data_4ANB # _model_server_result.job_id 0dHjepVrV4bw4kzVmtKVSg _model_server_result.datetime_utc '2024-11-26 15:19:08' _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 4anb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 4ANB # _exptl.entry_id 4ANB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _entity.pdbx_number_of_molecules 1 _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 4ANB _cell.length_a 109.001 _cell.length_b 109.001 _cell.length_c 48.076 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ANB _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 OD1 ASN 138 A ASN 195 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc2 A OD2 ASP 151 A ASP 208 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc3 C O2G ACP . A ACP 502 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc4 C O1B ACP . A ACP 502 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? metalc ? metalc5 C O1A ACP . A ACP 502 1_555 D MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc6 D MG MG . A MG 503 1_555 E O HOH . A HOH 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? # _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 4ANB _atom_sites.fract_transf_matrix[1][1] 0.009174 _atom_sites.fract_transf_matrix[1][2] 0.005297 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010593 _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] 0.0208 _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 B 2 YQY A 1 501 1382 YQY YQY . C 3 ACP A 1 502 1383 ACP ACP . D 4 MG A 1 503 1384 MG MG . E 5 HOH A 1 601 2003 HOH HOH . E 5 HOH A 2 602 2053 HOH HOH . E 5 HOH A 3 603 2005 HOH HOH . E 5 HOH A 4 604 2018 HOH HOH . E 5 HOH A 5 605 2012 HOH HOH . E 5 HOH A 6 606 2015 HOH HOH . E 5 HOH A 7 607 2042 HOH HOH . E 5 HOH A 8 608 2037 HOH HOH . E 5 HOH A 9 609 2006 HOH HOH . E 5 HOH A 10 610 2009 HOH HOH . E 5 HOH A 11 611 2025 HOH HOH . E 5 HOH A 12 612 2048 HOH HOH . E 5 HOH A 13 613 2022 HOH HOH . E 5 HOH A 14 614 2036 HOH HOH . E 5 HOH A 15 615 2028 HOH HOH . E 5 HOH A 16 616 2039 HOH HOH . E 5 HOH A 17 617 2011 HOH HOH . E 5 HOH A 18 618 2030 HOH HOH . E 5 HOH A 19 619 2024 HOH HOH . E 5 HOH A 20 620 2049 HOH HOH . E 5 HOH A 21 621 2032 HOH HOH . E 5 HOH A 22 622 2033 HOH HOH . E 5 HOH A 23 623 2017 HOH HOH . E 5 HOH A 24 624 2023 HOH HOH . E 5 HOH A 25 625 2029 HOH HOH . E 5 HOH A 26 626 2019 HOH HOH . E 5 HOH A 27 627 2034 HOH HOH . E 5 HOH A 28 628 2016 HOH HOH . E 5 HOH A 29 629 2046 HOH HOH . E 5 HOH A 30 630 2041 HOH HOH . E 5 HOH A 31 631 2002 HOH HOH . E 5 HOH A 32 632 2021 HOH HOH . E 5 HOH A 33 633 2047 HOH HOH . E 5 HOH A 34 634 2014 HOH HOH . E 5 HOH A 35 635 2043 HOH HOH . E 5 HOH A 36 636 2051 HOH HOH . E 5 HOH A 37 637 2031 HOH HOH . E 5 HOH A 38 638 2044 HOH HOH . E 5 HOH A 39 639 2054 HOH HOH . E 5 HOH A 40 640 2035 HOH HOH . E 5 HOH A 41 641 2052 HOH HOH . E 5 HOH A 42 642 2004 HOH HOH . E 5 HOH A 43 643 2008 HOH HOH . E 5 HOH A 44 644 2057 HOH HOH . E 5 HOH A 45 645 2038 HOH HOH . E 5 HOH A 46 646 2040 HOH HOH . E 5 HOH A 47 647 2045 HOH HOH . E 5 HOH A 48 648 2056 HOH HOH . E 5 HOH A 49 649 2055 HOH HOH . E 5 HOH A 50 650 2001 HOH HOH . E 5 HOH A 51 651 2027 HOH HOH . E 5 HOH A 52 652 2007 HOH HOH . E 5 HOH A 53 653 2020 HOH HOH . E 5 HOH A 54 654 2050 HOH HOH . E 5 HOH A 55 655 2013 HOH HOH . E 5 HOH A 56 656 2010 HOH HOH . E 5 HOH A 57 657 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 PG ACP . . . C 3 29.213 -14.532 6.791 1 60.67 ? PG ACP 502 A 1 HETATM 2 O O1G ACP . . . C 3 28.225 -14.959 7.855 1 63.68 ? O1G ACP 502 A 1 HETATM 3 O O2G ACP . . . C 3 29.88 -15.735 6.122 1 62.12 ? O2G ACP 502 A 1 HETATM 4 O O3G ACP . . . C 3 28.539 -13.726 5.731 1 59.11 ? O3G ACP 502 A 1 HETATM 5 P PB ACP . . . C 3 31.784 -14.565 8.369 1 45.49 ? PB ACP 502 A 1 HETATM 6 O O1B ACP . . . C 3 32.287 -15.369 7.255 1 47.35 ? O1B ACP 502 A 1 HETATM 7 O O2B ACP . . . C 3 32.825 -14.001 9.314 1 48.72 ? O2B ACP 502 A 1 HETATM 8 C C3B ACP . . . C 3 30.459 -13.503 7.68 1 53.02 ? C3B ACP 502 A 1 HETATM 9 P PA ACP . . . C 3 30.761 -17.055 9.638 1 48.96 ? PA ACP 502 A 1 HETATM 10 O O1A ACP . . . C 3 30.627 -17.731 8.294 1 51.61 ? O1A ACP 502 A 1 HETATM 11 O O2A ACP . . . C 3 29.719 -17.216 10.706 1 54.76 ? O2A ACP 502 A 1 HETATM 12 O O3A ACP . . . C 3 30.916 -15.45 9.426 1 52.44 ? O3A ACP 502 A 1 HETATM 13 O O5' ACP . . . C 3 32.075 -17.445 10.425 1 52.42 ? O5' ACP 502 A 1 HETATM 14 C C5' ACP . . . C 3 32.258 -16.879 11.717 1 56.07 ? C5' ACP 502 A 1 HETATM 15 C C4' ACP . . . C 3 33.725 -16.861 12.072 1 57.06 ? C4' ACP 502 A 1 HETATM 16 O O4' ACP . . . C 3 34.163 -18.193 12.276 1 58.53 ? O4' ACP 502 A 1 HETATM 17 C C3' ACP . . . C 3 34.602 -16.288 10.966 1 59.17 ? C3' ACP 502 A 1 HETATM 18 O O3' ACP . . . C 3 35.676 -15.545 11.569 1 63.89 ? O3' ACP 502 A 1 HETATM 19 C C2' ACP . . . C 3 35.277 -17.475 10.357 1 58.36 ? C2' ACP 502 A 1 HETATM 20 O O2' ACP . . . C 3 36.575 -17.05 9.911 1 59.54 ? O2' ACP 502 A 1 HETATM 21 C C1' ACP . . . C 3 35.331 -18.49 11.509 1 52.81 ? C1' ACP 502 A 1 HETATM 22 N N9 ACP . . . C 3 35.264 -19.82 10.888 1 53.25 ? N9 ACP 502 A 1 HETATM 23 C C8 ACP . . . C 3 34.318 -20.22 10.011 1 51.08 ? C8 ACP 502 A 1 HETATM 24 N N7 ACP . . . C 3 34.579 -21.469 9.585 1 50.63 ? N7 ACP 502 A 1 HETATM 25 C C5 ACP . . . C 3 35.687 -21.907 10.184 1 48.34 ? C5 ACP 502 A 1 HETATM 26 C C6 ACP . . . C 3 36.518 -23.169 10.14 1 52.06 ? C6 ACP 502 A 1 HETATM 27 N N6 ACP . . . C 3 36.138 -24.205 9.339 1 48.76 ? N6 ACP 502 A 1 HETATM 28 N N1 ACP . . . C 3 37.647 -23.211 10.9 1 49.18 ? N1 ACP 502 A 1 HETATM 29 C C2 ACP . . . C 3 38.011 -22.168 11.641 1 50.76 ? C2 ACP 502 A 1 HETATM 30 N N3 ACP . . . C 3 37.297 -21.015 11.706 1 50.65 ? N3 ACP 502 A 1 HETATM 31 C C4 ACP . . . C 3 36.159 -20.824 11.019 1 50.85 ? C4 ACP 502 A 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #