data_2PO6 # _model_server_result.job_id '_Wp_g4meTkz2nscXYaWKjA' _model_server_result.datetime_utc '2024-11-23 17:16:57' _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 2po6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":2000}' # _entry.id 2PO6 # _exptl.entry_id 2PO6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details 'chemical entity' _entity.formula_weight 221.208 _entity.id 7 _entity.src_method syn _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 94.78 _cell.angle_gamma 90 _cell.entry_id 2PO6 _cell.length_a 204.012 _cell.length_b 155.636 _cell.length_c 85.981 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PO6 _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 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,B,C,D,I,K,L,M 1 1 E,F,G,H,J,N,O 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 N 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 BMA NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . 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 I 1100 NAG 5 n I BMA 2 I 2 BMA I 1200 BMA 6 n J NAG 1 J 1 NAG J 3000 NAG 6 n J NAG 2 J 2 NAG J 3100 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 97 A CYS 102 1_555 A SG CYS 161 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf2 A SG CYS 201 A CYS 206 1_555 A SG CYS 256 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 C SG CYS 22 C CYS 22 1_555 C SG CYS 89 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf5 C SG CYS 136 C CYS 139 1_555 C SG CYS 186 C CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf6 C SG CYS 161 C CYS 164 1_555 D SG CYS 171 D CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf7 D SG CYS 22 D CYS 23 1_555 D SG CYS 90 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf8 D SG CYS 145 D CYS 148 1_555 D SG CYS 210 D CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf9 E SG CYS 97 E CYS 102 1_555 E SG CYS 161 E CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf10 E SG CYS 201 E CYS 206 1_555 E SG CYS 256 E CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf11 F SG CYS 25 F CYS 25 1_555 F SG CYS 80 F CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf12 G SG CYS 22 G CYS 22 1_555 G SG CYS 89 G CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf13 G SG CYS 136 G CYS 139 1_555 G SG CYS 186 G CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf14 G SG CYS 161 G CYS 164 1_555 H SG CYS 171 H CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf15 H SG CYS 22 H CYS 23 1_555 H SG CYS 90 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf16 H SG CYS 145 H CYS 148 1_555 H SG CYS 210 H CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? covale ? covale1 A ND2 ASN 15 A ASN 20 1_555 L C1 NAG . A NAG 2000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale2 A ND2 ASN 37 A ASN 42 1_555 K C1 NAG . A NAG 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale3 E ND2 ASN 15 E ASN 20 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 E OD1 ASN 37 E ASN 42 1_555 N C1 NAG . E NAG 4000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale5 I O4 NAG . I NAG 1 1_555 I C1 BMA . I BMA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale6 J O4 NAG . J NAG 1 1_555 J C1 NAG . J 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 418 n n C1 O1 NAG sing 419 n n C1 O5 NAG sing 420 n n C1 H1 NAG sing 421 n n C2 C3 NAG sing 422 n n C2 N2 NAG sing 423 n n C2 H2 NAG sing 424 n n C3 C4 NAG sing 425 n n C3 O3 NAG sing 426 n n C3 H3 NAG sing 427 n n C4 C5 NAG sing 428 n n C4 O4 NAG sing 429 n n C4 H4 NAG sing 430 n n C5 C6 NAG sing 431 n n C5 O5 NAG sing 432 n n C5 H5 NAG sing 433 n n C6 O6 NAG sing 434 n n C6 H61 NAG sing 435 n n C6 H62 NAG sing 436 n n C7 C8 NAG sing 437 n n C7 N2 NAG sing 438 n n C7 O7 NAG doub 439 n n C8 H81 NAG sing 440 n n C8 H82 NAG sing 441 n n C8 H83 NAG sing 442 n n N2 HN2 NAG sing 443 n n O1 HO1 NAG sing 444 n n O3 HO3 NAG sing 445 n n O4 HO4 NAG sing 446 n n O6 HO6 NAG sing 447 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 2PO6 _atom_sites.fract_transf_matrix[1][1] 0.004902 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00041 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006425 _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] 0.011671 _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 1000 1000 NAG NAG . L 7 NAG A 1 2000 2000 NAG NAG . M 8 AGH C 1 208 1 AGH AGH . N 7 NAG E 1 4000 4000 NAG NAG . O 8 AGH E 1 2 2 AGH AGH . # 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 46.606 0.681 -5.108 1 66.92 ? C1 NAG 2000 A 1 HETATM 2 C C2 NAG . . . L 7 45.306 0.448 -5.891 1 68.24 ? C2 NAG 2000 A 1 HETATM 3 C C3 NAG . . . L 7 45.442 -0.679 -6.913 1 68.75 ? C3 NAG 2000 A 1 HETATM 4 C C4 NAG . . . L 7 46.681 -0.489 -7.788 1 68.99 ? C4 NAG 2000 A 1 HETATM 5 C C5 NAG . . . L 7 47.937 -0.257 -6.94 1 68.65 ? C5 NAG 2000 A 1 HETATM 6 C C6 NAG . . . L 7 49.103 0.118 -7.865 1 68.7 ? C6 NAG 2000 A 1 HETATM 7 C C7 NAG . . . L 7 43.25 1.073 -4.734 1 68.43 ? C7 NAG 2000 A 1 HETATM 8 C C8 NAG . . . L 7 42.777 1.15 -3.31 1 68.32 ? C8 NAG 2000 A 1 HETATM 9 N N2 NAG . . . L 7 44.192 0.165 -5.001 1 68.41 ? N2 NAG 2000 A 1 HETATM 10 O O3 NAG . . . L 7 44.291 -0.694 -7.729 1 69.29 ? O3 NAG 2000 A 1 HETATM 11 O O4 NAG . . . L 7 46.857 -1.604 -8.644 1 69.35 ? O4 NAG 2000 A 1 HETATM 12 O O5 NAG . . . L 7 47.721 0.783 -5.991 1 67.96 ? O5 NAG 2000 A 1 HETATM 13 O O6 NAG . . . L 7 50.276 0.442 -7.152 1 68.07 ? O6 NAG 2000 A 1 HETATM 14 O O7 NAG . . . L 7 42.779 1.823 -5.59 1 68.14 ? O7 NAG 2000 A 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 99 _model_server_stats.query_time_ms 720 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #