data_4JVJ # _model_server_result.job_id m6bG6fiwdMae7yMOZBCJVw _model_server_result.datetime_utc '2024-11-16 04:36:51' _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 4jvj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4JVJ # _exptl.entry_id 4JVJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 415.298 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '({[6-(4-methylphenyl)thieno[2,3-d]pyrimidin-4-yl]amino}methanediyl)bis(phosphonic acid)' _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 4JVJ _cell.length_a 111.33 _cell.length_b 111.33 _cell.length_c 67.462 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JVJ _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 metalc ? metalc1 A OD1 ASP 125 F ASP 103 1_555 F MG MG . F MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc2 A OD2 ASP 129 F ASP 107 1_555 E MG MG . F MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc3 A OD2 ASP 129 F ASP 107 1_555 F MG MG . F MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc4 A OD2 ASP 265 F ASP 243 1_555 D MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc5 B OAW 1MV . F 1MV 401 1_555 D MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc6 B OAY 1MV . F 1MV 401 1_555 D MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc7 B OAV 1MV . F 1MV 401 1_555 E MG MG . F MG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc8 B OAZ 1MV . F 1MV 401 1_555 F MG MG . F MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc9 B OAV 1MV . F 1MV 401 1_555 F MG MG . F MG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc10 D MG MG . F MG 403 1_555 G O HOH . F HOH 513 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc11 D MG MG . F MG 403 1_555 G O HOH . F HOH 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? metalc ? metalc12 E MG MG . F MG 404 1_555 G O HOH . F HOH 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc13 E MG MG . F MG 404 1_555 G O HOH . F HOH 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc14 F MG MG . F MG 405 1_555 G O HOH . F HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.938 ? # _chem_comp.formula 'C14 H15 N3 O6 P2 S' _chem_comp.formula_weight 415.298 _chem_comp.id 1MV _chem_comp.mon_nstd_flag . _chem_comp.name '({[6-(4-methylphenyl)thieno[2,3-d]pyrimidin-4-yl]amino}methanediyl)bis(phosphonic acid)' _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 OAU PAS 1MV doub 1 n n PAS OAV 1MV sing 2 n n PAS OAW 1MV sing 3 n n PAS CAR 1MV sing 4 n n CAR PAT 1MV sing 5 n n CAR NAJ 1MV sing 6 n n PAT OAX 1MV doub 7 n n PAT OAZ 1MV sing 8 n n PAT OAY 1MV sing 9 n n NAJ C4 1MV sing 10 n n C4 N3 1MV doub 11 n y C4 C5 1MV sing 12 n y N3 C2 1MV sing 13 n y C2 N1 1MV doub 14 n y N1 C6 1MV sing 15 n y C6 SAE 1MV sing 16 n y C6 C5 1MV doub 17 n y SAE CAD 1MV sing 18 n y C5 CAC 1MV sing 19 n y CAC CAD 1MV doub 20 n y CAD CAK 1MV sing 21 n n CAK CAL 1MV doub 22 n y CAK CAP 1MV sing 23 n y CAL CAM 1MV sing 24 n y CAM CAN 1MV doub 25 n y CAN CAQ 1MV sing 26 n n CAN CAO 1MV sing 27 n y CAO CAP 1MV doub 28 n y OAV H1 1MV sing 29 n n OAW H2 1MV sing 30 n n CAR H3 1MV sing 31 n n OAZ H4 1MV sing 32 n n OAY H5 1MV sing 33 n n NAJ H6 1MV sing 34 n n C2 H7 1MV sing 35 n n CAC H8 1MV sing 36 n n CAL H10 1MV sing 37 n n CAM H11 1MV sing 38 n n CAQ H12 1MV sing 39 n n CAQ H13 1MV sing 40 n n CAQ H14 1MV sing 41 n n CAO H15 1MV sing 42 n n CAP H16 1MV sing 43 n n # _atom_sites.entry_id 4JVJ _atom_sites.fract_transf_matrix[1][1] 0.008982 _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] 0.008982 _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] 0.014823 _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 1MV F 1 401 1 1MV YL1 . C 3 SO4 F 1 402 1 SO4 SO4 . D 4 MG F 1 403 1 MG MG . E 4 MG F 1 404 1 MG MG . F 4 MG F 1 405 1 MG MG . G 5 HOH F 1 501 1 HOH HOH . G 5 HOH F 2 502 2 HOH HOH . G 5 HOH F 3 503 3 HOH HOH . G 5 HOH F 4 504 4 HOH HOH . G 5 HOH F 5 505 5 HOH HOH . G 5 HOH F 6 506 6 HOH HOH . G 5 HOH F 7 507 7 HOH HOH . G 5 HOH F 8 508 8 HOH HOH . G 5 HOH F 9 509 9 HOH HOH . G 5 HOH F 10 510 10 HOH HOH . G 5 HOH F 11 511 11 HOH HOH . G 5 HOH F 12 512 12 HOH HOH . G 5 HOH F 13 513 13 HOH HOH . G 5 HOH F 14 514 14 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 OAU 1MV . . . B 2 15.961 32.315 -10.244 1 75.23 ? OAU 1MV 401 F 1 HETATM 2 P PAS 1MV . . . B 2 16.311 33.774 -9.735 1 80.7 ? PAS 1MV 401 F 1 HETATM 3 O OAV 1MV . . . B 2 17.557 33.637 -8.947 1 79.68 ? OAV 1MV 401 F 1 HETATM 4 O OAW 1MV . . . B 2 16.257 34.728 -10.87 1 72.27 ? OAW 1MV 401 F 1 HETATM 5 C CAR 1MV . . . B 2 14.869 34.142 -8.57 1 78.88 ? CAR 1MV 401 F 1 HETATM 6 P PAT 1MV . . . B 2 15.255 35.615 -7.526 1 80.47 ? PAT 1MV 401 F 1 HETATM 7 O OAX 1MV . . . B 2 14.922 35.081 -6.05 1 72.16 ? OAX 1MV 401 F 1 HETATM 8 O OAZ 1MV . . . B 2 16.705 35.871 -7.626 1 72.66 ? OAZ 1MV 401 F 1 HETATM 9 O OAY 1MV . . . B 2 14.309 36.722 -7.855 1 78.65 ? OAY 1MV 401 F 1 HETATM 10 N NAJ 1MV . . . B 2 14.541 32.953 -7.737 1 83.5 ? NAJ 1MV 401 F 1 HETATM 11 C C4 1MV . . . B 2 13.871 31.948 -8.299 1 86.16 ? C4 1MV 401 F 1 HETATM 12 N N3 1MV . . . B 2 12.762 32.26 -8.989 1 88.8 ? N3 1MV 401 F 1 HETATM 13 C C2 1MV . . . B 2 12.043 31.258 -9.621 1 90.79 ? C2 1MV 401 F 1 HETATM 14 N N1 1MV . . . B 2 12.526 29.951 -9.52 1 89.85 ? N1 1MV 401 F 1 HETATM 15 C C6 1MV . . . B 2 13.653 29.706 -8.817 1 92.09 ? C6 1MV 401 F 1 HETATM 16 S SAE 1MV . . . B 2 14.435 28.302 -8.533 1 93.19 ? SAE 1MV 401 F 1 HETATM 17 C C5 1MV . . . B 2 14.35 30.682 -8.196 1 90.9 ? C5 1MV 401 F 1 HETATM 18 C CAC 1MV . . . B 2 15.448 30.177 -7.55 1 96.18 ? CAC 1MV 401 F 1 HETATM 19 C CAD 1MV . . . B 2 15.611 28.836 -7.676 1 93.71 ? CAD 1MV 401 F 1 HETATM 20 C CAK 1MV . . . B 2 16.553 28.007 -7.156 1 100.26 ? CAK 1MV 401 F 1 HETATM 21 C CAL 1MV . . . B 2 16.81 26.757 -7.742 1 104.76 ? CAL 1MV 401 F 1 HETATM 22 C CAM 1MV . . . B 2 17.755 25.867 -7.205 1 104.77 ? CAM 1MV 401 F 1 HETATM 23 C CAN 1MV . . . B 2 18.475 26.188 -6.058 1 96.85 ? CAN 1MV 401 F 1 HETATM 24 C CAQ 1MV . . . B 2 19.409 25.272 -5.555 1 87.31 ? CAQ 1MV 401 F 1 HETATM 25 C CAO 1MV . . . B 2 18.228 27.428 -5.452 1 101.36 ? CAO 1MV 401 F 1 HETATM 26 C CAP 1MV . . . B 2 17.278 28.316 -5.994 1 102.29 ? CAP 1MV 401 F 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #