data_6LVZ # _model_server_result.job_id yT3ij9SA0tpptSXmDN-Dxg _model_server_result.datetime_utc '2024-11-15 09:22:56' _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 6lvz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":1015}' # _entry.id 6LVZ # _exptl.entry_id 6LVZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 316.315 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-azanyl-2-(2-methoxyethoxy)-9-(pyridin-3-ylmethyl)-7H-purin-8-one _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 6LVZ _cell.length_a 98.548 _cell.length_b 139.079 _cell.length_c 149.2 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6LVZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA _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 ? 6 S N N ? 6 T N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 C 1 NAG B 838 NAG 2 n C NAG 2 C 2 NAG B 839 NAG 2 n C BMA 3 C 3 BMA B 840 BMA 2 n D NAG 1 D 1 NAG A 836 NAG 2 n D NAG 2 D 2 NAG A 837 NAG 2 n D BMA 3 D 3 BMA A 841 BMA 3 n E NAG 1 E 1 NAG A 839 NAG 3 n E NAG 2 E 2 NAG A 840 NAG # 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 14 B CYS 36 1_555 A SG CYS 29 B CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf2 A SG CYS 76 B CYS 98 1_555 A SG CYS 453 B CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf3 A SG CYS 78 B CYS 100 1_555 A SG CYS 90 B CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf4 A SG CYS 161 B CYS 183 1_555 A SG CYS 167 B CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf5 A SG CYS 238 B CYS 260 1_555 A SG CYS 251 B CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf6 A SG CYS 241 B CYS 263 1_555 A SG CYS 248 B CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 A SG CYS 469 B CYS 491 1_555 A SG CYS 499 B CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf8 A SG CYS 765 B CYS 787 1_555 A SG CYS 792 B CYS 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 A SG CYS 767 B CYS 789 1_555 A SG CYS 811 B CYS 833 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf10 B SG CYS 14 A CYS 36 1_555 B SG CYS 29 A CYS 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf11 B SG CYS 76 A CYS 98 1_555 B SG CYS 453 A CYS 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf12 B SG CYS 78 A CYS 100 1_555 B SG CYS 90 A CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf13 B SG CYS 161 A CYS 183 1_555 B SG CYS 167 A CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf14 B SG CYS 238 A CYS 260 1_555 B SG CYS 251 A CYS 273 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf15 B SG CYS 241 A CYS 263 1_555 B SG CYS 248 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf16 B SG CYS 469 A CYS 491 1_555 B SG CYS 499 A CYS 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf17 B SG CYS 765 A CYS 787 1_555 B SG CYS 792 A CYS 814 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf18 B SG CYS 767 A CYS 789 1_555 B SG CYS 811 A CYS 833 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? covale ? covale1 A ND2 ASN 47 B ASN 69 1_555 J C1 NAG . B NAG 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 A ND2 ASN 193 B ASN 215 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale3 A ND2 ASN 339 B ASN 361 1_555 M C1 NAG . B NAG 1008 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale4 A ND2 ASN 391 B ASN 413 1_555 G C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale5 A ND2 ASN 501 B ASN 523 1_555 F C1 NAG . B NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale6 A ND2 ASN 512 B ASN 534 1_555 H C1 NAG . B NAG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale7 A ND2 ASN 568 B ASN 590 1_555 I C1 NAG . B NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale8 A ND2 ASN 657 B ASN 679 1_555 L C1 NAG . B NAG 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale9 A ND2 ASN 698 B ASN 720 1_555 K C1 NAG . B NAG 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale10 B ND2 ASN 47 A ASN 69 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? covale ? covale11 B ND2 ASN 193 A ASN 215 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale12 B ND2 ASN 339 A ASN 361 1_555 W C1 NAG . A NAG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale13 B ND2 ASN 501 A ASN 523 1_555 U C1 NAG . A NAG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale14 B ND2 ASN 568 A ASN 590 1_555 V C1 NAG . A NAG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale15 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale16 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale17 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale18 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale19 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? # _chem_comp.formula 'C14 H16 N6 O3' _chem_comp.formula_weight 316.315 _chem_comp.id EWX _chem_comp.mon_nstd_flag . _chem_comp.name 6-azanyl-2-(2-methoxyethoxy)-9-(pyridin-3-ylmethyl)-7H-purin-8-one _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 O1 C5 EWX sing 107 n n O1 C3 EWX sing 108 n n C5 C6 EWX sing 109 n n N1 C3 EWX doub 110 n y N1 C2 EWX sing 111 n y C3 N EWX sing 112 n y O2 C6 EWX sing 113 n n O2 C7 EWX sing 114 n n C11 C12 EWX doub 115 n y C11 C10 EWX sing 116 n y N4 C2 EWX sing 117 n n C12 N5 EWX sing 118 n y C2 C EWX doub 119 n y N C1 EWX doub 120 n y C10 C9 EWX doub 121 n y N5 C13 EWX doub 122 n y C C1 EWX sing 123 n y C N2 EWX sing 124 n n C1 N3 EWX sing 125 n n C9 C13 EWX sing 126 n y C9 C8 EWX sing 127 n n N2 C4 EWX sing 128 n n N3 C8 EWX sing 129 n n N3 C4 EWX sing 130 n n C4 O EWX doub 131 n n N2 H1 EWX sing 132 n n C8 H2 EWX sing 133 n n C8 H3 EWX sing 134 n n C13 H4 EWX sing 135 n n C12 H5 EWX sing 136 n n C11 H6 EWX sing 137 n n C10 H7 EWX sing 138 n n N4 H8 EWX sing 139 n n N4 H9 EWX sing 140 n n C5 H10 EWX sing 141 n n C5 H11 EWX sing 142 n n C6 H12 EWX sing 143 n n C6 H13 EWX sing 144 n n C7 H14 EWX sing 145 n n C7 H15 EWX sing 146 n n C7 H16 EWX sing 147 n n # _atom_sites.entry_id 6LVZ _atom_sites.fract_transf_matrix[1][1] 0.010147 _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] 0.00719 _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] 0.006702 _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 F 4 NAG B 1 1001 836 NAG NAG . G 4 NAG B 1 1002 837 NAG NAG . H 4 NAG B 1 1003 841 NAG NAG . I 4 NAG B 1 1004 842 NAG NAG . J 4 NAG B 1 1005 843 NAG NAG . K 4 NAG B 1 1006 844 NAG NAG . L 4 NAG B 1 1007 845 NAG NAG . M 4 NAG B 1 1008 846 NAG NAG . N 5 SO4 B 1 1009 1 SO4 SO4 . O 5 SO4 B 1 1010 3 SO4 SO4 . P 5 SO4 B 1 1011 5 SO4 SO4 . Q 5 SO4 B 1 1012 6 SO4 SO4 . R 5 SO4 B 1 1013 7 SO4 SO4 . S 6 EWX B 1 1014 1 EWX sdf . T 6 EWX B 1 1015 2 EWX sdf . U 4 NAG A 1 901 838 NAG NAG . V 4 NAG A 1 902 842 NAG NAG . W 4 NAG A 1 903 843 NAG NAG . X 5 SO4 A 1 904 2 SO4 SO4 . Y 5 SO4 A 1 905 4 SO4 SO4 . Z 5 SO4 A 1 906 8 SO4 SO4 . AA 5 SO4 A 1 907 9 SO4 SO4 . BA 7 HOH B 1 1101 5 HOH HOH . BA 7 HOH B 2 1102 2 HOH HOH . BA 7 HOH B 3 1103 7 HOH HOH . BA 7 HOH B 4 1104 3 HOH HOH . BA 7 HOH B 5 1105 8 HOH HOH . BA 7 HOH B 6 1106 11 HOH HOH . CA 7 HOH A 1 1101 4 HOH HOH . CA 7 HOH A 2 1102 9 HOH HOH . CA 7 HOH A 3 1103 13 HOH HOH . CA 7 HOH A 4 1104 6 HOH HOH . CA 7 HOH A 5 1105 1 HOH HOH . CA 7 HOH A 6 1106 12 HOH HOH . CA 7 HOH A 7 1107 10 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 O EWX . . . T 6 -6.107 -18.809 38.01 1 52.09 ? O EWX 1015 B 1 HETATM 2 C C4 EWX . . . T 6 -6.721 -17.627 38.251 1 56.2 ? C4 EWX 1015 B 1 HETATM 3 N N2 EWX . . . T 6 -6.22 -16.416 37.866 1 51.39 ? N2 EWX 1015 B 1 HETATM 4 C C EWX . . . T 6 -7.136 -15.542 38.279 1 46.56 ? C EWX 1015 B 1 HETATM 5 N N3 EWX . . . T 6 -7.895 -17.635 38.89 1 52.69 ? N3 EWX 1015 B 1 HETATM 6 C C8 EWX . . . T 6 -8.619 -18.803 39.398 1 50.87 ? C8 EWX 1015 B 1 HETATM 7 C C9 EWX . . . T 6 -8.777 -18.628 40.908 1 53.73 ? C9 EWX 1015 B 1 HETATM 8 C C13 EWX . . . T 6 -7.875 -19.252 41.809 1 53.03 ? C13 EWX 1015 B 1 HETATM 9 N N5 EWX . . . T 6 -8.016 -19.126 43.141 1 48.54 ? N5 EWX 1015 B 1 HETATM 10 C C12 EWX . . . T 6 -9.03 -18.363 43.654 1 58.59 ? C12 EWX 1015 B 1 HETATM 11 C C11 EWX . . . T 6 -9.969 -17.696 42.83 1 57.35 ? C11 EWX 1015 B 1 HETATM 12 C C10 EWX . . . T 6 -9.829 -17.847 41.433 1 53.39 ? C10 EWX 1015 B 1 HETATM 13 C C1 EWX . . . T 6 -8.218 -16.34 38.935 1 49.49 ? C1 EWX 1015 B 1 HETATM 14 N N EWX . . . T 6 -9.27 -15.684 39.418 1 48.19 ? N EWX 1015 B 1 HETATM 15 C C3 EWX . . . T 6 -9.352 -14.319 39.347 1 51.23 ? C3 EWX 1015 B 1 HETATM 16 N N1 EWX . . . T 6 -8.401 -13.469 38.764 1 46.93 ? N1 EWX 1015 B 1 HETATM 17 C C2 EWX . . . T 6 -7.265 -14.07 38.219 1 47.62 ? C2 EWX 1015 B 1 HETATM 18 N N4 EWX . . . T 6 -6.235 -13.419 37.623 1 45.96 ? N4 EWX 1015 B 1 HETATM 19 O O1 EWX . . . T 6 -10.488 -13.878 39.952 1 48.41 ? O1 EWX 1015 B 1 HETATM 20 C C5 EWX . . . T 6 -11.443 -13.195 39.239 1 55.14 ? C5 EWX 1015 B 1 HETATM 21 C C6 EWX . . . T 6 -12.548 -14.18 39.003 1 52.42 ? C6 EWX 1015 B 1 HETATM 22 O O2 EWX . . . T 6 -13.015 -13.667 37.734 1 63.17 ? O2 EWX 1015 B 1 HETATM 23 C C7 EWX . . . T 6 -13.825 -14.6 36.999 1 70.59 ? C7 EWX 1015 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 23 #