data_2V5N # _model_server_result.job_id 7f0YxGLsczHL8mD8f3UNsQ _model_server_result.datetime_utc '2024-11-29 16:07:18' _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 2v5n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":2797}' # _entry.id 2V5N # _exptl.entry_id 2V5N _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 2 _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 120 _cell.entry_id 2V5N _cell.length_a 64.793 _cell.length_b 64.793 _cell.length_c 269.569 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2V5N _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C 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 9 A CYS 1516 1_555 A SG CYS 46 A CYS 1553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 52 A CYS 1559 1_555 A SG CYS 59 A CYS 1566 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 91 A CYS 1598 1_555 A SG CYS 127 A CYS 1634 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf4 A SG CYS 107 A CYS 1614 1_555 A SG CYS 139 A CYS 1646 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf5 A SG CYS 145 A CYS 1652 1_555 A SG CYS 188 A CYS 1695 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 A SG CYS 199 A CYS 1706 1_555 A SG CYS 206 A CYS 1713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 A SG CYS 243 A CYS 1750 1_555 A SG CYS 276 A CYS 1783 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 A SG CYS 259 A CYS 1766 1_555 A SG CYS 288 A CYS 1795 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A C TYR 42 A TYR 1549 1_555 A N MSE 43 A MSE 1550 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C MSE 43 A MSE 1550 1_555 A N SER 44 A SER 1551 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 A C PRO 117 A PRO 1624 1_555 A N MSE 118 A MSE 1625 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 A C MSE 118 A MSE 1625 1_555 A N LEU 119 A LEU 1626 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale5 A ND2 ASN 149 A ASN 1656 1_555 B C1 NAG . A NAG 2797 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 A C PRO 193 A PRO 1700 1_555 A N MSE 194 A MSE 1701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 A C MSE 194 A MSE 1701 1_555 A N HIS 195 A HIS 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale8 A ND2 ASN 250 A ASN 1757 1_555 C C1 NAG . A NAG 2798 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale9 A C SER 264 A SER 1771 1_555 A N MSE 265 A MSE 1772 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale10 A C MSE 265 A MSE 1772 1_555 A N GLY 266 A GLY 1773 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 2V5N _atom_sites.fract_transf_matrix[1][1] 0.015434 _atom_sites.fract_transf_matrix[1][2] 0.008911 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017821 _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] 0.00371 _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 B 2 NAG A 1 2797 2797 NAG NAG . C 2 NAG A 1 2798 2798 NAG NAG . # 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 . . . B 2 9.799 29.168 -14.362 1 97.56 ? C1 NAG 2797 A 1 HETATM 2 C C2 NAG . . . B 2 11.235 29.704 -14.392 1 97.56 ? C2 NAG 2797 A 1 HETATM 3 C C3 NAG . . . B 2 11.436 30.523 -15.668 1 97.56 ? C3 NAG 2797 A 1 HETATM 4 C C4 NAG . . . B 2 11.084 29.67 -16.878 1 97.56 ? C4 NAG 2797 A 1 HETATM 5 C C5 NAG . . . B 2 9.658 29.115 -16.736 1 97.56 ? C5 NAG 2797 A 1 HETATM 6 C C6 NAG . . . B 2 9.267 28.199 -17.899 1 97.56 ? C6 NAG 2797 A 1 HETATM 7 C C7 NAG . . . B 2 11.258 31.69 -12.886 1 97.56 ? C7 NAG 2797 A 1 HETATM 8 C C8 NAG . . . B 2 12.087 32.335 -11.816 1 97.56 ? C8 NAG 2797 A 1 HETATM 9 N N2 NAG . . . B 2 11.59 30.429 -13.177 1 97.56 ? N2 NAG 2797 A 1 HETATM 10 O O3 NAG . . . B 2 12.769 30.956 -15.761 1 97.56 ? O3 NAG 2797 A 1 HETATM 11 O O4 NAG . . . B 2 11.187 30.482 -18.022 1 97.56 ? O4 NAG 2797 A 1 HETATM 12 O O5 NAG . . . B 2 9.515 28.394 -15.516 1 97.56 ? O5 NAG 2797 A 1 HETATM 13 O O6 NAG . . . B 2 10.064 27.029 -17.925 1 97.56 ? O6 NAG 2797 A 1 HETATM 14 O O7 NAG . . . B 2 10.341 32.32 -13.422 1 97.56 ? O7 NAG 2797 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #