data_5CVC # _model_server_result.job_id 4wtKHP6zWjJcnI_jNFA9zw _model_server_result.datetime_utc '2025-03-06 08:29:33' _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 5cvc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 5CVC # _exptl.entry_id 5CVC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 24.305 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MAGNESIUM ION' _entity.pdbx_number_of_molecules 3 _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 5CVC _cell.length_a 50.992 _cell.length_b 204.017 _cell.length_c 211.847 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CVC _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,H,I,J,L 1 1 B,F,G,K 2 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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -105.9235 # 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 F N N ? 2 H 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 covale ? covale1 A NZ LYS 67 A LYS 67 1_555 E C4A PLP . A PLP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? covale ? covale2 B NZ LYS 67 B LYS 67 1_555 G C4A PLP . B PLP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale3 C NZ LYS 67 C LYS 67 1_555 I C4A PLP . C PLP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc1 A OE2 GLU 218 A GLU 218 1_555 D MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc2 A O ALA 222 A ALA 222 1_555 D MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc3 A OD1 ASP 224 A ASP 224 1_555 D MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc4 D MG MG . A MG 401 1_555 J O HOH . A HOH 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc5 D MG MG . A MG 401 1_555 J O HOH . A HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc6 D MG MG . A MG 401 1_555 J O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc7 B OE2 GLU 218 B GLU 218 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc8 B O ALA 222 B ALA 222 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc9 B OD1 ASP 224 B ASP 224 1_555 F MG MG . B MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc10 F MG MG . B MG 401 1_555 K O HOH . B HOH 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc11 F MG MG . B MG 401 1_555 K O HOH . B HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc12 F MG MG . B MG 401 1_555 K O HOH . B HOH 516 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc13 C OE2 GLU 218 C GLU 218 1_555 H MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? metalc ? metalc14 C O ALA 222 C ALA 222 1_555 H MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.251 ? metalc ? metalc15 C OD1 ASP 224 C ASP 224 1_555 H MG MG . C MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc16 H MG MG . C MG 401 1_555 L O HOH . C HOH 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc17 H MG MG . C MG 401 1_555 L O HOH . C HOH 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc18 H MG MG . C MG 401 1_555 L O HOH . C HOH 515 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? # _chem_comp.formula 'Mg 2' _chem_comp.formula_weight 24.305 _chem_comp.id MG _chem_comp.mon_nstd_flag . _chem_comp.name 'MAGNESIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5CVC _atom_sites.fract_transf_matrix[1][1] 0.019611 _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] 0.004902 _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] 0.00472 _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 MG A 1 401 2 MG MG . E 3 PLP A 1 402 1 PLP PLP . F 2 MG B 1 401 3 MG MG . G 3 PLP B 1 402 2 PLP PLP . H 2 MG C 1 401 4 MG MG . I 3 PLP C 1 402 3 PLP PLP . J 4 HOH A 1 501 64 HOH HOH . J 4 HOH A 2 502 96 HOH HOH . J 4 HOH A 3 503 134 HOH HOH . J 4 HOH A 4 504 25 HOH HOH . J 4 HOH A 5 505 23 HOH HOH . J 4 HOH A 6 506 112 HOH HOH . J 4 HOH A 7 507 233 HOH HOH . J 4 HOH A 8 508 12 HOH HOH . J 4 HOH A 9 509 259 HOH HOH . J 4 HOH A 10 510 20 HOH HOH . J 4 HOH A 11 511 244 HOH HOH . J 4 HOH A 12 512 191 HOH HOH . J 4 HOH A 13 513 164 HOH HOH . J 4 HOH A 14 514 235 HOH HOH . J 4 HOH A 15 515 245 HOH HOH . J 4 HOH A 16 516 77 HOH HOH . J 4 HOH A 17 517 36 HOH HOH . J 4 HOH A 18 518 221 HOH HOH . J 4 HOH A 19 519 246 HOH HOH . J 4 HOH A 20 520 187 HOH HOH . J 4 HOH A 21 521 90 HOH HOH . J 4 HOH A 22 522 37 HOH HOH . J 4 HOH A 23 523 188 HOH HOH . J 4 HOH A 24 524 1 HOH HOH . J 4 HOH A 25 525 49 HOH HOH . J 4 HOH A 26 526 260 HOH HOH . J 4 HOH A 27 527 107 HOH HOH . J 4 HOH A 28 528 182 HOH HOH . J 4 HOH A 29 529 75 HOH HOH . J 4 HOH A 30 530 85 HOH HOH . J 4 HOH A 31 531 118 HOH HOH . J 4 HOH A 32 532 60 HOH HOH . J 4 HOH A 33 533 83 HOH HOH . J 4 HOH A 34 534 163 HOH HOH . J 4 HOH A 35 535 123 HOH HOH . J 4 HOH A 36 536 7 HOH HOH . J 4 HOH A 37 537 93 HOH HOH . J 4 HOH A 38 538 122 HOH HOH . J 4 HOH A 39 539 156 HOH HOH . J 4 HOH A 40 540 15 HOH HOH . J 4 HOH A 41 541 190 HOH HOH . J 4 HOH A 42 542 150 HOH HOH . J 4 HOH A 43 543 50 HOH HOH . J 4 HOH A 44 544 35 HOH HOH . J 4 HOH A 45 545 151 HOH HOH . J 4 HOH A 46 546 86 HOH HOH . J 4 HOH A 47 547 87 HOH HOH . J 4 HOH A 48 548 46 HOH HOH . J 4 HOH A 49 549 138 HOH HOH . J 4 HOH A 50 550 154 HOH HOH . J 4 HOH A 51 551 222 HOH HOH . J 4 HOH A 52 552 59 HOH HOH . J 4 HOH A 53 553 84 HOH HOH . J 4 HOH A 54 554 159 HOH HOH . J 4 HOH A 55 555 131 HOH HOH . J 4 HOH A 56 556 78 HOH HOH . J 4 HOH A 57 557 80 HOH HOH . J 4 HOH A 58 558 11 HOH HOH . J 4 HOH A 59 559 67 HOH HOH . J 4 HOH A 60 560 92 HOH HOH . J 4 HOH A 61 561 210 HOH HOH . J 4 HOH A 62 562 100 HOH HOH . J 4 HOH A 63 563 212 HOH HOH . J 4 HOH A 64 564 171 HOH HOH . J 4 HOH A 65 565 17 HOH HOH . J 4 HOH A 66 566 48 HOH HOH . J 4 HOH A 67 567 62 HOH HOH . J 4 HOH A 68 568 262 HOH HOH . J 4 HOH A 69 569 114 HOH HOH . J 4 HOH A 70 570 194 HOH HOH . K 4 HOH B 1 501 160 HOH HOH . K 4 HOH B 2 502 237 HOH HOH . K 4 HOH B 3 503 16 HOH HOH . K 4 HOH B 4 504 28 HOH HOH . K 4 HOH B 5 505 30 HOH HOH . K 4 HOH B 6 506 249 HOH HOH . K 4 HOH B 7 507 220 HOH HOH . K 4 HOH B 8 508 174 HOH HOH . K 4 HOH B 9 509 82 HOH HOH . K 4 HOH B 10 510 99 HOH HOH . K 4 HOH B 11 511 21 HOH HOH . K 4 HOH B 12 512 56 HOH HOH . K 4 HOH B 13 513 136 HOH HOH . K 4 HOH B 14 514 152 HOH HOH . K 4 HOH B 15 515 250 HOH HOH . K 4 HOH B 16 516 248 HOH HOH . K 4 HOH B 17 517 111 HOH HOH . K 4 HOH B 18 518 266 HOH HOH . K 4 HOH B 19 519 119 HOH HOH . K 4 HOH B 20 520 238 HOH HOH . K 4 HOH B 21 521 211 HOH HOH . K 4 HOH B 22 522 63 HOH HOH . K 4 HOH B 23 523 126 HOH HOH . K 4 HOH B 24 524 3 HOH HOH . K 4 HOH B 25 525 2 HOH HOH . K 4 HOH B 26 526 32 HOH HOH . K 4 HOH B 27 527 18 HOH HOH . K 4 HOH B 28 528 215 HOH HOH . K 4 HOH B 29 529 41 HOH HOH . K 4 HOH B 30 530 169 HOH HOH . K 4 HOH B 31 531 69 HOH HOH . K 4 HOH B 32 532 120 HOH HOH . K 4 HOH B 33 533 58 HOH HOH . K 4 HOH B 34 534 157 HOH HOH . K 4 HOH B 35 535 128 HOH HOH . K 4 HOH B 36 536 52 HOH HOH . K 4 HOH B 37 537 81 HOH HOH . K 4 HOH B 38 538 68 HOH HOH . K 4 HOH B 39 539 192 HOH HOH . K 4 HOH B 40 540 94 HOH HOH . K 4 HOH B 41 541 57 HOH HOH . K 4 HOH B 42 542 144 HOH HOH . K 4 HOH B 43 543 181 HOH HOH . K 4 HOH B 44 544 9 HOH HOH . K 4 HOH B 45 545 232 HOH HOH . K 4 HOH B 46 546 27 HOH HOH . K 4 HOH B 47 547 79 HOH HOH . K 4 HOH B 48 548 165 HOH HOH . K 4 HOH B 49 549 142 HOH HOH . K 4 HOH B 50 550 88 HOH HOH . K 4 HOH B 51 551 89 HOH HOH . K 4 HOH B 52 552 130 HOH HOH . K 4 HOH B 53 553 203 HOH HOH . K 4 HOH B 54 554 158 HOH HOH . K 4 HOH B 55 555 71 HOH HOH . K 4 HOH B 56 556 74 HOH HOH . K 4 HOH B 57 557 129 HOH HOH . K 4 HOH B 58 558 31 HOH HOH . K 4 HOH B 59 559 140 HOH HOH . K 4 HOH B 60 560 267 HOH HOH . K 4 HOH B 61 561 228 HOH HOH . L 4 HOH C 1 501 13 HOH HOH . L 4 HOH C 2 502 170 HOH HOH . L 4 HOH C 3 503 147 HOH HOH . L 4 HOH C 4 504 247 HOH HOH . L 4 HOH C 5 505 6 HOH HOH . L 4 HOH C 6 506 268 HOH HOH . L 4 HOH C 7 507 251 HOH HOH . L 4 HOH C 8 508 33 HOH HOH . L 4 HOH C 9 509 22 HOH HOH . L 4 HOH C 10 510 141 HOH HOH . L 4 HOH C 11 511 145 HOH HOH . L 4 HOH C 12 512 102 HOH HOH . L 4 HOH C 13 513 55 HOH HOH . L 4 HOH C 14 514 253 HOH HOH . L 4 HOH C 15 515 252 HOH HOH . L 4 HOH C 16 516 103 HOH HOH . L 4 HOH C 17 517 219 HOH HOH . L 4 HOH C 18 518 186 HOH HOH . L 4 HOH C 19 519 10 HOH HOH . L 4 HOH C 20 520 198 HOH HOH . L 4 HOH C 21 521 166 HOH HOH . L 4 HOH C 22 522 148 HOH HOH . L 4 HOH C 23 523 234 HOH HOH . L 4 HOH C 24 524 5 HOH HOH . L 4 HOH C 25 525 65 HOH HOH . L 4 HOH C 26 526 200 HOH HOH . L 4 HOH C 27 527 214 HOH HOH . L 4 HOH C 28 528 162 HOH HOH . L 4 HOH C 29 529 105 HOH HOH . L 4 HOH C 30 530 167 HOH HOH . L 4 HOH C 31 531 189 HOH HOH . L 4 HOH C 32 532 133 HOH HOH . L 4 HOH C 33 533 51 HOH HOH . L 4 HOH C 34 534 227 HOH HOH . L 4 HOH C 35 535 168 HOH HOH . L 4 HOH C 36 536 175 HOH HOH . L 4 HOH C 37 537 132 HOH HOH . L 4 HOH C 38 538 236 HOH HOH . L 4 HOH C 39 539 149 HOH HOH . L 4 HOH C 40 540 254 HOH HOH . L 4 HOH C 41 541 239 HOH HOH . L 4 HOH C 42 542 106 HOH HOH . L 4 HOH C 43 543 34 HOH HOH . L 4 HOH C 44 544 135 HOH HOH . L 4 HOH C 45 545 19 HOH HOH . L 4 HOH C 46 546 45 HOH HOH . L 4 HOH C 47 547 61 HOH HOH . L 4 HOH C 48 548 53 HOH HOH . L 4 HOH C 49 549 97 HOH HOH . L 4 HOH C 50 550 98 HOH HOH . L 4 HOH C 51 551 177 HOH HOH . L 4 HOH C 52 552 183 HOH HOH . L 4 HOH C 53 553 110 HOH HOH . L 4 HOH C 54 554 213 HOH HOH . L 4 HOH C 55 555 161 HOH HOH . L 4 HOH C 56 556 139 HOH HOH . L 4 HOH C 57 557 44 HOH HOH . L 4 HOH C 58 558 54 HOH HOH . L 4 HOH C 59 559 153 HOH HOH . L 4 HOH C 60 560 43 HOH HOH . L 4 HOH C 61 561 70 HOH HOH . L 4 HOH C 62 562 172 HOH HOH . L 4 HOH C 63 563 205 HOH HOH . L 4 HOH C 64 564 146 HOH HOH . L 4 HOH C 65 565 240 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol MG _atom_site.label_atom_id MG _atom_site.label_comp_id MG _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id D _atom_site.label_entity_id 2 _atom_site.Cartn_x -16.593 _atom_site.Cartn_y -23.105 _atom_site.Cartn_z -10.907 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 28.59 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id MG _atom_site.auth_comp_id MG _atom_site.auth_seq_id 401 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #