data_2V0N # _model_server_result.job_id 4XMLXX_w2SCbce2nGW5KlQ _model_server_result.datetime_utc '2024-11-13 16:27:06' _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 2v0n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":600}' # _entry.id 2V0N # _exptl.entry_id 2V0N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 539.246 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-RP-ALPHA-THIO-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 2V0N _cell.length_a 128.965 _cell.length_b 132.557 _cell.length_c 88.425 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2V0N _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 5 G N N ? 5 Q 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 OD1 ASP 9 A ASP 10 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc2 A OD2 ASP 9 A ASP 10 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc3 A OD1 ASP 52 A ASP 53 1_555 C BE BEF . A BEF 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.575 ? metalc ? metalc4 A OD2 ASP 52 A ASP 53 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc5 A O MET 54 A MET 55 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc6 A OD1 ASP 326 A ASP 327 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.184 ? metalc ? metalc7 A OD2 ASP 326 A ASP 327 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc8 A O ILE 327 A ILE 328 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc9 A OE2 GLU 369 A GLU 370 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc10 A OE1 GLU 369 A GLU 370 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc11 A OE2 GLU 369 A GLU 370 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc12 C F2 BEF . A BEF 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc13 D MG MG . A MG 502 1_555 S O HOH . A HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? metalc ? metalc14 G O2B GAV . A GAV 600 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? metalc ? metalc15 G O3G GAV . A GAV 600 1_555 H MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc16 B OD1 ASP 9 B ASP 10 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc17 B OD1 ASP 52 B ASP 53 1_555 M BE BEF . B BEF 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.584 ? metalc ? metalc18 B OD2 ASP 52 B ASP 53 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc19 B O MET 54 B MET 55 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc20 B OD1 ASP 326 B ASP 327 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc21 B O ILE 327 B ILE 328 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? metalc ? metalc22 B OE1 GLU 369 B GLU 370 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc23 B OE2 GLU 369 B GLU 370 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? metalc ? metalc24 M F2 BEF . B BEF 501 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc25 N MG MG . B MG 502 1_555 T O HOH . B HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc26 Q O2B GAV . B GAV 600 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc27 Q O3G GAV . B GAV 600 1_555 R MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? # _chem_comp.formula 'C10 H16 N5 O13 P3 S' _chem_comp.formula_weight 539.246 _chem_comp.id GAV _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-RP-ALPHA-THIO-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 O6 C6 GAV doub 162 n n C6 C5 GAV sing 163 n n C5 C4 GAV doub 164 n y C4 N3 GAV sing 165 n n N3 C2 GAV doub 166 n n C2 N2 GAV sing 167 n n C6 N1 GAV sing 168 n n C2 N1 GAV sing 169 n n C5 N7 GAV sing 170 n y N7 C8 GAV doub 171 n y C4 N9 GAV sing 172 n y C8 N9 GAV sing 173 n y N9 C1' GAV sing 174 n n C1' C2' GAV sing 175 n n C2' O2' GAV sing 176 n n C2' C3' GAV sing 177 n n C3' O3' GAV sing 178 n n C1' O4' GAV sing 179 n n C3' C4' GAV sing 180 n n O4' C4' GAV sing 181 n n C4' C5' GAV sing 182 n n C5' O5' GAV sing 183 n n O5' PA GAV sing 184 n n PA S1A GAV sing 185 n n PA O2A GAV doub 186 n n PA O3A GAV sing 187 n n O3A PB GAV sing 188 n n PB O1B GAV sing 189 n n PB O2B GAV doub 190 n n PB O3B GAV sing 191 n n O3B PG GAV sing 192 n n PG O1G GAV sing 193 n n PG O3G GAV doub 194 n n PG O2G GAV sing 195 n n N1 H1 GAV sing 196 n n N2 H2N1 GAV sing 197 n n N2 H2N2 GAV sing 198 n n C8 H8 GAV sing 199 n n C1' H1' GAV sing 200 n n C2' H2' GAV sing 201 n n O2' HA GAV sing 202 n n C3' H3' GAV sing 203 n n O3' HB GAV sing 204 n n C4' H4' GAV sing 205 n n C5' "H5'1" GAV sing 206 n n C5' "H5'2" GAV sing 207 n n S1A H1A GAV sing 208 n n O1B H1B GAV sing 209 n n O1G H1G GAV sing 210 n n O2G H2G GAV sing 211 n n # _atom_sites.entry_id 2V0N _atom_sites.fract_transf_matrix[1][1] 0.007754 _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] 0.007544 _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] 0.011309 _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 C 2 BEF A 1 501 501 BEF BEF . D 3 MG A 1 502 502 MG MG . E 4 C2E A 1 503 503 C2E C2E . F 4 C2E A 1 505 505 C2E C2E . G 5 GAV A 1 600 600 GAV GAV . H 3 MG A 1 601 601 MG MG . I 3 MG A 1 602 602 MG MG . J 6 SO4 A 1 1470 1470 SO4 SO4 . K 6 SO4 A 1 1471 1471 SO4 SO4 . L 7 CL A 1 1472 1472 CL CL . M 2 BEF B 1 501 501 BEF BEF . N 3 MG B 1 502 502 MG MG . O 4 C2E B 1 503 503 C2E C2E . P 4 C2E B 1 505 505 C2E C2E . Q 5 GAV B 1 600 600 GAV GAV . R 3 MG B 1 601 601 MG MG . S 8 HOH A 1 2001 2001 HOH HOH . S 8 HOH A 2 2002 2002 HOH HOH . S 8 HOH A 3 2003 2003 HOH HOH . S 8 HOH A 4 2004 2004 HOH HOH . S 8 HOH A 5 2005 2005 HOH HOH . S 8 HOH A 6 2006 2006 HOH HOH . S 8 HOH A 7 2007 2007 HOH HOH . S 8 HOH A 8 2008 2008 HOH HOH . T 8 HOH B 1 2001 2001 HOH HOH . T 8 HOH B 2 2002 2002 HOH HOH . T 8 HOH B 3 2003 2003 HOH HOH . T 8 HOH B 4 2004 2004 HOH HOH . T 8 HOH B 5 2005 2005 HOH HOH . T 8 HOH B 6 2006 2006 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 O O6 GAV . . . Q 5 75.399 24.62 81.273 1 40.22 ? O6 GAV 600 B 1 HETATM 2 C C6 GAV . . . Q 5 75.292 24.075 82.359 1 33.53 ? C6 GAV 600 B 1 HETATM 3 C C5 GAV . . . Q 5 76.208 24.331 83.359 1 34.08 ? C5 GAV 600 B 1 HETATM 4 C C4 GAV . . . Q 5 76.068 23.716 84.583 1 37.63 ? C4 GAV 600 B 1 HETATM 5 N N3 GAV . . . Q 5 75.041 22.861 84.809 1 37.91 ? N3 GAV 600 B 1 HETATM 6 C C2 GAV . . . Q 5 74.117 22.621 83.8 1 38.44 ? C2 GAV 600 B 1 HETATM 7 N N2 GAV . . . Q 5 73.103 21.778 84.005 1 39.32 ? N2 GAV 600 B 1 HETATM 8 N N1 GAV . . . Q 5 74.242 23.227 82.566 1 33.32 ? N1 GAV 600 B 1 HETATM 9 N N7 GAV . . . Q 5 77.303 25.111 83.413 1 35.65 ? N7 GAV 600 B 1 HETATM 10 C C8 GAV . . . Q 5 77.868 25.008 84.632 1 36.74 ? C8 GAV 600 B 1 HETATM 11 N N9 GAV . . . Q 5 77.106 24.145 85.362 1 39.39 ? N9 GAV 600 B 1 HETATM 12 C C1' GAV . . . Q 5 77.355 23.691 86.727 1 40.64 ? C1' GAV 600 B 1 HETATM 13 C C2' GAV . . . Q 5 78.774 23.124 86.84 1 45.56 ? C2' GAV 600 B 1 HETATM 14 O O2' GAV . . . Q 5 78.835 21.719 86.708 1 46.15 ? O2' GAV 600 B 1 HETATM 15 C C3' GAV . . . Q 5 79.222 23.525 88.222 1 48.4 ? C3' GAV 600 B 1 HETATM 16 O O3' GAV . . . Q 5 79.612 22.381 88.966 1 48.52 ? O3' GAV 600 B 1 HETATM 17 O O4' GAV . . . Q 5 77.271 24.731 87.652 1 45.59 ? O4' GAV 600 B 1 HETATM 18 C C4' GAV . . . Q 5 77.988 24.252 88.764 1 51.77 ? C4' GAV 600 B 1 HETATM 19 C C5' GAV . . . Q 5 78.298 25.44 89.646 1 58.11 ? C5' GAV 600 B 1 HETATM 20 O O5' GAV . . . Q 5 78.455 25.009 90.986 1 63.63 ? O5' GAV 600 B 1 HETATM 21 P PA GAV . . . Q 5 78.991 26.066 92.082 1 65.14 ? PA GAV 600 B 1 HETATM 22 S S1A GAV . . . Q 5 80.428 26.734 91.45 1 70.54 ? S1A GAV 600 B 1 HETATM 23 O O2A GAV . . . Q 5 79.242 25.396 93.41 1 64.55 ? O2A GAV 600 B 1 HETATM 24 O O3A GAV . . . Q 5 77.854 27.231 92.116 1 60.16 ? O3A GAV 600 B 1 HETATM 25 P PB GAV . . . Q 5 76.712 27.392 93.251 1 55.96 ? PB GAV 600 B 1 HETATM 26 O O1B GAV . . . Q 5 76.33 26.026 93.788 1 54.17 ? O1B GAV 600 B 1 HETATM 27 O O2B GAV . . . Q 5 75.497 28.086 92.668 1 53.43 ? O2B GAV 600 B 1 HETATM 28 O O3B GAV . . . Q 5 77.422 28.301 94.398 1 48.34 ? O3B GAV 600 B 1 HETATM 29 P PG GAV . . . Q 5 76.729 29.539 95.173 1 38.71 ? PG GAV 600 B 1 HETATM 30 O O1G GAV . . . Q 5 75.587 29.026 96.014 1 39.05 ? O1G GAV 600 B 1 HETATM 31 O O3G GAV . . . Q 5 76.142 30.547 94.224 1 41.97 ? O3G GAV 600 B 1 HETATM 32 O O2G GAV . . . Q 5 77.774 30.211 96.026 1 39.38 ? O2G GAV 600 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 52 _model_server_stats.create_model_time_ms 124 _model_server_stats.query_time_ms 423 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 32 #