data_8DB8 # _model_server_result.job_id Q5dQv3AtdXUuGd-Ee0IbLA _model_server_result.datetime_utc '2024-11-25 06:09:02' _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 8db8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":402}' # _entry.id 8DB8 # _exptl.entry_id 8DB8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _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 75.479 _cell.angle_beta 81.672 _cell.angle_gamma 86.504 _cell.entry_id 8DB8 _cell.length_a 51.025 _cell.length_b 76.48 _cell.length_c 86.636 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DB8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,E,F,G,H,K,L,M 1 1 D,I,J,N 1 2 # 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] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -51.025 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 F N N ? 3 G N N ? 3 H N N ? 3 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 OD1 ASP 8 B ASP 8 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc2 A OD1 ASP 13 B ASP 13 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? metalc ? metalc3 A OD2 ASP 13 B ASP 13 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc4 A O LEU 125 B LEU 125 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc5 A OD2 ASP 239 B ASP 239 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc6 E O3' IMH . B IMH 401 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc7 E O2' IMH . B IMH 401 1_555 F CA CA . B CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc8 F CA CA . B CA 402 1_555 K O HOH . B HOH 518 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc9 B OD1 ASP 8 A ASP 8 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc10 B OD1 ASP 13 A ASP 13 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.797 ? metalc ? metalc11 B OD2 ASP 13 A ASP 13 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? metalc ? metalc12 B O LEU 125 A LEU 125 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? metalc ? metalc13 B OD2 ASP 239 A ASP 239 1_555 G CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc14 G CA CA . A CA 401 1_555 L O HOH . A HOH 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.654 ? metalc ? metalc15 G CA CA . A CA 401 1_555 L O HOH . A HOH 548 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? metalc ? metalc16 C OD1 ASP 8 C ASP 8 1_555 H CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc17 C OD1 ASP 13 C ASP 13 1_555 H CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc18 C OD2 ASP 13 C ASP 13 1_555 H CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc19 C O LEU 125 C LEU 125 1_555 H CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc20 C OD2 ASP 239 C ASP 239 1_555 H CA CA . C CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc21 H CA CA . C CA 401 1_555 M O HOH . C HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc22 H CA CA . C CA 401 1_555 M O HOH . C HOH 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc23 H CA CA . C CA 401 1_555 M O HOH . C HOH 532 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc24 D OD1 ASP 8 D ASP 8 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc25 D OD1 ASP 13 D ASP 13 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc26 D OD2 ASP 13 D ASP 13 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? metalc ? metalc27 D O LEU 125 D LEU 125 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc28 D OD2 ASP 239 D ASP 239 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? metalc ? metalc29 I O3' IMH . D IMH 401 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc30 I O2' IMH . D IMH 401 1_555 J CA CA . D CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.341 ? # _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 8DB8 _atom_sites.fract_transf_matrix[1][1] 0.019598 _atom_sites.fract_transf_matrix[1][2] -0.001197 _atom_sites.fract_transf_matrix[1][3] -0.002657 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.0131 _atom_sites.fract_transf_matrix[2][3] -0.003309 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012032 _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 IMH B 1 401 401 IMH IMH . F 3 CA B 1 402 1 CA CA . G 3 CA A 1 401 2 CA CA . H 3 CA C 1 401 3 CA CA . I 2 IMH D 1 401 401 IMH IMH . J 3 CA D 1 402 4 CA CA . K 4 HOH B 1 501 16 HOH HOH . K 4 HOH B 2 502 124 HOH HOH . K 4 HOH B 3 503 93 HOH HOH . K 4 HOH B 4 504 189 HOH HOH . K 4 HOH B 5 505 190 HOH HOH . K 4 HOH B 6 506 202 HOH HOH . K 4 HOH B 7 507 208 HOH HOH . K 4 HOH B 8 508 31 HOH HOH . K 4 HOH B 9 509 18 HOH HOH . K 4 HOH B 10 510 41 HOH HOH . K 4 HOH B 11 511 5 HOH HOH . K 4 HOH B 12 512 175 HOH HOH . K 4 HOH B 13 513 29 HOH HOH . K 4 HOH B 14 514 99 HOH HOH . K 4 HOH B 15 515 154 HOH HOH . K 4 HOH B 16 516 30 HOH HOH . K 4 HOH B 17 517 95 HOH HOH . K 4 HOH B 18 518 137 HOH HOH . K 4 HOH B 19 519 4 HOH HOH . K 4 HOH B 20 520 170 HOH HOH . K 4 HOH B 21 521 146 HOH HOH . K 4 HOH B 22 522 148 HOH HOH . K 4 HOH B 23 523 3 HOH HOH . K 4 HOH B 24 524 19 HOH HOH . K 4 HOH B 25 525 82 HOH HOH . K 4 HOH B 26 526 112 HOH HOH . K 4 HOH B 27 527 100 HOH HOH . K 4 HOH B 28 528 85 HOH HOH . K 4 HOH B 29 529 151 HOH HOH . K 4 HOH B 30 530 171 HOH HOH . K 4 HOH B 31 531 156 HOH HOH . K 4 HOH B 32 532 140 HOH HOH . K 4 HOH B 33 533 168 HOH HOH . K 4 HOH B 34 534 54 HOH HOH . K 4 HOH B 35 535 119 HOH HOH . K 4 HOH B 36 536 60 HOH HOH . K 4 HOH B 37 537 117 HOH HOH . K 4 HOH B 38 538 13 HOH HOH . K 4 HOH B 39 539 58 HOH HOH . K 4 HOH B 40 540 80 HOH HOH . K 4 HOH B 41 541 87 HOH HOH . K 4 HOH B 42 542 187 HOH HOH . K 4 HOH B 43 543 178 HOH HOH . K 4 HOH B 44 544 194 HOH HOH . K 4 HOH B 45 545 144 HOH HOH . K 4 HOH B 46 546 42 HOH HOH . L 4 HOH A 1 501 184 HOH HOH . L 4 HOH A 2 502 145 HOH HOH . L 4 HOH A 3 503 139 HOH HOH . L 4 HOH A 4 504 7 HOH HOH . L 4 HOH A 5 505 2 HOH HOH . L 4 HOH A 6 506 70 HOH HOH . L 4 HOH A 7 507 209 HOH HOH . L 4 HOH A 8 508 23 HOH HOH . L 4 HOH A 9 509 169 HOH HOH . L 4 HOH A 10 510 111 HOH HOH . L 4 HOH A 11 511 159 HOH HOH . L 4 HOH A 12 512 181 HOH HOH . L 4 HOH A 13 513 84 HOH HOH . L 4 HOH A 14 514 39 HOH HOH . L 4 HOH A 15 515 142 HOH HOH . L 4 HOH A 16 516 106 HOH HOH . L 4 HOH A 17 517 197 HOH HOH . L 4 HOH A 18 518 15 HOH HOH . L 4 HOH A 19 519 9 HOH HOH . L 4 HOH A 20 520 25 HOH HOH . L 4 HOH A 21 521 91 HOH HOH . L 4 HOH A 22 522 113 HOH HOH . L 4 HOH A 23 523 46 HOH HOH . L 4 HOH A 24 524 75 HOH HOH . L 4 HOH A 25 525 201 HOH HOH . L 4 HOH A 26 526 195 HOH HOH . L 4 HOH A 27 527 114 HOH HOH . L 4 HOH A 28 528 17 HOH HOH . L 4 HOH A 29 529 78 HOH HOH . L 4 HOH A 30 530 158 HOH HOH . L 4 HOH A 31 531 77 HOH HOH . L 4 HOH A 32 532 20 HOH HOH . L 4 HOH A 33 533 53 HOH HOH . L 4 HOH A 34 534 173 HOH HOH . L 4 HOH A 35 535 149 HOH HOH . L 4 HOH A 36 536 143 HOH HOH . L 4 HOH A 37 537 110 HOH HOH . L 4 HOH A 38 538 96 HOH HOH . L 4 HOH A 39 539 74 HOH HOH . L 4 HOH A 40 540 207 HOH HOH . L 4 HOH A 41 541 28 HOH HOH . L 4 HOH A 42 542 141 HOH HOH . L 4 HOH A 43 543 191 HOH HOH . L 4 HOH A 44 544 127 HOH HOH . L 4 HOH A 45 545 86 HOH HOH . L 4 HOH A 46 546 35 HOH HOH . L 4 HOH A 47 547 88 HOH HOH . L 4 HOH A 48 548 68 HOH HOH . L 4 HOH A 49 549 132 HOH HOH . L 4 HOH A 50 550 138 HOH HOH . L 4 HOH A 51 551 67 HOH HOH . L 4 HOH A 52 552 155 HOH HOH . L 4 HOH A 53 553 81 HOH HOH . L 4 HOH A 54 554 126 HOH HOH . L 4 HOH A 55 555 57 HOH HOH . L 4 HOH A 56 556 97 HOH HOH . L 4 HOH A 57 557 134 HOH HOH . L 4 HOH A 58 558 55 HOH HOH . L 4 HOH A 59 559 73 HOH HOH . L 4 HOH A 60 560 72 HOH HOH . L 4 HOH A 61 561 152 HOH HOH . L 4 HOH A 62 562 83 HOH HOH . L 4 HOH A 63 563 51 HOH HOH . L 4 HOH A 64 564 101 HOH HOH . L 4 HOH A 65 565 150 HOH HOH . L 4 HOH A 66 566 193 HOH HOH . L 4 HOH A 67 567 204 HOH HOH . L 4 HOH A 68 568 163 HOH HOH . L 4 HOH A 69 569 188 HOH HOH . L 4 HOH A 70 570 131 HOH HOH . L 4 HOH A 71 571 123 HOH HOH . L 4 HOH A 72 572 89 HOH HOH . L 4 HOH A 73 573 162 HOH HOH . L 4 HOH A 74 574 133 HOH HOH . L 4 HOH A 75 575 102 HOH HOH . M 4 HOH C 1 501 130 HOH HOH . M 4 HOH C 2 502 180 HOH HOH . M 4 HOH C 3 503 104 HOH HOH . M 4 HOH C 4 504 10 HOH HOH . M 4 HOH C 5 505 56 HOH HOH . M 4 HOH C 6 506 179 HOH HOH . M 4 HOH C 7 507 33 HOH HOH . M 4 HOH C 8 508 50 HOH HOH . M 4 HOH C 9 509 36 HOH HOH . M 4 HOH C 10 510 182 HOH HOH . M 4 HOH C 11 511 26 HOH HOH . M 4 HOH C 12 512 185 HOH HOH . M 4 HOH C 13 513 115 HOH HOH . M 4 HOH C 14 514 160 HOH HOH . M 4 HOH C 15 515 125 HOH HOH . M 4 HOH C 16 516 136 HOH HOH . M 4 HOH C 17 517 120 HOH HOH . M 4 HOH C 18 518 48 HOH HOH . M 4 HOH C 19 519 121 HOH HOH . M 4 HOH C 20 520 166 HOH HOH . M 4 HOH C 21 521 44 HOH HOH . M 4 HOH C 22 522 49 HOH HOH . M 4 HOH C 23 523 64 HOH HOH . M 4 HOH C 24 524 12 HOH HOH . M 4 HOH C 25 525 14 HOH HOH . M 4 HOH C 26 526 62 HOH HOH . M 4 HOH C 27 527 22 HOH HOH . M 4 HOH C 28 528 1 HOH HOH . M 4 HOH C 29 529 161 HOH HOH . M 4 HOH C 30 530 107 HOH HOH . M 4 HOH C 31 531 186 HOH HOH . M 4 HOH C 32 532 6 HOH HOH . M 4 HOH C 33 533 135 HOH HOH . M 4 HOH C 34 534 165 HOH HOH . M 4 HOH C 35 535 79 HOH HOH . M 4 HOH C 36 536 129 HOH HOH . M 4 HOH C 37 537 153 HOH HOH . M 4 HOH C 38 538 109 HOH HOH . M 4 HOH C 39 539 128 HOH HOH . M 4 HOH C 40 540 69 HOH HOH . M 4 HOH C 41 541 47 HOH HOH . M 4 HOH C 42 542 38 HOH HOH . M 4 HOH C 43 543 103 HOH HOH . M 4 HOH C 44 544 61 HOH HOH . M 4 HOH C 45 545 174 HOH HOH . M 4 HOH C 46 546 122 HOH HOH . M 4 HOH C 47 547 192 HOH HOH . M 4 HOH C 48 548 118 HOH HOH . N 4 HOH D 1 501 198 HOH HOH . N 4 HOH D 2 502 71 HOH HOH . N 4 HOH D 3 503 24 HOH HOH . N 4 HOH D 4 504 205 HOH HOH . N 4 HOH D 5 505 177 HOH HOH . N 4 HOH D 6 506 199 HOH HOH . N 4 HOH D 7 507 98 HOH HOH . N 4 HOH D 8 508 176 HOH HOH . N 4 HOH D 9 509 8 HOH HOH . N 4 HOH D 10 510 21 HOH HOH . N 4 HOH D 11 511 183 HOH HOH . N 4 HOH D 12 512 116 HOH HOH . N 4 HOH D 13 513 167 HOH HOH . N 4 HOH D 14 514 164 HOH HOH . N 4 HOH D 15 515 40 HOH HOH . N 4 HOH D 16 516 45 HOH HOH . N 4 HOH D 17 517 76 HOH HOH . N 4 HOH D 18 518 147 HOH HOH . N 4 HOH D 19 519 63 HOH HOH . N 4 HOH D 20 520 32 HOH HOH . N 4 HOH D 21 521 90 HOH HOH . N 4 HOH D 22 522 11 HOH HOH . N 4 HOH D 23 523 43 HOH HOH . N 4 HOH D 24 524 52 HOH HOH . N 4 HOH D 25 525 172 HOH HOH . N 4 HOH D 26 526 66 HOH HOH . N 4 HOH D 27 527 27 HOH HOH . N 4 HOH D 28 528 59 HOH HOH . N 4 HOH D 29 529 65 HOH HOH . N 4 HOH D 30 530 94 HOH HOH . N 4 HOH D 31 531 37 HOH HOH . N 4 HOH D 32 532 196 HOH HOH . N 4 HOH D 33 533 206 HOH HOH . N 4 HOH D 34 534 200 HOH HOH . N 4 HOH D 35 535 105 HOH HOH . N 4 HOH D 36 536 34 HOH HOH . N 4 HOH D 37 537 157 HOH HOH . N 4 HOH D 38 538 108 HOH HOH . N 4 HOH D 39 539 203 HOH HOH . N 4 HOH D 40 540 92 HOH HOH . # _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 J _atom_site.label_entity_id 3 _atom_site.Cartn_x 29.329 _atom_site.Cartn_y -36.316 _atom_site.Cartn_z 49.588 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 61.92 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 402 _atom_site.auth_asym_id D _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 1 #