data_3ARB # _model_server_result.job_id 9oxOKtBPO-1g7rFyoi6fvw _model_server_result.datetime_utc '2024-11-05 05:50:03' _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 3arb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":551}' # _entry.id 3ARB # _exptl.entry_id 3ARB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _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 3ARB _cell.length_a 59.037 _cell.length_b 87.309 _cell.length_c 235.654 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ARB _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 5 n E NAG 1 E 1 NAG A 400 NAG 5 n E NAG 2 E 2 NAG A 401 NAG 5 n F NAG 1 F 1 NAG A 314 NAG 5 n F NAG 2 F 2 NAG A 315 NAG 5 n G NAG 1 G 1 NAG A 501 NAG 5 n G NAG 2 G 2 NAG A 502 NAG # 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 104 A CYS 104 1_555 A SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 C SG CYS 22 C CYS 22 1_555 C SG CYS 89 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf5 C SG CYS 136 C CYS 139 1_555 C SG CYS 186 C CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 C SG CYS 161 C CYS 164 1_555 D SG CYS 171 D CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 D SG CYS 23 D CYS 23 1_555 D SG CYS 91 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 D SG CYS 145 D CYS 148 1_555 D SG CYS 210 D CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale3 A ND2 ASN 110 A ASN 110 1_555 I C1 NAG . A NAG 551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale4 A ND2 ASN 165 A ASN 165 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 400 n n C1 O1 NAG sing 401 n n C1 O5 NAG sing 402 n n C1 H1 NAG sing 403 n n C2 C3 NAG sing 404 n n C2 N2 NAG sing 405 n n C2 H2 NAG sing 406 n n C3 C4 NAG sing 407 n n C3 O3 NAG sing 408 n n C3 H3 NAG sing 409 n n C4 C5 NAG sing 410 n n C4 O4 NAG sing 411 n n C4 H4 NAG sing 412 n n C5 C6 NAG sing 413 n n C5 O5 NAG sing 414 n n C5 H5 NAG sing 415 n n C6 O6 NAG sing 416 n n C6 H61 NAG sing 417 n n C6 H62 NAG sing 418 n n C7 C8 NAG sing 419 n n C7 N2 NAG sing 420 n n C7 O7 NAG doub 421 n n C8 H81 NAG sing 422 n n C8 H82 NAG sing 423 n n C8 H83 NAG sing 424 n n N2 HN2 NAG sing 425 n n O1 HO1 NAG sing 426 n n O3 HO3 NAG sing 427 n n O4 HO4 NAG sing 428 n n O6 HO6 NAG sing 429 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 3ARB _atom_sites.fract_transf_matrix[1][1] 0.016938 _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] 0.011454 _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] 0.004244 _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 H 6 PEG A 1 303 2 PEG PEG . I 7 NAG A 1 551 551 NAG NAG . J 8 FEE A 1 601 601 FEE FEE . K 9 D12 A 1 611 611 D12 D12 . L 6 PEG B 1 100 3 PEG PEG . M 10 HOH A 1 304 5 HOH HOH . M 10 HOH A 2 305 9 HOH HOH . M 10 HOH A 3 306 10 HOH HOH . M 10 HOH A 4 307 11 HOH HOH . M 10 HOH A 5 308 12 HOH HOH . M 10 HOH A 6 309 17 HOH HOH . M 10 HOH A 7 310 24 HOH HOH . M 10 HOH A 8 311 32 HOH HOH . M 10 HOH A 9 312 36 HOH HOH . M 10 HOH A 10 313 39 HOH HOH . M 10 HOH A 11 316 45 HOH HOH . M 10 HOH A 12 317 50 HOH HOH . M 10 HOH A 13 318 61 HOH HOH . M 10 HOH A 14 319 94 HOH HOH . M 10 HOH A 15 320 99 HOH HOH . M 10 HOH A 16 321 101 HOH HOH . M 10 HOH A 17 322 102 HOH HOH . M 10 HOH A 18 323 103 HOH HOH . M 10 HOH A 19 324 107 HOH HOH . M 10 HOH A 20 325 108 HOH HOH . N 10 HOH B 1 101 23 HOH HOH . N 10 HOH B 2 102 31 HOH HOH . N 10 HOH B 3 103 40 HOH HOH . N 10 HOH B 4 104 49 HOH HOH . N 10 HOH B 5 105 56 HOH HOH . N 10 HOH B 6 106 82 HOH HOH . N 10 HOH B 7 107 88 HOH HOH . N 10 HOH B 8 108 84 HOH HOH . N 10 HOH B 9 109 109 HOH HOH . N 10 HOH B 10 110 97 HOH HOH . O 10 HOH C 1 211 1 HOH HOH . O 10 HOH C 2 212 4 HOH HOH . O 10 HOH C 3 213 8 HOH HOH . O 10 HOH C 4 214 20 HOH HOH . O 10 HOH C 5 215 25 HOH HOH . O 10 HOH C 6 216 33 HOH HOH . O 10 HOH C 7 217 42 HOH HOH . O 10 HOH C 8 218 43 HOH HOH . O 10 HOH C 9 219 46 HOH HOH . O 10 HOH C 10 220 47 HOH HOH . O 10 HOH C 11 221 48 HOH HOH . O 10 HOH C 12 222 63 HOH HOH . O 10 HOH C 13 223 76 HOH HOH . O 10 HOH C 14 224 78 HOH HOH . O 10 HOH C 15 225 81 HOH HOH . O 10 HOH C 16 226 86 HOH HOH . O 10 HOH C 17 227 90 HOH HOH . O 10 HOH C 18 228 91 HOH HOH . O 10 HOH C 19 229 110 HOH HOH . O 10 HOH C 20 230 111 HOH HOH . O 10 HOH C 21 231 113 HOH HOH . O 10 HOH C 22 232 114 HOH HOH . O 10 HOH C 23 233 115 HOH HOH . O 10 HOH C 24 234 117 HOH HOH . P 10 HOH D 1 248 14 HOH HOH . P 10 HOH D 2 249 16 HOH HOH . P 10 HOH D 3 250 18 HOH HOH . P 10 HOH D 4 251 21 HOH HOH . P 10 HOH D 5 252 38 HOH HOH . P 10 HOH D 6 253 44 HOH HOH . P 10 HOH D 7 254 53 HOH HOH . P 10 HOH D 8 255 57 HOH HOH . P 10 HOH D 9 256 62 HOH HOH . P 10 HOH D 10 257 68 HOH HOH . P 10 HOH D 11 258 72 HOH HOH . P 10 HOH D 12 259 75 HOH HOH . P 10 HOH D 13 260 89 HOH HOH . P 10 HOH D 14 261 118 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 . . . I 7 -37.473 -42.238 -70.5 1 99.96 ? C1 NAG 551 A 1 HETATM 2 C C2 NAG . . . I 7 -38.619 -41.234 -70.325 1 105 ? C2 NAG 551 A 1 HETATM 3 C C3 NAG . . . I 7 -38.357 -40.241 -69.189 1 105.43 ? C3 NAG 551 A 1 HETATM 4 C C4 NAG . . . I 7 -37.764 -40.902 -67.943 1 104.18 ? C4 NAG 551 A 1 HETATM 5 C C5 NAG . . . I 7 -36.609 -41.844 -68.302 1 99.57 ? C5 NAG 551 A 1 HETATM 6 C C6 NAG . . . I 7 -36.075 -42.558 -67.058 1 98.71 ? C6 NAG 551 A 1 HETATM 7 C C7 NAG . . . I 7 -40.027 -40.131 -72.028 1 109.82 ? C7 NAG 551 A 1 HETATM 8 C C8 NAG . . . I 7 -40.028 -39.412 -73.346 1 109.42 ? C8 NAG 551 A 1 HETATM 9 N N2 NAG . . . I 7 -38.831 -40.521 -71.577 1 105.36 ? N2 NAG 551 A 1 HETATM 10 O O3 NAG . . . I 7 -39.568 -39.606 -68.845 1 110.44 ? O3 NAG 551 A 1 HETATM 11 O O4 NAG . . . I 7 -37.322 -39.899 -67.053 1 104.02 ? O4 NAG 551 A 1 HETATM 12 O O5 NAG . . . I 7 -37.044 -42.792 -69.265 1 99.7 ? O5 NAG 551 A 1 HETATM 13 O O6 NAG . . . I 7 -35.631 -43.861 -67.366 1 96.31 ? O6 NAG 551 A 1 HETATM 14 O O7 NAG . . . I 7 -41.087 -40.325 -71.431 1 113.97 ? O7 NAG 551 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #