data_6F6N # _model_server_result.job_id EeAuB3VaoA-93lrVz69fJw _model_server_result.datetime_utc '2024-11-23 06:54:16' _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 6f6n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 6F6N # _exptl.entry_id 6F6N _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 6F6N _cell.length_a 114.25 _cell.length_b 114.25 _cell.length_c 306.19 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6F6N _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 -57.125 98.943402 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 -114.25 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 . O3 HO3 . sing 4 ? 3 5 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 625 MAN 3 n C MAN 5 C 5 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 81 A CYS 108 1_555 A SG CYS 108 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 94 A CYS 121 1_555 A SG CYS 120 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf4 B SG CYS 10 B CYS 511 1_555 B SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 B SG CYS 100 B CYS 601 1_555 B SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A ND2 ASN 201 A ASN 228 1_555 E C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 A ND2 ASN 211 A ASN 238 1_555 F C1 NAG . A NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 230 A ASN 257 1_555 D C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 A ND2 ASN 241 A ASN 268 1_555 G C1 NAG . A NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale5 B ND2 ASN 62 B ASN 563 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale8 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale9 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _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 6F6N _atom_sites.fract_transf_matrix[1][1] 0.008753 _atom_sites.fract_transf_matrix[1][2] 0.005053 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010107 _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] 0.003266 _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 GOL A 1 505 4 GOL GOL . I 5 GOL A 1 506 5 GOL GOL . J 5 GOL A 1 507 9 GOL GOL . K 6 SRE A 1 508 1 SRE SRE . L 7 DMS B 1 706 2 DMS DMS . M 5 GOL B 1 707 6 GOL GOL . N 5 GOL B 1 708 8 GOL GOL . O 8 HOH A 1 601 147 HOH HOH . O 8 HOH A 2 602 153 HOH HOH . O 8 HOH A 3 603 182 HOH HOH . O 8 HOH A 4 604 159 HOH HOH . O 8 HOH A 5 605 145 HOH HOH . O 8 HOH A 6 606 222 HOH HOH . O 8 HOH A 7 607 192 HOH HOH . O 8 HOH A 8 608 138 HOH HOH . O 8 HOH A 9 609 26 HOH HOH . O 8 HOH A 10 610 185 HOH HOH . O 8 HOH A 11 611 209 HOH HOH . O 8 HOH A 12 612 225 HOH HOH . O 8 HOH A 13 613 232 HOH HOH . O 8 HOH A 14 614 144 HOH HOH . O 8 HOH A 15 615 195 HOH HOH . O 8 HOH A 16 616 45 HOH HOH . O 8 HOH A 17 617 239 HOH HOH . O 8 HOH A 18 618 151 HOH HOH . O 8 HOH A 19 619 191 HOH HOH . O 8 HOH A 20 620 213 HOH HOH . O 8 HOH A 21 621 76 HOH HOH . O 8 HOH A 22 622 2 HOH HOH . O 8 HOH A 23 623 42 HOH HOH . O 8 HOH A 24 624 141 HOH HOH . O 8 HOH A 25 625 148 HOH HOH . O 8 HOH A 26 626 6 HOH HOH . O 8 HOH A 27 627 142 HOH HOH . O 8 HOH A 28 628 146 HOH HOH . O 8 HOH A 29 629 11 HOH HOH . O 8 HOH A 30 630 23 HOH HOH . O 8 HOH A 31 631 166 HOH HOH . O 8 HOH A 32 632 152 HOH HOH . O 8 HOH A 33 633 132 HOH HOH . O 8 HOH A 34 634 186 HOH HOH . O 8 HOH A 35 635 1 HOH HOH . O 8 HOH A 36 636 187 HOH HOH . O 8 HOH A 37 637 13 HOH HOH . O 8 HOH A 38 638 71 HOH HOH . O 8 HOH A 39 639 27 HOH HOH . O 8 HOH A 40 640 169 HOH HOH . O 8 HOH A 41 641 208 HOH HOH . O 8 HOH A 42 642 233 HOH HOH . O 8 HOH A 43 643 236 HOH HOH . O 8 HOH A 44 644 168 HOH HOH . O 8 HOH A 45 645 163 HOH HOH . O 8 HOH A 46 646 9 HOH HOH . O 8 HOH A 47 647 165 HOH HOH . O 8 HOH A 48 648 85 HOH HOH . O 8 HOH A 49 649 176 HOH HOH . O 8 HOH A 50 650 134 HOH HOH . O 8 HOH A 51 651 207 HOH HOH . O 8 HOH A 52 652 196 HOH HOH . O 8 HOH A 53 653 235 HOH HOH . O 8 HOH A 54 654 135 HOH HOH . O 8 HOH A 55 655 204 HOH HOH . O 8 HOH A 56 656 131 HOH HOH . O 8 HOH A 57 657 184 HOH HOH . O 8 HOH A 58 658 170 HOH HOH . O 8 HOH A 59 659 194 HOH HOH . O 8 HOH A 60 660 136 HOH HOH . O 8 HOH A 61 661 177 HOH HOH . O 8 HOH A 62 662 183 HOH HOH . O 8 HOH A 63 663 140 HOH HOH . O 8 HOH A 64 664 12 HOH HOH . O 8 HOH A 65 665 30 HOH HOH . O 8 HOH A 66 666 188 HOH HOH . O 8 HOH A 67 667 82 HOH HOH . O 8 HOH A 68 668 238 HOH HOH . O 8 HOH A 69 669 190 HOH HOH . O 8 HOH A 70 670 66 HOH HOH . O 8 HOH A 71 671 10 HOH HOH . O 8 HOH A 72 672 193 HOH HOH . O 8 HOH A 73 673 162 HOH HOH . O 8 HOH A 74 674 223 HOH HOH . O 8 HOH A 75 675 178 HOH HOH . O 8 HOH A 76 676 214 HOH HOH . O 8 HOH A 77 677 133 HOH HOH . O 8 HOH A 78 678 210 HOH HOH . O 8 HOH A 79 679 211 HOH HOH . O 8 HOH A 80 680 137 HOH HOH . O 8 HOH A 81 681 83 HOH HOH . O 8 HOH A 82 682 234 HOH HOH . O 8 HOH A 83 683 164 HOH HOH . O 8 HOH A 84 684 221 HOH HOH . O 8 HOH A 85 685 154 HOH HOH . P 8 HOH B 1 801 150 HOH HOH . P 8 HOH B 2 802 216 HOH HOH . P 8 HOH B 3 803 200 HOH HOH . P 8 HOH B 4 804 197 HOH HOH . P 8 HOH B 5 805 180 HOH HOH . P 8 HOH B 6 806 227 HOH HOH . P 8 HOH B 7 807 139 HOH HOH . P 8 HOH B 8 808 8 HOH HOH . P 8 HOH B 9 809 17 HOH HOH . P 8 HOH B 10 810 167 HOH HOH . P 8 HOH B 11 811 219 HOH HOH . P 8 HOH B 12 812 160 HOH HOH . P 8 HOH B 13 813 171 HOH HOH . P 8 HOH B 14 814 189 HOH HOH . P 8 HOH B 15 815 224 HOH HOH . P 8 HOH B 16 816 179 HOH HOH . P 8 HOH B 17 817 181 HOH HOH . P 8 HOH B 18 818 35 HOH HOH . P 8 HOH B 19 819 202 HOH HOH . P 8 HOH B 20 820 198 HOH HOH . P 8 HOH B 21 821 174 HOH HOH . P 8 HOH B 22 822 158 HOH HOH . P 8 HOH B 23 823 128 HOH HOH . P 8 HOH B 24 824 237 HOH HOH . P 8 HOH B 25 825 203 HOH HOH . P 8 HOH B 26 826 215 HOH HOH . P 8 HOH B 27 827 175 HOH HOH . P 8 HOH B 28 828 173 HOH HOH . P 8 HOH B 29 829 3 HOH HOH . P 8 HOH B 30 830 217 HOH HOH . P 8 HOH B 31 831 199 HOH HOH . P 8 HOH B 32 832 226 HOH HOH . P 8 HOH B 33 833 205 HOH HOH . P 8 HOH B 34 834 22 HOH HOH . P 8 HOH B 35 835 130 HOH HOH . P 8 HOH B 36 836 201 HOH HOH . P 8 HOH B 37 837 129 HOH HOH . P 8 HOH B 38 838 34 HOH HOH . P 8 HOH B 39 839 230 HOH HOH . P 8 HOH B 40 840 32 HOH HOH . P 8 HOH B 41 841 231 HOH HOH . P 8 HOH B 42 842 16 HOH HOH . P 8 HOH B 43 843 220 HOH HOH . P 8 HOH B 44 844 229 HOH HOH . P 8 HOH B 45 845 228 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 -38.313 -0.667 -40.133 1 56.05 ? C1 NAG 501 A 1 HETATM 2 C C2 NAG . . . D 4 -38.216 0.615 -39.307 1 65.46 ? C2 NAG 501 A 1 HETATM 3 C C3 NAG . . . D 4 -37.359 1.643 -40.035 1 74.39 ? C3 NAG 501 A 1 HETATM 4 C C4 NAG . . . D 4 -35.996 1.051 -40.367 1 75.96 ? C4 NAG 501 A 1 HETATM 5 C C5 NAG . . . D 4 -36.163 -0.255 -41.142 1 74.61 ? C5 NAG 501 A 1 HETATM 6 C C6 NAG . . . D 4 -34.854 -0.969 -41.383 1 77.48 ? C6 NAG 501 A 1 HETATM 7 C C7 NAG . . . D 4 -39.957 1.407 -37.774 1 78.3 ? C7 NAG 501 A 1 HETATM 8 C C8 NAG . . . D 4 -41.341 1.968 -37.651 1 78.77 ? C8 NAG 501 A 1 HETATM 9 N N2 NAG . . . D 4 -39.533 1.158 -39.017 1 71.8 ? N2 NAG 501 A 1 HETATM 10 O O3 NAG . . . D 4 -37.202 2.802 -39.224 1 79.56 ? O3 NAG 501 A 1 HETATM 11 O O4 NAG . . . D 4 -35.244 1.978 -41.142 1 77.5 ? O4 NAG 501 A 1 HETATM 12 O O5 NAG . . . D 4 -36.996 -1.164 -40.407 1 68.65 ? O5 NAG 501 A 1 HETATM 13 O O6 NAG . . . D 4 -33.857 -0.555 -40.459 1 80.74 ? O6 NAG 501 A 1 HETATM 14 O O7 NAG . . . D 4 -39.254 1.187 -36.791 1 80.97 ? O7 NAG 501 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 697 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #