data_6R4G # _model_server_result.job_id HaP4j1IVsF6Y4w1iIURNSg _model_server_result.datetime_utc '2024-11-24 05:56:51' _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 6r4g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":701}' # _entry.id 6R4G # _exptl.entry_id 6R4G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 607.354 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE _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 6R4G _cell.length_a 152.432 _cell.length_b 152.432 _cell.length_c 169.268 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6R4G _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 2 C N N ? 2 F 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 metalc ? metalc1 A O SER 461 A SER 455 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? metalc ? metalc2 A O ARG 462 A ARG 456 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc3 A O THR 464 A THR 458 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc4 C O2 UD1 . A UD1 701 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc5 B O SER 461 B SER 455 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? metalc ? metalc6 B O ARG 462 B ARG 456 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.826 ? metalc ? metalc7 B O THR 464 B THR 458 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc8 F O2 UD1 . B UD1 701 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? # _chem_comp.formula 'C17 H27 N3 O17 P2' _chem_comp.formula_weight 607.354 _chem_comp.id UD1 _chem_comp.mon_nstd_flag . _chem_comp.name URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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' UD1 sing 386 n n C1' O1' UD1 sing 387 n n C1' O5' UD1 sing 388 n n C1' H1' UD1 sing 389 n n C2' C3' UD1 sing 390 n n C2' N2' UD1 sing 391 n n C2' H2' UD1 sing 392 n n C3' C4' UD1 sing 393 n n C3' O3' UD1 sing 394 n n C3' H3' UD1 sing 395 n n C4' C5' UD1 sing 396 n n C4' O4' UD1 sing 397 n n C4' H4' UD1 sing 398 n n C5' C6' UD1 sing 399 n n C5' O5' UD1 sing 400 n n C5' H5' UD1 sing 401 n n C6' O6' UD1 sing 402 n n C6' "H6'1" UD1 sing 403 n n C6' "H6'2" UD1 sing 404 n n C7' C8' UD1 sing 405 n n C7' N2' UD1 sing 406 n n C7' O7' UD1 doub 407 n n C8' "H8'1" UD1 sing 408 n n C8' "H8'2" UD1 sing 409 n n C8' "H8'3" UD1 sing 410 n n N2' HN2' UD1 sing 411 n n O1' PB UD1 sing 412 n n O3' HO3' UD1 sing 413 n n O4' HO4' UD1 sing 414 n n O6' HO6' UD1 sing 415 n n N1 C2 UD1 sing 416 n n N1 C6 UD1 sing 417 n n N1 C1B UD1 sing 418 n n C2 N3 UD1 sing 419 n n C2 O2 UD1 doub 420 n n N3 C4 UD1 sing 421 n n N3 HN3 UD1 sing 422 n n C4 C5 UD1 sing 423 n n C4 O4 UD1 doub 424 n n C5 C6 UD1 doub 425 n n C5 H5 UD1 sing 426 n n C6 H6 UD1 sing 427 n n C1B C2B UD1 sing 428 n n C1B O4B UD1 sing 429 n n C1B H1B UD1 sing 430 n n C2B O2' UD1 sing 431 n n C2B C3B UD1 sing 432 n n C2B H2B UD1 sing 433 n n O2' HO2' UD1 sing 434 n n C3B C4B UD1 sing 435 n n C3B O3B UD1 sing 436 n n C3B H3B UD1 sing 437 n n C4B O4B UD1 sing 438 n n C4B C5B UD1 sing 439 n n C4B H4B UD1 sing 440 n n O3B HO3A UD1 sing 441 n n C5B O5B UD1 sing 442 n n C5B "H5'1" UD1 sing 443 n n C5B "H5'2" UD1 sing 444 n n O5B PA UD1 sing 445 n n PA O1A UD1 doub 446 n n PA O2A UD1 sing 447 n n PA O3A UD1 sing 448 n n O2A HOA2 UD1 sing 449 n n O3A PB UD1 sing 450 n n PB O1B UD1 doub 451 n n PB O2B UD1 sing 452 n n O2B HOB2 UD1 sing 453 n n # _atom_sites.entry_id 6R4G _atom_sites.fract_transf_matrix[1][1] 0.00656 _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] 0.00656 _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] 0.005908 _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 C 2 UD1 A 1 701 1 UD1 UD1 . D 3 MG A 1 702 2 MG MG . E 4 G6Q A 1 703 1 G6Q G6Q . F 2 UD1 B 1 701 3 UD1 UD1 . G 3 MG B 1 702 4 MG MG . H 4 G6Q B 1 703 2 G6Q G6Q . I 5 HOH A 1 801 140 HOH HOH . I 5 HOH A 2 802 136 HOH HOH . I 5 HOH A 3 803 141 HOH HOH . I 5 HOH A 4 804 30 HOH HOH . I 5 HOH A 5 805 116 HOH HOH . I 5 HOH A 6 806 22 HOH HOH . I 5 HOH A 7 807 144 HOH HOH . I 5 HOH A 8 808 137 HOH HOH . I 5 HOH A 9 809 59 HOH HOH . I 5 HOH A 10 810 131 HOH HOH . I 5 HOH A 11 811 119 HOH HOH . I 5 HOH A 12 812 40 HOH HOH . I 5 HOH A 13 813 19 HOH HOH . I 5 HOH A 14 814 14 HOH HOH . I 5 HOH A 15 815 5 HOH HOH . I 5 HOH A 16 816 142 HOH HOH . I 5 HOH A 17 817 29 HOH HOH . I 5 HOH A 18 818 47 HOH HOH . I 5 HOH A 19 819 4 HOH HOH . I 5 HOH A 20 820 57 HOH HOH . I 5 HOH A 21 821 37 HOH HOH . I 5 HOH A 22 822 15 HOH HOH . I 5 HOH A 23 823 7 HOH HOH . I 5 HOH A 24 824 53 HOH HOH . I 5 HOH A 25 825 42 HOH HOH . I 5 HOH A 26 826 20 HOH HOH . I 5 HOH A 27 827 62 HOH HOH . I 5 HOH A 28 828 68 HOH HOH . I 5 HOH A 29 829 11 HOH HOH . I 5 HOH A 30 830 35 HOH HOH . I 5 HOH A 31 831 51 HOH HOH . I 5 HOH A 32 832 145 HOH HOH . I 5 HOH A 33 833 36 HOH HOH . I 5 HOH A 34 834 55 HOH HOH . I 5 HOH A 35 835 10 HOH HOH . I 5 HOH A 36 836 48 HOH HOH . I 5 HOH A 37 837 18 HOH HOH . I 5 HOH A 38 838 27 HOH HOH . I 5 HOH A 39 839 139 HOH HOH . I 5 HOH A 40 840 6 HOH HOH . I 5 HOH A 41 841 1 HOH HOH . I 5 HOH A 42 842 8 HOH HOH . I 5 HOH A 43 843 65 HOH HOH . I 5 HOH A 44 844 118 HOH HOH . I 5 HOH A 45 845 75 HOH HOH . I 5 HOH A 46 846 56 HOH HOH . I 5 HOH A 47 847 49 HOH HOH . J 5 HOH B 1 801 78 HOH HOH . J 5 HOH B 2 802 31 HOH HOH . J 5 HOH B 3 803 120 HOH HOH . J 5 HOH B 4 804 28 HOH HOH . J 5 HOH B 5 805 44 HOH HOH . J 5 HOH B 6 806 3 HOH HOH . J 5 HOH B 7 807 17 HOH HOH . J 5 HOH B 8 808 21 HOH HOH . J 5 HOH B 9 809 67 HOH HOH . J 5 HOH B 10 810 43 HOH HOH . J 5 HOH B 11 811 32 HOH HOH . J 5 HOH B 12 812 38 HOH HOH . J 5 HOH B 13 813 26 HOH HOH . J 5 HOH B 14 814 130 HOH HOH . J 5 HOH B 15 815 34 HOH HOH . J 5 HOH B 16 816 143 HOH HOH . J 5 HOH B 17 817 24 HOH HOH . J 5 HOH B 18 818 123 HOH HOH . J 5 HOH B 19 819 41 HOH HOH . J 5 HOH B 20 820 46 HOH HOH . J 5 HOH B 21 821 12 HOH HOH . J 5 HOH B 22 822 13 HOH HOH . J 5 HOH B 23 823 9 HOH HOH . J 5 HOH B 24 824 74 HOH HOH . J 5 HOH B 25 825 83 HOH HOH . J 5 HOH B 26 826 58 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' UD1 . . . F 2 10.602 7.706 27.616 1 79.44 ? C1' UD1 701 B 1 HETATM 2 C C2' UD1 . . . F 2 10.995 7.517 29.071 1 81.23 ? C2' UD1 701 B 1 HETATM 3 C C3' UD1 . . . F 2 10.942 6.085 29.452 1 80.26 ? C3' UD1 701 B 1 HETATM 4 C C4' UD1 . . . F 2 9.631 5.442 29.118 1 82.24 ? C4' UD1 701 B 1 HETATM 5 C C5' UD1 . . . F 2 9.13 5.763 27.705 1 85.85 ? C5' UD1 701 B 1 HETATM 6 C C6' UD1 . . . F 2 7.698 5.341 27.588 1 91.87 ? C6' UD1 701 B 1 HETATM 7 C C7' UD1 . . . F 2 12.747 8.67 30.503 1 91.87 ? C7' UD1 701 B 1 HETATM 8 C C8' UD1 . . . F 2 14.165 9.179 30.709 1 93.36 ? C8' UD1 701 B 1 HETATM 9 N N2' UD1 . . . F 2 12.385 8.016 29.266 1 86.2 ? N2' UD1 701 B 1 HETATM 10 O O1' UD1 . . . F 2 11.471 7.001 26.843 1 73.2 ? O1' UD1 701 B 1 HETATM 11 O O3' UD1 . . . F 2 11.165 5.977 30.884 1 79.07 ? O3' UD1 701 B 1 HETATM 12 O O4' UD1 . . . F 2 9.797 4.026 29.22 1 81.82 ? O4' UD1 701 B 1 HETATM 13 O O5' UD1 . . . F 2 9.218 7.195 27.377 1 83.01 ? O5' UD1 701 B 1 HETATM 14 O O6' UD1 . . . F 2 7.41 5.043 26.247 1 96.06 ? O6' UD1 701 B 1 HETATM 15 O O7' UD1 . . . F 2 11.937 8.809 31.356 1 94.96 ? O7' UD1 701 B 1 HETATM 16 N N1 UD1 . . . F 2 17.398 12.745 25.145 1 79.43 ? N1 UD1 701 B 1 HETATM 17 C C2 UD1 . . . F 2 18.44 13.716 24.694 1 78.06 ? C2 UD1 701 B 1 HETATM 18 N N3 UD1 . . . F 2 19.824 13.229 24.389 1 80.02 ? N3 UD1 701 B 1 HETATM 19 C C4 UD1 . . . F 2 20.146 11.816 24.536 1 81.02 ? C4 UD1 701 B 1 HETATM 20 C C5 UD1 . . . F 2 19.099 10.865 24.988 1 83.11 ? C5 UD1 701 B 1 HETATM 21 C C6 UD1 . . . F 2 17.734 11.345 25.291 1 82.76 ? C6 UD1 701 B 1 HETATM 22 O O2 UD1 . . . F 2 18.176 14.865 24.576 1 75.94 ? O2 UD1 701 B 1 HETATM 23 O O4 UD1 . . . F 2 21.239 11.424 24.297 1 79.94 ? O4 UD1 701 B 1 HETATM 24 C C1B UD1 . . . F 2 16.061 13.195 25.454 1 75.68 ? C1B UD1 701 B 1 HETATM 25 C C2B UD1 . . . F 2 14.983 12.562 24.421 1 74.63 ? C2B UD1 701 B 1 HETATM 26 O O2' UD1 . . . F 2 14.842 13.435 23.263 1 74.83 ? O2' UD1 701 B 1 HETATM 27 C C3B UD1 . . . F 2 13.865 12.503 25.085 1 72.41 ? C3B UD1 701 B 1 HETATM 28 C C4B UD1 . . . F 2 14.272 12.3 26.557 1 70.54 ? C4B UD1 701 B 1 HETATM 29 O O4B UD1 . . . F 2 15.74 12.77 26.639 1 73.78 ? O4B UD1 701 B 1 HETATM 30 O O3B UD1 . . . F 2 13.117 13.79 24.944 1 71.24 ? O3B UD1 701 B 1 HETATM 31 C C5B UD1 . . . F 2 14.164 10.947 26.931 1 66.41 ? C5B UD1 701 B 1 HETATM 32 O O5B UD1 . . . F 2 14.859 10.126 26.03 1 62.65 ? O5B UD1 701 B 1 HETATM 33 P PA UD1 . . . F 2 14.299 8.59 25.794 1 64.49 ? PA UD1 701 B 1 HETATM 34 O O1A UD1 . . . F 2 15.174 7.855 24.807 1 63.69 ? O1A UD1 701 B 1 HETATM 35 O O2A UD1 . . . F 2 14.294 7.842 27.104 1 64.25 ? O2A UD1 701 B 1 HETATM 36 O O3A UD1 . . . F 2 12.761 8.683 25.191 1 66.57 ? O3A UD1 701 B 1 HETATM 37 P PB UD1 . . . F 2 11.665 7.448 25.267 1 68.65 ? PB UD1 701 B 1 HETATM 38 O O1B UD1 . . . F 2 10.347 7.93 24.711 1 70.47 ? O1B UD1 701 B 1 HETATM 39 O O2B UD1 . . . F 2 12.153 6.267 24.462 1 67.65 ? O2B UD1 701 B 1 HETATM 40 H H1' UD1 . . . F 2 10.645 8.648 27.388 1 95.34 ? H1' UD1 701 B 1 HETATM 41 H H2' UD1 . . . F 2 10.386 8.021 29.634 1 97.49 ? H2' UD1 701 B 1 HETATM 42 H H3' UD1 . . . F 2 11.649 5.612 28.984 1 96.32 ? H3' UD1 701 B 1 HETATM 43 H H4' UD1 . . . F 2 8.966 5.734 29.761 1 98.7 ? H4' UD1 701 B 1 HETATM 44 H H5' UD1 . . . F 2 9.661 5.264 27.065 1 103.03 ? H5' UD1 701 B 1 HETATM 45 H "H6'1" UD1 . . . F 2 7.123 6.06 27.891 1 110.25 ? "H6'1" UD1 701 B 1 HETATM 46 H "H6'2" UD1 . . . F 2 7.547 4.553 28.134 1 110.25 ? "H6'2" UD1 701 B 1 HETATM 47 H "H8'1" UD1 . . . F 2 14.796 8.491 30.447 1 112.04 ? "H8'1" UD1 701 B 1 HETATM 48 H "H8'2" UD1 . . . F 2 14.306 9.971 30.168 1 112.04 ? "H8'2" UD1 701 B 1 HETATM 49 H "H8'3" UD1 . . . F 2 14.296 9.399 31.645 1 112.04 ? "H8'3" UD1 701 B 1 HETATM 50 H HN2' UD1 . . . F 2 12.971 7.913 28.645 1 103.45 ? HN2' UD1 701 B 1 HETATM 51 H HO3' UD1 . . . F 2 11.007 5.181 31.136 1 94.9 ? HO3' UD1 701 B 1 HETATM 52 H HO4' UD1 . . . F 2 10.292 3.752 28.586 1 98.2 ? HO4' UD1 701 B 1 HETATM 53 H HO6' UD1 . . . F 2 7.54 5.733 25.769 1 115.28 ? HO6' UD1 701 B 1 HETATM 54 H HN3 UD1 . . . F 2 20.427 13.783 24.126 1 96.03 ? HN3 UD1 701 B 1 HETATM 55 H H5 UD1 . . . F 2 19.304 9.963 25.083 1 99.74 ? H5 UD1 701 B 1 HETATM 56 H H6 UD1 . . . F 2 17.085 10.742 25.574 1 99.33 ? H6 UD1 701 B 1 HETATM 57 H H1B UD1 . . . F 2 16.017 14.164 25.426 1 90.83 ? H1B UD1 701 B 1 HETATM 58 H H2B UD1 . . . F 2 15.26 11.673 24.15 1 89.56 ? H2B UD1 701 B 1 HETATM 59 H HO2' UD1 . . . F 2 14.152 13.21 22.821 1 89.8 ? HO2' UD1 701 B 1 HETATM 60 H H3B UD1 . . . F 2 13.328 11.756 24.776 1 86.9 ? H3B UD1 701 B 1 HETATM 61 H H4B UD1 . . . F 2 13.717 12.851 27.13 1 84.65 ? H4B UD1 701 B 1 HETATM 62 H HO3A UD1 . . . F 2 13.406 14.35 25.514 1 85.5 ? HO3A UD1 701 B 1 HETATM 63 H "H5'1" UD1 . . . F 2 13.227 10.696 26.932 1 79.7 ? "H5'1" UD1 701 B 1 HETATM 64 H "H5'2" UD1 . . . F 2 14.53 10.829 27.822 1 79.7 ? "H5'2" UD1 701 B 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 64 #