data_3SW9
#
_model_server_result.job_id            qh-HBtubYzQcs4j4yRgbsw 
_model_server_result.datetime_utc      '2024-11-04 23:49:29' 
_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          3sw9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":102}' 
#
_entry.id    3SW9 
#
_exptl.entry_id    3SW9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              381.387 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SINEFUNGIN 
_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            3SW9 
_cell.length_a            80.14 
_cell.length_b            91.14 
_cell.length_c            95.07 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3SW9 
_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 
PISA tetrameric 4 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,I,O 1 1 
C,D,J,K,L,M,N,P,Q 2 1 
A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q 3 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 I N N 
? 4 N 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 E ZN ZN . A ZN 1 1_555 A SG CYS 81 A CYS 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? 
metalc ? metalc2 E ZN ZN . A ZN 1 1_555 A SG CYS 94 A CYS 1044 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? 
metalc ? metalc3 E ZN ZN . A ZN 1 1_555 A SG CYS 124 A CYS 1074 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? 
metalc ? metalc4 E ZN ZN . A ZN 1 1_555 A SG CYS 128 A CYS 1078 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? 
metalc ? metalc5 F ZN ZN . A ZN 2 1_555 A SG CYS 87 A CYS 1037 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? 
metalc ? metalc6 F ZN ZN . A ZN 2 1_555 A SG CYS 124 A CYS 1074 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? 
metalc ? metalc7 F ZN ZN . A ZN 2 1_555 A SG CYS 130 A CYS 1080 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? 
metalc ? metalc8 F ZN ZN . A ZN 2 1_555 A SG CYS 134 A CYS 1084 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc9 G ZN ZN . A ZN 3 1_555 A SG CYS 81 A CYS 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? 
metalc ? metalc10 G ZN ZN . A ZN 3 1_555 A SG CYS 83 A CYS 1033 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? 
metalc ? metalc11 G ZN ZN . A ZN 3 1_555 A SG CYS 87 A CYS 1037 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? 
metalc ? metalc12 G ZN ZN . A ZN 3 1_555 A SG CYS 92 A CYS 1042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? 
metalc ? metalc13 H ZN ZN . A ZN 4 1_555 A SG CYS 222 A CYS 1172 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? 
metalc ? metalc14 H ZN ZN . A ZN 4 1_555 A SG CYS 275 A CYS 1225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? 
metalc ? metalc15 H ZN ZN . A ZN 4 1_555 A SG CYS 277 A CYS 1227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? 
metalc ? metalc16 H ZN ZN . A ZN 4 1_555 A SG CYS 282 A CYS 1232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.611 ? 
metalc ? metalc17 J ZN ZN . B ZN 5 1_555 C SG CYS 81 B CYS 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? 
metalc ? metalc18 J ZN ZN . B ZN 5 1_555 C SG CYS 94 B CYS 1044 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? 
metalc ? metalc19 J ZN ZN . B ZN 5 1_555 C SG CYS 124 B CYS 1074 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? 
metalc ? metalc20 J ZN ZN . B ZN 5 1_555 C SG CYS 128 B CYS 1078 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? 
metalc ? metalc21 K ZN ZN . B ZN 6 1_555 C SG CYS 87 B CYS 1037 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? 
metalc ? metalc22 K ZN ZN . B ZN 6 1_555 C SG CYS 124 B CYS 1074 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc23 K ZN ZN . B ZN 6 1_555 C SG CYS 130 B CYS 1080 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc24 K ZN ZN . B ZN 6 1_555 C SG CYS 134 B CYS 1084 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc25 L ZN ZN . B ZN 7 1_555 C SG CYS 81 B CYS 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc26 L ZN ZN . B ZN 7 1_555 C SG CYS 83 B CYS 1033 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? 
metalc ? metalc27 L ZN ZN . B ZN 7 1_555 C SG CYS 87 B CYS 1037 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc28 L ZN ZN . B ZN 7 1_555 C SG CYS 92 B CYS 1042 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc29 M ZN ZN . B ZN 8 1_555 C SG CYS 222 B CYS 1172 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.791 ? 
metalc ? metalc30 M ZN ZN . B ZN 8 1_555 C SG CYS 275 B CYS 1225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? 
metalc ? metalc31 M ZN ZN . B ZN 8 1_555 C SG CYS 277 B CYS 1227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc32 M ZN ZN . B ZN 8 1_555 C SG CYS 282 B CYS 1232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? 
#
_chem_comp.formula           'C15 H23 N7 O5' 
_chem_comp.formula_weight    381.387 
_chem_comp.id                SFG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              SINEFUNGIN 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ADENOSYL-ORNITHINE 
#
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
N CA SFG sing 290 n n 
N HN1 SFG sing 291 n n 
N HN2 SFG sing 292 n n 
CA C SFG sing 293 n n 
CA CB SFG sing 294 n n 
CA HA SFG sing 295 n n 
C O SFG doub 296 n n 
C OXT SFG sing 297 n n 
OXT HXT SFG sing 298 n n 
CB CG SFG sing 299 n n 
CB HB1 SFG sing 300 n n 
CB HB2 SFG sing 301 n n 
CG CD SFG sing 302 n n 
CG HG1 SFG sing 303 n n 
CG HG2 SFG sing 304 n n 
CD NE SFG sing 305 n n 
CD C5' SFG sing 306 n n 
CD HD SFG sing 307 n n 
NE HNE1 SFG sing 308 n n 
NE HNE2 SFG sing 309 n n 
C5' C4' SFG sing 310 n n 
C5' "H5'1" SFG sing 311 n n 
C5' "H5'2" SFG sing 312 n n 
C4' O4' SFG sing 313 n n 
C4' C3' SFG sing 314 n n 
C4' H4' SFG sing 315 n n 
O4' C1' SFG sing 316 n n 
C3' O3' SFG sing 317 n n 
C3' C2' SFG sing 318 n n 
C3' H3' SFG sing 319 n n 
O3' HO3' SFG sing 320 n n 
C2' O2' SFG sing 321 n n 
C2' C1' SFG sing 322 n n 
C2' H2' SFG sing 323 n n 
O2' HO2' SFG sing 324 n n 
C1' N9 SFG sing 325 n n 
C1' H1' SFG sing 326 n n 
N9 C8 SFG sing 327 n y 
N9 C4 SFG sing 328 n y 
C8 N7 SFG doub 329 n y 
C8 H8 SFG sing 330 n n 
N7 C5 SFG sing 331 n y 
C5 C6 SFG sing 332 n y 
C5 C4 SFG doub 333 n y 
C6 N6 SFG sing 334 n n 
C6 N1 SFG doub 335 n y 
N6 HN61 SFG sing 336 n n 
N6 HN62 SFG sing 337 n n 
N1 C2 SFG sing 338 n y 
C2 N3 SFG doub 339 n y 
C2 H2 SFG sing 340 n n 
N3 C4 SFG sing 341 n y 
#
_atom_sites.entry_id                     3SW9 
_atom_sites.fract_transf_matrix[1][1]    0.012478 
_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]    0.010972 
_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]    0.010519 
_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 ZN A 1 1 1 ZN ZN . 
F 3 ZN A 1 2 2 ZN ZN . 
G 3 ZN A 1 3 3 ZN ZN . 
H 3 ZN A 1 4 4 ZN ZN . 
I 4 SFG A 1 101 101 SFG SFG . 
J 3 ZN B 1 5 5 ZN ZN . 
K 3 ZN B 1 6 6 ZN ZN . 
L 3 ZN B 1 7 7 ZN ZN . 
M 3 ZN B 1 8 8 ZN ZN . 
N 4 SFG B 1 102 102 SFG SFG . 
O 5 HOH A 1 206 206 HOH HOH . 
O 5 HOH A 2 210 210 HOH HOH . 
O 5 HOH A 3 211 211 HOH HOH . 
O 5 HOH A 4 212 212 HOH HOH . 
O 5 HOH A 5 219 219 HOH HOH . 
O 5 HOH A 6 220 220 HOH HOH . 
O 5 HOH A 7 221 221 HOH HOH . 
O 5 HOH A 8 222 222 HOH HOH . 
P 5 HOH B 1 201 201 HOH HOH . 
P 5 HOH B 2 202 202 HOH HOH . 
P 5 HOH B 3 203 203 HOH HOH . 
P 5 HOH B 4 204 204 HOH HOH . 
P 5 HOH B 5 205 205 HOH HOH . 
P 5 HOH B 6 207 207 HOH HOH . 
P 5 HOH B 7 208 208 HOH HOH . 
P 5 HOH B 8 209 209 HOH HOH . 
P 5 HOH B 9 213 213 HOH HOH . 
P 5 HOH B 10 214 214 HOH HOH . 
P 5 HOH B 11 215 215 HOH HOH . 
P 5 HOH B 12 217 217 HOH HOH . 
P 5 HOH B 13 218 218 HOH HOH . 
P 5 HOH B 14 223 223 HOH HOH . 
Q 5 HOH Q 1 216 216 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 N N SFG . . . N 4 11.342 19.478 -10.068 1 43.16 ? N SFG 102 B 1 
HETATM 2 C CA SFG . . . N 4 12.389 18.464 -9.875 1 40.05 ? CA SFG 102 B 1 
HETATM 3 C C SFG . . . N 4 12.978 17.904 -11.182 1 41.57 ? C SFG 102 B 1 
HETATM 4 O O SFG . . . N 4 12.543 18.367 -12.268 1 44.17 ? O SFG 102 B 1 
HETATM 5 O OXT SFG . . . N 4 13.905 17.061 -11.103 1 38.85 ? OXT SFG 102 B 1 
HETATM 6 C CB SFG . . . N 4 12.001 17.367 -8.821 1 35.53 ? CB SFG 102 B 1 
HETATM 7 C CG SFG . . . N 4 12.037 18.063 -7.419 1 34.86 ? CG SFG 102 B 1 
HETATM 8 C CD SFG . . . N 4 13.455 18.167 -6.803 1 36.43 ? CD SFG 102 B 1 
HETATM 9 N NE SFG . . . N 4 13.704 17.133 -5.744 1 35.4 ? NE SFG 102 B 1 
HETATM 10 C C5' SFG . . . N 4 13.503 19.506 -6.049 1 42.44 ? C5' SFG 102 B 1 
HETATM 11 C C4' SFG . . . N 4 13.739 20.7 -7.023 1 43.59 ? C4' SFG 102 B 1 
HETATM 12 O O4' SFG . . . N 4 12.537 21.016 -7.738 1 49.38 ? O4' SFG 102 B 1 
HETATM 13 C C3' SFG . . . N 4 14.206 22.033 -6.405 1 45.6 ? C3' SFG 102 B 1 
HETATM 14 O O3' SFG . . . N 4 15.622 22.088 -6.369 1 40.66 ? O3' SFG 102 B 1 
HETATM 15 C C2' SFG . . . N 4 13.51 23.063 -7.294 1 40.08 ? C2' SFG 102 B 1 
HETATM 16 O O2' SFG . . . N 4 14.256 23.353 -8.494 1 52.27 ? O2' SFG 102 B 1 
HETATM 17 C C1' SFG . . . N 4 12.181 22.403 -7.688 1 41.62 ? C1' SFG 102 B 1 
HETATM 18 N N9 SFG . . . N 4 10.977 22.554 -6.828 1 40.4 ? N9 SFG 102 B 1 
HETATM 19 C C8 SFG . . . N 4 10.35 21.731 -5.933 1 41.5 ? C8 SFG 102 B 1 
HETATM 20 N N7 SFG . . . N 4 9.224 22.195 -5.372 1 40.63 ? N7 SFG 102 B 1 
HETATM 21 C C5 SFG . . . N 4 9.097 23.461 -5.928 1 41.63 ? C5 SFG 102 B 1 
HETATM 22 C C6 SFG . . . N 4 8.195 24.54 -5.827 1 41.19 ? C6 SFG 102 B 1 
HETATM 23 N N6 SFG . . . N 4 7.122 24.425 -5.003 1 38.3 ? N6 SFG 102 B 1 
HETATM 24 N N1 SFG . . . N 4 8.386 25.716 -6.546 1 47.1 ? N1 SFG 102 B 1 
HETATM 25 C C2 SFG . . . N 4 9.453 25.872 -7.399 1 44.97 ? C2 SFG 102 B 1 
HETATM 26 N N3 SFG . . . N 4 10.36 24.855 -7.559 1 41.2 ? N3 SFG 102 B 1 
HETATM 27 C C4 SFG . . . N 4 10.182 23.689 -6.829 1 39.69 ? C4 SFG 102 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           27 
#