data_4RH3 # _model_server_result.job_id S9VnFCWu4cC_T3fV-xEQMQ _model_server_result.datetime_utc '2025-06-13 00:08:26' _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 4rh3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":802}' # _entry.id 4RH3 # _exptl.entry_id 4RH3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _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 120 _cell.entry_id 4RH3 _cell.length_a 132.911 _cell.length_b 132.911 _cell.length_c 397.168 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RH3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 1 1 A,B,E,F,G,H,I,J 2 1 C,D,K,L,M,N,O 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 E N N ? 2 J N N ? 2 K N N ? 2 N N N # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 4RH3 _atom_sites.fract_transf_matrix[1][1] 0.007524 _atom_sites.fract_transf_matrix[1][2] 0.004344 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008688 _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] 0.002518 _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 E 2 ACP A 1 800 800 ACP ACP . F 3 PO4 A 1 801 801 PO4 PO4 . G 3 PO4 A 1 802 802 PO4 PO4 . H 3 PO4 B 1 801 802 PO4 PO4 . I 3 PO4 B 1 803 801 PO4 PO4 . J 2 ACP B 1 802 800 ACP ACP . K 2 ACP C 1 800 800 ACP ACP . L 3 PO4 C 1 801 801 PO4 PO4 . M 3 PO4 C 1 802 802 PO4 PO4 . N 2 ACP D 1 800 800 ACP ACP . O 3 PO4 D 1 801 801 PO4 PO4 . # 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 ACP . . . J 2 71.398 224.327 394.517 1 77.98 ? PG ACP 802 B 1 HETATM 2 O O1G ACP . . . J 2 72.084 224.394 395.849 1 69.57 ? O1G ACP 802 B 1 HETATM 3 O O2G ACP . . . J 2 71.679 223.053 393.688 1 72.71 ? O2G ACP 802 B 1 HETATM 4 O O3G ACP . . . J 2 71.716 225.48 393.538 1 63.52 ? O3G ACP 802 B 1 HETATM 5 P PB ACP . . . J 2 68.729 224.66 393.227 1 54.9 ? PB ACP 802 B 1 HETATM 6 O O1B ACP . . . J 2 69.218 225.709 392.329 1 49.28 ? O1B ACP 802 B 1 HETATM 7 O O2B ACP . . . J 2 67.323 225.171 393.591 1 64.31 ? O2B ACP 802 B 1 HETATM 8 C C3B ACP . . . J 2 69.626 224.417 394.762 1 70.3 ? C3B ACP 802 B 1 HETATM 9 P PA ACP . . . J 2 69.187 222.507 391.291 1 63.06 ? PA ACP 802 B 1 HETATM 10 O O1A ACP . . . J 2 70.667 222.514 391.208 1 56.35 ? O1A ACP 802 B 1 HETATM 11 O O2A ACP . . . J 2 68.5 223.586 390.296 1 64.88 ? O2A ACP 802 B 1 HETATM 12 O O3A ACP . . . J 2 68.686 223.118 392.687 1 64.16 ? O3A ACP 802 B 1 HETATM 13 O O5' ACP . . . J 2 68.463 221.265 390.713 1 60.47 ? O5' ACP 802 B 1 HETATM 14 C C5' ACP . . . J 2 68.493 221.393 389.259 1 70.26 ? C5' ACP 802 B 1 HETATM 15 C C4' ACP . . . J 2 67.306 221.999 388.516 1 61.42 ? C4' ACP 802 B 1 HETATM 16 O O4' ACP . . . J 2 67.683 223.253 387.895 1 56.16 ? O4' ACP 802 B 1 HETATM 17 C C3' ACP . . . J 2 66.904 221.054 387.374 1 57.85 ? C3' ACP 802 B 1 HETATM 18 O O3' ACP . . . J 2 65.827 220.243 387.794 1 62.36 ? O3' ACP 802 B 1 HETATM 19 C C2' ACP . . . J 2 66.595 221.963 386.187 1 54.97 ? C2' ACP 802 B 1 HETATM 20 O O2' ACP . . . J 2 65.206 222.144 385.918 1 57.67 ? O2' ACP 802 B 1 HETATM 21 C C1' ACP . . . J 2 67.228 223.307 386.553 1 56.88 ? C1' ACP 802 B 1 HETATM 22 N N9 ACP . . . J 2 68.276 223.672 385.59 1 64.21 ? N9 ACP 802 B 1 HETATM 23 C C8 ACP . . . J 2 67.991 223.833 384.255 1 77.71 ? C8 ACP 802 B 1 HETATM 24 N N7 ACP . . . J 2 69.045 223.997 383.488 1 67.79 ? N7 ACP 802 B 1 HETATM 25 C C5 ACP . . . J 2 70.105 223.941 384.376 1 65.28 ? C5 ACP 802 B 1 HETATM 26 C C6 ACP . . . J 2 71.496 223.928 384.174 1 63.17 ? C6 ACP 802 B 1 HETATM 27 N N6 ACP . . . J 2 72.056 223.919 382.971 1 54.89 ? N6 ACP 802 B 1 HETATM 28 N N1 ACP . . . J 2 72.288 223.797 385.263 1 71.46 ? N1 ACP 802 B 1 HETATM 29 C C2 ACP . . . J 2 71.702 223.673 386.466 1 79.52 ? C2 ACP 802 B 1 HETATM 30 N N3 ACP . . . J 2 70.391 223.638 386.775 1 62.63 ? N3 ACP 802 B 1 HETATM 31 C C4 ACP . . . J 2 69.645 223.767 385.686 1 61.11 ? C4 ACP 802 B 1 # _model_server_stats.io_time_ms 198 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 78 _model_server_stats.query_time_ms 585 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #