data_7BVB # _model_server_result.job_id o4byaPf40zHM6wUB23RN5g _model_server_result.datetime_utc '2024-10-19 15:46:44' _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 7bvb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 7BVB # _exptl.entry_id 7BVB _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 105.92 _cell.angle_gamma 90 _cell.entry_id 7BVB _cell.length_a 65.285 _cell.length_b 75.762 _cell.length_c 104.679 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BVB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 E 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 NE2 HIS 220 A HIS 195 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc2 A NE2 HIS 379 A HIS 354 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? metalc ? metalc3 A NE2 HIS 380 A HIS 355 1_555 D ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc4 B NE2 HIS 379 B HIS 354 1_555 F ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc5 B NE2 HIS 380 B HIS 355 1_555 F ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc6 F ZN ZN . B ZN 501 1_555 H O HOH . B HOH 631 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? # _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 358 n n C1' O1' UD1 sing 359 n n C1' O5' UD1 sing 360 n n C1' H1' UD1 sing 361 n n C2' C3' UD1 sing 362 n n C2' N2' UD1 sing 363 n n C2' H2' UD1 sing 364 n n C3' C4' UD1 sing 365 n n C3' O3' UD1 sing 366 n n C3' H3' UD1 sing 367 n n C4' C5' UD1 sing 368 n n C4' O4' UD1 sing 369 n n C4' H4' UD1 sing 370 n n C5' C6' UD1 sing 371 n n C5' O5' UD1 sing 372 n n C5' H5' UD1 sing 373 n n C6' O6' UD1 sing 374 n n C6' "H6'1" UD1 sing 375 n n C6' "H6'2" UD1 sing 376 n n C7' C8' UD1 sing 377 n n C7' N2' UD1 sing 378 n n C7' O7' UD1 doub 379 n n C8' "H8'1" UD1 sing 380 n n C8' "H8'2" UD1 sing 381 n n C8' "H8'3" UD1 sing 382 n n N2' HN2' UD1 sing 383 n n O1' PB UD1 sing 384 n n O3' HO3' UD1 sing 385 n n O4' HO4' UD1 sing 386 n n O6' HO6' UD1 sing 387 n n N1 C2 UD1 sing 388 n n N1 C6 UD1 sing 389 n n N1 C1B UD1 sing 390 n n C2 N3 UD1 sing 391 n n C2 O2 UD1 doub 392 n n N3 C4 UD1 sing 393 n n N3 HN3 UD1 sing 394 n n C4 C5 UD1 sing 395 n n C4 O4 UD1 doub 396 n n C5 C6 UD1 doub 397 n n C5 H5 UD1 sing 398 n n C6 H6 UD1 sing 399 n n C1B C2B UD1 sing 400 n n C1B O4B UD1 sing 401 n n C1B H1B UD1 sing 402 n n C2B O2' UD1 sing 403 n n C2B C3B UD1 sing 404 n n C2B H2B UD1 sing 405 n n O2' HO2' UD1 sing 406 n n C3B C4B UD1 sing 407 n n C3B O3B UD1 sing 408 n n C3B H3B UD1 sing 409 n n C4B O4B UD1 sing 410 n n C4B C5B UD1 sing 411 n n C4B H4B UD1 sing 412 n n O3B HO3A UD1 sing 413 n n C5B O5B UD1 sing 414 n n C5B "H5'1" UD1 sing 415 n n C5B "H5'2" UD1 sing 416 n n O5B PA UD1 sing 417 n n PA O1A UD1 doub 418 n n PA O2A UD1 sing 419 n n PA O3A UD1 sing 420 n n O2A HOA2 UD1 sing 421 n n O3A PB UD1 sing 422 n n PB O1B UD1 doub 423 n n PB O2B UD1 sing 424 n n O2B HOB2 UD1 sing 425 n n # _atom_sites.entry_id 7BVB _atom_sites.fract_transf_matrix[1][1] 0.015317 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004368 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013199 _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] 0.009934 _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 1 500 500 UD1 UD1 . D 3 ZN A 1 501 501 ZN ZN . E 2 UD1 B 1 500 500 UD1 UD1 . F 3 ZN B 1 501 501 ZN ZN . G 4 HOH A 1 601 32 HOH HOH . G 4 HOH A 2 602 40 HOH HOH . G 4 HOH A 3 603 2 HOH HOH . G 4 HOH A 4 604 57 HOH HOH . G 4 HOH A 5 605 28 HOH HOH . G 4 HOH A 6 606 72 HOH HOH . G 4 HOH A 7 607 25 HOH HOH . G 4 HOH A 8 608 39 HOH HOH . G 4 HOH A 9 609 17 HOH HOH . G 4 HOH A 10 610 26 HOH HOH . G 4 HOH A 11 611 31 HOH HOH . G 4 HOH A 12 612 19 HOH HOH . G 4 HOH A 13 613 18 HOH HOH . G 4 HOH A 14 614 58 HOH HOH . G 4 HOH A 15 615 75 HOH HOH . G 4 HOH A 16 616 61 HOH HOH . G 4 HOH A 17 617 52 HOH HOH . G 4 HOH A 18 618 59 HOH HOH . G 4 HOH A 19 619 20 HOH HOH . G 4 HOH A 20 620 5 HOH HOH . G 4 HOH A 21 621 51 HOH HOH . G 4 HOH A 22 622 67 HOH HOH . G 4 HOH A 23 623 54 HOH HOH . G 4 HOH A 24 624 10 HOH HOH . G 4 HOH A 25 625 68 HOH HOH . G 4 HOH A 26 626 71 HOH HOH . G 4 HOH A 27 627 76 HOH HOH . G 4 HOH A 28 628 4 HOH HOH . G 4 HOH A 29 629 62 HOH HOH . G 4 HOH A 30 630 34 HOH HOH . G 4 HOH A 31 631 48 HOH HOH . G 4 HOH A 32 632 36 HOH HOH . G 4 HOH A 33 633 21 HOH HOH . G 4 HOH A 34 634 56 HOH HOH . G 4 HOH A 35 635 47 HOH HOH . G 4 HOH A 36 636 30 HOH HOH . H 4 HOH B 1 601 37 HOH HOH . H 4 HOH B 2 602 55 HOH HOH . H 4 HOH B 3 603 63 HOH HOH . H 4 HOH B 4 604 8 HOH HOH . H 4 HOH B 5 605 33 HOH HOH . H 4 HOH B 6 606 13 HOH HOH . H 4 HOH B 7 607 46 HOH HOH . H 4 HOH B 8 608 65 HOH HOH . H 4 HOH B 9 609 41 HOH HOH . H 4 HOH B 10 610 9 HOH HOH . H 4 HOH B 11 611 27 HOH HOH . H 4 HOH B 12 612 69 HOH HOH . H 4 HOH B 13 613 11 HOH HOH . H 4 HOH B 14 614 44 HOH HOH . H 4 HOH B 15 615 6 HOH HOH . H 4 HOH B 16 616 74 HOH HOH . H 4 HOH B 17 617 3 HOH HOH . H 4 HOH B 18 618 7 HOH HOH . H 4 HOH B 19 619 14 HOH HOH . H 4 HOH B 20 620 23 HOH HOH . H 4 HOH B 21 621 38 HOH HOH . H 4 HOH B 22 622 22 HOH HOH . H 4 HOH B 23 623 24 HOH HOH . H 4 HOH B 24 624 53 HOH HOH . H 4 HOH B 25 625 50 HOH HOH . H 4 HOH B 26 626 45 HOH HOH . H 4 HOH B 27 627 42 HOH HOH . H 4 HOH B 28 628 64 HOH HOH . H 4 HOH B 29 629 66 HOH HOH . H 4 HOH B 30 630 49 HOH HOH . H 4 HOH B 31 631 1 HOH HOH . H 4 HOH B 32 632 73 HOH HOH . H 4 HOH B 33 633 12 HOH HOH . H 4 HOH B 34 634 29 HOH HOH . H 4 HOH B 35 635 35 HOH HOH . H 4 HOH B 36 636 15 HOH HOH . H 4 HOH B 37 637 16 HOH HOH . H 4 HOH B 38 638 70 HOH HOH . H 4 HOH B 39 639 43 HOH HOH . H 4 HOH B 40 640 60 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 . . . C 2 -48.47 -14.808 44.463 1 62.45 ? C1' UD1 500 A 1 HETATM 2 C C2' UD1 . . . C 2 -47.909 -14.534 43.105 1 62.08 ? C2' UD1 500 A 1 HETATM 3 C C3' UD1 . . . C 2 -49.061 -14.579 42.177 1 60.24 ? C3' UD1 500 A 1 HETATM 4 C C4' UD1 . . . C 2 -49.19 -16.026 42.018 1 58.25 ? C4' UD1 500 A 1 HETATM 5 C C5' UD1 . . . C 2 -49.757 -16.489 43.295 1 59.75 ? C5' UD1 500 A 1 HETATM 6 C C6' UD1 . . . C 2 -49.846 -17.978 43.197 1 57.09 ? C6' UD1 500 A 1 HETATM 7 C C7' UD1 . . . C 2 -45.908 -13.192 43.051 1 61.45 ? C7' UD1 500 A 1 HETATM 8 C C8' UD1 . . . C 2 -45.13 -14.414 42.712 1 53.95 ? C8' UD1 500 A 1 HETATM 9 N N2' UD1 . . . C 2 -47.215 -13.292 43.016 1 65.45 ? N2' UD1 500 A 1 HETATM 10 O O1' UD1 . . . C 2 -49.625 -14.044 44.687 1 67.77 ? O1' UD1 500 A 1 HETATM 11 O O3' UD1 . . . C 2 -48.669 -14.051 40.956 1 61.67 ? O3' UD1 500 A 1 HETATM 12 O O4' UD1 . . . C 2 -50.118 -16.268 41.021 1 55.13 ? O4' UD1 500 A 1 HETATM 13 O O5' UD1 . . . C 2 -48.855 -16.163 44.337 1 63.59 ? O5' UD1 500 A 1 HETATM 14 O O6' UD1 . . . C 2 -50.951 -18.359 43.993 1 58.89 ? O6' UD1 500 A 1 HETATM 15 O O7' UD1 . . . C 2 -45.395 -12.146 43.343 1 60.48 ? O7' UD1 500 A 1 HETATM 16 N N1 UD1 . . . C 2 -55.225 -10.06 43.558 1 51.57 ? N1 UD1 500 A 1 HETATM 17 C C2 UD1 . . . C 2 -56.589 -10.029 43.632 1 50.17 ? C2 UD1 500 A 1 HETATM 18 N N3 UD1 . . . C 2 -57.192 -9.767 44.738 1 53.58 ? N3 UD1 500 A 1 HETATM 19 C C4 UD1 . . . C 2 -56.491 -9.544 45.821 1 57.45 ? C4 UD1 500 A 1 HETATM 20 C C5 UD1 . . . C 2 -55.147 -9.568 45.817 1 56.89 ? C5 UD1 500 A 1 HETATM 21 C C6 UD1 . . . C 2 -54.541 -9.847 44.635 1 55.44 ? C6 UD1 500 A 1 HETATM 22 O O2 UD1 . . . C 2 -57.297 -10.204 42.689 1 46.75 ? O2 UD1 500 A 1 HETATM 23 O O4 UD1 . . . C 2 -57.042 -9.312 46.88 1 61.24 ? O4 UD1 500 A 1 HETATM 24 C C1B UD1 . . . C 2 -54.492 -10.361 42.372 1 52.56 ? C1B UD1 500 A 1 HETATM 25 C C2B UD1 . . . C 2 -53.822 -9.133 41.967 1 50.98 ? C2B UD1 500 A 1 HETATM 26 O O2' UD1 . . . C 2 -54.817 -8.553 41.17 1 53.64 ? O2' UD1 500 A 1 HETATM 27 C C3B UD1 . . . C 2 -52.63 -9.593 41.193 1 51.71 ? C3B UD1 500 A 1 HETATM 28 C C4B UD1 . . . C 2 -52.423 -10.985 41.654 1 53.89 ? C4B UD1 500 A 1 HETATM 29 O O4B UD1 . . . C 2 -53.357 -11.117 42.661 1 53.14 ? O4B UD1 500 A 1 HETATM 30 O O3B UD1 . . . C 2 -52.855 -9.604 39.797 1 48.93 ? O3B UD1 500 A 1 HETATM 31 C C5B UD1 . . . C 2 -51.069 -11.129 42.276 1 57.56 ? C5B UD1 500 A 1 HETATM 32 O O5B UD1 . . . C 2 -50.981 -10.148 43.262 1 61.9 ? O5B UD1 500 A 1 HETATM 33 P PA UD1 . . . C 2 -50.123 -10.381 44.524 1 69.33 ? PA UD1 500 A 1 HETATM 34 O O1A UD1 . . . C 2 -50.624 -9.451 45.517 1 68.57 ? O1A UD1 500 A 1 HETATM 35 O O2A UD1 . . . C 2 -48.729 -10.318 44.229 1 69.72 ? O2A UD1 500 A 1 HETATM 36 O O3A UD1 . . . C 2 -50.579 -11.833 44.767 1 67.64 ? O3A UD1 500 A 1 HETATM 37 P PB UD1 . . . C 2 -49.805 -12.826 45.671 1 75.93 ? PB UD1 500 A 1 HETATM 38 O O1B UD1 . . . C 2 -50.781 -13.178 46.721 1 71.65 ? O1B UD1 500 A 1 HETATM 39 O O2B UD1 . . . C 2 -48.534 -12.172 45.966 1 71.73 ? O2B UD1 500 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 39 #