data_5UX4 # _model_server_result.job_id nkkTH1O7ag2yJizFA3sJpg _model_server_result.datetime_utc '2024-10-18 17:19:58' _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 5ux4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 5UX4 # _exptl.entry_id 5UX4 _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 99.53 _cell.angle_gamma 90 _cell.entry_id 5UX4 _cell.length_a 136.514 _cell.length_b 66.122 _cell.length_c 99.555 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5UX4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 2 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 D N N ? 3 F N N ? 3 G N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 2 n C NAG 1 C 1 NAG D 101 NAG 2 n C NAG 2 C 2 NAG D 102 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 90 A CYS 27 1_555 A SG CYS 159 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 109 A CYS 46 1_555 A SG CYS 116 A CYS 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 280 A CYS 217 1_555 A SG CYS 284 A CYS 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 323 A CYS 260 1_555 A SG CYS 360 A CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 B SG CYS 90 B CYS 27 1_555 B SG CYS 159 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 109 B CYS 46 1_555 B SG CYS 116 B CYS 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 280 B CYS 217 1_555 B SG CYS 284 B CYS 221 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 323 B CYS 260 1_555 B SG CYS 360 B CYS 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 133 A ASN 70 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 A ND2 ASN 257 A ASN 194 1_555 D C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 B ND2 ASN 133 B ASN 70 1_555 F C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale4 B ND2 ASN 257 B ASN 194 1_555 G C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? # _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 293 n n C1 O1 NAG sing 294 n n C1 O5 NAG sing 295 n n C1 H1 NAG sing 296 n n C2 C3 NAG sing 297 n n C2 N2 NAG sing 298 n n C2 H2 NAG sing 299 n n C3 C4 NAG sing 300 n n C3 O3 NAG sing 301 n n C3 H3 NAG sing 302 n n C4 C5 NAG sing 303 n n C4 O4 NAG sing 304 n n C4 H4 NAG sing 305 n n C5 C6 NAG sing 306 n n C5 O5 NAG sing 307 n n C5 H5 NAG sing 308 n n C6 O6 NAG sing 309 n n C6 H61 NAG sing 310 n n C6 H62 NAG sing 311 n n C7 C8 NAG sing 312 n n C7 N2 NAG sing 313 n n C7 O7 NAG doub 314 n n C8 H81 NAG sing 315 n n C8 H82 NAG sing 316 n n C8 H83 NAG sing 317 n n N2 HN2 NAG sing 318 n n O1 HO1 NAG sing 319 n n O3 HO3 NAG sing 320 n n O4 HO4 NAG sing 321 n n O6 HO6 NAG sing 322 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 5UX4 _atom_sites.fract_transf_matrix[1][1] 0.007325 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00123 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015124 _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] 0.010185 _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 D 3 NAG A 1 403 201 NAG NAG . E 4 3UT A 1 404 501 3UT UNL . F 3 NAG B 1 401 101 NAG NAG . G 3 NAG B 1 402 201 NAG NAG . H 4 3UT B 1 403 502 3UT UNL . I 5 HOH A 1 501 26 HOH HOH . I 5 HOH A 2 502 10 HOH HOH . I 5 HOH A 3 503 1 HOH HOH . I 5 HOH A 4 504 3 HOH HOH . I 5 HOH A 5 505 25 HOH HOH . I 5 HOH A 6 506 9 HOH HOH . I 5 HOH A 7 507 24 HOH HOH . I 5 HOH A 8 508 14 HOH HOH . I 5 HOH A 9 509 21 HOH HOH . I 5 HOH A 10 510 6 HOH HOH . I 5 HOH A 11 511 2 HOH HOH . I 5 HOH A 12 512 16 HOH HOH . I 5 HOH A 13 513 17 HOH HOH . I 5 HOH A 14 514 7 HOH HOH . J 5 HOH B 1 501 4 HOH HOH . J 5 HOH B 2 502 12 HOH HOH . J 5 HOH B 3 503 8 HOH HOH . J 5 HOH B 4 504 5 HOH HOH . J 5 HOH B 5 505 19 HOH HOH . J 5 HOH B 6 506 11 HOH HOH . J 5 HOH B 7 507 20 HOH HOH . J 5 HOH B 8 508 23 HOH HOH . J 5 HOH B 9 509 13 HOH HOH . J 5 HOH B 10 510 22 HOH HOH . J 5 HOH B 11 511 15 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 12.381 2.91 46.618 1 64.23 ? C1 NAG 403 A 1 HETATM 2 C C2 NAG . . . D 3 12.189 2.709 48.114 1 66.62 ? C2 NAG 403 A 1 HETATM 3 C C3 NAG . . . D 3 10.965 3.486 48.582 1 78.23 ? C3 NAG 403 A 1 HETATM 4 C C4 NAG . . . D 3 11.101 4.955 48.202 1 81.72 ? C4 NAG 403 A 1 HETATM 5 C C5 NAG . . . D 3 11.394 5.103 46.709 1 80.14 ? C5 NAG 403 A 1 HETATM 6 C C6 NAG . . . D 3 11.725 6.523 46.31 1 78.88 ? C6 NAG 403 A 1 HETATM 7 C C7 NAG . . . D 3 13.025 0.622 49.091 1 74.28 ? C7 NAG 403 A 1 HETATM 8 C C8 NAG . . . D 3 12.737 -0.823 49.365 1 68.4 ? C8 NAG 403 A 1 HETATM 9 N N2 NAG . . . D 3 12.066 1.3 48.452 1 77.86 ? N2 NAG 403 A 1 HETATM 10 O O3 NAG . . . D 3 10.818 3.351 49.991 1 90.02 ? O3 NAG 403 A 1 HETATM 11 O O4 NAG . . . D 3 9.897 5.65 48.51 1 100.98 ? O4 NAG 403 A 1 HETATM 12 O O5 NAG . . . D 3 12.528 4.303 46.338 1 80.16 ? O5 NAG 403 A 1 HETATM 13 O O6 NAG . . . D 3 11.14 7.466 47.198 1 74.92 ? O6 NAG 403 A 1 HETATM 14 O O7 NAG . . . D 3 14.078 1.152 49.432 1 57.69 ? O7 NAG 403 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #