data_5BPB # _model_server_result.job_id RfU-arbJ4m7K4YGbnPruDQ _model_server_result.datetime_utc '2024-11-05 21:03:46' _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 5bpb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":201}' # _entry.id 5BPB # _exptl.entry_id 5BPB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 5BPB _cell.length_a 72.608 _cell.length_b 102.14 _cell.length_c 116.508 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5BPB _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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,I 1 1 B,F,G,J 2 1 C,H,K 3 1 D,L 4 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 7 A CYS 45 1_555 A SG CYS 68 A CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 15 A CYS 53 1_555 A SG CYS 61 A CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf3 A SG CYS 52 A CYS 90 1_555 A SG CYS 90 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf4 A SG CYS 79 A CYS 117 1_555 A SG CYS 120 A CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 A SG CYS 83 A CYS 121 1_555 A SG CYS 107 A CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf6 B SG CYS 7 B CYS 45 1_555 B SG CYS 68 B CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf7 B SG CYS 15 B CYS 53 1_555 B SG CYS 61 B CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf8 B SG CYS 52 B CYS 90 1_555 B SG CYS 90 B CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? disulf ? disulf9 B SG CYS 79 B CYS 117 1_555 B SG CYS 120 B CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf10 B SG CYS 83 B CYS 121 1_555 B SG CYS 107 B CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf11 C SG CYS 7 D CYS 45 1_555 C SG CYS 68 D CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf12 C SG CYS 15 D CYS 53 1_555 C SG CYS 61 D CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf13 C SG CYS 52 D CYS 90 1_555 C SG CYS 90 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? disulf ? disulf14 C SG CYS 79 D CYS 117 1_555 C SG CYS 120 D CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf15 C SG CYS 83 D CYS 121 1_555 C SG CYS 107 D CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf16 D SG CYS 7 C CYS 45 1_555 D SG CYS 68 C CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf17 D SG CYS 15 C CYS 53 1_555 D SG CYS 61 C CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf18 D SG CYS 52 C CYS 90 1_555 D SG CYS 90 C CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf19 D SG CYS 79 C CYS 117 1_555 D SG CYS 120 C CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf20 D SG CYS 83 C CYS 121 1_555 D SG CYS 107 C CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 A ND2 ASN 106 A ASN 144 1_555 E C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale2 B ND2 ASN 21 B ASN 59 1_555 G C1 NAG . B NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale3 B ND2 ASN 106 B ASN 144 1_555 F C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 C ND2 ASN 106 D ASN 144 1_555 H C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 5BPB _atom_sites.fract_transf_matrix[1][1] 0.013773 _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] 0.00979 _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] 0.008583 _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 2 NAG A 1 201 1 NAG NAG . F 2 NAG B 1 201 1 NAG NAG . G 2 NAG B 1 202 2 NAG NAG . H 2 NAG D 1 201 1 NAG NAG . I 3 HOH A 1 301 99 HOH HOH . I 3 HOH A 2 302 79 HOH HOH . I 3 HOH A 3 303 121 HOH HOH . I 3 HOH A 4 304 25 HOH HOH . I 3 HOH A 5 305 71 HOH HOH . I 3 HOH A 6 306 134 HOH HOH . I 3 HOH A 7 307 28 HOH HOH . I 3 HOH A 8 308 100 HOH HOH . I 3 HOH A 9 309 26 HOH HOH . I 3 HOH A 10 310 29 HOH HOH . I 3 HOH A 11 311 109 HOH HOH . I 3 HOH A 12 312 19 HOH HOH . I 3 HOH A 13 313 24 HOH HOH . I 3 HOH A 14 314 50 HOH HOH . I 3 HOH A 15 315 18 HOH HOH . I 3 HOH A 16 316 27 HOH HOH . I 3 HOH A 17 317 16 HOH HOH . I 3 HOH A 18 318 72 HOH HOH . I 3 HOH A 19 319 8 HOH HOH . I 3 HOH A 20 320 117 HOH HOH . I 3 HOH A 21 321 112 HOH HOH . I 3 HOH A 22 322 10 HOH HOH . I 3 HOH A 23 323 105 HOH HOH . I 3 HOH A 24 324 17 HOH HOH . I 3 HOH A 25 325 122 HOH HOH . I 3 HOH A 26 326 14 HOH HOH . I 3 HOH A 27 327 35 HOH HOH . I 3 HOH A 28 328 106 HOH HOH . I 3 HOH A 29 329 38 HOH HOH . I 3 HOH A 30 330 40 HOH HOH . I 3 HOH A 31 331 23 HOH HOH . I 3 HOH A 32 332 136 HOH HOH . I 3 HOH A 33 333 70 HOH HOH . I 3 HOH A 34 334 45 HOH HOH . I 3 HOH A 35 335 120 HOH HOH . I 3 HOH A 36 336 111 HOH HOH . I 3 HOH A 37 337 12 HOH HOH . I 3 HOH A 38 338 78 HOH HOH . I 3 HOH A 39 339 56 HOH HOH . I 3 HOH A 40 340 132 HOH HOH . I 3 HOH A 41 341 81 HOH HOH . I 3 HOH A 42 342 104 HOH HOH . I 3 HOH A 43 343 131 HOH HOH . I 3 HOH A 44 344 80 HOH HOH . I 3 HOH A 45 345 73 HOH HOH . I 3 HOH A 46 346 83 HOH HOH . I 3 HOH A 47 347 85 HOH HOH . I 3 HOH A 48 348 103 HOH HOH . J 3 HOH B 1 301 84 HOH HOH . J 3 HOH B 2 302 115 HOH HOH . J 3 HOH B 3 303 89 HOH HOH . J 3 HOH B 4 304 77 HOH HOH . J 3 HOH B 5 305 108 HOH HOH . J 3 HOH B 6 306 11 HOH HOH . J 3 HOH B 7 307 22 HOH HOH . J 3 HOH B 8 308 118 HOH HOH . J 3 HOH B 9 309 116 HOH HOH . J 3 HOH B 10 310 32 HOH HOH . J 3 HOH B 11 311 21 HOH HOH . J 3 HOH B 12 312 5 HOH HOH . J 3 HOH B 13 313 95 HOH HOH . J 3 HOH B 14 314 13 HOH HOH . J 3 HOH B 15 315 102 HOH HOH . J 3 HOH B 16 316 46 HOH HOH . J 3 HOH B 17 317 43 HOH HOH . J 3 HOH B 18 318 74 HOH HOH . J 3 HOH B 19 319 2 HOH HOH . J 3 HOH B 20 320 54 HOH HOH . J 3 HOH B 21 321 42 HOH HOH . J 3 HOH B 22 322 75 HOH HOH . J 3 HOH B 23 323 20 HOH HOH . J 3 HOH B 24 324 44 HOH HOH . J 3 HOH B 25 325 52 HOH HOH . J 3 HOH B 26 326 114 HOH HOH . J 3 HOH B 27 327 87 HOH HOH . J 3 HOH B 28 328 7 HOH HOH . J 3 HOH B 29 329 34 HOH HOH . J 3 HOH B 30 330 9 HOH HOH . J 3 HOH B 31 331 143 HOH HOH . J 3 HOH B 32 332 31 HOH HOH . J 3 HOH B 33 333 69 HOH HOH . J 3 HOH B 34 334 148 HOH HOH . J 3 HOH B 35 335 76 HOH HOH . J 3 HOH B 36 336 36 HOH HOH . J 3 HOH B 37 337 15 HOH HOH . J 3 HOH B 38 338 30 HOH HOH . J 3 HOH B 39 339 139 HOH HOH . J 3 HOH B 40 340 59 HOH HOH . J 3 HOH B 41 341 57 HOH HOH . J 3 HOH B 42 342 64 HOH HOH . J 3 HOH B 43 343 147 HOH HOH . J 3 HOH B 44 344 137 HOH HOH . J 3 HOH B 45 345 49 HOH HOH . J 3 HOH B 46 346 53 HOH HOH . J 3 HOH B 47 347 39 HOH HOH . J 3 HOH B 48 348 101 HOH HOH . J 3 HOH B 49 349 82 HOH HOH . J 3 HOH B 50 350 144 HOH HOH . J 3 HOH B 51 351 93 HOH HOH . J 3 HOH B 52 352 96 HOH HOH . K 3 HOH D 1 301 129 HOH HOH . K 3 HOH D 2 302 3 HOH HOH . K 3 HOH D 3 303 58 HOH HOH . K 3 HOH D 4 304 48 HOH HOH . K 3 HOH D 5 305 37 HOH HOH . K 3 HOH D 6 306 145 HOH HOH . K 3 HOH D 7 307 67 HOH HOH . K 3 HOH D 8 308 1 HOH HOH . K 3 HOH D 9 309 65 HOH HOH . K 3 HOH D 10 310 86 HOH HOH . K 3 HOH D 11 311 126 HOH HOH . K 3 HOH D 12 312 91 HOH HOH . K 3 HOH D 13 313 142 HOH HOH . K 3 HOH D 14 314 66 HOH HOH . K 3 HOH D 15 315 92 HOH HOH . K 3 HOH D 16 316 128 HOH HOH . K 3 HOH D 17 317 125 HOH HOH . K 3 HOH D 18 318 68 HOH HOH . K 3 HOH D 19 319 130 HOH HOH . K 3 HOH D 20 320 6 HOH HOH . K 3 HOH D 21 321 41 HOH HOH . K 3 HOH D 22 322 88 HOH HOH . K 3 HOH D 23 323 94 HOH HOH . K 3 HOH D 24 324 124 HOH HOH . K 3 HOH D 25 325 123 HOH HOH . K 3 HOH D 26 326 47 HOH HOH . K 3 HOH D 27 327 141 HOH HOH . K 3 HOH D 28 328 90 HOH HOH . K 3 HOH D 29 329 127 HOH HOH . K 3 HOH D 30 330 140 HOH HOH . L 3 HOH C 1 201 62 HOH HOH . L 3 HOH C 2 202 135 HOH HOH . L 3 HOH C 3 203 4 HOH HOH . L 3 HOH C 4 204 146 HOH HOH . L 3 HOH C 5 205 63 HOH HOH . L 3 HOH C 6 206 110 HOH HOH . L 3 HOH C 7 207 60 HOH HOH . L 3 HOH C 8 208 33 HOH HOH . L 3 HOH C 9 209 51 HOH HOH . L 3 HOH C 10 210 98 HOH HOH . L 3 HOH C 11 211 113 HOH HOH . L 3 HOH C 12 212 138 HOH HOH . L 3 HOH C 13 213 133 HOH HOH . L 3 HOH C 14 214 119 HOH HOH . L 3 HOH C 15 215 97 HOH HOH . L 3 HOH C 16 216 61 HOH HOH . L 3 HOH C 17 217 107 HOH HOH . L 3 HOH C 18 218 55 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 . . . F 2 -14.334 46.144 -1.564 1 23.04 ? C1 NAG 201 B 1 HETATM 2 C C2 NAG . . . F 2 -14.759 45.903 -0.109 1 24.42 ? C2 NAG 201 B 1 HETATM 3 C C3 NAG . . . F 2 -15.889 46.849 0.299 1 23.79 ? C3 NAG 201 B 1 HETATM 4 C C4 NAG . . . F 2 -15.442 48.289 0.131 1 24.94 ? C4 NAG 201 B 1 HETATM 5 C C5 NAG . . . F 2 -14.91 48.499 -1.283 1 24.52 ? C5 NAG 201 B 1 HETATM 6 C C6 NAG . . . F 2 -14.219 49.857 -1.344 1 26.19 ? C6 NAG 201 B 1 HETATM 7 C C7 NAG . . . F 2 -15.982 43.72 -0.33 1 27.72 ? C7 NAG 201 B 1 HETATM 8 C C8 NAG . . . F 2 -16.862 44.23 -1.43 1 25.07 ? C8 NAG 201 B 1 HETATM 9 N N2 NAG . . . F 2 -15.055 44.512 0.228 1 27.16 ? N2 NAG 201 B 1 HETATM 10 O O3 NAG . . . F 2 -16.295 46.586 1.623 1 23.42 ? O3 NAG 201 B 1 HETATM 11 O O4 NAG . . . F 2 -16.531 49.165 0.362 1 27.48 ? O4 NAG 201 B 1 HETATM 12 O O5 NAG . . . F 2 -13.975 47.507 -1.703 1 23.84 ? O5 NAG 201 B 1 HETATM 13 O O6 NAG . . . F 2 -13.979 50.165 -2.693 1 33.75 ? O6 NAG 201 B 1 HETATM 14 O O7 NAG . . . F 2 -16.137 42.556 0.053 1 31.45 ? O7 NAG 201 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #