data_4KWM # _model_server_result.job_id MNeVVGWG644Fn4DOGOSHvQ _model_server_result.datetime_utc '2024-10-17 05:30:14' _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 4kwm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":401}' # _entry.id 4KWM # _exptl.entry_id 4KWM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 4KWM _cell.length_a 114.372 _cell.length_b 114.372 _cell.length_c 134.89 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KWM _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 PISA hexameric 6 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,K,L 1 1,2,3 C,D,I,M,N 2 1,4,5 E,F,J,O,P 3 1,6,7 # 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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 114.372 0 0 5 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 57.186 99.049057 0 6 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 57.186 -99.049057 0 7 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 114.372 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N # 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 8 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf2 A SG CYS 46 A CYS 42 1_555 A SG CYS 278 A CYS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 59 A CYS 55 1_555 A SG CYS 71 A CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf4 A SG CYS 94 A CYS 90 1_555 A SG CYS 139 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf5 A SG CYS 282 A CYS 278 1_555 A SG CYS 306 A CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf7 C SG CYS 8 C CYS 4 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf8 C SG CYS 46 C CYS 42 1_555 C SG CYS 278 C CYS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 C SG CYS 59 C CYS 55 1_555 C SG CYS 71 C CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf10 C SG CYS 94 C CYS 90 1_555 C SG CYS 139 C CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf11 C SG CYS 282 C CYS 278 1_555 C SG CYS 306 C CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf13 E SG CYS 8 E CYS 4 1_555 F SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf14 E SG CYS 46 E CYS 42 1_555 E SG CYS 278 E CYS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? disulf ? disulf15 E SG CYS 59 E CYS 55 1_555 E SG CYS 71 E CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 E SG CYS 94 E CYS 90 1_555 E SG CYS 139 E CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf17 E SG CYS 282 E CYS 278 1_555 E SG CYS 306 E CYS 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? disulf ? disulf18 F SG CYS 144 F CYS 144 1_555 F SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? covale ? covale1 A ND2 ASN 169 A ASN 165 1_555 G C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 B ND2 ASN 154 B ASN 154 1_555 H C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale3 D ND2 ASN 154 D ASN 154 1_555 I C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 E ND2 ASN 169 E ASN 165 1_555 J C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? # _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 ? # 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 4KWM _atom_sites.fract_transf_matrix[1][1] 0.008743 _atom_sites.fract_transf_matrix[1][2] 0.005048 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010096 _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] 0.007413 _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 G 3 NAG A 1 401 1 NAG NAG . H 3 NAG B 1 201 2 NAG NAG . I 3 NAG D 1 201 3 NAG NAG . J 3 NAG E 1 401 4 NAG NAG . K 4 HOH A 1 501 3 HOH HOH . K 4 HOH A 2 502 4 HOH HOH . K 4 HOH A 3 503 5 HOH HOH . K 4 HOH A 4 504 10 HOH HOH . K 4 HOH A 5 505 11 HOH HOH . K 4 HOH A 6 506 13 HOH HOH . K 4 HOH A 7 507 16 HOH HOH . K 4 HOH A 8 508 22 HOH HOH . K 4 HOH A 9 509 27 HOH HOH . K 4 HOH A 10 510 28 HOH HOH . K 4 HOH A 11 511 32 HOH HOH . K 4 HOH A 12 512 33 HOH HOH . K 4 HOH A 13 513 34 HOH HOH . K 4 HOH A 14 514 37 HOH HOH . K 4 HOH A 15 515 41 HOH HOH . K 4 HOH A 16 516 42 HOH HOH . K 4 HOH A 17 517 43 HOH HOH . K 4 HOH A 18 518 45 HOH HOH . K 4 HOH A 19 519 49 HOH HOH . K 4 HOH A 20 520 51 HOH HOH . K 4 HOH A 21 521 56 HOH HOH . K 4 HOH A 22 522 60 HOH HOH . K 4 HOH A 23 523 62 HOH HOH . K 4 HOH A 24 524 68 HOH HOH . K 4 HOH A 25 525 82 HOH HOH . K 4 HOH A 26 526 83 HOH HOH . K 4 HOH A 27 527 86 HOH HOH . K 4 HOH A 28 528 98 HOH HOH . K 4 HOH A 29 529 100 HOH HOH . K 4 HOH A 30 530 102 HOH HOH . K 4 HOH A 31 531 103 HOH HOH . K 4 HOH A 32 532 104 HOH HOH . K 4 HOH A 33 533 110 HOH HOH . K 4 HOH A 34 534 127 HOH HOH . K 4 HOH A 35 535 132 HOH HOH . K 4 HOH A 36 536 136 HOH HOH . K 4 HOH A 37 537 137 HOH HOH . K 4 HOH A 38 538 139 HOH HOH . K 4 HOH A 39 539 158 HOH HOH . L 4 HOH B 1 301 6 HOH HOH . L 4 HOH B 2 302 14 HOH HOH . L 4 HOH B 3 303 19 HOH HOH . L 4 HOH B 4 304 31 HOH HOH . L 4 HOH B 5 305 35 HOH HOH . L 4 HOH B 6 306 36 HOH HOH . L 4 HOH B 7 307 44 HOH HOH . L 4 HOH B 8 308 57 HOH HOH . L 4 HOH B 9 309 61 HOH HOH . L 4 HOH B 10 310 63 HOH HOH . L 4 HOH B 11 311 70 HOH HOH . L 4 HOH B 12 312 87 HOH HOH . L 4 HOH B 13 313 107 HOH HOH . L 4 HOH B 14 314 118 HOH HOH . L 4 HOH B 15 315 126 HOH HOH . L 4 HOH B 16 316 135 HOH HOH . L 4 HOH B 17 317 151 HOH HOH . L 4 HOH B 18 318 153 HOH HOH . M 4 HOH C 1 401 1 HOH HOH . M 4 HOH C 2 402 2 HOH HOH . M 4 HOH C 3 403 8 HOH HOH . M 4 HOH C 4 404 9 HOH HOH . M 4 HOH C 5 405 12 HOH HOH . M 4 HOH C 6 406 15 HOH HOH . M 4 HOH C 7 407 17 HOH HOH . M 4 HOH C 8 408 20 HOH HOH . M 4 HOH C 9 409 21 HOH HOH . M 4 HOH C 10 410 23 HOH HOH . M 4 HOH C 11 411 24 HOH HOH . M 4 HOH C 12 412 25 HOH HOH . M 4 HOH C 13 413 26 HOH HOH . M 4 HOH C 14 414 29 HOH HOH . M 4 HOH C 15 415 30 HOH HOH . M 4 HOH C 16 416 38 HOH HOH . M 4 HOH C 17 417 39 HOH HOH . M 4 HOH C 18 418 40 HOH HOH . M 4 HOH C 19 419 48 HOH HOH . M 4 HOH C 20 420 50 HOH HOH . M 4 HOH C 21 421 52 HOH HOH . M 4 HOH C 22 422 53 HOH HOH . M 4 HOH C 23 423 54 HOH HOH . M 4 HOH C 24 424 55 HOH HOH . M 4 HOH C 25 425 58 HOH HOH . M 4 HOH C 26 426 59 HOH HOH . M 4 HOH C 27 427 64 HOH HOH . M 4 HOH C 28 428 66 HOH HOH . M 4 HOH C 29 429 67 HOH HOH . M 4 HOH C 30 430 69 HOH HOH . M 4 HOH C 31 431 74 HOH HOH . M 4 HOH C 32 432 75 HOH HOH . M 4 HOH C 33 433 77 HOH HOH . M 4 HOH C 34 434 79 HOH HOH . M 4 HOH C 35 435 89 HOH HOH . M 4 HOH C 36 436 93 HOH HOH . M 4 HOH C 37 437 95 HOH HOH . M 4 HOH C 38 438 96 HOH HOH . M 4 HOH C 39 439 101 HOH HOH . M 4 HOH C 40 440 105 HOH HOH . M 4 HOH C 41 441 108 HOH HOH . M 4 HOH C 42 442 109 HOH HOH . M 4 HOH C 43 443 117 HOH HOH . M 4 HOH C 44 444 120 HOH HOH . M 4 HOH C 45 445 122 HOH HOH . M 4 HOH C 46 446 124 HOH HOH . M 4 HOH C 47 447 125 HOH HOH . M 4 HOH C 48 448 128 HOH HOH . M 4 HOH C 49 449 134 HOH HOH . M 4 HOH C 50 450 138 HOH HOH . M 4 HOH C 51 451 140 HOH HOH . M 4 HOH C 52 452 142 HOH HOH . M 4 HOH C 53 453 144 HOH HOH . M 4 HOH C 54 454 146 HOH HOH . M 4 HOH C 55 455 147 HOH HOH . M 4 HOH C 56 456 152 HOH HOH . M 4 HOH C 57 457 156 HOH HOH . N 4 HOH D 1 301 7 HOH HOH . N 4 HOH D 2 302 18 HOH HOH . N 4 HOH D 3 303 46 HOH HOH . N 4 HOH D 4 304 47 HOH HOH . N 4 HOH D 5 305 71 HOH HOH . N 4 HOH D 6 306 72 HOH HOH . N 4 HOH D 7 307 73 HOH HOH . N 4 HOH D 8 308 76 HOH HOH . N 4 HOH D 9 309 80 HOH HOH . N 4 HOH D 10 310 81 HOH HOH . N 4 HOH D 11 311 84 HOH HOH . N 4 HOH D 12 312 85 HOH HOH . N 4 HOH D 13 313 88 HOH HOH . N 4 HOH D 14 314 90 HOH HOH . N 4 HOH D 15 315 92 HOH HOH . N 4 HOH D 16 316 94 HOH HOH . N 4 HOH D 17 317 97 HOH HOH . N 4 HOH D 18 318 111 HOH HOH . N 4 HOH D 19 319 112 HOH HOH . N 4 HOH D 20 320 116 HOH HOH . N 4 HOH D 21 321 119 HOH HOH . N 4 HOH D 22 322 121 HOH HOH . N 4 HOH D 23 323 123 HOH HOH . N 4 HOH D 24 324 129 HOH HOH . N 4 HOH D 25 325 130 HOH HOH . N 4 HOH D 26 326 131 HOH HOH . N 4 HOH D 27 327 133 HOH HOH . N 4 HOH D 28 328 143 HOH HOH . N 4 HOH D 29 329 150 HOH HOH . N 4 HOH D 30 330 157 HOH HOH . O 4 HOH E 1 501 78 HOH HOH . O 4 HOH E 2 502 91 HOH HOH . O 4 HOH E 3 503 99 HOH HOH . O 4 HOH E 4 504 141 HOH HOH . O 4 HOH E 5 505 148 HOH HOH . O 4 HOH E 6 506 154 HOH HOH . O 4 HOH E 7 507 155 HOH HOH . P 4 HOH F 1 201 106 HOH HOH . P 4 HOH F 2 202 113 HOH HOH . P 4 HOH F 3 203 114 HOH HOH . P 4 HOH F 4 204 145 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 3 22.977 -19.859 -66.68 1 83.68 ? C1 NAG 401 A 1 HETATM 2 C C2 NAG . . . G 3 23.3 -21.348 -66.364 1 90.43 ? C2 NAG 401 A 1 HETATM 3 C C3 NAG . . . G 3 22.099 -22.328 -66.439 1 98.7 ? C3 NAG 401 A 1 HETATM 4 C C4 NAG . . . G 3 20.74 -21.714 -66.142 1 98.24 ? C4 NAG 401 A 1 HETATM 5 C C5 NAG . . . G 3 20.704 -20.361 -66.848 1 96.14 ? C5 NAG 401 A 1 HETATM 6 C C6 NAG . . . G 3 19.388 -19.613 -66.749 1 96.77 ? C6 NAG 401 A 1 HETATM 7 C C7 NAG . . . G 3 24.735 -23.065 -67.433 1 96.37 ? C7 NAG 401 A 1 HETATM 8 C C8 NAG . . . G 3 25.782 -23.325 -68.484 1 91.89 ? C8 NAG 401 A 1 HETATM 9 N N2 NAG . . . G 3 24.308 -21.793 -67.319 1 98.43 ? N2 NAG 401 A 1 HETATM 10 O O3 NAG . . . G 3 22.254 -23.429 -65.565 1 109.88 ? O3 NAG 401 A 1 HETATM 11 O O4 NAG . . . G 3 19.757 -22.606 -66.614 1 88.78 ? O4 NAG 401 A 1 HETATM 12 O O5 NAG . . . G 3 21.679 -19.568 -66.215 1 93.39 ? O5 NAG 401 A 1 HETATM 13 O O6 NAG . . . G 3 19.208 -19.149 -68.069 1 86.27 ? O6 NAG 401 A 1 HETATM 14 O O7 NAG . . . G 3 24.325 -23.993 -66.729 1 82.71 ? O7 NAG 401 A 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #