data_4PEV # _model_server_result.job_id JwB_j91ZFY8sMvUT27Drfg _model_server_result.datetime_utc '2025-05-21 02:22:55' _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 4pev # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 4PEV # _exptl.entry_id 4PEV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE _entity.pdbx_number_of_molecules 3 _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 4PEV _cell.length_a 70.979 _cell.length_b 109.601 _cell.length_c 180.559 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PEV _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression C,F,G,J 1 1 A,D,H 2 1 B,E,I 3 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 D N N ? 2 E N N ? 2 F 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 A C ASP 71 A ASP 96 1_555 A N MSE 72 A MSE 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 A C MSE 72 A MSE 97 1_555 A N ALA 73 A ALA 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 A C VAL 98 A VAL 123 1_555 A N MSE 99 A MSE 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? covale ? covale4 A C MSE 99 A MSE 124 1_555 A N GLU 100 A GLU 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale5 A C GLY 192 A GLY 217 1_555 A N MSE 193 A MSE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale6 A C MSE 193 A MSE 218 1_555 A N ASP 194 A ASP 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale7 A C ALA 215 A ALA 240 1_555 A N MSE 216 A MSE 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale8 A C MSE 216 A MSE 241 1_555 A N GLY 217 A GLY 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale9 A C GLU 221 A GLU 246 1_555 A N MSE 222 A MSE 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale10 A C MSE 222 A MSE 247 1_555 A N VAL 223 A VAL 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale11 A C GLN 242 A GLN 267 1_555 A N MSE 243 A MSE 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale12 A C MSE 243 A MSE 268 1_555 A N LEU 244 A LEU 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 A C GLY 261 A GLY 286 1_555 A N MSE 262 A MSE 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale14 A C MSE 262 A MSE 287 1_555 A N PHE 263 A PHE 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale15 A C VAL 365 A VAL 390 1_555 A N MSE 366 A MSE 391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale16 A C MSE 366 A MSE 391 1_555 A N SER 367 A SER 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale17 B C ASP 71 B ASP 96 1_555 B N MSE 72 B MSE 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale18 B C MSE 72 B MSE 97 1_555 B N ALA 73 B ALA 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale19 B C VAL 98 B VAL 123 1_555 B N MSE 99 B MSE 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale20 B C MSE 99 B MSE 124 1_555 B N GLU 100 B GLU 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale21 B C GLY 192 B GLY 217 1_555 B N MSE 193 B MSE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale22 B C MSE 193 B MSE 218 1_555 B N ASP 194 B ASP 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale23 B C ALA 215 B ALA 240 1_555 B N MSE 216 B MSE 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale24 B C MSE 216 B MSE 241 1_555 B N GLY 217 B GLY 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale25 B C GLU 221 B GLU 246 1_555 B N MSE 222 B MSE 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale26 B C MSE 222 B MSE 247 1_555 B N VAL 223 B VAL 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale27 B C GLN 242 B GLN 267 1_555 B N MSE 243 B MSE 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale28 B C MSE 243 B MSE 268 1_555 B N LEU 244 B LEU 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale29 B C GLY 261 B GLY 286 1_555 B N MSE 262 B MSE 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale30 B C MSE 262 B MSE 287 1_555 B N PHE 263 B PHE 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale31 B C VAL 365 B VAL 390 1_555 B N MSE 366 B MSE 391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale32 B C MSE 366 B MSE 391 1_555 B N SER 367 B SER 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale33 C C ASP 71 C ASP 96 1_555 C N MSE 72 C MSE 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale34 C C MSE 72 C MSE 97 1_555 C N ALA 73 C ALA 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale35 C C VAL 98 C VAL 123 1_555 C N MSE 99 C MSE 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale36 C C MSE 99 C MSE 124 1_555 C N GLU 100 C GLU 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale37 C C GLY 192 C GLY 217 1_555 C N MSE 193 C MSE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale38 C C MSE 193 C MSE 218 1_555 C N ASP 194 C ASP 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale39 C C ALA 215 C ALA 240 1_555 C N MSE 216 C MSE 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale40 C C MSE 216 C MSE 241 1_555 C N GLY 217 C GLY 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale41 C C GLU 221 C GLU 246 1_555 C N MSE 222 C MSE 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale42 C C MSE 222 C MSE 247 1_555 C N VAL 223 C VAL 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale43 C C GLN 242 C GLN 267 1_555 C N MSE 243 C MSE 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale44 C C MSE 243 C MSE 268 1_555 C N LEU 244 C LEU 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale45 C C GLY 261 C GLY 286 1_555 C N MSE 262 C MSE 287 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale46 C C MSE 262 C MSE 287 1_555 C N PHE 263 C PHE 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale47 C C VAL 365 C VAL 390 1_555 C N MSE 366 C MSE 391 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale48 C C MSE 366 C MSE 391 1_555 C N SER 367 C SER 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id ADN _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE _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 O5' C5' ADN sing 1 n n O5' HO5' ADN sing 2 n n C5' C4' ADN sing 3 n n C5' "H5'1" ADN sing 4 n n C5' "H5'2" ADN sing 5 n n C4' O4' ADN sing 6 n n C4' C3' ADN sing 7 n n C4' H4' ADN sing 8 n n O4' C1' ADN sing 9 n n C3' O3' ADN sing 10 n n C3' C2' ADN sing 11 n n C3' H3' ADN sing 12 n n O3' HO3' ADN sing 13 n n C2' O2' ADN sing 14 n n C2' C1' ADN sing 15 n n C2' H2' ADN sing 16 n n O2' HO2' ADN sing 17 n n C1' N9 ADN sing 18 n n C1' H1' ADN sing 19 n n N9 C8 ADN sing 20 n y N9 C4 ADN sing 21 n y C8 N7 ADN doub 22 n y C8 H8 ADN sing 23 n n N7 C5 ADN sing 24 n y C5 C6 ADN sing 25 n y C5 C4 ADN doub 26 n y C6 N6 ADN sing 27 n n C6 N1 ADN doub 28 n y N6 HN61 ADN sing 29 n n N6 HN62 ADN sing 30 n n N1 C2 ADN sing 31 n y C2 N3 ADN doub 32 n y C2 H2 ADN sing 33 n n N3 C4 ADN sing 34 n y # _atom_sites.entry_id 4PEV _atom_sites.fract_transf_matrix[1][1] 0.014089 _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] 0.009124 _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] 0.005538 _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 D 2 ADN A 1 501 501 ADN ADN . E 2 ADN B 1 501 501 ADN ADN . F 2 ADN C 1 501 501 ADN ADN . G 3 GOL C 1 502 502 GOL GOL . H 4 HOH A 1 601 14 HOH HOH . H 4 HOH A 2 602 4 HOH HOH . H 4 HOH A 3 603 39 HOH HOH . H 4 HOH A 4 604 34 HOH HOH . H 4 HOH A 5 605 6 HOH HOH . H 4 HOH A 6 606 7 HOH HOH . H 4 HOH A 7 607 8 HOH HOH . H 4 HOH A 8 608 11 HOH HOH . H 4 HOH A 9 609 12 HOH HOH . H 4 HOH A 10 610 13 HOH HOH . H 4 HOH A 11 611 21 HOH HOH . H 4 HOH A 12 612 23 HOH HOH . H 4 HOH A 13 613 24 HOH HOH . H 4 HOH A 14 614 30 HOH HOH . H 4 HOH A 15 615 35 HOH HOH . H 4 HOH A 16 616 36 HOH HOH . H 4 HOH A 17 617 38 HOH HOH . H 4 HOH A 18 618 40 HOH HOH . H 4 HOH A 19 619 41 HOH HOH . H 4 HOH A 20 620 43 HOH HOH . I 4 HOH B 1 601 29 HOH HOH . I 4 HOH B 2 602 19 HOH HOH . I 4 HOH B 3 603 20 HOH HOH . I 4 HOH B 4 604 9 HOH HOH . I 4 HOH B 5 605 10 HOH HOH . I 4 HOH B 6 606 15 HOH HOH . I 4 HOH B 7 607 16 HOH HOH . I 4 HOH B 8 608 22 HOH HOH . I 4 HOH B 9 609 25 HOH HOH . I 4 HOH B 10 610 26 HOH HOH . I 4 HOH B 11 611 32 HOH HOH . I 4 HOH B 12 612 33 HOH HOH . I 4 HOH B 13 613 44 HOH HOH . J 4 HOH C 1 601 28 HOH HOH . J 4 HOH C 2 602 1 HOH HOH . J 4 HOH C 3 603 2 HOH HOH . J 4 HOH C 4 604 3 HOH HOH . J 4 HOH C 5 605 5 HOH HOH . J 4 HOH C 6 606 17 HOH HOH . J 4 HOH C 7 607 18 HOH HOH . J 4 HOH C 8 608 27 HOH HOH . J 4 HOH C 9 609 31 HOH HOH . J 4 HOH C 10 610 37 HOH HOH . J 4 HOH C 11 611 42 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 O5' ADN . . . F 2 14.527 72.064 101.413 1 24.76 ? O5' ADN 501 C 1 HETATM 2 C C5' ADN . . . F 2 14.938 70.69 101.549 1 24.46 ? C5' ADN 501 C 1 HETATM 3 C C4' ADN . . . F 2 14.187 69.879 102.61 1 25 ? C4' ADN 501 C 1 HETATM 4 O O4' ADN . . . F 2 14.434 70.365 103.932 1 25.17 ? O4' ADN 501 C 1 HETATM 5 C C3' ADN . . . F 2 12.665 69.84 102.508 1 25.42 ? C3' ADN 501 C 1 HETATM 6 O O3' ADN . . . F 2 12.21 68.906 101.523 1 24.73 ? O3' ADN 501 C 1 HETATM 7 C C2' ADN . . . F 2 12.259 69.475 103.932 1 25.15 ? C2' ADN 501 C 1 HETATM 8 O O2' ADN . . . F 2 12.326 68.067 104.196 1 24.87 ? O2' ADN 501 C 1 HETATM 9 C C1' ADN . . . F 2 13.291 70.19 104.764 1 25.2 ? C1' ADN 501 C 1 HETATM 10 N N9 ADN . . . F 2 12.813 71.523 105.178 1 26.41 ? N9 ADN 501 C 1 HETATM 11 C C8 ADN . . . F 2 12.804 72.66 104.443 1 26.73 ? C8 ADN 501 C 1 HETATM 12 N N7 ADN . . . F 2 12.305 73.705 105.156 1 27.31 ? N7 ADN 501 C 1 HETATM 13 C C5 ADN . . . F 2 11.998 73.22 106.378 1 28.16 ? C5 ADN 501 C 1 HETATM 14 C C6 ADN . . . F 2 11.429 73.751 107.635 1 28.08 ? C6 ADN 501 C 1 HETATM 15 N N6 ADN . . . F 2 11.081 75.049 107.717 1 28.7 ? N6 ADN 501 C 1 HETATM 16 N N1 ADN . . . F 2 11.26 72.902 108.679 1 28.31 ? N1 ADN 501 C 1 HETATM 17 C C2 ADN . . . F 2 11.592 71.595 108.609 1 27.77 ? C2 ADN 501 C 1 HETATM 18 N N3 ADN . . . F 2 12.11 71.044 107.504 1 28.04 ? N3 ADN 501 C 1 HETATM 19 C C4 ADN . . . F 2 12.328 71.784 106.383 1 27.8 ? C4 ADN 501 C 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 458 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 19 #