data_4ELM # _model_server_result.job_id bVjiXS23DGw3bIvE40qP5g _model_server_result.datetime_utc '2024-11-01 15:26:05' _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 4elm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":304}' # _entry.id 4ELM # _exptl.entry_id 4ELM _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.53 _cell.angle_gamma 90 _cell.entry_id 4ELM _cell.length_a 98.514 _cell.length_b 126.996 _cell.length_c 104.349 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ELM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 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 tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 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,G,H,I,K,L,M,N 1 1 B,D,E,F,J,O,P,Q,R 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 ? 7 K N N ? 7 L N N ? 7 O N N ? 7 P N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 6 4 1 FUC NAG C1 O1 . O6 HO6 . 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 I NAG 1 I 1 NAG A 521 NAG 5 n I NAG 2 I 2 NAG A 522 NAG 6 n J NAG 1 J 1 NAG C 521 NAG 6 n J NAG 2 J 2 NAG C 522 NAG 6 n J BMA 3 J 3 BMA C 523 BMA 6 n J FUC 4 J 4 FUC C 525 FUC # 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 B SG CYS 104 C CYS 104 1_555 B SG CYS 168 C CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf4 B SG CYS 208 C CYS 208 1_555 B SG CYS 263 C CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 C SG CYS 25 B CYS 25 1_555 C SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 D SG CYS 25 D CYS 25 1_555 D SG CYS 80 D CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf7 E SG CYS 24 E CYS 24 1_555 E SG CYS 90 E CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf8 E SG CYS 162 E CYS 162 1_555 F SG CYS 172 F CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 F SG CYS 24 F CYS 23 1_555 F SG CYS 93 F CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 F SG CYS 146 F CYS 145 1_555 F SG CYS 211 F CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf11 G SG CYS 24 G CYS 24 1_555 G SG CYS 90 G CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 G SG CYS 137 G CYS 137 1_555 G SG CYS 187 G CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf13 G SG CYS 162 G CYS 162 1_555 H SG CYS 172 H CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf14 H SG CYS 24 H CYS 23 1_555 H SG CYS 93 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf15 H SG CYS 146 H CYS 145 1_555 H SG CYS 211 H CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 K C1 NAG . A NAG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 L C1 NAG . A NAG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale3 A ND2 ASN 165 A ASN 165 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale4 B ND2 ASN 20 C ASN 20 1_555 O C1 NAG . C NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale5 B ND2 ASN 42 C ASN 42 1_555 P C1 NAG . C NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 B ND2 ASN 165 C ASN 165 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale8 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 J O6 NAG . J NAG 1 1_555 J C1 FUC . J FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale10 J O4 NAG . J NAG 2 1_555 J C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _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 282 n n C1 O1 NAG sing 283 n n C1 O5 NAG sing 284 n n C1 H1 NAG sing 285 n n C2 C3 NAG sing 286 n n C2 N2 NAG sing 287 n n C2 H2 NAG sing 288 n n C3 C4 NAG sing 289 n n C3 O3 NAG sing 290 n n C3 H3 NAG sing 291 n n C4 C5 NAG sing 292 n n C4 O4 NAG sing 293 n n C4 H4 NAG sing 294 n n C5 C6 NAG sing 295 n n C5 O5 NAG sing 296 n n C5 H5 NAG sing 297 n n C6 O6 NAG sing 298 n n C6 H61 NAG sing 299 n n C6 H62 NAG sing 300 n n C7 C8 NAG sing 301 n n C7 N2 NAG sing 302 n n C7 O7 NAG doub 303 n n C8 H81 NAG sing 304 n n C8 H82 NAG sing 305 n n C8 H83 NAG sing 306 n n N2 HN2 NAG sing 307 n n O1 HO1 NAG sing 308 n n O3 HO3 NAG sing 309 n n O4 HO4 NAG sing 310 n n O6 HO6 NAG sing 311 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 4ELM _atom_sites.fract_transf_matrix[1][1] 0.010151 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003801 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007874 _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] 0.010233 _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 K 7 NAG A 1 303 501 NAG NAG . L 7 NAG A 1 304 511 NAG NAG . M 8 SGF A 1 305 2 SGF CIS . N 9 PLM A 1 306 3 PLM PLM . O 7 NAG C 1 501 501 NAG NAG . P 7 NAG C 1 502 511 NAG NAG . Q 8 SGF C 1 507 1 SGF CIS . R 9 PLM C 1 508 4 PLM PLM . # 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 . . . L 7 49.043 -21.21 -16.619 1 78.07 ? C1 NAG 304 A 1 HETATM 2 C C2 NAG . . . L 7 49.612 -19.936 -17.254 1 82.52 ? C2 NAG 304 A 1 HETATM 3 C C3 NAG . . . L 7 49.155 -19.727 -18.705 1 85.74 ? C3 NAG 304 A 1 HETATM 4 C C4 NAG . . . L 7 49.336 -20.984 -19.546 1 84.87 ? C4 NAG 304 A 1 HETATM 5 C C5 NAG . . . L 7 48.667 -22.15 -18.815 1 80.98 ? C5 NAG 304 A 1 HETATM 6 C C6 NAG . . . L 7 48.851 -23.462 -19.574 1 81.08 ? C6 NAG 304 A 1 HETATM 7 C C7 NAG . . . L 7 50.032 -18.246 -15.531 1 83.42 ? C7 NAG 304 A 1 HETATM 8 C C8 NAG . . . L 7 49.501 -17.038 -14.823 1 84.47 ? C8 NAG 304 A 1 HETATM 9 N N2 NAG . . . L 7 49.246 -18.77 -16.47 1 83.35 ? N2 NAG 304 A 1 HETATM 10 O O3 NAG . . . L 7 49.882 -18.681 -19.308 1 90.4 ? O3 NAG 304 A 1 HETATM 11 O O4 NAG . . . L 7 48.816 -20.788 -20.853 1 86.92 ? O4 NAG 304 A 1 HETATM 12 O O5 NAG . . . L 7 49.209 -22.3 -17.511 1 77.85 ? O5 NAG 304 A 1 HETATM 13 O O6 NAG . . . L 7 50.223 -23.785 -19.658 1 82.41 ? O6 NAG 304 A 1 HETATM 14 O O7 NAG . . . L 7 51.133 -18.7 -15.226 1 83.18 ? O7 NAG 304 A 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #