data_5YWV
#
_model_server_result.job_id            oq-eZbbrPjZNRKeeiMdZgA 
_model_server_result.datetime_utc      '2024-11-23 00:33:47' 
_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          5ywv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":305}' 
#
_entry.id    5YWV 
#
_exptl.entry_id    5YWV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              22.99 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SODIUM 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          90 
_cell.angle_gamma         90 
_cell.entry_id            5YWV 
_cell.length_a            65.192 
_cell.length_b            80.713 
_cell.length_c            85.247 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YWV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 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,E,F,G,H,O,Q 1 1 
B,D,I,J,K,L,M,N,P,R 2 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
? 4 F N N 
? 4 K N N 
? 4 L N N 
? 4 M 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 OD2 ASP 35 A ASP 18 1_555 E MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc2 A OD1 ASP 35 A ASP 18 1_555 H MG MG . A MG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc3 A OE1 GLU 37 A GLU 20 1_555 E MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? 
metalc ? metalc4 A OD2 ASP 217 A ASP 200 1_555 E MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc5 E MG MG . A MG 301 1_555 C OP1 DG 7 C DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? 
metalc ? metalc6 H MG MG . A MG 304 1_555 O O HOH . A HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
metalc ? metalc7 H MG MG . A MG 304 1_555 O O HOH . A HOH 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? 
metalc ? metalc8 H MG MG . A MG 304 1_555 C O3' DI 6 C DI 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.744 ? 
metalc ? metalc9 H MG MG . A MG 304 1_555 C OP1 DG 7 C DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? 
metalc ? metalc10 H MG MG . A MG 304 1_555 Q O HOH . C HOH 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? 
metalc ? metalc11 B OD2 ASP 35 B ASP 18 1_555 I MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.964 ? 
metalc ? metalc12 B OD1 ASP 35 B ASP 18 1_555 N MG MG . B MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? 
metalc ? metalc13 B OE1 GLU 37 B GLU 20 1_555 I MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? 
metalc ? metalc14 B OD2 ASP 217 B ASP 200 1_555 I MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? 
metalc ? metalc15 I MG MG . B MG 301 1_555 D OP1 DG 7 D DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? 
metalc ? metalc16 N MG MG . B MG 306 1_555 P O HOH . B HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? 
metalc ? metalc17 N MG MG . B MG 306 1_555 P O HOH . B HOH 437 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? 
metalc ? metalc18 N MG MG . B MG 306 1_555 D O3' DI 6 D DI 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? 
metalc ? metalc19 N MG MG . B MG 306 1_555 D OP1 DG 7 D DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? 
metalc ? metalc20 N MG MG . B MG 306 1_555 R O HOH . D HOH 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? 
#
_chem_comp.formula           'Na 1' 
_chem_comp.formula_weight    22.99 
_chem_comp.id                NA 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SODIUM ION' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_atom_sites.entry_id                     5YWV 
_atom_sites.fract_transf_matrix[1][1]    0.015339 
_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]    0.01239 
_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]    0.011731 
_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 3 MG A 1 301 301 MG MG . 
F 4 NA A 1 302 302 NA NA . 
G 5 EDO A 1 303 303 EDO EDO . 
H 3 MG A 1 304 101 MG MG . 
I 3 MG B 1 301 301 MG MG . 
J 6 MES B 1 302 302 MES MES . 
K 4 NA B 1 303 303 NA NA . 
L 4 NA B 1 304 304 NA NA . 
M 4 NA B 1 305 305 NA NA . 
N 3 MG B 1 306 101 MG MG . 
O 7 HOH A 1 401 401 HOH HOH . 
O 7 HOH A 2 402 402 HOH HOH . 
O 7 HOH A 3 403 403 HOH HOH . 
O 7 HOH A 4 404 404 HOH HOH . 
O 7 HOH A 5 405 405 HOH HOH . 
O 7 HOH A 6 406 406 HOH HOH . 
O 7 HOH A 7 407 407 HOH HOH . 
O 7 HOH A 8 408 408 HOH HOH . 
O 7 HOH A 9 409 409 HOH HOH . 
O 7 HOH A 10 410 410 HOH HOH . 
O 7 HOH A 11 411 411 HOH HOH . 
O 7 HOH A 12 412 412 HOH HOH . 
O 7 HOH A 13 413 413 HOH HOH . 
O 7 HOH A 14 414 414 HOH HOH . 
O 7 HOH A 15 415 415 HOH HOH . 
O 7 HOH A 16 416 416 HOH HOH . 
O 7 HOH A 17 417 417 HOH HOH . 
O 7 HOH A 18 418 418 HOH HOH . 
O 7 HOH A 19 419 419 HOH HOH . 
O 7 HOH A 20 420 420 HOH HOH . 
O 7 HOH A 21 421 421 HOH HOH . 
O 7 HOH A 22 422 422 HOH HOH . 
O 7 HOH A 23 423 423 HOH HOH . 
O 7 HOH A 24 424 424 HOH HOH . 
O 7 HOH A 25 425 425 HOH HOH . 
O 7 HOH A 26 426 426 HOH HOH . 
O 7 HOH A 27 427 427 HOH HOH . 
O 7 HOH A 28 428 428 HOH HOH . 
O 7 HOH A 29 429 429 HOH HOH . 
O 7 HOH A 30 430 430 HOH HOH . 
O 7 HOH A 31 431 431 HOH HOH . 
O 7 HOH A 32 432 432 HOH HOH . 
O 7 HOH A 33 433 433 HOH HOH . 
O 7 HOH A 34 434 434 HOH HOH . 
O 7 HOH A 35 435 435 HOH HOH . 
O 7 HOH A 36 436 436 HOH HOH . 
O 7 HOH A 37 437 437 HOH HOH . 
O 7 HOH A 38 438 438 HOH HOH . 
O 7 HOH A 39 439 439 HOH HOH . 
O 7 HOH A 40 440 440 HOH HOH . 
O 7 HOH A 41 441 441 HOH HOH . 
O 7 HOH A 42 442 442 HOH HOH . 
O 7 HOH A 43 443 443 HOH HOH . 
O 7 HOH A 44 444 444 HOH HOH . 
O 7 HOH A 45 445 445 HOH HOH . 
O 7 HOH A 46 446 446 HOH HOH . 
O 7 HOH A 47 447 447 HOH HOH . 
O 7 HOH A 48 448 448 HOH HOH . 
O 7 HOH A 49 449 449 HOH HOH . 
O 7 HOH A 50 450 450 HOH HOH . 
O 7 HOH A 51 451 451 HOH HOH . 
O 7 HOH A 52 452 452 HOH HOH . 
O 7 HOH A 53 453 453 HOH HOH . 
O 7 HOH A 54 454 454 HOH HOH . 
O 7 HOH A 55 455 455 HOH HOH . 
O 7 HOH A 56 456 456 HOH HOH . 
O 7 HOH A 57 457 457 HOH HOH . 
O 7 HOH A 58 458 458 HOH HOH . 
O 7 HOH A 59 459 459 HOH HOH . 
O 7 HOH A 60 460 460 HOH HOH . 
O 7 HOH A 61 461 461 HOH HOH . 
O 7 HOH A 62 462 462 HOH HOH . 
O 7 HOH A 63 463 463 HOH HOH . 
O 7 HOH A 64 464 464 HOH HOH . 
O 7 HOH A 65 465 465 HOH HOH . 
O 7 HOH A 66 466 466 HOH HOH . 
O 7 HOH A 67 467 467 HOH HOH . 
O 7 HOH A 68 468 468 HOH HOH . 
O 7 HOH A 69 469 469 HOH HOH . 
O 7 HOH A 70 470 470 HOH HOH . 
O 7 HOH A 71 471 471 HOH HOH . 
O 7 HOH A 72 472 472 HOH HOH . 
O 7 HOH A 73 473 473 HOH HOH . 
O 7 HOH A 74 474 474 HOH HOH . 
O 7 HOH A 75 475 475 HOH HOH . 
O 7 HOH A 76 476 476 HOH HOH . 
O 7 HOH A 77 477 477 HOH HOH . 
O 7 HOH A 78 478 478 HOH HOH . 
O 7 HOH A 79 479 479 HOH HOH . 
O 7 HOH A 80 480 480 HOH HOH . 
O 7 HOH A 81 481 481 HOH HOH . 
O 7 HOH A 82 482 482 HOH HOH . 
O 7 HOH A 83 483 483 HOH HOH . 
O 7 HOH A 84 484 484 HOH HOH . 
O 7 HOH A 85 485 485 HOH HOH . 
O 7 HOH A 86 486 486 HOH HOH . 
O 7 HOH A 87 487 487 HOH HOH . 
O 7 HOH A 88 488 488 HOH HOH . 
O 7 HOH A 89 489 489 HOH HOH . 
O 7 HOH A 90 490 490 HOH HOH . 
O 7 HOH A 91 491 491 HOH HOH . 
O 7 HOH A 92 492 492 HOH HOH . 
O 7 HOH A 93 493 493 HOH HOH . 
P 7 HOH B 1 401 401 HOH HOH . 
P 7 HOH B 2 402 402 HOH HOH . 
P 7 HOH B 3 403 403 HOH HOH . 
P 7 HOH B 4 404 404 HOH HOH . 
P 7 HOH B 5 405 405 HOH HOH . 
P 7 HOH B 6 406 406 HOH HOH . 
P 7 HOH B 7 407 407 HOH HOH . 
P 7 HOH B 8 408 408 HOH HOH . 
P 7 HOH B 9 409 409 HOH HOH . 
P 7 HOH B 10 410 410 HOH HOH . 
P 7 HOH B 11 411 411 HOH HOH . 
P 7 HOH B 12 412 412 HOH HOH . 
P 7 HOH B 13 413 413 HOH HOH . 
P 7 HOH B 14 414 414 HOH HOH . 
P 7 HOH B 15 415 415 HOH HOH . 
P 7 HOH B 16 416 416 HOH HOH . 
P 7 HOH B 17 417 417 HOH HOH . 
P 7 HOH B 18 418 418 HOH HOH . 
P 7 HOH B 19 419 419 HOH HOH . 
P 7 HOH B 20 420 420 HOH HOH . 
P 7 HOH B 21 421 421 HOH HOH . 
P 7 HOH B 22 422 422 HOH HOH . 
P 7 HOH B 23 423 423 HOH HOH . 
P 7 HOH B 24 424 424 HOH HOH . 
P 7 HOH B 25 425 425 HOH HOH . 
P 7 HOH B 26 426 426 HOH HOH . 
P 7 HOH B 27 427 427 HOH HOH . 
P 7 HOH B 28 428 428 HOH HOH . 
P 7 HOH B 29 429 429 HOH HOH . 
P 7 HOH B 30 430 430 HOH HOH . 
P 7 HOH B 31 431 431 HOH HOH . 
P 7 HOH B 32 432 432 HOH HOH . 
P 7 HOH B 33 433 433 HOH HOH . 
P 7 HOH B 34 434 434 HOH HOH . 
P 7 HOH B 35 435 435 HOH HOH . 
P 7 HOH B 36 436 436 HOH HOH . 
P 7 HOH B 37 437 437 HOH HOH . 
P 7 HOH B 38 438 438 HOH HOH . 
P 7 HOH B 39 439 439 HOH HOH . 
P 7 HOH B 40 440 440 HOH HOH . 
P 7 HOH B 41 441 441 HOH HOH . 
P 7 HOH B 42 442 442 HOH HOH . 
P 7 HOH B 43 443 443 HOH HOH . 
P 7 HOH B 44 444 444 HOH HOH . 
P 7 HOH B 45 445 445 HOH HOH . 
P 7 HOH B 46 446 446 HOH HOH . 
P 7 HOH B 47 447 447 HOH HOH . 
P 7 HOH B 48 448 448 HOH HOH . 
P 7 HOH B 49 449 449 HOH HOH . 
P 7 HOH B 50 450 450 HOH HOH . 
P 7 HOH B 51 451 451 HOH HOH . 
P 7 HOH B 52 452 452 HOH HOH . 
P 7 HOH B 53 453 453 HOH HOH . 
P 7 HOH B 54 454 454 HOH HOH . 
P 7 HOH B 55 455 455 HOH HOH . 
P 7 HOH B 56 456 456 HOH HOH . 
P 7 HOH B 57 457 457 HOH HOH . 
P 7 HOH B 58 458 458 HOH HOH . 
P 7 HOH B 59 459 459 HOH HOH . 
P 7 HOH B 60 460 460 HOH HOH . 
P 7 HOH B 61 461 461 HOH HOH . 
P 7 HOH B 62 462 462 HOH HOH . 
P 7 HOH B 63 463 463 HOH HOH . 
P 7 HOH B 64 464 464 HOH HOH . 
P 7 HOH B 65 465 465 HOH HOH . 
P 7 HOH B 66 466 466 HOH HOH . 
Q 7 HOH C 1 201 201 HOH HOH . 
Q 7 HOH C 2 202 202 HOH HOH . 
Q 7 HOH C 3 203 203 HOH HOH . 
Q 7 HOH C 4 204 204 HOH HOH . 
Q 7 HOH C 5 205 205 HOH HOH . 
Q 7 HOH C 6 206 206 HOH HOH . 
Q 7 HOH C 7 207 207 HOH HOH . 
Q 7 HOH C 8 208 208 HOH HOH . 
Q 7 HOH C 9 209 209 HOH HOH . 
Q 7 HOH C 10 210 210 HOH HOH . 
R 7 HOH D 1 201 201 HOH HOH . 
R 7 HOH D 2 202 202 HOH HOH . 
R 7 HOH D 3 203 203 HOH HOH . 
R 7 HOH D 4 204 204 HOH HOH . 
R 7 HOH D 5 205 205 HOH HOH . 
#
_atom_site.group_PDB             HETATM 
_atom_site.id                    1 
_atom_site.type_symbol           NA 
_atom_site.label_atom_id         NA 
_atom_site.label_comp_id         NA 
_atom_site.label_seq_id          . 
_atom_site.label_alt_id          . 
_atom_site.pdbx_PDB_ins_code     . 
_atom_site.label_asym_id         M 
_atom_site.label_entity_id       4 
_atom_site.Cartn_x               -51.469 
_atom_site.Cartn_y               9.825 
_atom_site.Cartn_z               -36.29 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        45.87 
_atom_site.pdbx_formal_charge    ? 
_atom_site.auth_atom_id          NA 
_atom_site.auth_comp_id          NA 
_atom_site.auth_seq_id           305 
_atom_site.auth_asym_id          B 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           1 
#