data_7KD2 # _model_server_result.job_id K9t4_U1VPtzLIW4qzk-6KA _model_server_result.datetime_utc '2025-09-05 14:32:13' _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 7kd2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":302}' # _entry.id 7KD2 # _exptl.entry_id 7KD2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 65.409 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ZINC ION' _entity.pdbx_number_of_molecules 5 _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 7KD2 _cell.length_a 77.607 _cell.length_b 99.559 _cell.length_c 111.283 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KD2 _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,U,V _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 ? 7 G N N ? 7 H N N ? 7 L N N ? 7 Q N N ? 7 R N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 oligosaccharide 6 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 2 1 FUC NAG C1 O1 . O3 HO3 . sing 2 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 4 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 4 n D NAG 1 D 1 NAG A 270 NDG 4 n D FUC 2 D 2 FUC A 273 FUC 5 n E NAG 1 E 1 NAG B 270 NDG 5 n E NAG 2 E 2 NAG B 271 NAG 6 n F NAG 1 F 1 NAG B 280 NDG 6 n F NAG 2 F 2 NAG B 281 NAG 6 n F BMA 3 F 3 BMA B 282 BMA # 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 B SG CYS 20 B CYS 20 1_555 B SG CYS 39 B CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 B SG CYS 63 B CYS 63 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 B SG CYS 151 B CYS 151 1_555 B SG CYS 164 B CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 190 B CYS 190 1_555 B SG CYS 207 B CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf5 C SG CYS 22 C CYS 22 1_555 C SG CYS 95 C CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 A ND2 ASN 10 A ASN 10 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 B ND2 ASN 95 B ASN 95 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale3 B ND2 ASN 135 B ASN 135 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale4 D O3 NAG . D NAG 1 1_555 D C1 FUC . D FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale6 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale7 F O4 NAG . F NAG 2 1_555 F C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? metalc ? metalc1 A OE1 GLU 102 A GLU 102 1_555 G ZN ZN . A ZN 301 4_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc2 A OE2 GLU 102 A GLU 102 1_555 G ZN ZN . A ZN 301 4_454 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? metalc ? metalc3 A NE2 HIS 106 A HIS 106 1_555 G ZN ZN . A ZN 301 4_454 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? metalc ? metalc4 B ND1 HIS 29 B HIS 29 1_555 L ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.624 ? metalc ? metalc5 B OD1 ASP 194 B ASP 194 1_555 L ZN ZN . B ZN 301 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc6 B OD2 ASP 194 B ASP 194 1_555 L ZN ZN . B ZN 301 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc7 C OG SER 29 C SER 29 1_555 Q ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc8 C OD2 ASP 99 C ASP 99 1_555 Q ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc9 C ND1 HIS 105 C HIS 105 1_555 Q ZN ZN . C ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc10 Q ZN ZN . C ZN 201 1_555 V O HOH . C HOH 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.259 ? metalc ? metalc11 R ZN ZN . C ZN 202 1_555 V O HOH . C HOH 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? # _chem_comp.formula 'Zn 2' _chem_comp.formula_weight 65.409 _chem_comp.id ZN _chem_comp.mon_nstd_flag . _chem_comp.name 'ZINC ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 7KD2 _atom_sites.fract_transf_matrix[1][1] 0.012885 _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] 0.010044 _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] 0.008986 _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 G 7 ZN A 1 301 1 ZN ZN . H 7 ZN A 1 302 4 ZN ZN . I 8 CL A 1 303 8 CL CL . J 8 CL A 1 304 10 CL CL . K 8 CL A 1 305 11 CL CL . L 7 ZN B 1 301 5 ZN ZN . M 8 CL B 1 302 7 CL CL . N 8 CL B 1 303 9 CL CL . O 8 CL B 1 304 12 CL CL . P 8 CL B 1 305 13 CL CL . Q 7 ZN C 1 201 2 ZN ZN . R 7 ZN C 1 202 3 ZN ZN . S 8 CL C 1 203 6 CL CL . T 9 HOH A 1 401 58 HOH HOH . T 9 HOH A 2 402 86 HOH HOH . T 9 HOH A 3 403 153 HOH HOH . T 9 HOH A 4 404 170 HOH HOH . T 9 HOH A 5 405 166 HOH HOH . T 9 HOH A 6 406 31 HOH HOH . T 9 HOH A 7 407 151 HOH HOH . T 9 HOH A 8 408 12 HOH HOH . T 9 HOH A 9 409 97 HOH HOH . T 9 HOH A 10 410 68 HOH HOH . T 9 HOH A 11 411 119 HOH HOH . T 9 HOH A 12 412 130 HOH HOH . T 9 HOH A 13 413 132 HOH HOH . T 9 HOH A 14 414 120 HOH HOH . T 9 HOH A 15 415 126 HOH HOH . T 9 HOH A 16 416 57 HOH HOH . T 9 HOH A 17 417 27 HOH HOH . T 9 HOH A 18 418 104 HOH HOH . T 9 HOH A 19 419 53 HOH HOH . T 9 HOH A 20 420 48 HOH HOH . T 9 HOH A 21 421 41 HOH HOH . T 9 HOH A 22 422 15 HOH HOH . T 9 HOH A 23 423 78 HOH HOH . T 9 HOH A 24 424 16 HOH HOH . T 9 HOH A 25 425 122 HOH HOH . T 9 HOH A 26 426 6 HOH HOH . T 9 HOH A 27 427 19 HOH HOH . T 9 HOH A 28 428 8 HOH HOH . T 9 HOH A 29 429 34 HOH HOH . T 9 HOH A 30 430 44 HOH HOH . T 9 HOH A 31 431 173 HOH HOH . T 9 HOH A 32 432 43 HOH HOH . T 9 HOH A 33 433 137 HOH HOH . T 9 HOH A 34 434 124 HOH HOH . T 9 HOH A 35 435 156 HOH HOH . T 9 HOH A 36 436 125 HOH HOH . T 9 HOH A 37 437 148 HOH HOH . T 9 HOH A 38 438 20 HOH HOH . T 9 HOH A 39 439 28 HOH HOH . T 9 HOH A 40 440 105 HOH HOH . T 9 HOH A 41 441 172 HOH HOH . T 9 HOH A 42 442 123 HOH HOH . T 9 HOH A 43 443 91 HOH HOH . T 9 HOH A 44 444 95 HOH HOH . T 9 HOH A 45 445 100 HOH HOH . T 9 HOH A 46 446 157 HOH HOH . T 9 HOH A 47 447 72 HOH HOH . T 9 HOH A 48 448 129 HOH HOH . T 9 HOH A 49 449 75 HOH HOH . T 9 HOH A 50 450 131 HOH HOH . T 9 HOH A 51 451 62 HOH HOH . T 9 HOH A 52 452 98 HOH HOH . T 9 HOH A 53 453 77 HOH HOH . T 9 HOH A 54 454 171 HOH HOH . T 9 HOH A 55 455 1 HOH HOH . T 9 HOH A 56 456 159 HOH HOH . T 9 HOH A 57 457 116 HOH HOH . T 9 HOH A 58 458 74 HOH HOH . T 9 HOH A 59 459 168 HOH HOH . T 9 HOH A 60 460 179 HOH HOH . T 9 HOH A 61 461 128 HOH HOH . T 9 HOH A 62 462 79 HOH HOH . T 9 HOH A 63 463 92 HOH HOH . T 9 HOH A 64 464 147 HOH HOH . U 9 HOH B 1 401 11 HOH HOH . U 9 HOH B 2 402 82 HOH HOH . U 9 HOH B 3 403 96 HOH HOH . U 9 HOH B 4 404 169 HOH HOH . U 9 HOH B 5 405 180 HOH HOH . U 9 HOH B 6 406 29 HOH HOH . U 9 HOH B 7 407 25 HOH HOH . U 9 HOH B 8 408 99 HOH HOH . U 9 HOH B 9 409 37 HOH HOH . U 9 HOH B 10 410 59 HOH HOH . U 9 HOH B 11 411 71 HOH HOH . U 9 HOH B 12 412 22 HOH HOH . U 9 HOH B 13 413 103 HOH HOH . U 9 HOH B 14 414 87 HOH HOH . U 9 HOH B 15 415 40 HOH HOH . U 9 HOH B 16 416 113 HOH HOH . U 9 HOH B 17 417 52 HOH HOH . U 9 HOH B 18 418 4 HOH HOH . U 9 HOH B 19 419 65 HOH HOH . U 9 HOH B 20 420 138 HOH HOH . U 9 HOH B 21 421 160 HOH HOH . U 9 HOH B 22 422 39 HOH HOH . U 9 HOH B 23 423 7 HOH HOH . U 9 HOH B 24 424 2 HOH HOH . U 9 HOH B 25 425 36 HOH HOH . U 9 HOH B 26 426 177 HOH HOH . U 9 HOH B 27 427 60 HOH HOH . U 9 HOH B 28 428 33 HOH HOH . U 9 HOH B 29 429 10 HOH HOH . U 9 HOH B 30 430 38 HOH HOH . U 9 HOH B 31 431 32 HOH HOH . U 9 HOH B 32 432 17 HOH HOH . U 9 HOH B 33 433 5 HOH HOH . U 9 HOH B 34 434 18 HOH HOH . U 9 HOH B 35 435 88 HOH HOH . U 9 HOH B 36 436 85 HOH HOH . U 9 HOH B 37 437 76 HOH HOH . U 9 HOH B 38 438 9 HOH HOH . U 9 HOH B 39 439 61 HOH HOH . U 9 HOH B 40 440 66 HOH HOH . U 9 HOH B 41 441 89 HOH HOH . U 9 HOH B 42 442 158 HOH HOH . U 9 HOH B 43 443 42 HOH HOH . U 9 HOH B 44 444 55 HOH HOH . U 9 HOH B 45 445 56 HOH HOH . U 9 HOH B 46 446 35 HOH HOH . U 9 HOH B 47 447 3 HOH HOH . U 9 HOH B 48 448 30 HOH HOH . U 9 HOH B 49 449 152 HOH HOH . U 9 HOH B 50 450 144 HOH HOH . U 9 HOH B 51 451 67 HOH HOH . U 9 HOH B 52 452 175 HOH HOH . U 9 HOH B 53 453 136 HOH HOH . U 9 HOH B 54 454 161 HOH HOH . U 9 HOH B 55 455 90 HOH HOH . U 9 HOH B 56 456 165 HOH HOH . U 9 HOH B 57 457 115 HOH HOH . U 9 HOH B 58 458 141 HOH HOH . U 9 HOH B 59 459 154 HOH HOH . U 9 HOH B 60 460 46 HOH HOH . U 9 HOH B 61 461 84 HOH HOH . U 9 HOH B 62 462 45 HOH HOH . U 9 HOH B 63 463 51 HOH HOH . U 9 HOH B 64 464 178 HOH HOH . U 9 HOH B 65 465 13 HOH HOH . U 9 HOH B 66 466 63 HOH HOH . U 9 HOH B 67 467 47 HOH HOH . U 9 HOH B 68 468 182 HOH HOH . U 9 HOH B 69 469 149 HOH HOH . U 9 HOH B 70 470 94 HOH HOH . U 9 HOH B 71 471 23 HOH HOH . U 9 HOH B 72 472 118 HOH HOH . U 9 HOH B 73 473 127 HOH HOH . U 9 HOH B 74 474 64 HOH HOH . U 9 HOH B 75 475 150 HOH HOH . U 9 HOH B 76 476 70 HOH HOH . U 9 HOH B 77 477 155 HOH HOH . U 9 HOH B 78 478 114 HOH HOH . U 9 HOH B 79 479 81 HOH HOH . U 9 HOH B 80 480 50 HOH HOH . U 9 HOH B 81 481 109 HOH HOH . U 9 HOH B 82 482 163 HOH HOH . U 9 HOH B 83 483 135 HOH HOH . U 9 HOH B 84 484 121 HOH HOH . U 9 HOH B 85 485 176 HOH HOH . U 9 HOH B 86 486 49 HOH HOH . U 9 HOH B 87 487 93 HOH HOH . U 9 HOH B 88 488 164 HOH HOH . U 9 HOH B 89 489 139 HOH HOH . U 9 HOH B 90 490 167 HOH HOH . U 9 HOH B 91 491 21 HOH HOH . U 9 HOH B 92 492 143 HOH HOH . U 9 HOH B 93 493 140 HOH HOH . U 9 HOH B 94 494 108 HOH HOH . U 9 HOH B 95 495 112 HOH HOH . V 9 HOH C 1 301 117 HOH HOH . V 9 HOH C 2 302 101 HOH HOH . V 9 HOH C 3 303 73 HOH HOH . V 9 HOH C 4 304 146 HOH HOH . V 9 HOH C 5 305 142 HOH HOH . V 9 HOH C 6 306 54 HOH HOH . V 9 HOH C 7 307 111 HOH HOH . V 9 HOH C 8 308 162 HOH HOH . V 9 HOH C 9 309 24 HOH HOH . V 9 HOH C 10 310 106 HOH HOH . V 9 HOH C 11 311 26 HOH HOH . V 9 HOH C 12 312 134 HOH HOH . V 9 HOH C 13 313 145 HOH HOH . V 9 HOH C 14 314 14 HOH HOH . V 9 HOH C 15 315 69 HOH HOH . V 9 HOH C 16 316 107 HOH HOH . V 9 HOH C 17 317 133 HOH HOH . V 9 HOH C 18 318 102 HOH HOH . V 9 HOH C 19 319 181 HOH HOH . V 9 HOH C 20 320 174 HOH HOH . V 9 HOH C 21 321 110 HOH HOH . V 9 HOH C 22 322 80 HOH HOH . V 9 HOH C 23 323 83 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol ZN _atom_site.label_atom_id ZN _atom_site.label_comp_id ZN _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id H _atom_site.label_entity_id 7 _atom_site.Cartn_x -14.226 _atom_site.Cartn_y 2.88 _atom_site.Cartn_z -41.215 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 108.92 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id ZN _atom_site.auth_comp_id ZN _atom_site.auth_seq_id 302 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #