data_5NC9
#
_model_server_result.job_id            Da-Ct2x4ZVJ99HV7w22BYw 
_model_server_result.datetime_utc      '2024-11-28 20:56:18' 
_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          5nc9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":301}' 
#
_entry.id    5NC9 
#
_exptl.entry_id    5NC9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              161.202 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2~{S})-2,6-bis(azanyl)-~{N}-oxidanyl-hexanamide 
_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          102.38 
_cell.angle_gamma         90 
_cell.entry_id            5NC9 
_cell.length_a            49.767 
_cell.length_b            117.835 
_cell.length_c            99.059 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5NC9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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
? 2 E N N 
? 2 G N N 
? 2 K N N 
? 2 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 OD1 ASP 51 A ASP 77 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? 
metalc ? metalc2 A NE2 HIS 100 A HIS 126 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? 
metalc ? metalc3 A NE2 HIS 104 A HIS 130 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
metalc ? metalc4 E O01 8SZ . A 8SZ 301 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc5 E O02 8SZ . A 8SZ 301 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? 
metalc ? metalc6 E N05 8SZ . A 8SZ 301 1_555 F ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? 
metalc ? metalc7 B OD1 ASP 51 B ASP 77 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc8 B NE2 HIS 100 B HIS 126 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
metalc ? metalc9 B NE2 HIS 104 B HIS 130 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? 
metalc ? metalc10 G O01 8SZ . B 8SZ 301 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
metalc ? metalc11 G O02 8SZ . B 8SZ 301 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
metalc ? metalc12 G N05 8SZ . B 8SZ 301 1_555 H ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.666 ? 
metalc ? metalc13 H ZN ZN . B ZN 302 1_555 Q O HOH . B HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? 
metalc ? metalc14 C OD1 ASP 51 C ASP 77 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? 
metalc ? metalc15 C NE2 HIS 100 C HIS 126 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? 
metalc ? metalc16 C NE2 HIS 104 C HIS 130 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc17 K O01 8SZ . C 8SZ 301 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
metalc ? metalc18 K O02 8SZ . C 8SZ 301 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc19 K N05 8SZ . C 8SZ 301 1_555 L ZN ZN . C ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? 
metalc ? metalc20 D OD1 ASP 51 D ASP 77 1_555 N ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? 
metalc ? metalc21 D NE2 HIS 100 D HIS 126 1_555 N ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? 
metalc ? metalc22 D NE2 HIS 104 D HIS 130 1_555 N ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? 
metalc ? metalc23 M O01 8SZ . D 8SZ 301 1_555 N ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? 
metalc ? metalc24 M O02 8SZ . D 8SZ 301 1_555 N ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc25 N ZN ZN . D ZN 302 1_555 S O HOH . D HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
#
_chem_comp.formula           'C6 H15 N3 O2' 
_chem_comp.formula_weight    161.202 
_chem_comp.id                8SZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2~{S})-2,6-bis(azanyl)-~{N}-oxidanyl-hexanamide 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
N04 C10 8SZ sing 1 n n 
C10 C09 8SZ sing 2 n n 
C09 C07 8SZ sing 3 n n 
C06 C07 8SZ sing 4 n n 
C06 C08 8SZ sing 5 n n 
N05 O02 8SZ sing 6 n n 
N05 C11 8SZ sing 7 n n 
N03 C08 8SZ sing 8 n n 
C08 C11 8SZ sing 9 n n 
C11 O01 8SZ doub 10 n n 
C10 H1 8SZ sing 11 n n 
C10 H2 8SZ sing 12 n n 
O02 H3 8SZ sing 13 n n 
N03 H4 8SZ sing 14 n n 
N03 H5 8SZ sing 15 n n 
N04 H7 8SZ sing 16 n n 
N04 H8 8SZ sing 17 n n 
N05 H10 8SZ sing 18 n n 
C06 H11 8SZ sing 19 n n 
C06 H12 8SZ sing 20 n n 
C07 H13 8SZ sing 21 n n 
C07 H14 8SZ sing 22 n n 
C08 H15 8SZ sing 23 n n 
C09 H16 8SZ sing 24 n n 
C09 H17 8SZ sing 25 n n 
#
_atom_sites.entry_id                     5NC9 
_atom_sites.fract_transf_matrix[1][1]    0.020094 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00441 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008486 
_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]    0.010335 
_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 2 8SZ A 1 301 300 8SZ LIG . 
F 3 ZN A 1 302 280 ZN ZN . 
G 2 8SZ B 1 301 300 8SZ LIG . 
H 3 ZN B 1 302 280 ZN ZN . 
I 4 CIT B 1 303 1 CIT CIT . 
J 5 EDO B 1 304 1 EDO EDO . 
K 2 8SZ C 1 301 300 8SZ LIG . 
L 3 ZN C 1 302 280 ZN ZN . 
M 2 8SZ D 1 301 300 8SZ LIG . 
N 3 ZN D 1 302 280 ZN ZN . 
O 6 PGE D 1 303 1 PGE PGE . 
P 7 HOH A 1 401 36 HOH HOH . 
P 7 HOH A 2 402 20 HOH HOH . 
P 7 HOH A 3 403 38 HOH HOH . 
P 7 HOH A 4 404 49 HOH HOH . 
P 7 HOH A 5 405 60 HOH HOH . 
P 7 HOH A 6 406 18 HOH HOH . 
P 7 HOH A 7 407 43 HOH HOH . 
P 7 HOH A 8 408 91 HOH HOH . 
P 7 HOH A 9 409 95 HOH HOH . 
P 7 HOH A 10 410 26 HOH HOH . 
P 7 HOH A 11 411 3 HOH HOH . 
P 7 HOH A 12 412 34 HOH HOH . 
P 7 HOH A 13 413 92 HOH HOH . 
P 7 HOH A 14 414 11 HOH HOH . 
P 7 HOH A 15 415 93 HOH HOH . 
P 7 HOH A 16 416 46 HOH HOH . 
P 7 HOH A 17 417 79 HOH HOH . 
P 7 HOH A 18 418 76 HOH HOH . 
P 7 HOH A 19 419 29 HOH HOH . 
P 7 HOH A 20 420 39 HOH HOH . 
P 7 HOH A 21 421 94 HOH HOH . 
P 7 HOH A 22 422 80 HOH HOH . 
P 7 HOH A 23 423 52 HOH HOH . 
P 7 HOH A 24 424 84 HOH HOH . 
P 7 HOH A 25 425 73 HOH HOH . 
Q 7 HOH B 1 401 96 HOH HOH . 
Q 7 HOH B 2 402 97 HOH HOH . 
Q 7 HOH B 3 403 27 HOH HOH . 
Q 7 HOH B 4 404 88 HOH HOH . 
Q 7 HOH B 5 405 90 HOH HOH . 
Q 7 HOH B 6 406 23 HOH HOH . 
Q 7 HOH B 7 407 89 HOH HOH . 
Q 7 HOH B 8 408 67 HOH HOH . 
Q 7 HOH B 9 409 14 HOH HOH . 
Q 7 HOH B 10 410 22 HOH HOH . 
Q 7 HOH B 11 411 33 HOH HOH . 
Q 7 HOH B 12 412 19 HOH HOH . 
Q 7 HOH B 13 413 5 HOH HOH . 
Q 7 HOH B 14 414 40 HOH HOH . 
Q 7 HOH B 15 415 55 HOH HOH . 
Q 7 HOH B 16 416 68 HOH HOH . 
Q 7 HOH B 17 417 2 HOH HOH . 
Q 7 HOH B 18 418 75 HOH HOH . 
Q 7 HOH B 19 419 45 HOH HOH . 
Q 7 HOH B 20 420 87 HOH HOH . 
Q 7 HOH B 21 421 56 HOH HOH . 
Q 7 HOH B 22 422 10 HOH HOH . 
Q 7 HOH B 23 423 70 HOH HOH . 
Q 7 HOH B 24 424 41 HOH HOH . 
Q 7 HOH B 25 425 102 HOH HOH . 
Q 7 HOH B 26 426 101 HOH HOH . 
R 7 HOH C 1 401 62 HOH HOH . 
R 7 HOH C 2 402 47 HOH HOH . 
R 7 HOH C 3 403 69 HOH HOH . 
R 7 HOH C 4 404 8 HOH HOH . 
R 7 HOH C 5 405 64 HOH HOH . 
R 7 HOH C 6 406 100 HOH HOH . 
R 7 HOH C 7 407 6 HOH HOH . 
R 7 HOH C 8 408 16 HOH HOH . 
R 7 HOH C 9 409 9 HOH HOH . 
R 7 HOH C 10 410 28 HOH HOH . 
R 7 HOH C 11 411 98 HOH HOH . 
R 7 HOH C 12 412 58 HOH HOH . 
R 7 HOH C 13 413 37 HOH HOH . 
R 7 HOH C 14 414 35 HOH HOH . 
R 7 HOH C 15 415 21 HOH HOH . 
R 7 HOH C 16 416 25 HOH HOH . 
R 7 HOH C 17 417 31 HOH HOH . 
R 7 HOH C 18 418 74 HOH HOH . 
R 7 HOH C 19 419 51 HOH HOH . 
R 7 HOH C 20 420 72 HOH HOH . 
R 7 HOH C 21 421 66 HOH HOH . 
R 7 HOH C 22 422 82 HOH HOH . 
R 7 HOH C 23 423 44 HOH HOH . 
R 7 HOH C 24 424 77 HOH HOH . 
R 7 HOH C 25 425 71 HOH HOH . 
R 7 HOH C 26 426 83 HOH HOH . 
R 7 HOH C 27 427 78 HOH HOH . 
R 7 HOH C 28 428 61 HOH HOH . 
R 7 HOH C 29 429 59 HOH HOH . 
S 7 HOH D 1 401 85 HOH HOH . 
S 7 HOH D 2 402 24 HOH HOH . 
S 7 HOH D 3 403 12 HOH HOH . 
S 7 HOH D 4 404 81 HOH HOH . 
S 7 HOH D 5 405 15 HOH HOH . 
S 7 HOH D 6 406 17 HOH HOH . 
S 7 HOH D 7 407 32 HOH HOH . 
S 7 HOH D 8 408 50 HOH HOH . 
S 7 HOH D 9 409 7 HOH HOH . 
S 7 HOH D 10 410 57 HOH HOH . 
S 7 HOH D 11 411 30 HOH HOH . 
S 7 HOH D 12 412 1 HOH HOH . 
S 7 HOH D 13 413 4 HOH HOH . 
S 7 HOH D 14 414 48 HOH HOH . 
S 7 HOH D 15 415 42 HOH HOH . 
S 7 HOH D 16 416 63 HOH HOH . 
S 7 HOH D 17 417 86 HOH HOH . 
S 7 HOH D 18 418 99 HOH HOH . 
S 7 HOH D 19 419 53 HOH HOH . 
S 7 HOH D 20 420 13 HOH HOH . 
S 7 HOH D 21 421 65 HOH HOH . 
S 7 HOH D 22 422 54 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 C10 8SZ . . . M 2 13.426 22.484 111.625 1 75.74 ? C10 8SZ 301 D 1 
HETATM 2 O O01 8SZ . . . M 2 11.988 24.961 107.034 1 60.81 ? O01 8SZ 301 D 1 
HETATM 3 O O02 8SZ . . . M 2 13.7 26.659 105.99 1 71.19 ? O02 8SZ 301 D 1 
HETATM 4 N N03 8SZ . . . M 2 14.119 22.443 106.436 1 76.33 ? N03 8SZ 301 D 1 
HETATM 5 N N04 8SZ . . . M 2 12.694 21.278 111.82 1 71.14 ? N04 8SZ 301 D 1 
HETATM 6 N N05 8SZ . . . M 2 14.123 25.431 106.42 1 69.09 ? N05 8SZ 301 D 1 
HETATM 7 C C06 8SZ . . . M 2 14.573 23.257 108.603 1 68.17 ? C06 8SZ 301 D 1 
HETATM 8 C C07 8SZ . . . M 2 14.015 24.043 109.794 1 69.97 ? C07 8SZ 301 D 1 
HETATM 9 C C08 8SZ . . . M 2 13.532 23.169 107.491 1 70.61 ? C08 8SZ 301 D 1 
HETATM 10 C C09 8SZ . . . M 2 12.861 23.293 110.457 1 73.99 ? C09 8SZ 301 D 1 
HETATM 11 C C11 8SZ . . . M 2 13.133 24.557 106.982 1 65.3 ? C11 8SZ 301 D 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           246 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           11 
#