data_4B2Q # _model_server_result.job_id HSxhWNdS9DzFmOKIaiWW4w _model_server_result.datetime_utc '2024-11-22 17:20:02' _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 4b2q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"MB","auth_seq_id":1479}' # _entry.id 4B2Q # _exptl.entry_id 4B2Q _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 4B2Q _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4B2Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 46-meric _pdbx_struct_assembly.oligomeric_count 46 _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,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB _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 ? 15 AB N N ? 15 CB N N ? 15 KB N N ? 15 MB 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 metalc ? metalc1 A OG1 THR 153 A THR 178 1_555 VA MG MG . A MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc2 UA O2G ATP . A ATP 1511 1_555 VA MG MG . A MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc3 UA O2B ATP . A ATP 1511 1_555 VA MG MG . A MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc4 B OG1 THR 154 B THR 178 1_555 XA MG MG . B MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc5 WA O1G ATP . B ATP 1510 1_555 XA MG MG . B MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc6 WA O2G ATP . B ATP 1510 1_555 XA MG MG . B MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? metalc ? metalc7 WA O2B ATP . B ATP 1510 1_555 XA MG MG . B MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc8 WA PG ATP . B ATP 1510 1_555 XA MG MG . B MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc9 C OG1 THR 153 C THR 178 1_555 ZA MG MG . C MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc10 YA O2B ATP . C ATP 1511 1_555 ZA MG MG . C MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc11 YA O1G ATP . C ATP 1511 1_555 ZA MG MG . C MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc12 YA O2G ATP . C ATP 1511 1_555 ZA MG MG . C MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc13 D OG1 THR 159 D THR 164 1_555 BB MG MG . D MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc14 AB O2B ADP . D ADP 1476 1_555 BB MG MG . D MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc15 AB O2A ADP . D ADP 1476 1_555 BB MG MG . D MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? metalc ? metalc16 AB O1B ADP . D ADP 1476 1_555 BB MG MG . D MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.971 ? metalc ? metalc17 F OG1 THR 159 F THR 164 1_555 DB MG MG . F MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc18 F OE1 GLU 184 F GLU 189 1_555 DB MG MG . F MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc19 CB O2B ADP . F ADP 1479 1_555 DB MG MG . F MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc20 X OG1 THR 153 a THR 178 1_555 FB MG MG . a MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc21 EB O2G ATP . a ATP 1511 1_555 FB MG MG . a MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc22 EB O2B ATP . a ATP 1511 1_555 FB MG MG . a MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? metalc ? metalc23 Y OG1 THR 154 b THR 178 1_555 HB MG MG . b MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc24 GB O2B ATP . b ATP 1510 1_555 HB MG MG . b MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc25 GB O2G ATP . b ATP 1510 1_555 HB MG MG . b MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc26 GB O1G ATP . b ATP 1510 1_555 HB MG MG . b MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc27 GB PG ATP . b ATP 1510 1_555 HB MG MG . b MG 1511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.68 ? metalc ? metalc28 Z OG1 THR 153 c THR 178 1_555 JB MG MG . c MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc29 IB O1G ATP . c ATP 1511 1_555 JB MG MG . c MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc30 IB O2G ATP . c ATP 1511 1_555 JB MG MG . c MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc31 IB O2B ATP . c ATP 1511 1_555 JB MG MG . c MG 1512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc32 AA OG1 THR 159 d THR 164 1_555 LB MG MG . d MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.413 ? metalc ? metalc33 KB O2B ADP . d ADP 1476 1_555 LB MG MG . d MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc34 KB O2A ADP . d ADP 1476 1_555 LB MG MG . d MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.979 ? metalc ? metalc35 KB O1B ADP . d ADP 1476 1_555 LB MG MG . d MG 1477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.972 ? metalc ? metalc36 CA OG1 THR 159 f THR 164 1_555 NB MG MG . f MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc37 CA OE1 GLU 184 f GLU 189 1_555 NB MG MG . f MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc38 MB O2B ADP . f ADP 1479 1_555 NB MG MG . f MG 1480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? # _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 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 4B2Q _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 UA 13 ATP A 1 1511 1511 ATP ATP . VA 14 MG A 1 1512 1512 MG MG . WA 13 ATP B 1 1510 1510 ATP ATP . XA 14 MG B 1 1511 1511 MG MG . YA 13 ATP C 1 1511 1511 ATP ATP . ZA 14 MG C 1 1512 1512 MG MG . AB 15 ADP D 1 1476 1476 ADP ADP . BB 14 MG D 1 1477 1477 MG MG . CB 15 ADP F 1 1479 1479 ADP ADP . DB 14 MG F 1 1480 1480 MG MG . EB 13 ATP a 1 1511 1511 ATP ATP . FB 14 MG a 1 1512 1512 MG MG . GB 13 ATP b 1 1510 1510 ATP ATP . HB 14 MG b 1 1511 1511 MG MG . IB 13 ATP c 1 1511 1511 ATP ATP . JB 14 MG c 1 1512 1512 MG MG . KB 15 ADP d 1 1476 1476 ADP ADP . LB 14 MG d 1 1477 1477 MG MG . MB 15 ADP f 1 1479 1479 ADP ADP . NB 14 MG f 1 1480 1480 MG MG . # 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 . . . MB 15 410.025 72.709 209.949 1 114.4 ? PB ADP 1479 f 1 HETATM 2 O O1B ADP . . . MB 15 409.799 74.092 209.397 1 114.4 ? O1B ADP 1479 f 1 HETATM 3 O O2B ADP . . . MB 15 411.456 72.249 209.897 1 114.4 1 O2B ADP 1479 f 1 HETATM 4 O O3B ADP . . . MB 15 409.324 72.427 211.258 1 114.4 ? O3B ADP 1479 f 1 HETATM 5 P PA ADP . . . MB 15 410.009 70.989 207.683 1 114.4 ? PA ADP 1479 f 1 HETATM 6 O O1A ADP . . . MB 15 409.925 71.875 206.462 1 114.4 1 O1A ADP 1479 f 1 HETATM 7 O O2A ADP . . . MB 15 411.335 70.42 208.123 1 114.4 ? O2A ADP 1479 f 1 HETATM 8 O O3A ADP . . . MB 15 409.277 71.731 208.914 1 114.4 ? O3A ADP 1479 f 1 HETATM 9 O O5' ADP . . . MB 15 409.003 69.755 207.485 1 114.4 ? O5' ADP 1479 f 1 HETATM 10 C C5' ADP . . . MB 15 409.221 68.752 206.5 1 114.4 ? C5' ADP 1479 f 1 HETATM 11 C C4' ADP . . . MB 15 407.872 68.536 205.834 1 114.4 ? C4' ADP 1479 f 1 HETATM 12 O O4' ADP . . . MB 15 407.372 69.812 205.425 1 114.4 ? O4' ADP 1479 f 1 HETATM 13 C C3' ADP . . . MB 15 407.97 67.657 204.599 1 114.4 ? C3' ADP 1479 f 1 HETATM 14 O O3' ADP . . . MB 15 407.418 66.36 204.858 1 114.4 ? O3' ADP 1479 f 1 HETATM 15 C C2' ADP . . . MB 15 407.199 68.408 203.521 1 114.4 ? C2' ADP 1479 f 1 HETATM 16 O O2' ADP . . . MB 15 406.065 67.681 203.031 1 114.4 ? O2' ADP 1479 f 1 HETATM 17 C C1' ADP . . . MB 15 406.748 69.717 204.144 1 114.4 ? C1' ADP 1479 f 1 HETATM 18 N N9 ADP . . . MB 15 407.219 70.777 203.225 1 114.4 ? N9 ADP 1479 f 1 HETATM 19 C C8 ADP . . . MB 15 408.04 71.808 203.497 1 114.4 ? C8 ADP 1479 f 1 HETATM 20 N N7 ADP . . . MB 15 408.25 72.564 202.385 1 114.4 ? N7 ADP 1479 f 1 HETATM 21 C C5 ADP . . . MB 15 407.553 72.002 201.378 1 114.4 ? C5 ADP 1479 f 1 HETATM 22 C C6 ADP . . . MB 15 407.324 72.276 199.94 1 114.4 ? C6 ADP 1479 f 1 HETATM 23 N N6 ADP . . . MB 15 407.901 73.339 199.333 1 114.4 ? N6 ADP 1479 f 1 HETATM 24 N N1 ADP . . . MB 15 406.519 71.429 199.257 1 114.4 ? N1 ADP 1479 f 1 HETATM 25 C C2 ADP . . . MB 15 405.936 70.37 199.846 1 114.4 ? C2 ADP 1479 f 1 HETATM 26 N N3 ADP . . . MB 15 406.097 70.062 201.143 1 114.4 ? N3 ADP 1479 f 1 HETATM 27 C C4 ADP . . . MB 15 406.878 70.827 201.941 1 114.4 ? C4 ADP 1479 f 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 63 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 25 _model_server_stats.element_count 27 #