data_8VI8
#
_model_server_result.job_id            RuzIjUiCqPe-VWR_jaQ5JQ 
_model_server_result.datetime_utc      '2025-04-02 18:40:45' 
_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          8vi8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"T","auth_seq_id":305}' 
#
_entry.id    8VI8 
#
_exptl.entry_id    8VI8 
_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    11 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.11 
_cell.angle_gamma         90 
_cell.entry_id            8VI8 
_cell.length_a            84.067 
_cell.length_b            145.797 
_cell.length_c            123.443 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8VI8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    'C 2y' 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
? monomeric 1 author_defined_assembly 5 
? monomeric 1 author_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,G,H,I,J,JA 1 1 
B,K,L,M,N,O,KA 2 1 
C,P,Q,R,S,T,U,V,LA 3 1 
D,W,X,Y,Z,MA 4 1 
E,AA,BA,CA,DA,EA,NA 5 1 
F,FA,GA,HA,IA,OA 6 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 J N N 
? 4 N N N 
? 4 O N N 
? 4 T N N 
? 4 U N N 
? 4 V N N 
? 4 Z N N 
? 4 CA N N 
? 4 DA N N 
? 4 EA N N 
? 4 IA 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 OH TYR 46 A TYR 43 1_555 CA NA NA . E NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.641 ? 
metalc ? metalc2 A OD1 ASN 152 A ASN 149 1_555 J NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? 
metalc ? metalc3 J NA NA . A NA 304 1_555 JA O HOH . A HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
metalc ? metalc4 J NA NA . A NA 304 1_655 F OH TYR 46 F TYR 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? 
metalc ? metalc5 J NA NA . A NA 304 1_555 OA O HOH . F HOH 402 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? 
metalc ? metalc6 JA O HOH . A HOH 409 1_555 CA NA NA . E NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc7 B OH TYR 46 B TYR 43 1_555 U NA NA . C NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc8 B OD1 ASN 141 B ASN 138 1_555 O NA NA . B NA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? 
metalc ? metalc9 B OD1 ASN 152 B ASN 149 1_555 N NA NA . B NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? 
metalc ? metalc10 N NA NA . B NA 304 1_555 KA O HOH . B HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? 
metalc ? metalc11 N NA NA . B NA 304 3_445 D OH TYR 46 D TYR 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc12 N NA NA . B NA 304 1_555 MA O HOH . D HOH 401 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? 
metalc ? metalc13 O NA NA . B NA 305 1_555 KA O HOH . B HOH 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? 
metalc ? metalc14 KA O HOH . B HOH 404 1_555 U NA NA . C NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc15 C OH TYR 46 C TYR 43 1_555 T NA NA . C NA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.544 ? 
metalc ? metalc16 C OD1 ASN 141 C ASN 138 1_555 V NA NA . C NA 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? 
metalc ? metalc17 C OD1 ASN 152 C ASN 149 1_555 U NA NA . C NA 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.489 ? 
metalc ? metalc18 T NA NA . C NA 305 1_555 LA O HOH . C HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? 
metalc ? metalc19 T NA NA . C NA 305 3_445 D OD1 ASN 152 D ASN 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc20 T NA NA . C NA 305 1_555 MA O HOH . D HOH 404 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.968 ? 
metalc ? metalc21 V NA NA . C NA 307 1_555 LA O HOH . C HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
metalc ? metalc22 D OD1 ASN 141 D ASN 138 1_555 Z NA NA . D NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc23 Z NA NA . D NA 304 1_555 MA O HOH . D HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? 
metalc ? metalc24 E OH TYR 46 E TYR 43 1_555 DA NA NA . E NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc25 E OD1 ASN 141 E ASN 138 1_555 EA NA NA . E NA 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? 
metalc ? metalc26 E OD1 ASN 152 E ASN 149 1_555 CA NA NA . E NA 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc27 CA NA NA . E NA 303 1_555 NA O HOH . E HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? 
metalc ? metalc28 DA NA NA . E NA 304 1_555 NA O HOH . E HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc29 DA NA NA . E NA 304 1_655 F OD1 ASN 152 F ASN 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.811 ? 
metalc ? metalc30 DA NA NA . E NA 304 1_555 OA O HOH . F HOH 406 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? 
metalc ? metalc31 EA NA NA . E NA 305 1_555 NA O HOH . E HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc32 EA NA NA . E NA 305 1_555 NA O HOH . E HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? 
metalc ? metalc33 F OD1 ASN 141 F ASN 138 1_555 IA NA NA . F NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? 
metalc ? metalc34 IA NA NA . F NA 304 1_555 OA O HOH . F HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? 
metalc ? metalc35 IA NA NA . F NA 304 1_555 OA O HOH . F HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.933 ? 
#
_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                     8VI8 
_atom_sites.fract_transf_matrix[1][1]    0.011895 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000023 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006859 
_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]    0.008101 
_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 2 X5Z A 1 301 301 X5Z SM4 . 
H 3 SO4 A 1 302 2 SO4 SO4 . 
I 3 SO4 A 1 303 3 SO4 SO4 . 
J 4 NA A 1 304 2 NA NA . 
K 2 X5Z B 1 301 301 X5Z SM4 . 
L 3 SO4 B 1 302 4 SO4 SO4 . 
M 3 SO4 B 1 303 5 SO4 SO4 . 
N 4 NA B 1 304 3 NA NA . 
O 4 NA B 1 305 9 NA NA . 
P 2 X5Z C 1 301 301 X5Z SM4 . 
Q 3 SO4 C 1 302 7 SO4 SO4 . 
R 3 SO4 C 1 303 8 SO4 SO4 . 
S 3 SO4 C 1 304 9 SO4 SO4 . 
T 4 NA C 1 305 1 NA NA . 
U 4 NA C 1 306 4 NA NA . 
V 4 NA C 1 307 10 NA NA . 
W 2 X5Z D 1 301 301 X5Z SM4 . 
X 3 SO4 D 1 302 6 SO4 SO4 . 
Y 3 SO4 D 1 303 10 SO4 SO4 . 
Z 4 NA D 1 304 8 NA NA . 
AA 2 X5Z E 1 301 301 X5Z SM4 . 
BA 3 SO4 E 1 302 11 SO4 SO4 . 
CA 4 NA E 1 303 5 NA NA . 
DA 4 NA E 1 304 6 NA NA . 
EA 4 NA E 1 305 7 NA NA . 
FA 2 X5Z F 1 301 301 X5Z SM4 . 
GA 3 SO4 F 1 302 12 SO4 SO4 . 
HA 3 SO4 F 1 303 13 SO4 SO4 . 
IA 4 NA F 1 304 11 NA NA . 
JA 5 HOH A 1 401 11 HOH HOH . 
JA 5 HOH A 2 402 12 HOH HOH . 
JA 5 HOH A 3 403 54 HOH HOH . 
JA 5 HOH A 4 404 75 HOH HOH . 
JA 5 HOH A 5 405 9 HOH HOH . 
JA 5 HOH A 6 406 2 HOH HOH . 
JA 5 HOH A 7 407 78 HOH HOH . 
JA 5 HOH A 8 408 6 HOH HOH . 
JA 5 HOH A 9 409 66 HOH HOH . 
JA 5 HOH A 10 410 65 HOH HOH . 
JA 5 HOH A 11 411 76 HOH HOH . 
JA 5 HOH A 12 412 5 HOH HOH . 
KA 5 HOH B 1 401 23 HOH HOH . 
KA 5 HOH B 2 402 17 HOH HOH . 
KA 5 HOH B 3 403 20 HOH HOH . 
KA 5 HOH B 4 404 79 HOH HOH . 
KA 5 HOH B 5 405 80 HOH HOH . 
KA 5 HOH B 6 406 22 HOH HOH . 
KA 5 HOH B 7 407 81 HOH HOH . 
LA 5 HOH C 1 401 77 HOH HOH . 
LA 5 HOH C 2 402 72 HOH HOH . 
LA 5 HOH C 3 403 31 HOH HOH . 
LA 5 HOH C 4 404 24 HOH HOH . 
LA 5 HOH C 5 405 86 HOH HOH . 
LA 5 HOH C 6 406 28 HOH HOH . 
LA 5 HOH C 7 407 27 HOH HOH . 
LA 5 HOH C 8 408 69 HOH HOH . 
LA 5 HOH C 9 409 40 HOH HOH . 
MA 5 HOH D 1 401 19 HOH HOH . 
MA 5 HOH D 2 402 83 HOH HOH . 
MA 5 HOH D 3 403 39 HOH HOH . 
MA 5 HOH D 4 404 70 HOH HOH . 
MA 5 HOH D 5 405 25 HOH HOH . 
NA 5 HOH E 1 401 4 HOH HOH . 
NA 5 HOH E 2 402 85 HOH HOH . 
NA 5 HOH E 3 403 3 HOH HOH . 
NA 5 HOH E 4 404 46 HOH HOH . 
NA 5 HOH E 5 405 47 HOH HOH . 
NA 5 HOH E 6 406 49 HOH HOH . 
NA 5 HOH E 7 407 82 HOH HOH . 
NA 5 HOH E 8 408 68 HOH HOH . 
NA 5 HOH E 9 409 84 HOH HOH . 
OA 5 HOH F 1 401 87 HOH HOH . 
OA 5 HOH F 2 402 7 HOH HOH . 
OA 5 HOH F 3 403 71 HOH HOH . 
OA 5 HOH F 4 404 64 HOH HOH . 
OA 5 HOH F 5 405 50 HOH HOH . 
OA 5 HOH F 6 406 67 HOH HOH . 
OA 5 HOH F 7 407 58 HOH HOH . 
OA 5 HOH F 8 408 55 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         T 
_atom_site.label_entity_id       4 
_atom_site.Cartn_x               33.544 
_atom_site.Cartn_y               72.938 
_atom_site.Cartn_z               43.532 
_atom_site.occupancy             1 
_atom_site.B_iso_or_equiv        87.72 
_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          C 
_atom_site.pdbx_PDB_model_num    1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           322 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           1 
#