data_6JRR # _model_server_result.job_id Rivk1Dvw-PBjcCxbr_W0pg _model_server_result.datetime_utc '2024-11-04 20:37:29' _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 6jrr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":6002}' # _entry.id 6JRR # _exptl.entry_id 6JRR _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 6JRR _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JRR _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 ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_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 _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 ? _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 ? 5 K N N ? 5 O N N ? 5 S N N ? 5 W 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 OE1 GLU 3849 A GLU 3849 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc2 A OE2 GLU 3849 A GLU 3849 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc3 A OE1 GLU 3923 A GLU 3923 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc4 A OE2 GLU 3923 A GLU 3923 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc5 A SG CYS 4889 A CYS 4889 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc6 A SG CYS 4892 A CYS 4892 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc7 A NE2 HIS 4909 A HIS 4909 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc8 A NE2 HIS 4914 A HIS 4914 1_555 I ZN ZN . A ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc9 A O THR 4932 A THR 4932 1_555 J CA CA . A CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc10 C OE1 GLU 3849 C GLU 3849 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc11 C OE2 GLU 3849 C GLU 3849 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc12 C OE1 GLU 3923 C GLU 3923 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc13 C OE2 GLU 3923 C GLU 3923 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc14 C SG CYS 4889 C CYS 4889 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc15 C SG CYS 4892 C CYS 4892 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc16 C NE2 HIS 4909 C HIS 4909 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc17 C NE2 HIS 4914 C HIS 4914 1_555 M ZN ZN . C ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc18 C O THR 4932 C THR 4932 1_555 N CA CA . C CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc19 E OE1 GLU 3849 E GLU 3849 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc20 E OE2 GLU 3849 E GLU 3849 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc21 E OE1 GLU 3923 E GLU 3923 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc22 E OE2 GLU 3923 E GLU 3923 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc23 E SG CYS 4889 E CYS 4889 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? metalc ? metalc24 E SG CYS 4892 E CYS 4892 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc25 E NE2 HIS 4909 E HIS 4909 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc26 E NE2 HIS 4914 E HIS 4914 1_555 Q ZN ZN . E ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc27 E O THR 4932 E THR 4932 1_555 R CA CA . E CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc28 G OE1 GLU 3849 G GLU 3849 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc29 G OE2 GLU 3849 G GLU 3849 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc30 G OE1 GLU 3923 G GLU 3923 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc31 G OE2 GLU 3923 G GLU 3923 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc32 G SG CYS 4889 G CYS 4889 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc33 G SG CYS 4892 G CYS 4892 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc34 G NE2 HIS 4909 G HIS 4909 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc35 G NE2 HIS 4914 G HIS 4914 1_555 U ZN ZN . G ZN 6000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc36 G O THR 4932 G THR 4932 1_555 V CA CA . G CA 6001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 6JRR _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 I 3 ZN A 1 6000 6000 ZN ZN . J 4 CA A 1 6001 6001 CA CA . K 5 ATP A 1 6002 6002 ATP ATP . L 6 CFF A 1 6003 6003 CFF CFF . M 3 ZN C 1 6000 6000 ZN ZN . N 4 CA C 1 6001 6001 CA CA . O 5 ATP C 1 6002 6002 ATP ATP . P 6 CFF C 1 6003 6003 CFF CFF . Q 3 ZN E 1 6000 6000 ZN ZN . R 4 CA E 1 6001 6001 CA CA . S 5 ATP E 1 6002 6002 ATP ATP . T 6 CFF E 1 6003 6003 CFF CFF . U 3 ZN G 1 6000 6000 ZN ZN . V 4 CA G 1 6001 6001 CA CA . W 5 ATP G 1 6002 6002 ATP ATP . X 6 CFF G 1 6003 6003 CFF CFF . # 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 PG ATP . . . S 5 201.057 195.536 159.779 1 52.94 ? PG ATP 6002 E 1 HETATM 2 O O1G ATP . . . S 5 202.384 195.197 159.162 1 52.94 ? O1G ATP 6002 E 1 HETATM 3 O O2G ATP . . . S 5 199.895 195.276 158.857 1 52.94 ? O2G ATP 6002 E 1 HETATM 4 O O3G ATP . . . S 5 201.024 196.874 160.465 1 52.94 ? O3G ATP 6002 E 1 HETATM 5 P PB ATP . . . S 5 201.948 194.159 162.087 1 52.94 ? PB ATP 6002 E 1 HETATM 6 O O1B ATP . . . S 5 203.245 193.772 161.429 1 52.94 ? O1B ATP 6002 E 1 HETATM 7 O O2B ATP . . . S 5 201.357 193.218 163.099 1 52.94 ? O2B ATP 6002 E 1 HETATM 8 O O3B ATP . . . S 5 200.833 194.485 160.977 1 52.94 ? O3B ATP 6002 E 1 HETATM 9 P PA ATP . . . S 5 203.559 196.24 162.713 1 52.94 ? PA ATP 6002 E 1 HETATM 10 O O1A ATP . . . S 5 204.519 195.322 163.419 1 52.94 ? O1A ATP 6002 E 1 HETATM 11 O O2A ATP . . . S 5 203.778 196.633 161.278 1 52.94 ? O2A ATP 6002 E 1 HETATM 12 O O3A ATP . . . S 5 202.116 195.572 162.809 1 52.94 ? O3A ATP 6002 E 1 HETATM 13 O O5' ATP . . . S 5 203.428 197.552 163.614 1 52.94 ? O5' ATP 6002 E 1 HETATM 14 C C5' ATP . . . S 5 203.408 197.363 165.015 1 52.94 ? C5' ATP 6002 E 1 HETATM 15 C C4' ATP . . . S 5 204.732 197.859 165.539 1 52.94 ? C4' ATP 6002 E 1 HETATM 16 O O4' ATP . . . S 5 204.564 199.162 166.053 1 52.94 ? O4' ATP 6002 E 1 HETATM 17 C C3' ATP . . . S 5 205.2 197.005 166.685 1 52.94 ? C3' ATP 6002 E 1 HETATM 18 O O3' ATP . . . S 5 206.186 196.091 166.232 1 52.94 ? O3' ATP 6002 E 1 HETATM 19 C C2' ATP . . . S 5 205.835 197.963 167.648 1 52.94 ? C2' ATP 6002 E 1 HETATM 20 O O2' ATP . . . S 5 207.247 197.853 167.553 1 52.94 ? O2' ATP 6002 E 1 HETATM 21 C C1' ATP . . . S 5 205.401 199.327 167.182 1 52.94 ? C1' ATP 6002 E 1 HETATM 22 N N9 ATP . . . S 5 204.596 199.916 168.253 1 52.94 ? N9 ATP 6002 E 1 HETATM 23 C C8 ATP . . . S 5 204.945 200.955 169.008 1 52.94 ? C8 ATP 6002 E 1 HETATM 24 N N7 ATP . . . S 5 204.004 201.271 169.915 1 52.94 ? N7 ATP 6002 E 1 HETATM 25 C C5 ATP . . . S 5 203.042 200.395 169.728 1 52.94 ? C5 ATP 6002 E 1 HETATM 26 C C6 ATP . . . S 5 201.781 200.168 170.36 1 52.94 ? C6 ATP 6002 E 1 HETATM 27 N N6 ATP . . . S 5 201.44 200.987 171.357 1 52.94 ? N6 ATP 6002 E 1 HETATM 28 N N1 ATP . . . S 5 201.027 199.161 169.919 1 52.94 ? N1 ATP 6002 E 1 HETATM 29 C C2 ATP . . . S 5 201.422 198.366 168.925 1 52.94 ? C2 ATP 6002 E 1 HETATM 30 N N3 ATP . . . S 5 202.575 198.52 168.292 1 52.94 ? N3 ATP 6002 E 1 HETATM 31 C C4 ATP . . . S 5 203.413 199.503 168.649 1 52.94 ? C4 ATP 6002 E 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 35 _model_server_stats.create_model_time_ms 142 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #