data_3PRX # _model_server_result.job_id rhU_TlgiiehksnW2jffneA _model_server_result.datetime_utc '2025-07-12 19:12:04' _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 3prx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":2003}' # _entry.id 3PRX # _exptl.entry_id 3PRX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 90 _cell.entry_id 3PRX _cell.length_a 163.65 _cell.length_b 181.96 _cell.length_c 392.78 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PRX _symmetry.cell_setting ? _symmetry.Int_Tables_number 17 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_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,E,G,H,K 1 1 C,D,F,I,J,L 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 ? 5 K N N ? 5 L N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 4 n G NAG 1 E 1 NAG B 2001 NAG 4 n G NAG 2 E 2 NAG B 2002 NAG 4 n H NAG 1 F 1 NAG B 2003 NAG 4 n H NAG 2 F 2 NAG B 2004 NAG 4 n I NAG 1 G 1 NAG D 2001 NAG 4 n I NAG 2 G 2 NAG D 2002 NAG 4 n J NAG 1 H 1 NAG D 2003 NAG 4 n J NAG 2 H 2 NAG D 2004 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 567 A CYS 567 1_555 A SG CYS 810 A CYS 810 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? disulf ? disulf2 A SG CYS 634 A CYS 634 1_555 A SG CYS 669 A CYS 669 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 698 A CYS 698 1_555 A SG CYS 724 A CYS 724 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf4 A SG CYS 699 A CYS 699 1_555 A SG CYS 731 A CYS 731 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf5 A SG CYS 711 A CYS 711 1_555 A SG CYS 732 A CYS 732 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 856 A CYS 856 1_555 A SG CYS 883 A CYS 883 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 866 A CYS 866 1_555 A SG CYS 1527 A CYS 1527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 A SG CYS 1101 A CYS 1101 1_555 A SG CYS 1159 A CYS 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? disulf ? disulf9 A SG CYS 1375 A CYS 1375 1_555 A SG CYS 1505 A CYS 1505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf10 A SG CYS 1405 A CYS 1405 1_555 A SG CYS 1474 A CYS 1474 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf11 A SG CYS 1532 A CYS 1532 1_555 A SG CYS 1606 A CYS 1606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf12 A SG CYS 1553 A CYS 1553 1_555 A SG CYS 1676 A CYS 1676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf13 A SG CYS 1654 A CYS 1654 1_555 A SG CYS 1657 A CYS 1657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf14 B SG CYS 544 B CYS 544 1_555 B SG CYS 801 B CYS 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf15 B SG CYS 609 B CYS 609 1_555 B SG CYS 644 B CYS 644 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf16 B SG CYS 857 B CYS 857 1_555 B SG CYS 1492 B CYS 1492 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? disulf ? disulf17 B SG CYS 1340 B CYS 1340 1_555 B SG CYS 1468 B CYS 1468 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf18 B SG CYS 1368 B CYS 1368 1_555 B SG CYS 1437 B CYS 1437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf19 B SG CYS 1485 B CYS 1485 1_555 B SG CYS 1490 B CYS 1490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf20 B SG CYS 1497 B CYS 1497 1_555 B SG CYS 1569 B CYS 1569 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf21 B SG CYS 1516 B CYS 1516 1_555 B SG CYS 1640 B CYS 1640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf22 B SG CYS 1616 B CYS 1616 1_555 B SG CYS 1625 B CYS 1625 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf23 C SG CYS 567 C CYS 567 1_555 C SG CYS 810 C CYS 810 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf24 C SG CYS 634 C CYS 634 1_555 C SG CYS 669 C CYS 669 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf25 C SG CYS 698 C CYS 698 1_555 C SG CYS 724 C CYS 724 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf26 C SG CYS 699 C CYS 699 1_555 C SG CYS 731 C CYS 731 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf27 C SG CYS 711 C CYS 711 1_555 C SG CYS 732 C CYS 732 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? disulf ? disulf28 C SG CYS 856 C CYS 856 1_555 C SG CYS 883 C CYS 883 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf29 C SG CYS 866 C CYS 866 1_555 C SG CYS 1527 C CYS 1527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf30 C SG CYS 1101 C CYS 1101 1_555 C SG CYS 1159 C CYS 1159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf31 C SG CYS 1375 C CYS 1375 1_555 C SG CYS 1505 C CYS 1505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf32 C SG CYS 1405 C CYS 1405 1_555 C SG CYS 1474 C CYS 1474 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf33 C SG CYS 1532 C CYS 1532 1_555 C SG CYS 1606 C CYS 1606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf34 C SG CYS 1553 C CYS 1553 1_555 C SG CYS 1676 C CYS 1676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? disulf ? disulf35 C SG CYS 1654 C CYS 1654 1_555 C SG CYS 1657 C CYS 1657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf36 D SG CYS 544 D CYS 544 1_555 D SG CYS 801 D CYS 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf37 D SG CYS 609 D CYS 609 1_555 D SG CYS 644 D CYS 644 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf38 D SG CYS 857 D CYS 857 1_555 D SG CYS 1492 D CYS 1492 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf39 D SG CYS 1340 D CYS 1340 1_555 D SG CYS 1468 D CYS 1468 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf40 D SG CYS 1368 D CYS 1368 1_555 D SG CYS 1437 D CYS 1437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf41 D SG CYS 1485 D CYS 1485 1_555 D SG CYS 1490 D CYS 1490 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf42 D SG CYS 1497 D CYS 1497 1_555 D SG CYS 1569 D CYS 1569 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf43 D SG CYS 1516 D CYS 1516 1_555 D SG CYS 1640 D CYS 1640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf44 D SG CYS 1616 D CYS 1616 1_555 D SG CYS 1625 D CYS 1625 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 911 A ASN 911 1_555 K C1 NAG . A NAG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 B ND2 ASN 209 B ASN 209 1_555 G C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale3 B ND2 ASN 1346 B ASN 1346 1_555 H C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.476 ? covale ? covale4 C ND2 ASN 911 C ASN 911 1_555 L C1 NAG . C NAG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale5 D ND2 ASN 209 D ASN 209 1_555 I C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale6 D ND2 ASN 1346 D ASN 1346 1_555 J C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale7 G O4 NAG . E NAG 1 1_555 G C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.476 ? covale ? covale8 H O4 NAG . F NAG 1 1_555 H C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.515 ? covale ? covale9 I O4 NAG . G NAG 1 1_555 I C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.478 ? covale ? covale10 J O4 NAG . H NAG 1 1_555 J C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.497 ? # _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 3PRX _atom_sites.fract_transf_matrix[1][1] 0.006111 _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] 0.005496 _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] 0.002546 _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 5 NAG A 1 2003 2003 NAG NAG . L 5 NAG C 1 2003 2003 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 . . . K 5 32.822 10.237 -89.339 1 168.33 ? C1 NAG 2003 A 1 HETATM 2 C C2 NAG . . . K 5 33.861 10.286 -90.479 1 168.49 ? C2 NAG 2003 A 1 HETATM 3 C C3 NAG . . . K 5 35.397 10.338 -89.988 1 170.18 ? C3 NAG 2003 A 1 HETATM 4 C C4 NAG . . . K 5 35.744 11.218 -88.728 1 170.82 ? C4 NAG 2003 A 1 HETATM 5 C C5 NAG . . . K 5 34.562 10.936 -87.731 1 170.95 ? C5 NAG 2003 A 1 HETATM 6 C C6 NAG . . . K 5 34.677 11.628 -86.338 1 171.96 ? C6 NAG 2003 A 1 HETATM 7 C C7 NAG . . . K 5 32.559 9.144 -92.389 1 166.96 ? C7 NAG 2003 A 1 HETATM 8 C C8 NAG . . . K 5 32.059 7.851 -92.931 1 166.62 ? C8 NAG 2003 A 1 HETATM 9 N N2 NAG . . . K 5 33.495 9.19 -91.408 1 168.16 ? N2 NAG 2003 A 1 HETATM 10 O O3 NAG . . . K 5 36.344 10.774 -90.955 1 170.3 ? O3 NAG 2003 A 1 HETATM 11 O O4 NAG . . . K 5 37.121 11.22 -88.179 1 172.49 ? O4 NAG 2003 A 1 HETATM 12 O O5 NAG . . . K 5 33.225 11.13 -88.318 1 169.18 ? O5 NAG 2003 A 1 HETATM 13 O O6 NAG . . . K 5 33.372 11.999 -85.876 1 171.08 ? O6 NAG 2003 A 1 HETATM 14 O O7 NAG . . . K 5 32.053 10.089 -92.917 1 166.42 ? O7 NAG 2003 A 1 # _model_server_stats.io_time_ms 117 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 277 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #