data_7PRT # _model_server_result.job_id 3bRj6Nc02EP-XyoG15nk3Q _model_server_result.datetime_utc '2024-11-24 05:23:08' _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 7prt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":603}' # _entry.id 7PRT # _exptl.entry_id 7PRT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.894 _cell.angle_gamma 90 _cell.entry_id 7PRT _cell.length_a 46.808 _cell.length_b 71.622 _cell.length_c 78.739 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7PRT _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 _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 ? 5 E N N ? 5 F N N ? 5 G N N ? 5 H N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 FUC NAG C1 O1 . O6 HO6 . sing 2 ? 4 2 1 Z61 8I4 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 3 n C NAG 1 C 1 NAG AeA 605 NAG 3 n C FUC 2 C 2 FUC AfA 606 FUC 4 n D 8I4 1 D 1 8I4 AjA 1001 CBE 4 n D Z61 2 D 2 Z61 AjA 1001 CBE # 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 283 A CYS 437 1_555 A SG CYS 388 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? covale ? covale1 A ND2 ASN 8 A ASN 162 1_555 E C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 A ND2 ASN 46 A ASN 200 1_555 F C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale3 A ND2 ASN 63 A ASN 217 1_555 G C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale4 A ND2 ASN 84 A ASN 238 1_555 H C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale5 A OE2 GLU 189 A GLU 343 1_555 D C1 8I4 . D 8I4 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale6 A ND2 ASN 305 A ASN 459 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale7 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale8 D O4 8I4 . D 8I4 1 1_555 D C1 Z61 . D Z61 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.405 ? # _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 295 n n C1 O1 NAG sing 296 n n C1 O5 NAG sing 297 n n C1 H1 NAG sing 298 n n C2 C3 NAG sing 299 n n C2 N2 NAG sing 300 n n C2 H2 NAG sing 301 n n C3 C4 NAG sing 302 n n C3 O3 NAG sing 303 n n C3 H3 NAG sing 304 n n C4 C5 NAG sing 305 n n C4 O4 NAG sing 306 n n C4 H4 NAG sing 307 n n C5 C6 NAG sing 308 n n C5 O5 NAG sing 309 n n C5 H5 NAG sing 310 n n C6 O6 NAG sing 311 n n C6 H61 NAG sing 312 n n C6 H62 NAG sing 313 n n C7 C8 NAG sing 314 n n C7 N2 NAG sing 315 n n C7 O7 NAG doub 316 n n C8 H81 NAG sing 317 n n C8 H82 NAG sing 318 n n C8 H83 NAG sing 319 n n N2 HN2 NAG sing 320 n n O1 HO1 NAG sing 321 n n O3 HO3 NAG sing 322 n n O4 HO4 NAG sing 323 n n O6 HO6 NAG sing 324 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 7PRT _atom_sites.fract_transf_matrix[1][1] 0.021364 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001829 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013962 _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] 0.012747 _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 5 NAG A 1 601 601 NAG NAG . F 5 NAG A 1 602 602 NAG NAG . G 5 NAG A 1 603 603 NAG NAG . H 5 NAG A 1 604 604 NAG NAG . I 6 EDO A 1 605 701 EDO EDO . J 6 EDO A 1 606 801 EDO EDO . K 6 EDO A 1 607 901 EDO EDO . L 7 CL A 1 608 1 CL CL . M 7 CL A 1 609 2 CL CL . N 8 HOH A 1 701 76 HOH HOH . N 8 HOH A 2 702 5 HOH HOH . N 8 HOH A 3 703 73 HOH HOH . N 8 HOH A 4 704 2 HOH HOH . N 8 HOH A 5 705 91 HOH HOH . N 8 HOH A 6 706 56 HOH HOH . N 8 HOH A 7 707 20 HOH HOH . N 8 HOH A 8 708 72 HOH HOH . N 8 HOH A 9 709 62 HOH HOH . N 8 HOH A 10 710 13 HOH HOH . N 8 HOH A 11 711 37 HOH HOH . N 8 HOH A 12 712 65 HOH HOH . N 8 HOH A 13 713 27 HOH HOH . N 8 HOH A 14 714 45 HOH HOH . N 8 HOH A 15 715 47 HOH HOH . N 8 HOH A 16 716 24 HOH HOH . N 8 HOH A 17 717 84 HOH HOH . N 8 HOH A 18 718 69 HOH HOH . N 8 HOH A 19 719 97 HOH HOH . N 8 HOH A 20 720 4 HOH HOH . N 8 HOH A 21 721 78 HOH HOH . N 8 HOH A 22 722 8 HOH HOH . N 8 HOH A 23 723 81 HOH HOH . N 8 HOH A 24 724 58 HOH HOH . N 8 HOH A 25 725 21 HOH HOH . N 8 HOH A 26 726 38 HOH HOH . N 8 HOH A 27 727 98 HOH HOH . N 8 HOH A 28 728 14 HOH HOH . N 8 HOH A 29 729 41 HOH HOH . N 8 HOH A 30 730 50 HOH HOH . N 8 HOH A 31 731 96 HOH HOH . N 8 HOH A 32 732 59 HOH HOH . N 8 HOH A 33 733 48 HOH HOH . N 8 HOH A 34 734 3 HOH HOH . N 8 HOH A 35 735 11 HOH HOH . N 8 HOH A 36 736 9 HOH HOH . N 8 HOH A 37 737 16 HOH HOH . N 8 HOH A 38 738 67 HOH HOH . N 8 HOH A 39 739 36 HOH HOH . N 8 HOH A 40 740 40 HOH HOH . N 8 HOH A 41 741 55 HOH HOH . N 8 HOH A 42 742 82 HOH HOH . N 8 HOH A 43 743 75 HOH HOH . N 8 HOH A 44 744 23 HOH HOH . N 8 HOH A 45 745 63 HOH HOH . N 8 HOH A 46 746 52 HOH HOH . N 8 HOH A 47 747 10 HOH HOH . N 8 HOH A 48 748 32 HOH HOH . N 8 HOH A 49 749 64 HOH HOH . N 8 HOH A 50 750 92 HOH HOH . N 8 HOH A 51 751 12 HOH HOH . N 8 HOH A 52 752 57 HOH HOH . N 8 HOH A 53 753 46 HOH HOH . N 8 HOH A 54 754 43 HOH HOH . N 8 HOH A 55 755 51 HOH HOH . N 8 HOH A 56 756 19 HOH HOH . N 8 HOH A 57 757 88 HOH HOH . N 8 HOH A 58 758 86 HOH HOH . N 8 HOH A 59 759 39 HOH HOH . N 8 HOH A 60 760 66 HOH HOH . N 8 HOH A 61 761 61 HOH HOH . N 8 HOH A 62 762 31 HOH HOH . N 8 HOH A 63 763 90 HOH HOH . N 8 HOH A 64 764 6 HOH HOH . N 8 HOH A 65 765 79 HOH HOH . N 8 HOH A 66 766 83 HOH HOH . N 8 HOH A 67 767 17 HOH HOH . N 8 HOH A 68 768 89 HOH HOH . N 8 HOH A 69 769 15 HOH HOH . N 8 HOH A 70 770 33 HOH HOH . N 8 HOH A 71 771 68 HOH HOH . N 8 HOH A 72 772 54 HOH HOH . N 8 HOH A 73 773 25 HOH HOH . N 8 HOH A 74 774 70 HOH HOH . N 8 HOH A 75 775 77 HOH HOH . N 8 HOH A 76 776 85 HOH HOH . O 8 HOH B 1 101 44 HOH HOH . O 8 HOH B 2 102 34 HOH HOH . O 8 HOH B 3 103 18 HOH HOH . O 8 HOH B 4 104 35 HOH HOH . O 8 HOH B 5 105 93 HOH HOH . O 8 HOH B 6 106 71 HOH HOH . O 8 HOH B 7 107 49 HOH HOH . O 8 HOH B 8 108 53 HOH HOH . O 8 HOH B 9 109 94 HOH HOH . O 8 HOH B 10 110 42 HOH HOH . O 8 HOH B 11 111 60 HOH HOH . O 8 HOH B 12 112 80 HOH HOH . O 8 HOH B 13 113 28 HOH HOH . O 8 HOH B 14 114 87 HOH HOH . O 8 HOH B 15 115 95 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 . . . G 5 7.818 6.363 7.731 1 81.08 ? C1 NAG 603 A 1 HETATM 2 C C2 NAG . . . G 5 8.885 5.334 7.303 1 87.24 ? C2 NAG 603 A 1 HETATM 3 C C3 NAG . . . G 5 9.122 4.258 8.368 1 91.5 ? C3 NAG 603 A 1 HETATM 4 C C4 NAG . . . G 5 9.414 4.839 9.746 1 88.59 ? C4 NAG 603 A 1 HETATM 5 C C5 NAG . . . G 5 8.468 5.973 10.153 1 85.78 ? C5 NAG 603 A 1 HETATM 6 C C6 NAG . . . G 5 9.276 6.798 11.166 1 86.83 ? C6 NAG 603 A 1 HETATM 7 C C7 NAG . . . G 5 9.05 4.899 4.875 1 90.73 ? C7 NAG 603 A 1 HETATM 8 C C8 NAG . . . G 5 8.689 3.939 3.768 1 87.39 ? C8 NAG 603 A 1 HETATM 9 N N2 NAG . . . G 5 8.521 4.631 6.068 1 88.21 ? N2 NAG 603 A 1 HETATM 10 O O3 NAG . . . G 5 10.23 3.432 7.967 1 93.81 ? O3 NAG 603 A 1 HETATM 11 O O4 NAG . . . G 5 9.339 3.804 10.742 1 87.04 ? O4 NAG 603 A 1 HETATM 12 O O5 NAG . . . G 5 7.989 6.836 9.088 1 74.43 ? O5 NAG 603 A 1 HETATM 13 O O6 NAG . . . G 5 8.45 7.717 11.884 1 87.74 ? O6 NAG 603 A 1 HETATM 14 O O7 NAG . . . G 5 9.809 5.845 4.704 1 89.22 ? O7 NAG 603 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #