data_6G95 # _model_server_result.job_id 4Q1Z7R-by8PQT_ZchIdr_Q _model_server_result.datetime_utc '2024-11-28 04:27:32' _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 6g95 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":602}' # _entry.id 6G95 # _exptl.entry_id 6G95 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _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 90 _cell.angle_gamma 120 _cell.entry_id 6G95 _cell.length_a 113.97 _cell.length_b 113.97 _cell.length_c 305.66 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6G95 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -56.985 98.700915 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -113.97 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . 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 B 701 NAG 3 n C NAG 2 C 2 NAG B 702 NAG 3 n C BMA 3 C 3 BMA B 703 BMA 3 n C MAN 4 C 4 MAN B 704 MAN # 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 26 A CYS 53 1_555 B SG CYS 108 B CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 A SG CYS 81 A CYS 108 1_555 A SG CYS 108 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf3 A SG CYS 94 A CYS 121 1_555 A SG CYS 120 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? covale ? covale1 A ND2 ASN 201 A ASN 228 1_555 E C1 NAG . A NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 211 A ASN 238 1_555 F C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 A ND2 ASN 230 A ASN 257 1_555 D C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 A ND2 ASN 241 A ASN 268 1_555 G C1 NAG . A NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale5 B ND2 ASN 62 B ASN 563 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? # _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 307 n n C1 O1 NAG sing 308 n n C1 O5 NAG sing 309 n n C1 H1 NAG sing 310 n n C2 C3 NAG sing 311 n n C2 N2 NAG sing 312 n n C2 H2 NAG sing 313 n n C3 C4 NAG sing 314 n n C3 O3 NAG sing 315 n n C3 H3 NAG sing 316 n n C4 C5 NAG sing 317 n n C4 O4 NAG sing 318 n n C4 H4 NAG sing 319 n n C5 C6 NAG sing 320 n n C5 O5 NAG sing 321 n n C5 H5 NAG sing 322 n n C6 O6 NAG sing 323 n n C6 H61 NAG sing 324 n n C6 H62 NAG sing 325 n n C7 C8 NAG sing 326 n n C7 N2 NAG sing 327 n n C7 O7 NAG doub 328 n n C8 H81 NAG sing 329 n n C8 H82 NAG sing 330 n n C8 H83 NAG sing 331 n n N2 HN2 NAG sing 332 n n O1 HO1 NAG sing 333 n n O3 HO3 NAG sing 334 n n O4 HO4 NAG sing 335 n n O6 HO6 NAG sing 336 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 6G95 _atom_sites.fract_transf_matrix[1][1] 0.008774 _atom_sites.fract_transf_matrix[1][2] 0.005066 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010132 _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] 0.003272 _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 D 4 NAG A 1 601 601 NAG NAG . E 4 NAG A 1 602 602 NAG NAG . F 4 NAG A 1 603 603 NAG NAG . G 4 NAG A 1 604 604 NAG NAG . H 5 GOL A 1 605 605 GOL GOL . I 6 DMS A 1 606 607 DMS DMS . J 5 GOL A 1 607 3 GOL GOL . K 6 DMS A 1 608 1 DMS DMS . L 5 GOL B 1 705 1 GOL GOL . M 5 GOL B 1 706 2 GOL GOL . N 6 DMS B 1 707 3 DMS DMS . O 7 RTZ B 1 708 1 RTZ RTZ . P 8 HOH A 1 701 21 HOH HOH . P 8 HOH A 2 702 22 HOH HOH . P 8 HOH A 3 703 717 HOH HOH . P 8 HOH A 4 704 708 HOH HOH . P 8 HOH A 5 705 710 HOH HOH . P 8 HOH A 6 706 35 HOH HOH . P 8 HOH A 7 707 718 HOH HOH . P 8 HOH A 8 708 704 HOH HOH . P 8 HOH A 9 709 713 HOH HOH . P 8 HOH A 10 710 805 HOH HOH . P 8 HOH A 11 711 5 HOH HOH . P 8 HOH A 12 712 40 HOH HOH . P 8 HOH A 13 713 721 HOH HOH . P 8 HOH A 14 714 42 HOH HOH . P 8 HOH A 15 715 712 HOH HOH . P 8 HOH A 16 716 16 HOH HOH . P 8 HOH A 17 717 29 HOH HOH . P 8 HOH A 18 718 30 HOH HOH . P 8 HOH A 19 719 709 HOH HOH . P 8 HOH A 20 720 34 HOH HOH . P 8 HOH A 21 721 39 HOH HOH . P 8 HOH A 22 722 32 HOH HOH . P 8 HOH A 23 723 6 HOH HOH . P 8 HOH A 24 724 716 HOH HOH . P 8 HOH A 25 725 706 HOH HOH . P 8 HOH A 26 726 729 HOH HOH . P 8 HOH A 27 727 23 HOH HOH . P 8 HOH A 28 728 1 HOH HOH . P 8 HOH A 29 729 703 HOH HOH . P 8 HOH A 30 730 714 HOH HOH . P 8 HOH A 31 731 702 HOH HOH . P 8 HOH A 32 732 9 HOH HOH . P 8 HOH A 33 733 20 HOH HOH . P 8 HOH A 34 734 19 HOH HOH . P 8 HOH A 35 735 719 HOH HOH . P 8 HOH A 36 736 24 HOH HOH . P 8 HOH A 37 737 711 HOH HOH . P 8 HOH A 38 738 705 HOH HOH . P 8 HOH A 39 739 727 HOH HOH . P 8 HOH A 40 740 722 HOH HOH . P 8 HOH A 41 741 36 HOH HOH . P 8 HOH A 42 742 724 HOH HOH . P 8 HOH A 43 743 720 HOH HOH . P 8 HOH A 44 744 41 HOH HOH . P 8 HOH A 45 745 31 HOH HOH . P 8 HOH A 46 746 49 HOH HOH . P 8 HOH A 47 747 715 HOH HOH . P 8 HOH A 48 748 723 HOH HOH . P 8 HOH A 49 749 25 HOH HOH . P 8 HOH A 50 750 26 HOH HOH . P 8 HOH A 51 751 730 HOH HOH . P 8 HOH A 52 752 725 HOH HOH . P 8 HOH A 53 753 47 HOH HOH . P 8 HOH A 54 754 728 HOH HOH . P 8 HOH A 55 755 8 HOH HOH . P 8 HOH A 56 756 732 HOH HOH . Q 8 HOH B 1 801 801 HOH HOH . Q 8 HOH B 2 802 808 HOH HOH . Q 8 HOH B 3 803 12 HOH HOH . Q 8 HOH B 4 804 43 HOH HOH . Q 8 HOH B 5 805 18 HOH HOH . Q 8 HOH B 6 806 15 HOH HOH . Q 8 HOH B 7 807 7 HOH HOH . Q 8 HOH B 8 808 701 HOH HOH . Q 8 HOH B 9 809 806 HOH HOH . Q 8 HOH B 10 810 802 HOH HOH . Q 8 HOH B 11 811 44 HOH HOH . Q 8 HOH B 12 812 13 HOH HOH . Q 8 HOH B 13 813 816 HOH HOH . Q 8 HOH B 14 814 804 HOH HOH . Q 8 HOH B 15 815 14 HOH HOH . Q 8 HOH B 16 816 27 HOH HOH . Q 8 HOH B 17 817 37 HOH HOH . Q 8 HOH B 18 818 17 HOH HOH . Q 8 HOH B 19 819 803 HOH HOH . Q 8 HOH B 20 820 807 HOH HOH . Q 8 HOH B 21 821 810 HOH HOH . Q 8 HOH B 22 822 11 HOH HOH . Q 8 HOH B 23 823 48 HOH HOH . Q 8 HOH B 24 824 812 HOH HOH . Q 8 HOH B 25 825 28 HOH HOH . Q 8 HOH B 26 826 809 HOH HOH . Q 8 HOH B 27 827 3 HOH HOH . Q 8 HOH B 28 828 2 HOH HOH . Q 8 HOH B 29 829 811 HOH HOH . Q 8 HOH B 30 830 813 HOH HOH . Q 8 HOH B 31 831 45 HOH HOH . Q 8 HOH B 32 832 814 HOH HOH . Q 8 HOH B 33 833 10 HOH HOH . Q 8 HOH B 34 834 815 HOH HOH . Q 8 HOH B 35 835 46 HOH HOH . Q 8 HOH B 36 836 818 HOH HOH . Q 8 HOH B 37 837 821 HOH HOH . Q 8 HOH B 38 838 817 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 . . . E 4 -72.206 -2.359 -37.766 1 162.68 ? C1 NAG 602 A 1 HETATM 2 C C2 NAG . . . E 4 -73.669 -1.937 -37.801 1 172.89 ? C2 NAG 602 A 1 HETATM 3 C C3 NAG . . . E 4 -74.575 -3.109 -37.422 1 178.77 ? C3 NAG 602 A 1 HETATM 4 C C4 NAG . . . E 4 -73.83 -4.142 -36.582 1 182.25 ? C4 NAG 602 A 1 HETATM 5 C C5 NAG . . . E 4 -72.573 -4.657 -37.287 1 180.12 ? C5 NAG 602 A 1 HETATM 6 C C6 NAG . . . E 4 -72.811 -5.933 -38.061 1 177.89 ? C6 NAG 602 A 1 HETATM 7 C C7 NAG . . . E 4 -74.685 0.233 -37.27 1 166.46 ? C7 NAG 602 A 1 HETATM 8 C C8 NAG . . . E 4 -74.821 1.322 -36.247 1 159.3 ? C8 NAG 602 A 1 HETATM 9 N N2 NAG . . . E 4 -73.908 -0.8 -36.926 1 171.4 ? N2 NAG 602 A 1 HETATM 10 O O3 NAG . . . E 4 -75.085 -3.716 -38.605 1 176.98 ? O3 NAG 602 A 1 HETATM 11 O O4 NAG . . . E 4 -73.469 -3.58 -35.325 1 183.53 ? O4 NAG 602 A 1 HETATM 12 O O5 NAG . . . E 4 -72.089 -3.689 -38.228 1 174.76 ? O5 NAG 602 A 1 HETATM 13 O O6 NAG . . . E 4 -72.731 -7.076 -37.219 1 174.63 ? O6 NAG 602 A 1 HETATM 14 O O7 NAG . . . E 4 -75.253 0.286 -38.357 1 167.56 ? O7 NAG 602 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #