data_2W4Y # _model_server_result.job_id rzBLn7g-QI2bcLlOL_sk9Q _model_server_result.datetime_utc '2024-10-18 04:22:03' _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 2w4y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1123}' # _entry.id 2W4Y # _exptl.entry_id 2W4Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _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 93.19 _cell.angle_gamma 90 _cell.entry_id 2W4Y _cell.length_a 406.4 _cell.length_b 342.6 _cell.length_c 409.7 _cell.Z_PDB 720 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2W4Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 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 ? 180-MERIC 180 'complete icosahedral assembly' 1 ? trimeric 3 'icosahedral asymmetric unit' 2 ? pentadecameric 15 'icosahedral pentamer' 3 ? octadecameric 18 'icosahedral 23 hexamer' 4 ? trimeric 3 'icosahedral asymmetric unit, std point frame' 5 # 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 1 (1-60) A,B,C,D,E,F,G,H,I,J 2 1 A,B,C,D,E,F,G,H,I,J 3 (1-5) A,B,C,D,E,F,G,H,I,J 4 (1,2,6,10,23,24) A,B,C,D,E,F,G,H,I,J 5 P # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] P 'transform to point frame' ? ? -0.058742 0.781784 0.620776 0.393483 -0.553373 0.734132 0.917453 0.287389 -0.275112 -58.02266 -112.80646 -59.37194 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'point symmetry operation' ? ? 0.982559 -0.176189 0.059465 0.112802 0.310508 -0.943854 0.147833 0.9341 0.324967 -4.43038 85.97807 55.08026 3 'point symmetry operation' ? ? 0.954338 -0.172278 0.244049 0.006328 -0.805113 -0.593088 0.298663 0.567551 -0.767259 -20.65656 60.18751 152.63665 4 'point symmetry operation' ? ? 0.954338 0.006328 0.298663 -0.172278 -0.805113 0.567551 0.244049 -0.593088 -0.767259 -26.25451 -41.73001 157.84956 5 'point symmetry operation' ? ? 0.982559 0.112802 0.147833 -0.176189 0.310508 0.9341 0.059465 -0.943854 0.324967 -13.48805 -78.92794 63.51492 6 'point symmetry operation' ? ? 0.683442 0.527332 -0.504805 0.527332 -0.834815 -0.158128 -0.504805 -0.158128 -0.848627 81.95802 -34.12572 237.66789 7 'point symmetry operation' ? ? 0.656379 -0.428212 -0.621129 0.400589 -0.499835 0.767915 -0.639292 -0.752861 -0.156544 96.46433 -116.94754 179.56621 8 'point symmetry operation' ? ? 0.504804 -0.828807 0.241355 0.450743 0.491526 0.745139 -0.736209 -0.267361 0.621703 22.52753 -119.40022 109.04653 9 'point symmetry operation' ? ? 0.438189 -0.120843 0.890723 0.608482 0.769241 -0.19498 -0.661619 0.627427 0.410604 -37.67425 -38.09423 123.56465 10 'point symmetry operation' ? ? 0.548593 0.717297 0.429571 0.655817 -0.050483 -0.75323 -0.518604 0.694936 -0.49811 -0.94418 14.60831 203.05702 11 'point symmetry operation' ? ? -0.690343 -0.435485 0.577736 -0.435485 -0.387557 -0.812498 0.577736 -0.812498 0.0779 102.12524 124.84806 39.37033 12 'point symmetry operation' ? ? -0.642018 0.526073 0.557728 -0.591721 -0.802565 0.075866 0.487525 -0.281312 0.826549 99.56342 48.70345 -28.7555 13 'point symmetry operation' ? ? -0.489027 0.79744 -0.35347 -0.660716 -0.074082 0.746972 0.56948 0.598833 0.563109 178.35834 -13.49931 -9.57555 14 'point symmetry operation' ? ? -0.442799 0.003597 -0.896613 -0.547122 0.791154 0.273374 0.710343 0.611607 -0.348354 229.61809 24.20188 70.40413 15 'point symmetry operation' ? ? -0.567219 -0.758393 -0.321096 -0.407922 0.597416 -0.690431 0.715446 -0.260643 -0.64823 182.50345 109.70525 100.65435 16 'point symmetry operation' ? ? -0.993099 -0.091847 -0.072931 -0.091847 0.222372 0.970626 -0.072931 0.970626 -0.229273 197.71674 -90.72237 132.96181 17 'point symmetry operation' ? ? -0.99692 0.078329 0.003935 0.078329 0.991892 0.100073 0.003935 0.100073 -0.994972 190.20263 -17.73401 204.10905 18 'point symmetry operation' ? ? -0.970115 0.203644 -0.131934 0.203644 0.387668 -0.899023 -0.131934 -0.899023 -0.417554 201.5707 72.71199 157.89239 19 'point symmetry operation' ? ? -0.949727 0.110917 -0.292773 0.110917 -0.755283 -0.645946 -0.292773 -0.645946 0.70501 216.11066 55.62234 58.18168 20 'point symmetry operation' ? ? -0.963932 -0.071706 -0.256307 -0.071706 -0.857441 0.509561 -0.256307 0.509561 0.821373 213.72878 -45.38565 42.77373 21 'point symmetry operation' ? ? 0.283995 -0.216957 0.933957 0.862839 -0.366975 -0.347617 0.418157 0.904577 0.08298 -27.38795 -46.72721 54.08143 22 'point symmetry operation' ? ? 0.392638 0.755005 0.525169 0.755005 -0.590681 0.284715 0.525169 0.284716 -0.801957 4.14288 -101.2486 134.57315 23 'point symmetry operation' ? ? 0.548593 0.655817 -0.518604 0.717297 -0.050483 0.694936 0.429571 -0.75323 -0.49811 96.2437 -139.69699 112.55376 24 'point symmetry operation' ? ? 0.536336 -0.377447 -0.754903 0.801826 0.507084 0.316134 0.263476 -0.774854 0.574614 121.6343 -108.93801 18.45331 25 'point symmetry operation' ? ? 0.372805 -0.916851 0.142829 0.891776 0.311481 -0.3282 0.256422 0.249726 0.933748 45.22574 -51.47954 -17.68458 26 'point symmetry operation' ? ? -0.391781 0.183194 -0.901636 0.571661 0.816327 -0.082539 0.72091 -0.547768 -0.424546 225.26321 -46.10485 77.20518 27 'point symmetry operation' ? ? -0.497574 -0.716307 -0.489207 0.641572 0.075656 -0.763322 0.583785 -0.693672 0.421918 193.08724 17.00248 3.53113 28 'point symmetry operation' ? ? -0.642018 -0.59172 0.487525 0.526073 -0.802565 -0.281312 0.557728 0.075866 0.826549 106.75931 -21.37915 -35.45646 29 'point symmetry operation' ? ? -0.625495 0.384779 0.67875 0.384779 -0.604665 0.69737 0.67875 0.69737 0.23016 85.58169 -108.20762 14.12194 30 'point symmetry operation' ? ? -0.47084 0.863702 -0.179799 0.412954 0.395866 0.820219 0.779601 0.311943 -0.543059 158.82112 -123.48894 83.75066 31 'point symmetry operation' ? ? 0.438009 -0.79843 0.413107 -0.636674 0.048908 0.769581 -0.634661 -0.600097 -0.486917 11.2986 -18.1115 212.98743 32 'point symmetry operation' ? ? 0.401376 0.060791 0.913894 -0.506283 0.846226 0.166066 -0.763266 -0.529344 0.370432 -36.53543 31.30296 137.38446 33 'point symmetry operation' ? ? 0.536336 0.801826 0.263476 -0.377447 0.507084 -0.774854 -0.754903 0.316134 0.574614 17.25053 115.44988 115.65752 34 'point symmetry operation' ? ? 0.656379 0.400589 -0.639292 -0.428212 -0.499835 -0.752861 -0.621129 0.767915 -0.156544 98.3261 118.04107 177.83251 35 'point symmetry operation' ? ? 0.59561 -0.588423 -0.546815 -0.588423 -0.783003 0.201653 -0.546815 0.201653 -0.812606 94.64761 35.4956 237.9857 36 'point symmetry operation' ? ? -0.330223 0.832194 -0.445428 -0.797827 -0.498261 -0.339424 -0.504406 0.243289 0.828484 172.62614 110.94353 65.72599 37 'point symmetry operation' ? ? -0.296439 -0.099489 -0.949856 -0.890294 -0.331202 0.312541 -0.345688 0.9383 0.009606 221.10531 52.94313 134.51129 38 'point symmetry operation' ? ? -0.442911 -0.865923 -0.232397 -0.865923 0.345964 0.36123 -0.232397 0.36123 -0.903053 161.54646 45.62623 217.24519 39 'point symmetry operation' ? ? -0.567219 -0.407922 0.715446 -0.758393 0.597416 -0.260643 -0.321096 -0.690431 -0.64823 76.25791 99.10453 199.59227 40 'point symmetry operation' ? ? -0.497574 0.641572 0.583785 -0.716307 0.075656 -0.693672 -0.489208 -0.763322 0.421918 83.10553 139.47285 105.94825 41 'point symmetry operation' ? ? 0.283995 0.862839 0.418157 -0.216957 -0.366975 0.904577 0.933957 -0.347617 0.08298 25.48157 -72.01053 4.8483 42 'point symmetry operation' ? ? 0.438189 0.608482 -0.661619 -0.120843 0.769241 0.627427 0.890723 -0.19498 0.410604 121.44082 -52.77683 -24.6064 43 'point symmetry operation' ? ? 0.401375 -0.506283 -0.763266 0.060791 0.846227 -0.529344 0.913894 0.166066 0.370432 135.37347 48.45528 -22.70045 44 'point symmetry operation' ? ? 0.22443 -0.94089 0.253689 0.076932 -0.24241 -0.967119 0.971449 0.236567 0.017981 48.02508 91.78647 7.93218 45 'point symmetry operation' ? ? 0.151884 -0.094725 0.983849 -0.094725 -0.99221 -0.080907 0.983849 -0.080907 -0.159674 -19.89186 17.3345 24.95825 46 'point symmetry operation' ? ? 0.438009 -0.636674 -0.634661 -0.79843 0.048908 -0.600097 0.413107 0.769581 -0.486917 118.69478 137.72016 112.97802 47 'point symmetry operation' ? ? 0.264728 -0.867702 0.420729 -0.867702 -0.404689 -0.288653 0.420729 -0.288653 -0.860038 27.05696 112.40904 150.49532 48 'point symmetry operation' ? ? 0.22443 0.076932 0.971449 -0.94089 -0.24241 0.236567 0.253689 -0.967119 0.017981 -25.54531 65.5598 76.44235 49 'point symmetry operation' ? ? 0.372805 0.891776 0.256422 -0.916851 0.311481 0.249726 0.142829 -0.3282 0.933748 33.58254 61.91649 -6.8422 50 'point symmetry operation' ? ? 0.504804 0.450743 -0.736209 -0.828807 0.491526 -0.267361 0.241355 0.745139 0.621703 122.72782 106.51405 15.73808 51 'point symmetry operation' ? ? -0.330223 -0.797827 -0.504406 0.832194 -0.498261 0.243289 -0.445428 -0.339424 0.828484 178.67139 -104.37001 60.09652 52 'point symmetry operation' ? ? -0.489027 -0.660716 0.56948 0.79744 -0.074082 0.598833 -0.35347 0.746972 0.563109 83.75599 -137.49605 78.51999 53 'point symmetry operation' ? ? -0.47084 0.412954 0.779601 0.863702 0.395866 0.311943 -0.179799 0.820219 -0.543059 60.48261 -114.41459 175.3254 54 'point symmetry operation' ? ? -0.300796 0.939408 -0.164422 0.939408 0.262131 -0.220908 -0.164422 -0.220908 -0.961335 141.01427 -67.02342 216.73097 55 'point symmetry operation' ? ? -0.213889 0.191104 -0.957983 0.919935 -0.29047 -0.263339 -0.32859 -0.937607 -0.113675 214.05895 -60.81553 145.51561 56 'point symmetry operation' ? ? -0.391781 0.571661 0.72091 0.183194 0.816327 -0.547768 -0.901636 -0.082539 -0.424546 58.95226 38.66035 232.07718 57 'point symmetry operation' ? ? -0.213889 0.919935 -0.32859 0.191104 -0.29047 -0.937607 -0.957983 -0.263339 -0.113675 149.54624 77.86381 205.59111 58 'point symmetry operation' ? ? -0.154965 0.016396 -0.987784 0.016396 -0.999682 -0.019166 -0.987784 -0.019166 0.154646 211.48923 0.39948 180.93273 59 'point symmetry operation' ? ? -0.296439 -0.890294 -0.345688 -0.099489 -0.331202 0.9383 -0.949856 0.312541 0.009606 159.17812 -86.67956 192.17908 60 'point symmetry operation' ? ? -0.442799 -0.547122 0.710343 0.003597 0.791154 0.611607 -0.896613 0.273374 -0.348354 64.90509 -63.03304 223.78809 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 G N N ? 2 J 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 O GLN 25 A GLN 25 1_555 D CA CA . A CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc2 A OD2 ASP 26 A ASP 26 1_555 D CA CA . A CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc3 A OD1 ASP 100 A ASP 100 1_555 E CA CA . A CA 1124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? metalc ? metalc4 A OE1 GLU 103 A GLU 103 1_555 E CA CA . A CA 1124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc5 A OE2 GLU 103 A GLU 103 1_555 E CA CA . A CA 1124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc6 D CA CA . A CA 1123 1_555 B O GLN 25 B GLN 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc7 D CA CA . A CA 1123 1_555 B OD2 ASP 26 B ASP 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc8 D CA CA . A CA 1123 1_555 C O GLN 25 C GLN 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc9 D CA CA . A CA 1123 1_555 C OD1 ASP 26 C ASP 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc10 B OD1 ASP 100 B ASP 100 1_555 G CA CA . B CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc11 B OE1 GLU 103 B GLU 103 1_555 G CA CA . B CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc12 B OE2 GLU 103 B GLU 103 1_555 G CA CA . B CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.637 ? metalc ? metalc13 C OD1 ASP 100 C ASP 100 1_555 J CA CA . C CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc14 C OE1 GLU 103 C GLU 103 1_555 J CA CA . C CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc15 C OE2 GLU 103 C GLU 103 1_555 J CA CA . C CA 1123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.909 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 2W4Y _atom_sites.fract_transf_matrix[1][1] 0.002461 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000137 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.002919 _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] 0.002445 _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 D 2 CA A 1 1123 1123 CA CA . E 2 CA A 1 1124 1124 CA CA . F 3 AMP A 1 1125 1125 AMP AMP . G 2 CA B 1 1123 1123 CA CA . H 3 AMP B 1 1124 1124 AMP AMP . I 3 AMP B 1 1125 1125 AMP AMP . J 2 CA C 1 1123 1123 CA CA . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id G _atom_site.label_entity_id 2 _atom_site.Cartn_x 222.995 _atom_site.Cartn_y 44.252 _atom_site.Cartn_z 105.618 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 49.51 _atom_site.pdbx_formal_charge 2 _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 1123 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #