data_6RN9 # _model_server_result.job_id SqrW7IZ3QhI5qJR2M8rH-g _model_server_result.datetime_utc '2024-10-28 17:19:23' _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 6rn9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":403}' # _entry.id 6RN9 # _exptl.entry_id 6RN9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _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 90 _cell.entry_id 6RN9 _cell.length_a 87.35 _cell.length_b 87.77 _cell.length_c 114.46 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RN9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 J N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 4 n D NAG 1 D 1 NAG G 1 NAG 4 n D NAG 2 D 2 NAG G 2 NAG # 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 6 A CYS 6 1_555 A SG CYS 94 A CYS 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 112 A CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 B SG CYS 26 B CYS 231 1_555 B SG CYS 69 B CYS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf4 B SG CYS 62 B CYS 267 1_555 B SG CYS 102 B CYS 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 B SG CYS 92 B CYS 297 1_555 B SG CYS 108 B CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 5 A ASN 5 1_555 E C1 NAG . A NAG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 A ND2 ASN 95 A ASN 95 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale3 B SG CYS 29 B CYS 234 1_555 H C2 K9Z . B K9Z 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.722 ? covale ? covale4 B ND2 ASN 47 B ASN 252 1_555 J C1 NAG . B NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale5 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? # _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 305 n n C1 O1 NAG sing 306 n n C1 O5 NAG sing 307 n n C1 H1 NAG sing 308 n n C2 C3 NAG sing 309 n n C2 N2 NAG sing 310 n n C2 H2 NAG sing 311 n n C3 C4 NAG sing 312 n n C3 O3 NAG sing 313 n n C3 H3 NAG sing 314 n n C4 C5 NAG sing 315 n n C4 O4 NAG sing 316 n n C4 H4 NAG sing 317 n n C5 C6 NAG sing 318 n n C5 O5 NAG sing 319 n n C5 H5 NAG sing 320 n n C6 O6 NAG sing 321 n n C6 H61 NAG sing 322 n n C6 H62 NAG sing 323 n n C7 C8 NAG sing 324 n n C7 N2 NAG sing 325 n n C7 O7 NAG doub 326 n n C8 H81 NAG sing 327 n n C8 H82 NAG sing 328 n n C8 H83 NAG sing 329 n n N2 HN2 NAG sing 330 n n O1 HO1 NAG sing 331 n n O3 HO3 NAG sing 332 n n O4 HO4 NAG sing 333 n n O6 HO6 NAG sing 334 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 6RN9 _atom_sites.fract_transf_matrix[1][1] 0.011448 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011393 _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] 0.008737 _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 1 203 5 NAG NAG . F 6 DMS A 1 204 2 DMS DMS . G 6 DMS A 1 205 3 DMS DMS . H 7 K9Z B 1 401 1 K9Z INH . I 8 CL B 1 402 1 CL CL . J 5 NAG B 1 403 4 NAG NAG . K 9 ACT B 1 404 4 ACT ACT . L 10 HOH A 1 301 113 HOH HOH . L 10 HOH A 2 302 5 HOH HOH . L 10 HOH A 3 303 74 HOH HOH . L 10 HOH A 4 304 101 HOH HOH . L 10 HOH A 5 305 129 HOH HOH . L 10 HOH A 6 306 157 HOH HOH . L 10 HOH A 7 307 34 HOH HOH . L 10 HOH A 8 308 173 HOH HOH . L 10 HOH A 9 309 88 HOH HOH . L 10 HOH A 10 310 95 HOH HOH . L 10 HOH A 11 311 23 HOH HOH . L 10 HOH A 12 312 146 HOH HOH . L 10 HOH A 13 313 153 HOH HOH . L 10 HOH A 14 314 94 HOH HOH . L 10 HOH A 15 315 71 HOH HOH . L 10 HOH A 16 316 27 HOH HOH . L 10 HOH A 17 317 49 HOH HOH . L 10 HOH A 18 318 36 HOH HOH . L 10 HOH A 19 319 64 HOH HOH . L 10 HOH A 20 320 118 HOH HOH . L 10 HOH A 21 321 87 HOH HOH . L 10 HOH A 22 322 130 HOH HOH . L 10 HOH A 23 323 131 HOH HOH . L 10 HOH A 24 324 40 HOH HOH . L 10 HOH A 25 325 18 HOH HOH . L 10 HOH A 26 326 11 HOH HOH . L 10 HOH A 27 327 167 HOH HOH . L 10 HOH A 28 328 75 HOH HOH . L 10 HOH A 29 329 155 HOH HOH . L 10 HOH A 30 330 12 HOH HOH . L 10 HOH A 31 331 6 HOH HOH . L 10 HOH A 32 332 8 HOH HOH . L 10 HOH A 33 333 32 HOH HOH . L 10 HOH A 34 334 24 HOH HOH . L 10 HOH A 35 335 22 HOH HOH . L 10 HOH A 36 336 69 HOH HOH . L 10 HOH A 37 337 93 HOH HOH . L 10 HOH A 38 338 19 HOH HOH . L 10 HOH A 39 339 44 HOH HOH . L 10 HOH A 40 340 162 HOH HOH . L 10 HOH A 41 341 16 HOH HOH . L 10 HOH A 42 342 85 HOH HOH . L 10 HOH A 43 343 35 HOH HOH . L 10 HOH A 44 344 141 HOH HOH . L 10 HOH A 45 345 81 HOH HOH . L 10 HOH A 46 346 127 HOH HOH . L 10 HOH A 47 347 43 HOH HOH . L 10 HOH A 48 348 161 HOH HOH . L 10 HOH A 49 349 98 HOH HOH . L 10 HOH A 50 350 170 HOH HOH . L 10 HOH A 51 351 107 HOH HOH . L 10 HOH A 52 352 30 HOH HOH . L 10 HOH A 53 353 177 HOH HOH . L 10 HOH A 54 354 33 HOH HOH . L 10 HOH A 55 355 50 HOH HOH . L 10 HOH A 56 356 82 HOH HOH . L 10 HOH A 57 357 149 HOH HOH . L 10 HOH A 58 358 140 HOH HOH . L 10 HOH A 59 359 99 HOH HOH . L 10 HOH A 60 360 73 HOH HOH . L 10 HOH A 61 361 72 HOH HOH . M 10 HOH B 1 501 54 HOH HOH . M 10 HOH B 2 502 160 HOH HOH . M 10 HOH B 3 503 21 HOH HOH . M 10 HOH B 4 504 168 HOH HOH . M 10 HOH B 5 505 121 HOH HOH . M 10 HOH B 6 506 47 HOH HOH . M 10 HOH B 7 507 169 HOH HOH . M 10 HOH B 8 508 7 HOH HOH . M 10 HOH B 9 509 10 HOH HOH . M 10 HOH B 10 510 89 HOH HOH . M 10 HOH B 11 511 59 HOH HOH . M 10 HOH B 12 512 15 HOH HOH . M 10 HOH B 13 513 14 HOH HOH . M 10 HOH B 14 514 39 HOH HOH . M 10 HOH B 15 515 120 HOH HOH . M 10 HOH B 16 516 29 HOH HOH . M 10 HOH B 17 517 83 HOH HOH . M 10 HOH B 18 518 55 HOH HOH . M 10 HOH B 19 519 152 HOH HOH . M 10 HOH B 20 520 102 HOH HOH . M 10 HOH B 21 521 51 HOH HOH . M 10 HOH B 22 522 60 HOH HOH . M 10 HOH B 23 523 97 HOH HOH . M 10 HOH B 24 524 175 HOH HOH . M 10 HOH B 25 525 116 HOH HOH . M 10 HOH B 26 526 37 HOH HOH . M 10 HOH B 27 527 117 HOH HOH . M 10 HOH B 28 528 110 HOH HOH . M 10 HOH B 29 529 78 HOH HOH . M 10 HOH B 30 530 66 HOH HOH . M 10 HOH B 31 531 114 HOH HOH . M 10 HOH B 32 532 68 HOH HOH . M 10 HOH B 33 533 58 HOH HOH . M 10 HOH B 34 534 4 HOH HOH . M 10 HOH B 35 535 122 HOH HOH . M 10 HOH B 36 536 125 HOH HOH . M 10 HOH B 37 537 61 HOH HOH . M 10 HOH B 38 538 38 HOH HOH . M 10 HOH B 39 539 134 HOH HOH . M 10 HOH B 40 540 92 HOH HOH . M 10 HOH B 41 541 17 HOH HOH . M 10 HOH B 42 542 90 HOH HOH . M 10 HOH B 43 543 145 HOH HOH . M 10 HOH B 44 544 156 HOH HOH . M 10 HOH B 45 545 174 HOH HOH . M 10 HOH B 46 546 86 HOH HOH . M 10 HOH B 47 547 176 HOH HOH . M 10 HOH B 48 548 100 HOH HOH . M 10 HOH B 49 549 150 HOH HOH . M 10 HOH B 50 550 148 HOH HOH . M 10 HOH B 51 551 133 HOH HOH . M 10 HOH B 52 552 3 HOH HOH . M 10 HOH B 53 553 172 HOH HOH . M 10 HOH B 54 554 9 HOH HOH . M 10 HOH B 55 555 119 HOH HOH . M 10 HOH B 56 556 171 HOH HOH . M 10 HOH B 57 557 63 HOH HOH . M 10 HOH B 58 558 76 HOH HOH . M 10 HOH B 59 559 164 HOH HOH . M 10 HOH B 60 560 165 HOH HOH . M 10 HOH B 61 561 124 HOH HOH . M 10 HOH B 62 562 166 HOH HOH . M 10 HOH B 63 563 178 HOH HOH . M 10 HOH B 64 564 56 HOH HOH . M 10 HOH B 65 565 123 HOH HOH . M 10 HOH B 66 566 25 HOH HOH . M 10 HOH B 67 567 136 HOH HOH . M 10 HOH B 68 568 108 HOH HOH . M 10 HOH B 69 569 109 HOH HOH . N 10 HOH C 1 501 106 HOH HOH . N 10 HOH C 2 502 20 HOH HOH . N 10 HOH C 3 503 179 HOH HOH . N 10 HOH C 4 504 147 HOH HOH . N 10 HOH C 5 505 151 HOH HOH . N 10 HOH C 6 506 48 HOH HOH . N 10 HOH C 7 507 154 HOH HOH . N 10 HOH C 8 508 103 HOH HOH . N 10 HOH C 9 509 144 HOH HOH . N 10 HOH C 10 510 142 HOH HOH . N 10 HOH C 11 511 159 HOH HOH . N 10 HOH C 12 512 52 HOH HOH . N 10 HOH C 13 513 2 HOH HOH . N 10 HOH C 14 514 143 HOH HOH . N 10 HOH C 15 515 77 HOH HOH . N 10 HOH C 16 516 1 HOH HOH . N 10 HOH C 17 517 53 HOH HOH . N 10 HOH C 18 518 62 HOH HOH . N 10 HOH C 19 519 96 HOH HOH . N 10 HOH C 20 520 28 HOH HOH . N 10 HOH C 21 521 31 HOH HOH . N 10 HOH C 22 522 163 HOH HOH . N 10 HOH C 23 523 41 HOH HOH . N 10 HOH C 24 524 158 HOH HOH . N 10 HOH C 25 525 70 HOH HOH . N 10 HOH C 26 526 84 HOH HOH . N 10 HOH C 27 527 138 HOH HOH . N 10 HOH C 28 528 104 HOH HOH . N 10 HOH C 29 529 135 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 . . . J 5 16.455 -5.99 11.072 1 37.88 ? C1 NAG 403 B 1 HETATM 2 C C2 NAG . . . J 5 16.423 -7.301 10.29 1 41.07 ? C2 NAG 403 B 1 HETATM 3 C C3 NAG . . . J 5 15.146 -7.287 9.449 1 43.77 ? C3 NAG 403 B 1 HETATM 4 C C4 NAG . . . J 5 13.905 -7.102 10.324 1 43.82 ? C4 NAG 403 B 1 HETATM 5 C C5 NAG . . . J 5 14.058 -5.931 11.299 1 43.07 ? C5 NAG 403 B 1 HETATM 6 C C6 NAG . . . J 5 13.002 -5.926 12.384 1 44.61 ? C6 NAG 403 B 1 HETATM 7 C C7 NAG . . . J 5 18.417 -8.467 9.416 1 45.82 ? C7 NAG 403 B 1 HETATM 8 C C8 NAG . . . J 5 19.535 -8.416 8.416 1 46 ? C8 NAG 403 B 1 HETATM 9 N N2 NAG . . . J 5 17.595 -7.404 9.433 1 43.38 ? N2 NAG 403 B 1 HETATM 10 O O3 NAG . . . J 5 15.061 -8.522 8.744 1 44.3 ? O3 NAG 403 B 1 HETATM 11 O O4 NAG . . . J 5 12.782 -6.845 9.484 1 45.55 ? O4 NAG 403 B 1 HETATM 12 O O5 NAG . . . J 5 15.338 -5.972 11.965 1 38.38 ? O5 NAG 403 B 1 HETATM 13 O O6 NAG . . . J 5 13.068 -7.107 13.183 1 45.71 ? O6 NAG 403 B 1 HETATM 14 O O7 NAG . . . J 5 18.261 -9.426 10.169 1 47.84 ? O7 NAG 403 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 345 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #