data_7MIT # _model_server_result.job_id m9Uuo24jJxTdHvietNG6iA _model_server_result.datetime_utc '2024-12-21 14:40:45' _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 7mit # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":504}' # _entry.id 7MIT # _exptl.entry_id 7MIT _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 5 _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 7MIT _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7MIT _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 pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA _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 J N N ? 5 O N N ? 5 P N N ? 5 S N N ? 5 BA N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n F NAG 1 N 1 NAG N 601 NAG 3 n F NAG 2 N 2 NAG N 602 NAG # 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 disulf ? disulf1 A SG CYS 120 A CYS 120 1_555 A SG CYS 152 A CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 B SG CYS 120 B CYS 120 1_555 B SG CYS 152 B CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 C SG CYS 120 C CYS 120 1_555 C SG CYS 152 C CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf4 D SG CYS 120 D CYS 120 1_555 D SG CYS 152 D CYS 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 E SG CYS 6 E CYS 6 1_555 E SG CYS 24 E CYS 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 E ND2 ASN 9 E ASN 9 1_555 F C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 F O4 NAG . N NAG 1 1_555 F C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A O THR 140 A THR 140 1_555 X K K . D K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? metalc ? metalc2 A O ILE 141 A ILE 141 1_555 G K K . A K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.669 ? metalc ? metalc3 A O GLY 142 A GLY 142 1_555 G K K . A K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? metalc ? metalc4 A O GLY 142 A GLY 142 1_555 I K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? metalc ? metalc5 A O PHE 143 A PHE 143 1_555 I K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc6 G K K . A K 501 1_555 B O ILE 141 B ILE 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc7 G K K . A K 501 1_555 B O GLY 142 B GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.147 ? metalc ? metalc8 G K K . A K 501 1_555 C O ILE 141 C ILE 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc9 G K K . A K 501 1_555 C O GLY 142 C GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc10 G K K . A K 501 1_555 D O ILE 141 D ILE 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.819 ? metalc ? metalc11 G K K . A K 501 1_555 D O GLY 142 D GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? metalc ? metalc12 I K K . A K 503 1_555 B O GLY 142 B GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.974 ? metalc ? metalc13 I K K . A K 503 1_555 B O PHE 143 B PHE 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc14 I K K . A K 503 1_555 C O GLY 142 C GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.207 ? metalc ? metalc15 I K K . A K 503 1_555 C O PHE 143 C PHE 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? metalc ? metalc16 I K K . A K 503 1_555 D O GLY 142 D GLY 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.245 ? metalc ? metalc17 I K K . A K 503 1_555 D O PHE 143 D PHE 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc18 B O THR 140 B THR 140 1_555 X K K . D K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.772 ? metalc ? metalc19 C O THR 140 C THR 140 1_555 X K K . D K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc20 D O THR 140 D THR 140 1_555 X K K . D K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc21 D OG1 THR 140 D THR 140 1_555 X K K . D K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.236 ? # _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 7MIT _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 G 4 K A 1 501 2 K K . H 4 K A 1 502 3 K K . I 4 K A 1 503 4 K K . J 5 ATP A 1 504 401 ATP ATP . K 6 POV A 1 505 501 POV POV . L 7 PTY A 1 506 1611 PTY PTY . M 6 POV A 1 507 2221 POV POV . N 8 P5S A 1 508 4004 P5S P5S . O 5 ATP B 1 501 402 ATP ATP . P 5 ATP B 1 502 403 ATP ATP . Q 6 POV B 1 503 601 POV POV . R 8 P5S B 1 504 1002 P5S P5S . S 5 ATP C 1 501 404 ATP ATP . T 6 POV C 1 502 701 POV POV . U 8 P5S C 1 503 801 P5S P5S . V 6 POV C 1 504 901 POV POV . W 6 POV C 1 505 2002 POV POV . X 4 K D 1 501 1 K K . Y 8 P5S D 1 502 701 P5S P5S . Z 6 POV D 1 503 801 POV POV . AA 6 POV D 1 504 2301 POV POV . BA 5 ATP E 1 1601 405 ATP ATP . CA 9 GBM E 1 1602 2101 GBM GBM . DA 7 PTY E 1 1603 1801 PTY PTY . EA 7 PTY E 1 1604 2001 PTY PTY . FA 7 PTY E 1 1605 2201 PTY PTY . GA 7 PTY E 1 1606 2401 PTY PTY . HA 8 P5S E 1 1607 2601 P5S P5S . IA 7 PTY E 1 1608 2701 PTY PTY . JA 8 P5S E 1 1609 3001 P5S P5S . KA 7 PTY E 1 1610 3601 PTY PTY . LA 7 PTY E 1 1611 4001 PTY PTY . # 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 . . . J 5 181.747 167.898 193.391 1 0 0 PG ATP 504 A 1 HETATM 2 O O1G ATP . . . J 5 182.183 167.909 194.835 1 0 0 O1G ATP 504 A 1 HETATM 3 O O2G ATP . . . J 5 180.294 168.252 193.205 1 0 -1 O2G ATP 504 A 1 HETATM 4 O O3G ATP . . . J 5 182.19 166.688 192.604 1 0 0 O3G ATP 504 A 1 HETATM 5 P PB ATP . . . J 5 184.146 169.205 192.672 1 0 0 PB ATP 504 A 1 HETATM 6 O O1B ATP . . . J 5 184.55 170.49 193.338 1 0 -1 O1B ATP 504 A 1 HETATM 7 O O2B ATP . . . J 5 184.588 168.943 191.257 1 0 0 O2B ATP 504 A 1 HETATM 8 O O3B ATP . . . J 5 182.538 169.129 192.713 1 0 0 O3B ATP 504 A 1 HETATM 9 P PA ATP . . . J 5 186.009 167.677 194.193 1 0 0 PA ATP 504 A 1 HETATM 10 O O1A ATP . . . J 5 185.845 166.679 195.31 1 0 -1 O1A ATP 504 A 1 HETATM 11 O O2A ATP . . . J 5 186.954 167.359 193.065 1 0 0 O2A ATP 504 A 1 HETATM 12 O O3A ATP . . . J 5 184.544 167.95 193.596 1 0 0 O3A ATP 504 A 1 HETATM 13 O O5' ATP . . . J 5 186.439 169.074 194.866 1 0 0 O5' ATP 504 A 1 HETATM 14 C C5' ATP . . . J 5 187.385 169.967 194.28 1 0 0 C5' ATP 504 A 1 HETATM 15 C C4' ATP . . . J 5 187.444 171.222 195.141 1 0 0 C4' ATP 504 A 1 HETATM 16 O O4' ATP . . . J 5 186.198 171.92 195.097 1 0 0 O4' ATP 504 A 1 HETATM 17 C C3' ATP . . . J 5 187.695 170.875 196.597 1 0 0 C3' ATP 504 A 1 HETATM 18 O O3' ATP . . . J 5 188.917 171.48 197.015 1 0 0 O3' ATP 504 A 1 HETATM 19 C C2' ATP . . . J 5 186.55 171.477 197.381 1 0 0 C2' ATP 504 A 1 HETATM 20 O O2' ATP . . . J 5 187.061 172.246 198.468 1 0 0 O2' ATP 504 A 1 HETATM 21 C C1' ATP . . . J 5 185.854 172.393 196.4 1 0 0 C1' ATP 504 A 1 HETATM 22 N N9 ATP . . . J 5 184.386 172.38 196.579 1 0 0 N9 ATP 504 A 1 HETATM 23 C C8 ATP . . . J 5 183.49 171.972 195.67 1 0 0 C8 ATP 504 A 1 HETATM 24 N N7 ATP . . . J 5 182.223 172.096 196.131 1 0 0 N7 ATP 504 A 1 HETATM 25 C C5 ATP . . . J 5 182.3 172.613 197.365 1 0 0 C5 ATP 504 A 1 HETATM 26 C C6 ATP . . . J 5 181.34 173.003 198.417 1 0 0 C6 ATP 504 A 1 HETATM 27 N N6 ATP . . . J 5 180.006 172.865 198.241 1 0 0 N6 ATP 504 A 1 HETATM 28 N N1 ATP . . . J 5 181.838 173.498 199.565 1 0 0 N1 ATP 504 A 1 HETATM 29 C C2 ATP . . . J 5 183.159 173.641 199.757 1 0 0 C2 ATP 504 A 1 HETATM 30 N N3 ATP . . . J 5 184.085 173.309 198.847 1 0 0 N3 ATP 504 A 1 HETATM 31 C C4 ATP . . . J 5 183.726 172.803 197.651 1 0 0 C4 ATP 504 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 41 _model_server_stats.create_model_time_ms 165 _model_server_stats.query_time_ms 1077 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 31 #