data_3SX4 # _model_server_result.job_id '_pIvPKOYOK-kjAF76FTH4A' _model_server_result.datetime_utc '2024-11-22 05:46:33' _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 3sx4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":5201}' # _entry.id 3SX4 # _exptl.entry_id 3SX4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 11 _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 3SX4 _cell.length_a 65.905 _cell.length_b 67.854 _cell.length_c 422.095 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SX4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 _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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 K N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 2 n C NAG 1 C 1 NAG A 2291 NAG 2 n C NAG 2 C 2 NAG A 2292 NAG 2 n D NAG 1 D 1 NAG B 2291 NAG 2 n D NAG 2 D 2 NAG B 2292 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 292 A CYS 328 1_555 A SG CYS 303 A CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 349 A CYS 385 1_555 A SG CYS 358 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf3 A SG CYS 408 A CYS 444 1_555 A SG CYS 411 A CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 A SG CYS 418 A CYS 454 1_555 A SG CYS 436 A CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? disulf ? disulf5 A SG CYS 613 A CYS 649 1_555 A SG CYS 726 A CYS 762 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf6 B SG CYS 292 B CYS 328 1_555 B SG CYS 303 B CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf7 B SG CYS 349 B CYS 385 1_555 B SG CYS 358 B CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf8 B SG CYS 408 B CYS 444 1_555 B SG CYS 411 B CYS 447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf9 B SG CYS 418 B CYS 454 1_555 B SG CYS 436 B CYS 472 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf10 B SG CYS 613 B CYS 649 1_555 B SG CYS 726 B CYS 762 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? covale ? covale1 A ND2 ASN 49 A ASN 85 1_555 E C1 NAG . A NAG 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale2 A ND2 ASN 114 A ASN 150 1_555 F C1 NAG . A NAG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale3 A ND2 ASN 183 A ASN 219 1_555 G C1 NAG . A NAG 2191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 A ND2 ASN 193 A ASN 229 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 A ND2 ASN 484 A ASN 520 1_555 I C1 NAG . A NAG 5201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 B ND2 ASN 49 B ASN 85 1_555 K C1 NAG . B NAG 851 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 B ND2 ASN 56 B ASN 92 1_555 L C1 NAG . B NAG 921 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale8 B ND2 ASN 114 B ASN 150 1_555 M C1 NAG . B NAG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale9 B ND2 ASN 183 B ASN 219 1_555 N C1 NAG . B NAG 2191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 B ND2 ASN 193 B ASN 229 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale11 B ND2 ASN 245 B ASN 281 1_555 O C1 NAG . B NAG 2811 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale12 B ND2 ASN 484 B ASN 520 1_555 P C1 NAG . B NAG 5201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale13 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale14 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _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 288 n n C1 O1 NAG sing 289 n n C1 O5 NAG sing 290 n n C1 H1 NAG sing 291 n n C2 C3 NAG sing 292 n n C2 N2 NAG sing 293 n n C2 H2 NAG sing 294 n n C3 C4 NAG sing 295 n n C3 O3 NAG sing 296 n n C3 H3 NAG sing 297 n n C4 C5 NAG sing 298 n n C4 O4 NAG sing 299 n n C4 H4 NAG sing 300 n n C5 C6 NAG sing 301 n n C5 O5 NAG sing 302 n n C5 H5 NAG sing 303 n n C6 O6 NAG sing 304 n n C6 H61 NAG sing 305 n n C6 H62 NAG sing 306 n n C7 C8 NAG sing 307 n n C7 N2 NAG sing 308 n n C7 O7 NAG doub 309 n n C8 H81 NAG sing 310 n n C8 H82 NAG sing 311 n n C8 H83 NAG sing 312 n n N2 HN2 NAG sing 313 n n O1 HO1 NAG sing 314 n n O3 HO3 NAG sing 315 n n O4 HO4 NAG sing 316 n n O6 HO6 NAG sing 317 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 3SX4 _atom_sites.fract_transf_matrix[1][1] 0.015173 _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] 0.014738 _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] 0.002369 _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 E 3 NAG A 1 851 851 NAG NAG . F 3 NAG A 1 1501 1501 NAG NAG . G 3 NAG A 1 2191 2191 NAG NAG . H 3 NAG A 1 2811 2811 NAG NAG . I 3 NAG A 1 5201 5201 NAG NAG . J 4 KXA A 1 1 1 KXA KXA . K 3 NAG B 1 851 851 NAG NAG . L 3 NAG B 1 921 921 NAG NAG . M 3 NAG B 1 1501 1501 NAG NAG . N 3 NAG B 1 2191 2191 NAG NAG . O 3 NAG B 1 2811 2811 NAG NAG . P 3 NAG B 1 5201 5201 NAG NAG . Q 4 KXA B 1 2 2 KXA KXA . R 5 HOH A 1 2 2 HOH HOH . R 5 HOH A 2 3 3 HOH HOH . R 5 HOH A 3 4 4 HOH HOH . R 5 HOH A 4 5 5 HOH HOH . R 5 HOH A 5 6 6 HOH HOH . R 5 HOH A 6 7 7 HOH HOH . R 5 HOH A 7 8 8 HOH HOH . R 5 HOH A 8 12 12 HOH HOH . R 5 HOH A 9 14 14 HOH HOH . R 5 HOH A 10 15 15 HOH HOH . R 5 HOH A 11 17 17 HOH HOH . R 5 HOH A 12 18 18 HOH HOH . R 5 HOH A 13 19 19 HOH HOH . R 5 HOH A 14 20 20 HOH HOH . R 5 HOH A 15 21 21 HOH HOH . R 5 HOH A 16 23 23 HOH HOH . R 5 HOH A 17 790 1 HOH HOH . S 5 HOH B 1 9 9 HOH HOH . S 5 HOH B 2 10 10 HOH HOH . S 5 HOH B 3 11 11 HOH HOH . S 5 HOH B 4 13 13 HOH HOH . S 5 HOH B 5 16 16 HOH HOH . S 5 HOH B 6 24 24 HOH HOH . # 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 . . . P 3 94.116 75.368 64.789 1 97.07 ? C1 NAG 5201 B 1 HETATM 2 C C2 NAG . . . P 3 92.628 75.206 64.484 1 101.22 ? C2 NAG 5201 B 1 HETATM 3 C C3 NAG . . . P 3 92.415 74.915 62.997 1 99.5 ? C3 NAG 5201 B 1 HETATM 4 C C4 NAG . . . P 3 93.177 75.938 62.153 1 101.85 ? C4 NAG 5201 B 1 HETATM 5 C C5 NAG . . . P 3 94.643 76.011 62.579 1 104.08 ? C5 NAG 5201 B 1 HETATM 6 C C6 NAG . . . P 3 95.415 77.072 61.804 1 97.37 ? C6 NAG 5201 B 1 HETATM 7 C C7 NAG . . . P 3 91.316 74.477 66.407 1 90.37 ? C7 NAG 5201 B 1 HETATM 8 C C8 NAG . . . P 3 90.379 73.413 66.903 1 77.95 ? C8 NAG 5201 B 1 HETATM 9 N N2 NAG . . . P 3 92.056 74.171 65.336 1 93.07 ? N2 NAG 5201 B 1 HETATM 10 O O3 NAG . . . P 3 91.037 74.934 62.68 1 88.66 ? O3 NAG 5201 B 1 HETATM 11 O O4 NAG . . . P 3 93.105 75.592 60.788 1 102.9 ? O4 NAG 5201 B 1 HETATM 12 O O5 NAG . . . P 3 94.724 76.328 63.951 1 102.06 ? O5 NAG 5201 B 1 HETATM 13 O O6 NAG . . . P 3 95.082 78.34 62.325 1 98.12 ? O6 NAG 5201 B 1 HETATM 14 O O7 NAG . . . P 3 91.377 75.567 66.985 1 90.58 ? O7 NAG 5201 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #