data_6RMG # _model_server_result.job_id 49QTi4UE-FEXp8yLfnSUdA _model_server_result.datetime_utc '2025-02-05 07:53:01' _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 6rmg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1802}' # _entry.id 6RMG # _exptl.entry_id 6RMG _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _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 ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6RMG _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RMG _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_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 _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 ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n C NAG 1 C 1 NAG A 1805 NAG 3 n C NAG 2 C 2 NAG A 1806 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 203 A CYS 203 1_555 A SG CYS 226 A CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 234 A CYS 234 1_555 A SG CYS 327 A CYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 A SG CYS 296 A CYS 296 1_555 A SG CYS 304 A CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 141 A ASN 141 1_555 H C1 NAG . A NAG 1807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 A ND2 ASN 312 A ASN 312 1_555 D C1 NAG . A NAG 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 A ND2 ASN 349 A ASN 349 1_555 E C1 NAG . A NAG 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 414 A ASN 414 1_555 F C1 NAG . A NAG 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 A ND2 ASN 875 A ASN 875 1_555 G C1 NAG . A NAG 1804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 A ND2 ASN 1000 A ASN 1000 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? metalc ? metalc1 B NE2 HIS 228 B HIS 140 1_555 T ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc2 B OD1 ASP 235 B ASP 147 1_555 T ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc3 B OD2 ASP 235 B ASP 147 1_555 T ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc4 B ND1 HIS 270 B HIS 182 1_555 T ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 6RMG _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 D 4 NAG A 1 1801 1801 NAG NAG . E 4 NAG A 1 1802 1802 NAG NAG . F 4 NAG A 1 1803 1803 NAG NAG . G 4 NAG A 1 1804 1804 NAG NAG . H 4 NAG A 1 1807 1807 NAG NAG . I 5 Y01 A 1 1808 2001 Y01 Y01 . J 5 Y01 A 1 1809 2002 Y01 Y01 . K 5 Y01 A 1 1810 2003 Y01 Y01 . L 5 Y01 A 1 1811 2004 Y01 Y01 . M 5 Y01 A 1 1812 2005 Y01 Y01 . N 5 Y01 A 1 1813 2006 Y01 Y01 . O 5 Y01 A 1 1814 2007 Y01 Y01 . P 5 Y01 A 1 1815 2008 Y01 Y01 . Q 5 Y01 A 1 1816 2009 Y01 Y01 . R 5 Y01 A 1 1817 2010 Y01 Y01 . S 5 Y01 A 1 1818 2011 Y01 Y01 . T 6 ZN B 1 201 202 ZN ZN . # 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 . . . E 4 96.88 170.951 131.21 1 148.79 ? C1 NAG 1802 A 1 HETATM 2 C C2 NAG . . . E 4 96.402 172.346 131.598 1 148.79 ? C2 NAG 1802 A 1 HETATM 3 C C3 NAG . . . E 4 96.569 172.557 133.098 1 148.79 ? C3 NAG 1802 A 1 HETATM 4 C C4 NAG . . . E 4 95.874 171.441 133.867 1 148.79 ? C4 NAG 1802 A 1 HETATM 5 C C5 NAG . . . E 4 96.359 170.08 133.375 1 148.79 ? C5 NAG 1802 A 1 HETATM 6 C C6 NAG . . . E 4 95.629 168.921 134.012 1 148.79 ? C6 NAG 1802 A 1 HETATM 7 C C7 NAG . . . E 4 96.658 173.913 129.724 1 148.79 ? C7 NAG 1802 A 1 HETATM 8 C C8 NAG . . . E 4 97.533 174.953 129.093 1 148.79 ? C8 NAG 1802 A 1 HETATM 9 N N2 NAG . . . E 4 97.119 173.369 130.855 1 148.79 ? N2 NAG 1802 A 1 HETATM 10 O O3 NAG . . . E 4 96.022 173.818 133.465 1 148.79 ? O3 NAG 1802 A 1 HETATM 11 O O4 NAG . . . E 4 96.152 171.564 135.257 1 148.79 ? O4 NAG 1802 A 1 HETATM 12 O O5 NAG . . . E 4 96.157 169.97 131.958 1 148.79 ? O5 NAG 1802 A 1 HETATM 13 O O6 NAG . . . E 4 94.771 169.357 135.058 1 148.79 ? O6 NAG 1802 A 1 HETATM 14 O O7 NAG . . . E 4 95.585 173.58 129.23 1 148.79 ? O7 NAG 1802 A 1 HETATM 15 H H2 NAG . . . E 4 95.449 172.411 131.396 1 148.79 ? H2 NAG 1802 A 1 HETATM 16 H H3 NAG . . . E 4 97.52 172.546 133.315 1 148.79 ? H3 NAG 1802 A 1 HETATM 17 H H4 NAG . . . E 4 94.911 171.51 133.725 1 148.79 ? H4 NAG 1802 A 1 HETATM 18 H H5 NAG . . . E 4 97.313 170 133.565 1 148.79 ? H5 NAG 1802 A 1 HETATM 19 H H61 NAG . . . E 4 96.283 168.297 134.379 1 148.79 ? H61 NAG 1802 A 1 HETATM 20 H H62 NAG . . . E 4 95.099 168.464 133.332 1 148.79 ? H62 NAG 1802 A 1 HETATM 21 H H81 NAG . . . E 4 97.057 175.373 128.351 1 148.79 ? H81 NAG 1802 A 1 HETATM 22 H H82 NAG . . . E 4 98.348 174.532 128.758 1 148.79 ? H82 NAG 1802 A 1 HETATM 23 H H83 NAG . . . E 4 97.764 175.629 129.757 1 148.79 ? H83 NAG 1802 A 1 HETATM 24 H HN2 NAG . . . E 4 97.924 173.652 131.177 1 148.79 ? HN2 NAG 1802 A 1 HETATM 25 H HO3 NAG . . . E 4 96.556 174.206 134.059 1 148.79 ? HO3 NAG 1802 A 1 HETATM 26 H HO4 NAG . . . E 4 95.524 171.142 135.722 1 148.79 ? HO4 NAG 1802 A 1 HETATM 27 H HO6 NAG . . . E 4 94.18 168.719 135.239 1 148.79 ? HO6 NAG 1802 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #