data_4BXN # _model_server_result.job_id lCOC6Rfzj9xnZ791iDrS4A _model_server_result.datetime_utc '2024-10-22 03:38:30' _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 4bxn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 4BXN # _exptl.entry_id 4BXN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 120 _cell.entry_id 4BXN _cell.length_a 81.426 _cell.length_b 81.426 _cell.length_c 115.202 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BXN _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,KA 1 1 B,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,LA 2 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 C N N ? 2 S 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 B OE1 GLU 116 B GLU 116 1_555 DA CAS 6LX . B 6LX 1375 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? metalc ? metalc1 A SG CYS 25 A CYS 25 1_555 G CD CD . A CD 1368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc2 A N ARG 26 A ARG 26 1_555 G CD CD . A CD 1368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc3 A O CYS 87 A CYS 87 1_555 F CD CD . A CD 1367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc4 A SG CYS 87 A CYS 87 1_555 I CD CD . A CD 1370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc5 A NZ LYS 157 A LYS 157 1_555 L CD CD . A CD 1373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc6 A OD2 ASP 186 A ASP 186 1_555 K CD CD . A CD 1372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc7 A O SER 232 A SER 232 1_555 H CD CD . A CD 1369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc8 A NH2 ARG 283 A ARG 283 1_555 X CD CD . B CD 1369 3_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc9 A OE2 GLU 313 A GLU 313 1_555 D CD CD . A CD 1365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc10 D CD CD . A CD 1365 1_555 KA O HOH . A HOH 2022 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.611 ? metalc ? metalc11 J CD CD . A CD 1371 2_564 B OD2 ASP 186 B ASP 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.897 ? metalc ? metalc12 B SG CYS 25 B CYS 25 1_555 V CD CD . B CD 1367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? metalc ? metalc13 B N GLY 73 B GLY 73 1_555 GA CD CD . B CD 1378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc14 B O GLY 73 B GLY 73 1_555 GA CD CD . B CD 1378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc15 B OD2 ASP 91 B ASP 91 1_555 Y CD CD . B CD 1370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc16 B OD2 ASP 149 B ASP 149 1_555 CA CD CD . B CD 1374 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc17 B ND1 HIS 244 B HIS 244 1_555 EA CD CD . B CD 1376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc18 B OD2 ASP 322 B ASP 322 1_555 AA CD CD . B CD 1372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc19 Y CD CD . B CD 1370 1_555 LA O HOH . B HOH 2007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 74 n n PB O2B ADP sing 75 n n PB O3B ADP sing 76 n n PB O3A ADP sing 77 n n O2B HOB2 ADP sing 78 n n O3B HOB3 ADP sing 79 n n PA O1A ADP doub 80 n n PA O2A ADP sing 81 n n PA O3A ADP sing 82 n n PA O5' ADP sing 83 n n O2A HOA2 ADP sing 84 n n O5' C5' ADP sing 85 n n C5' C4' ADP sing 86 n n C5' "H5'1" ADP sing 87 n n C5' "H5'2" ADP sing 88 n n C4' O4' ADP sing 89 n n C4' C3' ADP sing 90 n n C4' H4' ADP sing 91 n n O4' C1' ADP sing 92 n n C3' O3' ADP sing 93 n n C3' C2' ADP sing 94 n n C3' H3' ADP sing 95 n n O3' HO3' ADP sing 96 n n C2' O2' ADP sing 97 n n C2' C1' ADP sing 98 n n C2' H2' ADP sing 99 n n O2' HO2' ADP sing 100 n n C1' N9 ADP sing 101 n n C1' H1' ADP sing 102 n n N9 C8 ADP sing 103 n y N9 C4 ADP sing 104 n y C8 N7 ADP doub 105 n y C8 H8 ADP sing 106 n n N7 C5 ADP sing 107 n y C5 C6 ADP sing 108 n y C5 C4 ADP doub 109 n y C6 N6 ADP sing 110 n n C6 N1 ADP doub 111 n y N6 HN61 ADP sing 112 n n N6 HN62 ADP sing 113 n n N1 C2 ADP sing 114 n y C2 N3 ADP doub 115 n y C2 H2 ADP sing 116 n n N3 C4 ADP sing 117 n y # _atom_sites.entry_id 4BXN _atom_sites.fract_transf_matrix[1][1] 0.012281 _atom_sites.fract_transf_matrix[1][2] 0.00709 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014181 _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] 0.00868 _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 ADP A 1 601 601 ADP ADP . D 3 CD A 1 1365 1365 CD CD . E 3 CD A 1 1366 1366 CD CD . F 3 CD A 1 1367 1367 CD CD . G 3 CD A 1 1368 1368 CD CD . H 3 CD A 1 1369 1369 CD CD . I 3 CD A 1 1370 1370 CD CD . J 3 CD A 1 1371 1371 CD CD . K 3 CD A 1 1372 1372 CD CD . L 3 CD A 1 1373 1373 CD CD . M 4 CL A 1 1374 1374 CL CL . N 5 6LX A 1 1375 1375 6LX 6LX . O 4 CL A 1 1376 1376 CL CL . P 4 CL A 1 1377 1377 CL CL . Q 4 CL A 1 1378 1378 CL CL . R 4 CL A 1 1381 1381 CL CL . S 2 ADP B 1 601 601 ADP ADP . T 3 CD B 1 1365 1365 CD CD . U 3 CD B 1 1366 1366 CD CD . V 3 CD B 1 1367 1367 CD CD . W 3 CD B 1 1368 1368 CD CD . X 3 CD B 1 1369 1369 CD CD . Y 3 CD B 1 1370 1370 CD CD . Z 3 CD B 1 1371 1371 CD CD . AA 3 CD B 1 1372 1372 CD CD . BA 3 CD B 1 1373 1373 CD CD . CA 3 CD B 1 1374 1374 CD CD . DA 5 6LX B 1 1375 1375 6LX 6LX . EA 3 CD B 1 1376 1376 CD CD . FA 4 CL B 1 1377 1377 CL CL . GA 3 CD B 1 1378 1378 CD CD . HA 3 CD B 1 1379 1379 CD CD . IA 4 CL B 1 1385 1385 CL CL . JA 4 CL B 1 1386 1386 CL CL . KA 6 HOH A 1 2001 2001 HOH HOH . KA 6 HOH A 2 2002 2002 HOH HOH . KA 6 HOH A 3 2003 2003 HOH HOH . KA 6 HOH A 4 2004 2004 HOH HOH . KA 6 HOH A 5 2005 2005 HOH HOH . KA 6 HOH A 6 2006 2006 HOH HOH . KA 6 HOH A 7 2007 2007 HOH HOH . KA 6 HOH A 8 2008 2008 HOH HOH . KA 6 HOH A 9 2009 2009 HOH HOH . KA 6 HOH A 10 2010 2010 HOH HOH . KA 6 HOH A 11 2011 2011 HOH HOH . KA 6 HOH A 12 2012 2012 HOH HOH . KA 6 HOH A 13 2013 2013 HOH HOH . KA 6 HOH A 14 2014 2014 HOH HOH . KA 6 HOH A 15 2015 2015 HOH HOH . KA 6 HOH A 16 2016 2016 HOH HOH . KA 6 HOH A 17 2017 2017 HOH HOH . KA 6 HOH A 18 2018 2018 HOH HOH . KA 6 HOH A 19 2019 2019 HOH HOH . KA 6 HOH A 20 2020 2020 HOH HOH . KA 6 HOH A 21 2021 2021 HOH HOH . KA 6 HOH A 22 2022 2022 HOH HOH . KA 6 HOH A 23 2023 2023 HOH HOH . KA 6 HOH A 24 2024 2024 HOH HOH . KA 6 HOH A 25 2025 2025 HOH HOH . KA 6 HOH A 26 2026 2026 HOH HOH . KA 6 HOH A 27 2027 2027 HOH HOH . KA 6 HOH A 28 2028 2028 HOH HOH . KA 6 HOH A 29 2029 2029 HOH HOH . KA 6 HOH A 30 2030 2030 HOH HOH . KA 6 HOH A 31 2031 2031 HOH HOH . KA 6 HOH A 32 2032 2032 HOH HOH . LA 6 HOH B 1 2001 2001 HOH HOH . LA 6 HOH B 2 2002 2002 HOH HOH . LA 6 HOH B 3 2003 2003 HOH HOH . LA 6 HOH B 4 2004 2004 HOH HOH . LA 6 HOH B 5 2005 2005 HOH HOH . LA 6 HOH B 6 2006 2006 HOH HOH . LA 6 HOH B 7 2007 2007 HOH HOH . LA 6 HOH B 8 2008 2008 HOH HOH . LA 6 HOH B 9 2009 2009 HOH HOH . LA 6 HOH B 10 2010 2010 HOH HOH . LA 6 HOH B 11 2011 2011 HOH HOH . LA 6 HOH B 12 2012 2012 HOH HOH . LA 6 HOH B 13 2013 2013 HOH HOH . LA 6 HOH B 14 2014 2014 HOH HOH . LA 6 HOH B 15 2015 2015 HOH HOH . LA 6 HOH B 16 2016 2016 HOH HOH . LA 6 HOH B 17 2017 2017 HOH HOH . LA 6 HOH B 18 2018 2018 HOH HOH . LA 6 HOH B 19 2019 2019 HOH HOH . LA 6 HOH B 20 2020 2020 HOH HOH . LA 6 HOH B 21 2021 2021 HOH HOH . LA 6 HOH B 22 2022 2022 HOH HOH . LA 6 HOH B 23 2023 2023 HOH HOH . LA 6 HOH B 24 2024 2024 HOH HOH . LA 6 HOH B 25 2025 2025 HOH HOH . LA 6 HOH B 26 2026 2026 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 PB ADP . . . C 2 5.748 23.899 4.517 1 78.54 ? PB ADP 601 A 1 HETATM 2 O O1B ADP . . . C 2 6.172 23.086 3.314 1 74.44 ? O1B ADP 601 A 1 HETATM 3 O O2B ADP . . . C 2 4.351 24.449 4.42 1 71 ? O2B ADP 601 A 1 HETATM 4 O O3B ADP . . . C 2 6.779 24.928 4.91 1 79.58 ? O3B ADP 601 A 1 HETATM 5 P PA ADP . . . C 2 6.774 21.848 6.308 1 73.47 ? PA ADP 601 A 1 HETATM 6 O O1A ADP . . . C 2 8.14 22.337 5.881 1 74.69 ? O1A ADP 601 A 1 HETATM 7 O O2A ADP . . . C 2 6.367 20.444 5.956 1 70.77 ? O2A ADP 601 A 1 HETATM 8 O O3A ADP . . . C 2 5.642 22.887 5.786 1 73.99 ? O3A ADP 601 A 1 HETATM 9 O O5' ADP . . . C 2 6.714 21.833 7.913 1 66.08 ? O5' ADP 601 A 1 HETATM 10 C C5' ADP . . . C 2 6.942 20.562 8.527 1 67.64 ? C5' ADP 601 A 1 HETATM 11 C C4' ADP . . . C 2 7.791 20.595 9.794 1 66.86 ? C4' ADP 601 A 1 HETATM 12 O O4' ADP . . . C 2 6.985 20.979 10.91 1 65.76 ? O4' ADP 601 A 1 HETATM 13 C C3' ADP . . . C 2 8.32 19.195 10.072 1 66.7 ? C3' ADP 601 A 1 HETATM 14 O O3' ADP . . . C 2 9.676 19.224 10.542 1 67.27 ? O3' ADP 601 A 1 HETATM 15 C C2' ADP . . . C 2 7.44 18.665 11.169 1 66.33 ? C2' ADP 601 A 1 HETATM 16 O O2' ADP . . . C 2 8.222 17.818 12.017 1 66.05 ? O2' ADP 601 A 1 HETATM 17 C C1' ADP . . . C 2 6.928 19.93 11.865 1 65.85 ? C1' ADP 601 A 1 HETATM 18 N N9 ADP . . . C 2 5.533 19.732 12.3 1 61.98 ? N9 ADP 601 A 1 HETATM 19 C C8 ADP . . . C 2 4.397 20.06 11.661 1 62.16 ? C8 ADP 601 A 1 HETATM 20 N N7 ADP . . . C 2 3.319 19.685 12.396 1 64.87 ? N7 ADP 601 A 1 HETATM 21 C C5 ADP . . . C 2 3.774 19.112 13.53 1 65.16 ? C5 ADP 601 A 1 HETATM 22 C C6 ADP . . . C 2 3.201 18.499 14.754 1 66.58 ? C6 ADP 601 A 1 HETATM 23 N N6 ADP . . . C 2 1.862 18.401 14.949 1 64.78 ? N6 ADP 601 A 1 HETATM 24 N N1 ADP . . . C 2 4.069 18.033 15.689 1 69.8 ? N1 ADP 601 A 1 HETATM 25 C C2 ADP . . . C 2 5.404 18.103 15.535 1 67.19 ? C2 ADP 601 A 1 HETATM 26 N N3 ADP . . . C 2 5.986 18.641 14.451 1 66.37 ? N3 ADP 601 A 1 HETATM 27 C C4 ADP . . . C 2 5.237 19.152 13.448 1 63.94 ? C4 ADP 601 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 27 #