data_5FBH # _model_server_result.job_id 4Ci5DUJFMLeRLtDKBjRNxA _model_server_result.datetime_utc '2024-11-14 06:48:35' _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 5fbh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":606}' # _entry.id 5FBH # _exptl.entry_id 5FBH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 105.15 _cell.angle_gamma 90 _cell.entry_id 5FBH _cell.length_a 172.107 _cell.length_b 83.106 _cell.length_c 94.47 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FBH _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 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,U,V _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 ? 6 H N N ? 6 I N N ? 6 J N N ? 6 P N N ? 6 Q N N ? 6 R N N ? 6 S 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 87 B CYS 60 1_555 A SG CYS 128 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf2 A SG CYS 385 B CYS 358 1_555 A SG CYS 422 B CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 A SG CYS 464 B CYS 437 1_555 A SG CYS 476 B CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf4 B SG CYS 87 A CYS 60 1_555 B SG CYS 128 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf5 B SG CYS 385 A CYS 358 1_555 B SG CYS 422 A CYS 395 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 B SG CYS 464 A CYS 437 1_555 B SG CYS 476 A CYS 449 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? covale ? covale1 A C ILE 262 B ILE 235 1_555 A N CSO 263 B CSO 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C CSO 263 B CSO 236 1_555 A N ILE 264 B ILE 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 A ND2 ASN 288 B ASN 261 1_555 H C1 NAG . B NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 A ND2 ASN 314 B ASN 287 1_555 I C1 NAG . B NAG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 A ND2 ASN 495 B ASN 468 1_555 J C1 NAG . B NAG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 A C GLU 508 B GLU 481 1_555 A N CSO 509 B CSO 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale7 A C CSO 509 B CSO 482 1_555 A N GLY 510 B GLY 483 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale8 B C ILE 262 A ILE 235 1_555 B N CSO 263 A CSO 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale9 B C CSO 263 A CSO 236 1_555 B N ILE 264 A ILE 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale10 B ND2 ASN 288 A ASN 261 1_555 P C1 NAG . A NAG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale11 B ND2 ASN 314 A ASN 287 1_555 Q C1 NAG . A NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale12 B ND2 ASN 495 A ASN 468 1_555 R C1 NAG . A NAG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale13 B C GLU 508 A GLU 481 1_555 B N CSO 509 A CSO 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale14 B C CSO 509 A CSO 482 1_555 B N GLY 510 A GLY 483 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale15 B ND2 ASN 515 A ASN 488 1_555 S C1 NAG . A NAG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 A O ILE 108 B ILE 81 1_555 E MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc2 A O LEU 114 B LEU 87 1_555 E MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? metalc ? metalc3 A O LEU 115 B LEU 88 1_555 E MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc4 A OE1 GLU 256 B GLU 229 1_555 C GD GD3 . B GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.735 ? metalc ? metalc5 A OE2 GLU 256 B GLU 229 1_555 C GD GD3 . B GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc6 A OE1 GLU 259 B GLU 232 1_555 C GD GD3 . B GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc7 A O SER 267 B SER 240 1_555 D MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc8 A OG SER 267 B SER 240 1_555 D MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? metalc ? metalc9 D MG MG . B MG 602 1_555 U O HOH . B HOH 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc10 B O ILE 108 A ILE 81 1_555 M MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? metalc ? metalc11 B O SER 111 A SER 84 1_555 M MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.754 ? metalc ? metalc12 B O LEU 114 A LEU 87 1_555 M MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc13 B O LEU 115 A LEU 88 1_555 M MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc14 B OE1 GLU 256 A GLU 229 1_555 L GD GD3 . A GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? metalc ? metalc15 B OE2 GLU 256 A GLU 229 1_555 L GD GD3 . A GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc16 B OE1 GLU 259 A GLU 232 1_555 L GD GD3 . A GD3 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? # _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 ? # 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 5FBH _atom_sites.fract_transf_matrix[1][1] 0.00581 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001573 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012033 _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] 0.010967 _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 C 2 GD3 B 1 601 601 GD3 GD3 . D 3 MG B 1 602 602 MG MG . E 3 MG B 1 603 603 MG MG . F 4 BCT B 1 604 604 BCT BCT . G 5 CL B 1 605 605 CL CL . H 6 NAG B 1 606 606 NAG NAG . I 6 NAG B 1 607 607 NAG NAG . J 6 NAG B 1 608 608 NAG NAG . K 7 TCR B 1 609 609 TCR TCR . L 2 GD3 A 1 601 601 GD3 GD3 . M 3 MG A 1 602 602 MG MG . N 4 BCT A 1 603 603 BCT BCT . O 5 CL A 1 604 604 CL CL . P 6 NAG A 1 605 605 NAG NAG . Q 6 NAG A 1 606 606 NAG NAG . R 6 NAG A 1 607 607 NAG NAG . S 6 NAG A 1 608 608 NAG NAG . T 7 TCR A 1 609 609 TCR TCR . U 8 HOH B 1 701 701 HOH HOH . U 8 HOH B 2 702 702 HOH HOH . U 8 HOH B 3 703 703 HOH HOH . U 8 HOH B 4 704 704 HOH HOH . U 8 HOH B 5 705 705 HOH HOH . U 8 HOH B 6 706 706 HOH HOH . U 8 HOH B 7 707 707 HOH HOH . U 8 HOH B 8 708 708 HOH HOH . U 8 HOH B 9 709 709 HOH HOH . U 8 HOH B 10 710 710 HOH HOH . U 8 HOH B 11 711 711 HOH HOH . V 8 HOH A 1 701 701 HOH HOH . V 8 HOH A 2 702 702 HOH HOH . V 8 HOH A 3 703 703 HOH HOH . V 8 HOH A 4 704 704 HOH HOH . V 8 HOH A 5 705 705 HOH HOH . V 8 HOH A 6 706 706 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 . . . H 6 -64.524 -35.634 25.637 1 105.01 ? C1 NAG 606 B 1 HETATM 2 C C2 NAG . . . H 6 -63.931 -36.927 25.062 1 115.7 ? C2 NAG 606 B 1 HETATM 3 C C3 NAG . . . H 6 -64.798 -37.347 23.883 1 122.49 ? C3 NAG 606 B 1 HETATM 4 C C4 NAG . . . H 6 -66.204 -37.665 24.396 1 125.99 ? C4 NAG 606 B 1 HETATM 5 C C5 NAG . . . H 6 -66.829 -36.439 25.096 1 121.79 ? C5 NAG 606 B 1 HETATM 6 C C6 NAG . . . H 6 -68.067 -36.825 25.93 1 112.08 ? C6 NAG 606 B 1 HETATM 7 C C7 NAG . . . H 6 -61.456 -37.06 25.376 1 106.92 ? C7 NAG 606 B 1 HETATM 8 C C8 NAG . . . H 6 -60.119 -36.921 24.705 1 104.56 ? C8 NAG 606 B 1 HETATM 9 N N2 NAG . . . H 6 -62.54 -36.831 24.607 1 112.31 ? N2 NAG 606 B 1 HETATM 10 O O3 NAG . . . H 6 -64.211 -38.457 23.241 1 126.46 ? O3 NAG 606 B 1 HETATM 11 O O4 NAG . . . H 6 -67.03 -38.108 23.335 1 108.21 ? O4 NAG 606 B 1 HETATM 12 O O5 NAG . . . H 6 -65.917 -35.727 25.934 1 113.38 ? O5 NAG 606 B 1 HETATM 13 O O6 NAG . . . H 6 -67.801 -36.795 27.323 1 88.7 ? O6 NAG 606 B 1 HETATM 14 O O7 NAG . . . H 6 -61.474 -37.359 26.572 1 92.59 ? O7 NAG 606 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #