data_5NF6
#
_model_server_result.job_id            soKzzikom6nO5O-I0melww 
_model_server_result.datetime_utc      '2024-11-13 12:07:54' 
_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          5nf6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":306}' 
#
_entry.id    5NF6 
#
_exptl.entry_id    5NF6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    2 
_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            5NF6 
_cell.length_a            130.138 
_cell.length_b            56.071 
_cell.length_c            87.516 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5NF6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        17 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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
B,K,L,M,N,P 1 1 
A,C,D,E,F,G,H,I,J,O 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
? 5 H N N 
? 5 I 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
disulf ? disulf1 A SG CYS 203 B CYS 201 1_555 A SG CYS 257 B CYS 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf2 B SG CYS 203 A CYS 201 1_555 B SG CYS 257 A CYS 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
metalc ? metalc1 A OE1 GLU 44 B GLU 42 1_555 D ZN ZN . B ZN 302 4_557 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc2 A NE2 HIS 47 B HIS 45 1_555 D ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.624 ? 
metalc ? metalc3 A ND1 HIS 82 B HIS 80 1_555 E ZN ZN . B ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc4 A ND1 HIS 82 B HIS 80 1_555 E ZN ZN . B ZN 303 4_567 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
metalc ? metalc5 A NE2 HIS 95 B HIS 93 1_555 M ZN ZN . A ZN 303 1_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc6 A NZ LYS 99 B LYS 97 1_555 M ZN ZN . A ZN 303 1_565 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? 
metalc ? metalc7 A OD1 ASP 242 B ASP 240 1_555 C ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? 
metalc ? metalc8 A NZ LYS 243 B LYS 241 1_555 D ZN ZN . B ZN 302 4_557 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? 
metalc ? metalc9 A ND1 HIS 245 B HIS 243 1_555 C ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
metalc ? metalc10 C ZN ZN . B ZN 301 1_555 B ND1 HIS 95 A HIS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? 
metalc ? metalc11 C ZN ZN . B ZN 301 1_555 B OE1 GLU 98 A GLU 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.862 ? 
metalc ? metalc12 E ZN ZN . B ZN 303 1_555 G O ACT . B ACT 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? 
metalc ? metalc13 E ZN ZN . B ZN 303 1_555 G OXT ACT . B ACT 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc14 E ZN ZN . B ZN 303 1_555 G O ACT . B ACT 305 4_567 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? 
metalc ? metalc15 E ZN ZN . B ZN 303 1_555 G OXT ACT . B ACT 305 4_567 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? 
metalc ? metalc16 B NE2 HIS 47 A HIS 45 1_555 L ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc17 B ND1 HIS 82 A HIS 80 1_555 M ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? 
metalc ? metalc18 B OE1 GLU 196 A GLU 194 1_555 K ZN ZN . A ZN 301 4_557 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? 
metalc ? metalc19 B OE2 GLU 196 A GLU 194 1_555 K ZN ZN . A ZN 301 4_557 ? ? ? ? ? ? ? ? ? ? ? ? 1.835 ? 
metalc ? metalc20 B NE2 HIS 245 A HIS 243 1_555 K ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? 
metalc ? metalc21 B NZ LYS 248 A LYS 246 1_555 K ZN ZN . A ZN 301 4_557 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc22 B OE2 GLU 249 A GLU 247 1_555 K ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.807 ? 
metalc ? metalc23 L ZN ZN . A ZN 302 1_555 P O HOH . A HOH 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C1 O1 GOL sing 158 n n 
C1 C2 GOL sing 159 n n 
C1 H11 GOL sing 160 n n 
C1 H12 GOL sing 161 n n 
O1 HO1 GOL sing 162 n n 
C2 O2 GOL sing 163 n n 
C2 C3 GOL sing 164 n n 
C2 H2 GOL sing 165 n n 
O2 HO2 GOL sing 166 n n 
C3 O3 GOL sing 167 n n 
C3 H31 GOL sing 168 n n 
C3 H32 GOL sing 169 n n 
O3 HO3 GOL sing 170 n n 
#
_atom_sites.entry_id                     5NF6 
_atom_sites.fract_transf_matrix[1][1]    0.007684 
_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]    0.017835 
_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]    0.011426 
_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
C 2 ZN B 1 301 301 ZN ZN . 
D 2 ZN B 1 302 302 ZN ZN . 
E 2 ZN B 1 303 303 ZN ZN . 
F 3 8VN B 1 304 304 8VN 8VN . 
G 4 ACT B 1 305 305 ACT ACT . 
H 5 GOL B 1 306 306 GOL GOL . 
I 5 GOL B 1 307 307 GOL GOL . 
J 6 CL B 1 308 308 CL CL . 
K 2 ZN A 1 301 301 ZN ZN . 
L 2 ZN A 1 302 302 ZN ZN . 
M 2 ZN A 1 303 303 ZN ZN . 
N 3 8VN A 1 304 304 8VN 8VN . 
O 7 HOH B 1 401 401 HOH HOH . 
O 7 HOH B 2 402 402 HOH HOH . 
O 7 HOH B 3 403 403 HOH HOH . 
O 7 HOH B 4 404 404 HOH HOH . 
O 7 HOH B 5 405 405 HOH HOH . 
O 7 HOH B 6 406 406 HOH HOH . 
O 7 HOH B 7 407 407 HOH HOH . 
O 7 HOH B 8 408 408 HOH HOH . 
O 7 HOH B 9 409 409 HOH HOH . 
O 7 HOH B 10 410 410 HOH HOH . 
O 7 HOH B 11 411 411 HOH HOH . 
O 7 HOH B 12 412 412 HOH HOH . 
O 7 HOH B 13 413 413 HOH HOH . 
O 7 HOH B 14 414 414 HOH HOH . 
O 7 HOH B 15 415 415 HOH HOH . 
O 7 HOH B 16 416 416 HOH HOH . 
O 7 HOH B 17 417 417 HOH HOH . 
O 7 HOH B 18 418 418 HOH HOH . 
O 7 HOH B 19 419 419 HOH HOH . 
O 7 HOH B 20 420 420 HOH HOH . 
O 7 HOH B 21 421 421 HOH HOH . 
O 7 HOH B 22 422 422 HOH HOH . 
O 7 HOH B 23 423 423 HOH HOH . 
O 7 HOH B 24 424 424 HOH HOH . 
O 7 HOH B 25 425 425 HOH HOH . 
O 7 HOH B 26 426 426 HOH HOH . 
O 7 HOH B 27 427 427 HOH HOH . 
O 7 HOH B 28 428 428 HOH HOH . 
O 7 HOH B 29 429 429 HOH HOH . 
O 7 HOH B 30 430 430 HOH HOH . 
O 7 HOH B 31 431 431 HOH HOH . 
O 7 HOH B 32 432 432 HOH HOH . 
O 7 HOH B 33 433 433 HOH HOH . 
O 7 HOH B 34 434 434 HOH HOH . 
O 7 HOH B 35 435 435 HOH HOH . 
O 7 HOH B 36 436 436 HOH HOH . 
O 7 HOH B 37 437 437 HOH HOH . 
O 7 HOH B 38 438 438 HOH HOH . 
O 7 HOH B 39 439 439 HOH HOH . 
O 7 HOH B 40 440 440 HOH HOH . 
O 7 HOH B 41 441 441 HOH HOH . 
O 7 HOH B 42 442 442 HOH HOH . 
O 7 HOH B 43 443 443 HOH HOH . 
O 7 HOH B 44 444 444 HOH HOH . 
O 7 HOH B 45 445 445 HOH HOH . 
O 7 HOH B 46 446 446 HOH HOH . 
O 7 HOH B 47 447 447 HOH HOH . 
O 7 HOH B 48 448 448 HOH HOH . 
O 7 HOH B 49 449 449 HOH HOH . 
O 7 HOH B 50 450 450 HOH HOH . 
P 7 HOH A 1 401 401 HOH HOH . 
P 7 HOH A 2 402 402 HOH HOH . 
P 7 HOH A 3 403 403 HOH HOH . 
P 7 HOH A 4 404 404 HOH HOH . 
P 7 HOH A 5 405 405 HOH HOH . 
P 7 HOH A 6 406 406 HOH HOH . 
P 7 HOH A 7 407 407 HOH HOH . 
P 7 HOH A 8 408 408 HOH HOH . 
P 7 HOH A 9 409 409 HOH HOH . 
P 7 HOH A 10 410 410 HOH HOH . 
P 7 HOH A 11 411 411 HOH HOH . 
P 7 HOH A 12 412 412 HOH HOH . 
P 7 HOH A 13 413 413 HOH HOH . 
P 7 HOH A 14 414 414 HOH HOH . 
P 7 HOH A 15 415 415 HOH HOH . 
P 7 HOH A 16 416 416 HOH HOH . 
P 7 HOH A 17 417 417 HOH HOH . 
P 7 HOH A 18 418 418 HOH HOH . 
P 7 HOH A 19 419 419 HOH HOH . 
P 7 HOH A 20 420 420 HOH HOH . 
P 7 HOH A 21 421 421 HOH HOH . 
P 7 HOH A 22 422 422 HOH HOH . 
P 7 HOH A 23 423 423 HOH HOH . 
P 7 HOH A 24 424 424 HOH HOH . 
P 7 HOH A 25 425 425 HOH HOH . 
P 7 HOH A 26 426 426 HOH HOH . 
P 7 HOH A 27 427 427 HOH HOH . 
P 7 HOH A 28 428 428 HOH HOH . 
P 7 HOH A 29 429 429 HOH HOH . 
P 7 HOH A 30 430 430 HOH HOH . 
P 7 HOH A 31 431 431 HOH HOH . 
P 7 HOH A 32 432 432 HOH HOH . 
P 7 HOH A 33 433 433 HOH HOH . 
P 7 HOH A 34 434 434 HOH HOH . 
P 7 HOH A 35 435 435 HOH HOH . 
P 7 HOH A 36 436 436 HOH HOH . 
P 7 HOH A 37 437 437 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 GOL . . . H 5 52.427 20.981 111.835 1 67.54 ? C1 GOL 306 B 1 
HETATM 2 O O1 GOL . . . H 5 51.697 19.785 111.982 1 67.38 ? O1 GOL 306 B 1 
HETATM 3 C C2 GOL . . . H 5 52.765 21.182 110.362 1 68.91 ? C2 GOL 306 B 1 
HETATM 4 O O2 GOL . . . H 5 54.05 20.658 110.123 1 64.03 ? O2 GOL 306 B 1 
HETATM 5 C C3 GOL . . . H 5 52.725 22.655 109.954 1 70.45 ? C3 GOL 306 B 1 
HETATM 6 O O3 GOL . . . H 5 52.023 22.794 108.739 1 69.14 ? O3 GOL 306 B 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    35 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           6 
#