data_4NVP # _model_server_result.job_id VULcqwclnoTCApcMxA3anw _model_server_result.datetime_utc '2024-11-22 04:24:21' _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 4nvp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":800}' # _entry.id 4NVP # _exptl.entry_id 4NVP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 328.218 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S,4aR,6R,7R,7aS)-6-(4-amino-7H-pyrrolo[2,3-d]pyrimidin-7-yl)tetrahydro-4H-furo[3,2-d][1,3,2]dioxaphosphinine-2,7-diol 2-oxide' _entity.pdbx_number_of_molecules 1 _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 4NVP _cell.length_a 96.01 _cell.length_b 96.01 _cell.length_c 50.17 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NVP _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 4 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 96.01 0 3 'crystal symmetry operation' 3_555 -y+1/2,x+1/2,z 0 -1 0 1 0 0 0 0 1 48.005 48.005 0 4 'crystal symmetry operation' 4_455 y-1/2,-x+1/2,z 0 1 0 -1 0 0 0 0 1 -48.005 48.005 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 A C ASN 71 A ASN 585 1_555 A N CSO 72 A CSO 586 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale2 A C CSO 72 A CSO 586 1_555 A N ARG 73 A ARG 587 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C11 H13 N4 O6 P' _chem_comp.formula_weight 328.218 _chem_comp.id 7CH _chem_comp.mon_nstd_flag . _chem_comp.name '(2S,4aR,6R,7R,7aS)-6-(4-amino-7H-pyrrolo[2,3-d]pyrimidin-7-yl)tetrahydro-4H-furo[3,2-d][1,3,2]dioxaphosphinine-2,7-diol 2-oxide' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 7-CH-cAMP # 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 C2 N3 7CH doub 1 n y C2 N1 7CH sing 2 n y N3 C4 7CH sing 3 n y O2' C2' 7CH sing 4 n n C4' O4' 7CH sing 5 n n C4' C5' 7CH sing 6 n n C4' C3' 7CH sing 7 n n O4' C1' 7CH sing 8 n n C5' O5' 7CH sing 9 n n C1' C2' 7CH sing 10 n n C1' N9 7CH sing 11 n n O5' P 7CH sing 12 n n N1 C6 7CH doub 13 n y C4 N9 7CH sing 14 n y C4 C5 7CH doub 15 n y C2' C3' 7CH sing 16 n n N9 C8 7CH sing 17 n y C3' O3' 7CH sing 18 n n O3' P 7CH sing 19 n n O2P P 7CH doub 20 n n P O1P 7CH sing 21 n n C6 C5 7CH sing 22 n y C6 N6 7CH sing 23 n n C5 C7 7CH sing 24 n y C8 C7 7CH doub 25 n y O1P H1 7CH sing 26 n n C3' H2 7CH sing 27 n n C4' H3 7CH sing 28 n n C5' H4 7CH sing 29 n n C5' H5 7CH sing 30 n n C2' H6 7CH sing 31 n n O2' H7 7CH sing 32 n n C1' H8 7CH sing 33 n n C7 H9 7CH sing 34 n n C8 H10 7CH sing 35 n n C2 H11 7CH sing 36 n n N6 H12 7CH sing 37 n n N6 H13 7CH sing 38 n n # _atom_sites.entry_id 4NVP _atom_sites.fract_transf_matrix[1][1] 0.010416 _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] 0.010416 _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] 0.019932 _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 B 2 7CH A 1 800 800 7CH 7CH . C 3 HOH A 1 901 1 HOH HOH . C 3 HOH A 2 902 2 HOH HOH . C 3 HOH A 3 903 3 HOH HOH . C 3 HOH A 4 904 4 HOH HOH . C 3 HOH A 5 905 5 HOH HOH . C 3 HOH A 6 906 6 HOH HOH . C 3 HOH A 7 907 7 HOH HOH . C 3 HOH A 8 908 8 HOH HOH . C 3 HOH A 9 909 9 HOH HOH . C 3 HOH A 10 910 10 HOH HOH . C 3 HOH A 11 911 11 HOH HOH . C 3 HOH A 12 912 12 HOH HOH . C 3 HOH A 13 913 13 HOH HOH . C 3 HOH A 14 914 14 HOH HOH . C 3 HOH A 15 915 15 HOH HOH . C 3 HOH A 16 916 16 HOH HOH . C 3 HOH A 17 917 17 HOH HOH . C 3 HOH A 18 918 18 HOH HOH . C 3 HOH A 19 919 19 HOH HOH . C 3 HOH A 20 920 20 HOH HOH . C 3 HOH A 21 921 21 HOH HOH . C 3 HOH A 22 922 22 HOH HOH . C 3 HOH A 23 923 23 HOH HOH . C 3 HOH A 24 924 24 HOH HOH . C 3 HOH A 25 925 25 HOH HOH . C 3 HOH A 26 926 26 HOH HOH . C 3 HOH A 27 927 27 HOH HOH . C 3 HOH A 28 928 28 HOH HOH . C 3 HOH A 29 929 29 HOH HOH . C 3 HOH A 30 930 30 HOH HOH . C 3 HOH A 31 931 31 HOH HOH . C 3 HOH A 32 932 32 HOH HOH . C 3 HOH A 33 933 33 HOH HOH . C 3 HOH A 34 934 34 HOH HOH . C 3 HOH A 35 935 35 HOH HOH . C 3 HOH A 36 936 36 HOH HOH . C 3 HOH A 37 937 37 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 O O2P 7CH . . . B 2 3.785 23.247 15.367 1 25.61 ? O2P 7CH 800 A 1 HETATM 2 P P 7CH . . . B 2 4.252 21.82 15.466 1 26 ? P 7CH 800 A 1 HETATM 3 O O1P 7CH . . . B 2 5.018 21.34 16.661 1 24.59 ? O1P 7CH 800 A 1 HETATM 4 O O3' 7CH . . . B 2 3.003 20.826 15.197 1 24.15 ? O3' 7CH 800 A 1 HETATM 5 C C3' 7CH . . . B 2 3.455 19.498 15.101 1 24.44 ? C3' 7CH 800 A 1 HETATM 6 C C4' 7CH . . . B 2 4.421 19.364 13.948 1 24.61 ? C4' 7CH 800 A 1 HETATM 7 C C5' 7CH . . . B 2 5.681 20.192 14.008 1 23.99 ? C5' 7CH 800 A 1 HETATM 8 O O5' 7CH . . . B 2 5.22 21.528 14.19 1 25.21 ? O5' 7CH 800 A 1 HETATM 9 C C2' 7CH . . . B 2 2.436 18.439 14.76 1 24.63 ? C2' 7CH 800 A 1 HETATM 10 O O2' 7CH . . . B 2 1.479 18.948 13.816 1 23.66 ? O2' 7CH 800 A 1 HETATM 11 C C1' 7CH . . . B 2 3.323 17.388 14.13 1 25.97 ? C1' 7CH 800 A 1 HETATM 12 O O4' 7CH . . . B 2 4.627 17.959 14.003 1 26.77 ? O4' 7CH 800 A 1 HETATM 13 N N9 7CH . . . B 2 3.412 16.18 14.955 1 29.33 ? N9 7CH 800 A 1 HETATM 14 C C4 7CH . . . B 2 2.814 15.046 14.649 1 29.73 ? C4 7CH 800 A 1 HETATM 15 C C5 7CH . . . B 2 3.159 14.093 15.7 1 29.4 ? C5 7CH 800 A 1 HETATM 16 C C7 7CH . . . B 2 3.99 14.714 16.55 1 27.72 ? C7 7CH 800 A 1 HETATM 17 C C8 7CH . . . B 2 4.136 15.989 16.085 1 30.94 ? C8 7CH 800 A 1 HETATM 18 N N3 7CH . . . B 2 2.033 14.663 13.632 1 31.54 ? N3 7CH 800 A 1 HETATM 19 C C2 7CH . . . B 2 1.507 13.42 13.592 1 32.42 ? C2 7CH 800 A 1 HETATM 20 N N1 7CH . . . B 2 1.765 12.471 14.513 1 30.35 ? N1 7CH 800 A 1 HETATM 21 C C6 7CH . . . B 2 2.556 12.731 15.581 1 32.29 ? C6 7CH 800 A 1 HETATM 22 N N6 7CH . . . B 2 2.825 11.769 16.52 1 31.98 ? N6 7CH 800 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 22 #