data_7BUM # _model_server_result.job_id FEoz9Qb0HIx1Wok2vd7eLA _model_server_result.datetime_utc '2024-11-08 10:03:24' _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 7bum # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":602}' # _entry.id 7BUM # _exptl.entry_id 7BUM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 93.93 _cell.angle_gamma 90 _cell.entry_id 7BUM _cell.length_a 48.337 _cell.length_b 109.592 _cell.length_c 75.87 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7BUM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 ? 3 D N N ? 3 G 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 covale ? covale1 D P AMP . A AMP 602 1_555 E O2' 5GP . A 5GP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.558 ? covale ? covale2 G P AMP . B AMP 602 1_555 H O2' 5GP . B 5GP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.562 ? metalc ? metalc1 A NE2 HIS 378 A HIS 378 1_555 C ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc2 A SG CYS 384 A CYS 384 1_555 C ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? metalc ? metalc3 A SG CYS 385 A CYS 385 1_555 C ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc4 A SG CYS 392 A CYS 392 1_555 C ZN ZN . A ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc5 B NE2 HIS 378 B HIS 378 1_555 F ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc6 B SG CYS 384 B CYS 384 1_555 F ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc7 B SG CYS 385 B CYS 385 1_555 F ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc8 B SG CYS 392 B CYS 392 1_555 F ZN ZN . B ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 53 n n P O2P AMP sing 54 n n P O3P AMP sing 55 n n P O5' AMP sing 56 n n O2P HOP2 AMP sing 57 n n O3P HOP3 AMP sing 58 n n O5' C5' AMP sing 59 n n C5' C4' AMP sing 60 n n C5' "H5'1" AMP sing 61 n n C5' "H5'2" AMP sing 62 n n C4' O4' AMP sing 63 n n C4' C3' AMP sing 64 n n C4' H4' AMP sing 65 n n O4' C1' AMP sing 66 n n C3' O3' AMP sing 67 n n C3' C2' AMP sing 68 n n C3' H3' AMP sing 69 n n O3' HO3' AMP sing 70 n n C2' O2' AMP sing 71 n n C2' C1' AMP sing 72 n n C2' H2' AMP sing 73 n n O2' HO2' AMP sing 74 n n C1' N9 AMP sing 75 n n C1' H1' AMP sing 76 n n N9 C8 AMP sing 77 n y N9 C4 AMP sing 78 n y C8 N7 AMP doub 79 n y C8 H8 AMP sing 80 n n N7 C5 AMP sing 81 n y C5 C6 AMP sing 82 n y C5 C4 AMP doub 83 n y C6 N6 AMP sing 84 n n C6 N1 AMP doub 85 n y N6 HN61 AMP sing 86 n n N6 HN62 AMP sing 87 n n N1 C2 AMP sing 88 n y C2 N3 AMP doub 89 n y C2 H2 AMP sing 90 n n N3 C4 AMP sing 91 n y # _atom_sites.entry_id 7BUM _atom_sites.fract_transf_matrix[1][1] 0.020688 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001422 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009125 _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] 0.013212 _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 ZN A 1 601 601 ZN ZN . D 3 AMP A 1 602 701 AMP LIG . E 4 5GP A 1 603 801 5GP GMP . F 2 ZN B 1 601 601 ZN ZN . G 3 AMP B 1 602 701 AMP LIG . H 4 5GP B 1 603 801 5GP GMP . I 5 HOH A 1 701 31 HOH HOH . I 5 HOH A 2 702 23 HOH HOH . I 5 HOH A 3 703 17 HOH HOH . I 5 HOH A 4 704 6 HOH HOH . I 5 HOH A 5 705 36 HOH HOH . I 5 HOH A 6 706 16 HOH HOH . I 5 HOH A 7 707 33 HOH HOH . I 5 HOH A 8 708 2 HOH HOH . I 5 HOH A 9 709 15 HOH HOH . I 5 HOH A 10 710 1 HOH HOH . I 5 HOH A 11 711 27 HOH HOH . I 5 HOH A 12 712 12 HOH HOH . I 5 HOH A 13 713 26 HOH HOH . I 5 HOH A 14 714 41 HOH HOH . I 5 HOH A 15 715 4 HOH HOH . I 5 HOH A 16 716 3 HOH HOH . I 5 HOH A 17 717 24 HOH HOH . I 5 HOH A 18 718 43 HOH HOH . I 5 HOH A 19 719 34 HOH HOH . I 5 HOH A 20 720 13 HOH HOH . I 5 HOH A 21 721 11 HOH HOH . J 5 HOH B 1 701 7 HOH HOH . J 5 HOH B 2 702 22 HOH HOH . J 5 HOH B 3 703 20 HOH HOH . J 5 HOH B 4 704 21 HOH HOH . J 5 HOH B 5 705 38 HOH HOH . J 5 HOH B 6 706 9 HOH HOH . J 5 HOH B 7 707 10 HOH HOH . J 5 HOH B 8 708 39 HOH HOH . J 5 HOH B 9 709 8 HOH HOH . J 5 HOH B 10 710 18 HOH HOH . J 5 HOH B 11 711 30 HOH HOH . J 5 HOH B 12 712 32 HOH HOH . J 5 HOH B 13 713 25 HOH HOH . J 5 HOH B 14 714 19 HOH HOH . J 5 HOH B 15 715 37 HOH HOH . J 5 HOH B 16 716 5 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 P P AMP . . . D 3 2.937 17.092 -37.005 1 136.78 ? P AMP 602 A 1 HETATM 2 O O1P AMP . . . D 3 3.561 16.809 -38.373 1 128.7 ? O1P AMP 602 A 1 HETATM 3 O O2P AMP . . . D 3 1.483 17.441 -37.187 1 129.03 ? O2P AMP 602 A 1 HETATM 4 O O5' AMP . . . D 3 3.09 15.775 -36.007 1 128.63 ? O5' AMP 602 A 1 HETATM 5 C C5' AMP . . . D 3 3.733 15.885 -34.759 1 128.9 ? C5' AMP 602 A 1 HETATM 6 C C4' AMP . . . D 3 3.139 14.948 -33.628 1 126.66 ? C4' AMP 602 A 1 HETATM 7 O O4' AMP . . . D 3 1.74 15.352 -33.176 1 126.5 ? O4' AMP 602 A 1 HETATM 8 C C3' AMP . . . D 3 3.009 13.713 -34.007 1 124.43 ? C3' AMP 602 A 1 HETATM 9 O O3' AMP . . . D 3 3.199 12.824 -32.851 1 123.93 ? O3' AMP 602 A 1 HETATM 10 C C2' AMP . . . D 3 1.423 13.586 -34.529 1 122.28 ? C2' AMP 602 A 1 HETATM 11 O O2' AMP . . . D 3 1.077 12.156 -34.671 1 118.55 ? O2' AMP 602 A 1 HETATM 12 C C1' AMP . . . D 3 0.743 14.163 -33.656 1 123.95 ? C1' AMP 602 A 1 HETATM 13 N N9 AMP . . . D 3 -0.564 14.716 -34.219 1 121.86 ? N9 AMP 602 A 1 HETATM 14 C C8 AMP . . . D 3 -0.66 15.469 -35.368 1 123.39 ? C8 AMP 602 A 1 HETATM 15 N N7 AMP . . . D 3 -1.96 15.784 -35.563 1 124.29 ? N7 AMP 602 A 1 HETATM 16 C C5 AMP . . . D 3 -2.689 15.249 -34.567 1 120.77 ? C5 AMP 602 A 1 HETATM 17 C C6 AMP . . . D 3 -4.19 15.273 -34.261 1 118.83 ? C6 AMP 602 A 1 HETATM 18 N N6 AMP . . . D 3 -5.135 15.97 -35.123 1 118.53 ? N6 AMP 602 A 1 HETATM 19 N N1 AMP . . . D 3 -4.679 14.603 -33.106 1 113 ? N1 AMP 602 A 1 HETATM 20 C C2 AMP . . . D 3 -3.761 13.907 -32.226 1 111.17 ? C2 AMP 602 A 1 HETATM 21 N N3 AMP . . . D 3 -2.338 13.89 -32.525 1 113.45 ? N3 AMP 602 A 1 HETATM 22 C C4 AMP . . . D 3 -1.803 14.581 -33.725 1 118.58 ? C4 AMP 602 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #