data_6F6I # _model_server_result.job_id YH4UzJmuBg5IdVueDJZzkw _model_server_result.datetime_utc '2024-10-14 03:13:21' _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 6f6i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 6F6I # _exptl.entry_id 6F6I _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 6F6I _cell.length_a 113.68 _cell.length_b 113.68 _cell.length_c 306.26 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6F6I _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 _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 -56.84 98.449768 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 -113.68 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 D 621 NAG 3 n C NAG 2 C 2 NAG D 622 NAG 3 n C BMA 3 C 3 BMA D 623 BMA 3 n C MAN 4 C 4 MAN D 624 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 81 A CYS 108 1_555 A SG CYS 108 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 94 A CYS 121 1_555 A SG CYS 120 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 201 A ASN 228 1_555 E C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 211 A ASN 238 1_555 F C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale3 A ND2 ASN 230 A ASN 257 1_555 D C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 A ND2 ASN 241 A ASN 268 1_555 G C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.419 ? covale ? covale5 B ND2 ASN 62 B ASN 563 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? # _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 354 n n C1 O1 NAG sing 355 n n C1 O5 NAG sing 356 n n C1 H1 NAG sing 357 n n C2 C3 NAG sing 358 n n C2 N2 NAG sing 359 n n C2 H2 NAG sing 360 n n C3 C4 NAG sing 361 n n C3 O3 NAG sing 362 n n C3 H3 NAG sing 363 n n C4 C5 NAG sing 364 n n C4 O4 NAG sing 365 n n C4 H4 NAG sing 366 n n C5 C6 NAG sing 367 n n C5 O5 NAG sing 368 n n C5 H5 NAG sing 369 n n C6 O6 NAG sing 370 n n C6 H61 NAG sing 371 n n C6 H62 NAG sing 372 n n C7 C8 NAG sing 373 n n C7 N2 NAG sing 374 n n C7 O7 NAG doub 375 n n C8 H81 NAG sing 376 n n C8 H82 NAG sing 377 n n C8 H83 NAG sing 378 n n N2 HN2 NAG sing 379 n n O1 HO1 NAG sing 380 n n O3 HO3 NAG sing 381 n n O4 HO4 NAG sing 382 n n O6 HO6 NAG sing 383 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 6F6I _atom_sites.fract_transf_matrix[1][1] 0.008797 _atom_sites.fract_transf_matrix[1][2] 0.005079 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010157 _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] 0.003265 _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 1 501 2 NAG NAG . E 4 NAG A 1 502 10 NAG NAG . F 4 NAG A 1 503 11 NAG NAG . G 4 NAG A 1 504 12 NAG NAG . H 5 DMS A 1 505 1 DMS DMS . I 6 GOL A 1 506 1 GOL GOL . J 6 GOL A 1 507 4 GOL GOL . K 6 GOL A 1 508 5 GOL GOL . L 7 8PR A 1 509 1 8PR 8PR . M 6 GOL B 1 705 2 GOL GOL . N 6 GOL B 1 706 3 GOL GOL . O 8 HOH A 1 601 138 HOH HOH . O 8 HOH A 2 602 26 HOH HOH . O 8 HOH A 3 603 145 HOH HOH . O 8 HOH A 4 604 135 HOH HOH . O 8 HOH A 5 605 153 HOH HOH . O 8 HOH A 6 606 23 HOH HOH . O 8 HOH A 7 607 204 HOH HOH . O 8 HOH A 8 608 170 HOH HOH . O 8 HOH A 9 609 201 HOH HOH . O 8 HOH A 10 610 147 HOH HOH . O 8 HOH A 11 611 180 HOH HOH . O 8 HOH A 12 612 159 HOH HOH . O 8 HOH A 13 613 148 HOH HOH . O 8 HOH A 14 614 85 HOH HOH . O 8 HOH A 15 615 13 HOH HOH . O 8 HOH A 16 616 45 HOH HOH . O 8 HOH A 17 617 6 HOH HOH . O 8 HOH A 18 618 2 HOH HOH . O 8 HOH A 19 619 142 HOH HOH . O 8 HOH A 20 620 198 HOH HOH . O 8 HOH A 21 621 42 HOH HOH . O 8 HOH A 22 622 10 HOH HOH . O 8 HOH A 23 623 166 HOH HOH . O 8 HOH A 24 624 144 HOH HOH . O 8 HOH A 25 625 1 HOH HOH . O 8 HOH A 26 626 179 HOH HOH . O 8 HOH A 27 627 141 HOH HOH . O 8 HOH A 28 628 146 HOH HOH . O 8 HOH A 29 629 214 HOH HOH . O 8 HOH A 30 630 152 HOH HOH . O 8 HOH A 31 631 163 HOH HOH . O 8 HOH A 32 632 178 HOH HOH . O 8 HOH A 33 633 190 HOH HOH . O 8 HOH A 34 634 186 HOH HOH . O 8 HOH A 35 635 71 HOH HOH . O 8 HOH A 36 636 27 HOH HOH . O 8 HOH A 37 637 177 HOH HOH . O 8 HOH A 38 638 165 HOH HOH . O 8 HOH A 39 639 12 HOH HOH . O 8 HOH A 40 640 203 HOH HOH . O 8 HOH A 41 641 213 HOH HOH . O 8 HOH A 42 642 30 HOH HOH . O 8 HOH A 43 643 168 HOH HOH . O 8 HOH A 44 644 93 HOH HOH . O 8 HOH A 45 645 205 HOH HOH . O 8 HOH A 46 646 131 HOH HOH . O 8 HOH A 47 647 188 HOH HOH . O 8 HOH A 48 648 136 HOH HOH . O 8 HOH A 49 649 193 HOH HOH . O 8 HOH A 50 650 82 HOH HOH . O 8 HOH A 51 651 11 HOH HOH . O 8 HOH A 52 652 199 HOH HOH . O 8 HOH A 53 653 86 HOH HOH . O 8 HOH A 54 654 211 HOH HOH . O 8 HOH A 55 655 192 HOH HOH . O 8 HOH A 56 656 132 HOH HOH . O 8 HOH A 57 657 51 HOH HOH . O 8 HOH A 58 658 206 HOH HOH . O 8 HOH A 59 659 92 HOH HOH . O 8 HOH A 60 660 140 HOH HOH . O 8 HOH A 61 661 133 HOH HOH . O 8 HOH A 62 662 76 HOH HOH . O 8 HOH A 63 663 137 HOH HOH . O 8 HOH A 64 664 143 HOH HOH . O 8 HOH A 65 665 83 HOH HOH . O 8 HOH A 66 666 164 HOH HOH . O 8 HOH A 67 667 161 HOH HOH . O 8 HOH A 68 668 154 HOH HOH . P 8 HOH B 1 801 212 HOH HOH . P 8 HOH B 2 802 160 HOH HOH . P 8 HOH B 3 803 210 HOH HOH . P 8 HOH B 4 804 169 HOH HOH . P 8 HOH B 5 805 207 HOH HOH . P 8 HOH B 6 806 8 HOH HOH . P 8 HOH B 7 807 191 HOH HOH . P 8 HOH B 8 808 173 HOH HOH . P 8 HOH B 9 809 167 HOH HOH . P 8 HOH B 10 810 176 HOH HOH . P 8 HOH B 11 811 195 HOH HOH . P 8 HOH B 12 812 158 HOH HOH . P 8 HOH B 13 813 171 HOH HOH . P 8 HOH B 14 814 197 HOH HOH . P 8 HOH B 15 815 3 HOH HOH . P 8 HOH B 16 816 184 HOH HOH . P 8 HOH B 17 817 22 HOH HOH . P 8 HOH B 18 818 175 HOH HOH . P 8 HOH B 19 819 16 HOH HOH . P 8 HOH B 20 820 200 HOH HOH . P 8 HOH B 21 821 130 HOH HOH . P 8 HOH B 22 822 156 HOH HOH . P 8 HOH B 23 823 34 HOH HOH . P 8 HOH B 24 824 182 HOH HOH . P 8 HOH B 25 825 196 HOH HOH . P 8 HOH B 26 826 129 HOH HOH . P 8 HOH B 27 827 187 HOH HOH . P 8 HOH B 28 828 32 HOH HOH . P 8 HOH B 29 829 183 HOH HOH . P 8 HOH B 30 830 215 HOH HOH . P 8 HOH B 31 831 185 HOH HOH . P 8 HOH B 32 832 208 HOH HOH . P 8 HOH B 33 833 194 HOH HOH . P 8 HOH B 34 834 29 HOH HOH . P 8 HOH B 35 835 209 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 . . . D 4 -38.214 -1.072 -40.316 1 66.79 ? C1 NAG 501 A 1 HETATM 2 C C2 NAG . . . D 4 -38.107 0.168 -39.428 1 74.62 ? C2 NAG 501 A 1 HETATM 3 C C3 NAG . . . D 4 -37.193 1.204 -40.074 1 86.11 ? C3 NAG 501 A 1 HETATM 4 C C4 NAG . . . D 4 -35.842 0.583 -40.402 1 82.21 ? C4 NAG 501 A 1 HETATM 5 C C5 NAG . . . D 4 -36.036 -0.664 -41.259 1 78.23 ? C5 NAG 501 A 1 HETATM 6 C C6 NAG . . . D 4 -34.746 -1.4 -41.536 1 86.17 ? C6 NAG 501 A 1 HETATM 7 C C7 NAG . . . D 4 -39.818 1.119 -37.946 1 91.53 ? C7 NAG 501 A 1 HETATM 8 C C8 NAG . . . D 4 -41.205 1.682 -37.856 1 90.58 ? C8 NAG 501 A 1 HETATM 9 N N2 NAG . . . D 4 -39.419 0.736 -39.164 1 88.32 ? N2 NAG 501 A 1 HETATM 10 O O3 NAG . . . D 4 -37.023 2.306 -39.19 1 84.54 ? O3 NAG 501 A 1 HETATM 11 O O4 NAG . . . D 4 -35.029 1.518 -41.103 1 82.51 ? O4 NAG 501 A 1 HETATM 12 O O5 NAG . . . D 4 -36.902 -1.588 -40.585 1 79.94 ? O5 NAG 501 A 1 HETATM 13 O O6 NAG . . . D 4 -33.839 -1.293 -40.447 1 82.47 ? O6 NAG 501 A 1 HETATM 14 O O7 NAG . . . D 4 -39.093 1.014 -36.962 1 81.01 ? O7 NAG 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 346 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #