data_6VFN
#
_model_server_result.job_id            ZgvQWvLk3V0t2th30t_NBQ 
_model_server_result.datetime_utc      '2024-11-14 21:11:19' 
_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          6vfn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":201}' 
#
_entry.id    6VFN 
#
_exptl.entry_id    6VFN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              202.34 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SPERMINE 
_entity.pdbx_number_of_molecules    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          106.5 
_cell.angle_gamma         90 
_cell.entry_id            6VFN 
_cell.length_a            100.648 
_cell.length_b            125.595 
_cell.length_c            101.021 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VFN 
_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    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,T,U,V,W,X 
_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 M N N 
? 2 N N N 
? 2 O N N 
? 2 P N N 
? 2 Q N N 
? 2 R N N 
? 2 S N N 
? 2 T N N 
? 2 U N N 
? 2 V N N 
? 2 W N N 
? 2 X N N 
#
_chem_comp.formula           'C10 H26 N4' 
_chem_comp.formula_weight    202.34 
_chem_comp.id                SPM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              SPERMINE 
_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
N1 C2 SPM sing 288 n n 
N1 HN11 SPM sing 289 n n 
N1 HN12 SPM sing 290 n n 
C2 C3 SPM sing 291 n n 
C2 H21 SPM sing 292 n n 
C2 H22 SPM sing 293 n n 
C3 C4 SPM sing 294 n n 
C3 H31 SPM sing 295 n n 
C3 H32 SPM sing 296 n n 
C4 N5 SPM sing 297 n n 
C4 H41 SPM sing 298 n n 
C4 H42 SPM sing 299 n n 
N5 C6 SPM sing 300 n n 
N5 HN5 SPM sing 301 n n 
C6 C7 SPM sing 302 n n 
C6 H61 SPM sing 303 n n 
C6 H62 SPM sing 304 n n 
C7 C8 SPM sing 305 n n 
C7 H71 SPM sing 306 n n 
C7 H72 SPM sing 307 n n 
C8 C9 SPM sing 308 n n 
C8 H81 SPM sing 309 n n 
C8 H82 SPM sing 310 n n 
C9 N10 SPM sing 311 n n 
C9 H91 SPM sing 312 n n 
C9 H92 SPM sing 313 n n 
N10 C11 SPM sing 314 n n 
N10 HN0 SPM sing 315 n n 
C11 C12 SPM sing 316 n n 
C11 H111 SPM sing 317 n n 
C11 H112 SPM sing 318 n n 
C12 C13 SPM sing 319 n n 
C12 H121 SPM sing 320 n n 
C12 H122 SPM sing 321 n n 
C13 N14 SPM sing 322 n n 
C13 H131 SPM sing 323 n n 
C13 H132 SPM sing 324 n n 
N14 HN41 SPM sing 325 n n 
N14 HN42 SPM sing 326 n n 
#
_atom_sites.entry_id                     6VFN 
_atom_sites.fract_transf_matrix[1][1]    0.009936 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002943 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007962 
_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]    0.010324 
_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
M 2 SPM A 1 201 201 SPM SPM . 
N 2 SPM B 1 201 201 SPM SPM . 
O 2 SPM C 1 201 201 SPM SPM . 
P 2 SPM D 1 201 201 SPM SPM . 
Q 2 SPM E 1 201 201 SPM SPM . 
R 2 SPM E 1 202 201 SPM SPM . 
S 2 SPM F 1 201 201 SPM SPM . 
T 2 SPM G 1 201 201 SPM SPM . 
U 2 SPM H 1 201 201 SPM SPM . 
V 2 SPM J 1 201 201 SPM SPM . 
W 2 SPM K 1 201 201 SPM SPM . 
X 2 SPM L 1 201 201 SPM SPM . 
#
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 N1 SPM . . . M 2 18.357 -0.398 46.42 1 43.03 ? N1 SPM 201 A 1 
HETATM 2 C C2 SPM . . . M 2 18.299 -1.26 47.585 1 46.28 ? C2 SPM 201 A 1 
HETATM 3 C C3 SPM . . . M 2 17.714 -0.489 48.763 1 37 ? C3 SPM 201 A 1 
HETATM 4 C C4 SPM . . . M 2 18.823 0.142 49.596 1 45.13 ? C4 SPM 201 A 1 
HETATM 5 N N5 SPM . . . M 2 19.458 -0.807 50.489 1 30.46 ? N5 SPM 201 A 1 
HETATM 6 C C6 SPM . . . M 2 20.558 -0.363 51.321 1 35.48 ? C6 SPM 201 A 1 
HETATM 7 C C7 SPM . . . M 2 20.998 -1.422 52.322 1 29.88 ? C7 SPM 201 A 1 
HETATM 8 C C8 SPM . . . M 2 20.111 -1.406 53.562 1 33.9 ? C8 SPM 201 A 1 
HETATM 9 C C9 SPM . . . M 2 20.466 -2.563 54.488 1 34.27 ? C9 SPM 201 A 1 
HETATM 10 N N10 SPM . . . M 2 19.631 -2.604 55.673 1 29.07 ? N10 SPM 201 A 1 
HETATM 11 C C11 SPM . . . M 2 19.82 -3.677 56.628 1 28.59 ? C11 SPM 201 A 1 
HETATM 12 C C12 SPM . . . M 2 18.92 -3.538 57.849 1 24.76 ? C12 SPM 201 A 1 
HETATM 13 C C13 SPM . . . M 2 19.047 -4.763 58.746 1 23.8 ? C13 SPM 201 A 1 
HETATM 14 N N14 SPM . . . M 2 18.216 -4.593 59.922 1 28.78 ? N14 SPM 201 A 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    45 
_model_server_stats.query_time_ms           348 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#