data_2VQ0 # _model_server_result.job_id ZB-8LPjQeYFuEmedSj_bAQ _model_server_result.datetime_utc '2025-08-31 21:16:00' _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 2vq0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1269}' # _entry.id 2VQ0 # _exptl.entry_id 2VQ0 _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 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 61.7 _cell.angle_beta 61.7 _cell.angle_gamma 61.7 _cell.entry_id 2VQ0 _cell.length_a 288.793 _cell.length_b 288.793 _cell.length_c 288.793 _cell.Z_PDB 540 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VQ0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'R 3' # 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 1 (1-60) A,B,C,D,E,F 2 1 A,B,C,D,E,F 3 (1-5) A,B,C,D,E,F 4 (1,2,6,10,23,24) A,B,C,D,E,F 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' ? ? 0.722468 -0.645643 0.247356 0.365886 0.053461 -0.929123 0.586658 0.761766 0.274855 0 0 0 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'point symmetry operation' ? ? 0.639329 0.565203 0.521348 0.080806 0.624875 -0.776532 -0.764675 0.538587 0.353829 0 0 0 3 'point symmetry operation' ? ? 0.055752 0.995324 0.078883 0.69595 0.017911 -0.717867 -0.715923 0.094921 -0.691696 0 0 0 4 'point symmetry operation' ? ? 0.055752 0.69595 -0.715923 0.995324 0.017911 0.094921 0.078883 -0.717867 -0.691696 0 0 0 5 'point symmetry operation' ? ? 0.639329 0.080806 -0.764675 0.565203 0.624875 0.538587 0.521348 -0.776532 0.353829 0 0 0 6 'point symmetry operation' ? ? -0.311665 0.893792 0.322492 0.893792 0.160574 0.418751 0.322492 0.418751 -0.848909 0 0 0 7 'point symmetry operation' ? ? -0.373635 0.556045 -0.742436 0.264194 0.831046 0.489452 0.889156 -0.013271 -0.457412 0 0 0 8 'point symmetry operation' ? ? 0.373779 -0.263587 -0.889276 -0.138212 0.932236 -0.334414 0.917163 0.247905 0.312019 0 0 0 9 'point symmetry operation' ? ? 0.897676 -0.432401 0.084901 0.242685 0.324303 -0.914293 0.367808 0.841343 0.396056 0 0 0 10 'point symmetry operation' ? ? 0.474048 0.282899 0.833814 0.880499 -0.152611 -0.448812 0.000281 0.946931 -0.321437 0 0 0 11 'point symmetry operation' ? ? -0.732255 0.039121 -0.679906 0.039121 -0.994284 -0.099343 -0.679906 -0.099343 0.726539 0 0 0 12 'point symmetry operation' ? ? 0.054917 -0.755616 -0.652709 0.020632 -0.652697 0.757338 -0.998278 -0.055058 -0.020254 0 0 0 13 'point symmetry operation' ? ? 0.473162 -0.792667 0.384443 -0.618669 0.0117 0.785565 -0.627189 -0.609542 -0.484862 0 0 0 14 'point symmetry operation' ? ? -0.055519 -0.020829 0.99824 -0.99529 0.080733 -0.053671 -0.079473 -0.996518 -0.025213 0 0 0 15 'point symmetry operation' ? ? -0.800508 0.493244 0.340436 -0.588753 -0.540999 -0.600574 -0.112054 -0.681197 0.723474 0 0 0 16 'point symmetry operation' ? ? 0.043919 -0.932913 0.357414 -0.932913 -0.16629 -0.319408 0.357414 -0.319408 -0.87763 0 0 0 17 'point symmetry operation' ? ? -0.320611 -0.365632 0.873797 -0.365632 -0.803225 -0.470259 0.873797 -0.470259 0.123836 0 0 0 18 'point symmetry operation' ? ? -0.902693 0.060931 0.42595 0.060931 -0.961847 0.266716 0.42595 0.266716 0.86454 0 0 0 19 'point symmetry operation' ? ? -0.897908 -0.242719 -0.367218 -0.242719 -0.422946 0.873043 -0.367218 0.873043 0.320854 0 0 0 20 'point symmetry operation' ? ? -0.312869 -0.856948 -0.409575 -0.856948 0.068735 0.510798 -0.409575 0.510798 -0.755866 0 0 0 21 'point symmetry operation' ? ? 0.902832 0.345482 -0.255999 -0.061429 -0.485621 -0.872009 -0.425582 0.803003 -0.417212 0 0 0 22 'point symmetry operation' ? ? 0.80088 0.588289 0.111832 0.588289 -0.807825 0.036532 0.111832 0.036532 -0.993055 0 0 0 23 'point symmetry operation' ? ? 0.474048 0.880499 0.000281 0.282899 -0.152611 0.946931 0.833814 -0.448812 -0.321437 0 0 0 24 'point symmetry operation' ? ? 0.374007 0.818287 -0.436492 -0.555561 0.574537 0.601048 0.742611 0.017701 0.66949 0 0 0 25 'point symmetry operation' ? ? 0.63901 0.487629 -0.594881 -0.768367 0.368726 -0.523118 -0.035739 0.791366 0.610298 0 0 0 26 'point symmetry operation' ? ? -0.055149 0.75522 0.653147 -0.696115 -0.498037 0.517092 0.715809 -0.426148 0.553186 0 0 0 27 'point symmetry operation' ? ? -0.473678 0.792524 -0.384101 -0.880698 -0.426158 0.206786 0.000195 0.436227 0.899837 0 0 0 28 'point symmetry operation' ? ? 0.054917 0.020632 -0.998278 -0.755616 -0.652697 -0.055058 -0.652709 0.757338 -0.020254 0 0 0 29 'point symmetry operation' ? ? 0.800136 -0.493728 -0.340611 -0.493728 -0.864584 0.09342 -0.340611 0.09342 -0.935552 0 0 0 30 'point symmetry operation' ? ? 0.732111 -0.039728 0.680026 -0.456954 -0.768999 0.447028 0.50518 -0.638015 -0.581146 0 0 0 31 'point symmetry operation' ? ? -0.473532 -0.282756 -0.834156 0.618868 0.56707 -0.543539 0.626713 -0.773616 -0.093537 0 0 0 32 'point symmetry operation' ? ? 0.312267 -0.893595 -0.322455 0.857114 0.411391 -0.310022 0.409689 -0.179571 0.894376 0 0 0 33 'point symmetry operation' ? ? 0.374007 -0.555561 0.742611 0.818287 0.574537 0.017701 -0.436492 0.601048 0.66949 0 0 0 34 'point symmetry operation' ? ? -0.373635 0.264194 0.889156 0.556045 0.831046 -0.013271 -0.742436 0.489452 -0.457412 0 0 0 35 'point symmetry operation' ? ? -0.897443 0.432797 -0.085339 0.432797 0.826431 -0.360137 -0.085339 -0.360137 -0.928988 0 0 0 36 'point symmetry operation' ? ? -0.374151 -0.817946 0.437008 0.138676 0.416588 0.898456 -0.916941 0.39676 -0.042437 0 0 0 37 'point symmetry operation' ? ? -0.639469 -0.487219 0.594724 -0.564705 0.822593 0.066705 -0.521716 -0.293188 -0.801157 0 0 0 38 'point symmetry operation' ? ? -0.902973 -0.34557 0.255386 -0.34557 0.230771 -0.909575 0.255386 -0.909575 -0.327799 0 0 0 39 'point symmetry operation' ? ? -0.800508 -0.588753 -0.112054 0.493244 -0.540999 -0.681197 0.340436 -0.600574 0.723474 0 0 0 40 'point symmetry operation' ? ? -0.473678 -0.880698 0.000195 0.792524 -0.426158 0.436227 -0.384101 0.206786 0.899837 0 0 0 41 'point symmetry operation' ? ? 0.902832 -0.061429 -0.425582 0.345482 -0.485621 0.803003 -0.255999 -0.872009 -0.417212 0 0 0 42 'point symmetry operation' ? ? 0.897676 0.242685 0.367808 -0.432401 0.324303 0.841343 0.084901 -0.914293 0.396056 0 0 0 43 'point symmetry operation' ? ? 0.312267 0.857114 0.409689 -0.893595 0.411391 -0.179571 -0.322455 -0.310022 0.894376 0 0 0 44 'point symmetry operation' ? ? -0.044378 0.932737 -0.357816 -0.400745 -0.344709 -0.848869 -0.915114 0.105722 0.389088 0 0 0 45 'point symmetry operation' ? ? 0.320611 0.365046 -0.874042 0.365046 -0.899093 -0.241605 -0.874042 -0.241605 -0.421518 0 0 0 46 'point symmetry operation' ? ? -0.473532 0.618868 0.626713 -0.282756 0.56707 -0.773616 -0.834156 -0.543539 -0.093537 0 0 0 47 'point symmetry operation' ? ? -0.731968 0.456613 -0.505696 0.456613 -0.222126 -0.86149 -0.505696 -0.86149 -0.045906 0 0 0 48 'point symmetry operation' ? ? -0.044378 -0.400746 -0.915114 0.932737 -0.344709 0.105722 -0.357816 -0.848869 0.389088 0 0 0 49 'point symmetry operation' ? ? 0.63901 -0.768367 -0.035739 0.487629 0.368726 0.791366 -0.594882 -0.523118 0.610298 0 0 0 50 'point symmetry operation' ? ? 0.373779 -0.138212 0.917163 -0.263587 0.932236 0.247905 -0.889276 -0.334414 0.312019 0 0 0 51 'point symmetry operation' ? ? -0.374151 0.138676 -0.916941 -0.817946 0.416588 0.39676 0.437008 0.898456 -0.042437 0 0 0 52 'point symmetry operation' ? ? 0.473162 -0.618669 -0.627189 -0.792667 0.0117 -0.609542 0.384443 0.785565 -0.484862 0 0 0 53 'point symmetry operation' ? ? 0.732111 -0.456954 0.50518 -0.039728 -0.768999 -0.638015 0.680026 0.447028 -0.581146 0 0 0 54 'point symmetry operation' ? ? 0.044837 0.400336 0.915271 0.400336 -0.846609 0.350692 0.915271 0.350692 -0.198228 0 0 0 55 'point symmetry operation' ? ? -0.63887 0.768455 0.036352 -0.08063 -0.113876 0.990218 0.765078 0.62969 0.134712 0 0 0 56 'point symmetry operation' ? ? -0.055149 -0.696115 0.715809 0.75522 -0.498037 -0.426148 0.653147 0.517092 0.553186 0 0 0 57 'point symmetry operation' ? ? -0.63887 -0.08063 0.765077 0.768455 -0.113876 0.62969 0.036352 0.990218 0.134712 0 0 0 58 'point symmetry operation' ? ? -1 0.000586 0.000245 0.000586 0.702318 0.711863 0.000245 0.711863 -0.702318 0 0 0 59 'point symmetry operation' ? ? -0.639469 -0.564705 -0.521716 -0.487219 0.822593 -0.293188 0.594724 0.066705 -0.801157 0 0 0 60 'point symmetry operation' ? ? -0.055519 -0.99529 -0.079473 -0.020829 0.080733 -0.996518 0.99824 -0.053671 -0.025213 0 0 0 # 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 F 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 disulf ? disulf1 A SG CYS 165 A CYS 177 1_555 A SG CYS 172 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf2 B SG CYS 165 B CYS 177 1_555 B SG CYS 172 B CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 C SG CYS 165 C CYS 177 1_555 C SG CYS 172 C CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc1 A OD2 ASP 134 A ASP 146 1_555 E CA CA . B CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc2 A OD2 ASP 137 A ASP 149 1_555 E CA CA . B CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc3 A O TYR 195 A TYR 207 1_555 D CA CA . A CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc4 A OD1 ASN 255 A ASN 267 1_555 D CA CA . A CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc5 A OXT ASN 256 A ASN 268 1_555 D CA CA . A CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc6 D CA CA . A CA 1269 1_555 C OD1 ASP 134 C ASP 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc7 D CA CA . A CA 1269 1_555 C OD1 ASP 137 C ASP 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc8 B OD2 ASP 134 B ASP 146 1_555 F CA CA . C CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc9 B OD1 ASP 137 B ASP 149 1_555 F CA CA . C CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc10 B O TYR 195 B TYR 207 1_555 E CA CA . B CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? metalc ? metalc11 B OD1 ASN 255 B ASN 267 1_555 E CA CA . B CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc12 B OXT ASN 256 B ASN 268 1_555 E CA CA . B CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc13 C O TYR 195 C TYR 207 1_555 F CA CA . C CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.928 ? metalc ? metalc14 C OD1 ASN 255 C ASN 267 1_555 F CA CA . C CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc15 C O ASN 256 C ASN 268 1_555 F CA CA . C CA 1269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? # _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 2VQ0 _atom_sites.fract_transf_matrix[1][1] 0.003463 _atom_sites.fract_transf_matrix[1][2] -0.001864 _atom_sites.fract_transf_matrix[1][3] -0.001336 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.003933 _atom_sites.fract_transf_matrix[2][3] -0.001336 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.004153 _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 1269 1269 CA CA . E 2 CA B 1 1269 1269 CA CA . F 2 CA C 1 1269 1269 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 E _atom_site.label_entity_id 2 _atom_site.Cartn_x 97.403 _atom_site.Cartn_y 94.358 _atom_site.Cartn_z 4.93 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 18.03 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 1269 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 413 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #