASP 880 A ASP 1049 1_555 EA NA NA . A NA 2129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc9 A O ALA 915 A ALA 1084 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc10 A OG1 THR 918 A THR 1087 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc11 A OG1 THR 919 A THR 1088 1_555 FA NA NA . A NA 2130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc12 EA NA NA . A NA 2129 1_555 QA O HOH . A HOH 2202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.83 ? metalc ? metalc13 B OE1 GLU 65 H GLU 90 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.876 ? metalc ? metalc14 B OE2 GLU 65 H GLU 90 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc15 B OE1 GLU 65 H GLU 90 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc16 B OE1 GLU 66 H GLU 91 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc17 B OE2 GLU 66 H GLU 91 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc18 B OE1 GLU 66 H GLU 91 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc19 B OD1 ASP 71 H ASP 96 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc20 B OD2 ASP 71 H ASP 96 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc21 B O THR 101 H THR 126 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? metalc ? metalc22 B OE2 GLU 102 H GLU 127 1_555 MA CA CA . H CA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc23 B OE1 GLU 102 H GLU 127 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc24 B OE2 GLU 102 H GLU 127 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc25 B OD1 ASP 105 H ASP 130 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc26 B OD2 ASP 107 H ASP 132 1_555 NA CA CA . H CA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc27 B NE2 HIS 116 H HIS 141 1_555 OA ZN ZN . H ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? metalc ? metalc28 B ND1 HIS 158 H HIS 183 1_555 OA ZN ZN . H ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? # _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 457 n n C1 O1 NAG sing 458 n n C1 O5 NAG sing 459 n n C1 H1 NAG sing 460 n n C2 C3 NAG sing 461 n n C2 N2 NAG sing 462 n n C2 H2 NAG sing 463 n n C3 C4 NAG sing 464 n n C3 O3 NAG sing 465 n n C3 H3 NAG sing 466 n n C4 C5 NAG sing 467 n n C4 O4 NAG sing 468 n n C4 H4 NAG sing 469 n n C5 C6 NAG sing 470 n n C5 O5 NAG sing 471 n n C5 H5 NAG sing 472 n n C6 O6 NAG sing 473 n n C6 H61 NAG sing 474 n n C6 H62 NAG sing 475 n n C7 C8 NAG sing 476 n n C7 N2 NAG sing 477 n n C7 O7 NAG doub 478 n n C8 H81 NAG sing 479 n n C8 H82 NAG sing 480 n n C8 H83 NAG sing 481 n n N2 HN2 NAG sing 482 n n O1 HO1 NAG sing 483 n n O3 HO3 NAG sing 484 n n O4 HO4 NAG sing 485 n n O6 HO6 NAG sing 486 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 7RPK _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 Y01 A 1 2101 2101 Y01 Y01 . D 3 Y01 A 1 2102 2601 Y01 Y01 . E 3 Y01 A 1 2103 2201 Y01 Y01 . F 3 Y01 A 1 2104 1201 Y01 Y01 . G 3 Y01 A 1 2105 1601 Y01 Y01 . H 3 Y01 A 1 2106 2701 Y01 Y01 . I 3 Y01 A 1 2107 2301 Y01 Y01 . J 3 Y01 A 1 2108 1401 Y01 Y01 . K 3 Y01 A 1 2109 2501 Y01 Y01 . L 3 Y01 A 1 2110 2001 Y01 Y01 . M 3 Y01 A 1 2111 1701 Y01 Y01 . N 3 Y01 A 1 2112 1901 Y01 Y01 . O 3 Y01 A 1 2113 1301 Y01 Y01 . P 3 Y01 A 1 2114 1801 Y01 Y01 . Q 3 Y01 A 1 2115 2401 Y01 Y01 . R 3 Y01 A 1 2116 1501 Y01 Y01 . S 3 Y01 A 1 2117 2801 Y01 Y01 . T 3 Y01 A 1 2118 2901 Y01 Y01 . U 3 Y01 A 1 2119 3001 Y01 Y01 . V 3 Y01 A 1 2120 3002 Y01 Y01 . W 3 Y01 A 1 2121 3003 Y01 Y01 . X 3 Y01 A 1 2122 3004 Y01 Y01 . Y 3 Y01 A 1 2123 3005 Y01 Y01 . Z 3 Y01 A 1 2124 3006 Y01 Y01 . AA 3 Y01 A 1 2125 3007 Y01 Y01 . BA 3 Y01 A 1 2126 3008 Y01 Y01 . CA 4 AV0 A 1 2127 1201 AV0 AV0 . DA 4 AV0 A 1 2128 1301 AV0 AV0 . EA 5 NA A 1 2129 1 NA NA . FA 5 NA A 1 2130 2 NA NA . GA 6 6OE A 1 2131 1401 6OE 6OE . HA 7 NAG A 1 2132 1201 NAG NAG . IA 7 NAG A 1 2133 1202 NAG NAG . JA 7 NAG A 1 2134 1203 NAG NAG . KA 7 NAG A 1 2135 1204 NAG NAG . LA 7 NAG A 1 2136 1205 NAG NAG . MA 8 CA H 1 201 1 CA CA . NA 8 CA H 1 202 2 CA CA . OA 9 ZN H 1 203 400 ZN ZN . PA 10 SO4 H 1 204 401 SO4 SO4 . QA 11 HOH A 1 2201 15 HOH HOH . QA 11 HOH A 2 2202 2 HOH HOH . QA 11 HOH A 3 2203 13 HOH HOH . QA 11 HOH A 4 2204 9 HOH HOH . QA 11 HOH A 5 2205 17 HOH HOH . QA 11 HOH A 6 2206 27 HOH HOH . QA 11 HOH A 7 2207 32 HOH HOH . QA 11 HOH A 8 2208 37 HOH HOH . QA 11 HOH A 9 2209 3 HOH HOH . QA 11 HOH A 10 2210 10 HOH HOH . QA 11 HOH A 11 2211 36 HOH HOH . QA 11 HOH A 12 2212 35 HOH HOH . QA 11 HOH A 13 2213 11 HOH HOH . QA 11 HOH A 14 2214 5 HOH HOH . QA 11 HOH A 15 2215 39 HOH HOH . QA 11 HOH A 16 2216 6 HOH HOH . QA 11 HOH A 17 2217 20 HOH HOH . QA 11 HOH A 18 2218 38 HOH HOH . QA 11 HOH A 19 2219 42 HOH HOH . QA 11 HOH A 20 2220 34 HOH HOH . QA 11 HOH A 21 2221 29 HOH HOH . QA 11 HOH A 22 2222 25 HOH HOH . QA 11 HOH A 23 2223 18 HOH HOH . QA 11 HOH A 24 2224 14 HOH HOH . QA 11 HOH A 25 2225 21 HOH HOH . QA 11 HOH A 26 2226 28 HOH HOH . QA 11 HOH A 27 2227 41 HOH HOH . QA 11 HOH A 28 2228 23 HOH HOH . QA 11 HOH A 29 2229 12 HOH HOH . QA 11 HOH A 30 2230 1 HOH HOH . QA 11 HOH A 31 2231 8 HOH HOH . QA 11 HOH A 32 2232 30 HOH HOH . QA 11 HOH A 33 2233 22 HOH HOH . QA 11 HOH A 34 2234 7 HOH HOH . QA 11 HOH A 35 2235 16 HOH HOH . QA 11 HOH A 36 2236 26 HOH HOH . QA 11 HOH A 37 2237 31 HOH HOH . QA 11 HOH A 38 2238 24 HOH HOH . QA 11 HOH A 39 2239 19 HOH HOH . QA 11 HOH A 40 2240 4 HOH HOH . QA 11 HOH A 41 2241 40 HOH HOH . QA 11 HOH A 42 2242 33 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 . . . HA 7 88.396 111.479 156.057 1 97.41 ? C1 NAG 2132 A 1 HETATM 2 C C2 NAG . . . HA 7 86.946 111.519 156.601 1 97.41 ? C2 NAG 2132 A 1 HETATM 3 C C3 NAG . . . HA 7 86.05 112.227 155.567 1 97.41 ? C3 NAG 2132 A 1 HETATM 4 C C4 NAG . . . HA 7 86.614 113.606 155.196 1 97.41 ? C4 NAG 2132 A 1 HETATM 5 C C5 NAG . . . HA 7 88.081 113.555 154.741 1 97.41 ? C5 NAG 2132 A 1 HETATM 6 C C6 NAG . . . HA 7 88.67 114.964 154.549 1 97.41 ? C6 NAG 2132 A 1 HETATM 7 C C7 NAG . . . HA 7 85.489 109.873 157.711 1 97.41 ? C7 NAG 2132 A 1 HETATM 8 C C8 NAG . . . HA 7 85.153 108.386 157.898 1 97.41 ? C8 NAG 2132 A 1 HETATM 9 N N2 NAG . . . HA 7 86.461 110.158 156.851 1 97.41 ? N2 NAG 2132 A 1 HETATM 10 O O3 NAG . . . HA 7 84.702 112.419 156.087 1 97.41 ? O3 NAG 2132 A 1 HETATM 11 O O4 NAG . . . HA 7 85.8 114.116 154.119 1 97.41 ? O4 NAG 2132 A 1 HETATM 12 O O5 NAG . . . HA 7 88.874 112.832 155.765 1 97.41 ? O5 NAG 2132 A 1 HETATM 13 O O6 NAG . . . HA 7 89.997 114.877 153.99 1 97.41 ? O6 NAG 2132 A 1 HETATM 14 O O7 NAG . . . HA 7 84.88 110.768 158.297 1 97.41 ? O7 NAG 2132 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #