data_7N72
#
_model_server_result.job_id            SiDHKqVqGFVOccmadqHEng 
_model_server_result.datetime_utc      '2024-11-21 14:40:55' 
_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          7n72 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1203}' 
#
_entry.id    7N72 
#
_exptl.entry_id    7N72 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              202.34 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SPERMINE 
_entity.pdbx_number_of_molecules    1 
_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            7N72 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7N72 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_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 
_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    ? 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 OD2 ASP 508 A ASP 508 1_555 C MG MG . A MG 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc2 A O THR 510 A THR 510 1_555 C MG MG . A MG 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc3 A OD1 ASP 873 A ASP 873 1_555 C MG MG . A MG 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.258 ? 
#
_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 517 n n 
N1 HN11 SPM sing 518 n n 
N1 HN12 SPM sing 519 n n 
C2 C3 SPM sing 520 n n 
C2 H21 SPM sing 521 n n 
C2 H22 SPM sing 522 n n 
C3 C4 SPM sing 523 n n 
C3 H31 SPM sing 524 n n 
C3 H32 SPM sing 525 n n 
C4 N5 SPM sing 526 n n 
C4 H41 SPM sing 527 n n 
C4 H42 SPM sing 528 n n 
N5 C6 SPM sing 529 n n 
N5 HN5 SPM sing 530 n n 
C6 C7 SPM sing 531 n n 
C6 H61 SPM sing 532 n n 
C6 H62 SPM sing 533 n n 
C7 C8 SPM sing 534 n n 
C7 H71 SPM sing 535 n n 
C7 H72 SPM sing 536 n n 
C8 C9 SPM sing 537 n n 
C8 H81 SPM sing 538 n n 
C8 H82 SPM sing 539 n n 
C9 N10 SPM sing 540 n n 
C9 H91 SPM sing 541 n n 
C9 H92 SPM sing 542 n n 
N10 C11 SPM sing 543 n n 
N10 HN0 SPM sing 544 n n 
C11 C12 SPM sing 545 n n 
C11 H111 SPM sing 546 n n 
C11 H112 SPM sing 547 n n 
C12 C13 SPM sing 548 n n 
C12 H121 SPM sing 549 n n 
C12 H122 SPM sing 550 n n 
C13 N14 SPM sing 551 n n 
C13 H131 SPM sing 552 n n 
C13 H132 SPM sing 553 n n 
N14 HN41 SPM sing 554 n n 
N14 HN42 SPM sing 555 n n 
#
_atom_sites.entry_id                     7N72 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
B 2 ALF A 1 1201 1201 ALF ALF . 
C 3 MG A 1 1202 1202 MG MG . 
D 4 SPM A 1 1203 1301 SPM SPM . 
E 5 Y01 A 1 1204 1401 Y01 Y01 . 
F 5 Y01 A 1 1205 1402 Y01 Y01 . 
G 6 PC1 A 1 1206 1403 PC1 PC1 . 
H 7 LMT A 1 1207 1404 LMT LMT . 
I 7 LMT A 1 1208 1405 LMT LMT . 
J 7 LMT A 1 1209 1406 LMT LMT . 
K 6 PC1 A 1 1210 1407 PC1 PC1 . 
L 5 Y01 A 1 1211 1408 Y01 Y01 . 
M 8 HOH A 1 1301 1306 HOH HOH . 
M 8 HOH A 2 1302 1302 HOH HOH . 
M 8 HOH A 3 1303 1305 HOH HOH . 
M 8 HOH A 4 1304 1303 HOH HOH . 
M 8 HOH A 5 1305 1304 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 N1 SPM . . . D 4 149.655 164.319 142.128 1 46.62 ? N1 SPM 1203 A 1 
HETATM 2 C C2 SPM . . . D 4 149.206 165.624 141.632 1 46.62 ? C2 SPM 1203 A 1 
HETATM 3 C C3 SPM . . . D 4 148.072 165.459 140.625 1 46.62 ? C3 SPM 1203 A 1 
HETATM 4 C C4 SPM . . . D 4 147.671 166.842 140.116 1 46.62 ? C4 SPM 1203 A 1 
HETATM 5 N N5 SPM . . . D 4 146.335 166.785 139.511 1 46.62 ? N5 SPM 1203 A 1 
HETATM 6 C C6 SPM . . . D 4 146.294 167.862 138.514 1 46.62 ? C6 SPM 1203 A 1 
HETATM 7 C C7 SPM . . . D 4 144.898 168.041 137.923 1 46.62 ? C7 SPM 1203 A 1 
HETATM 8 C C8 SPM . . . D 4 144.94 169.266 137.012 1 46.62 ? C8 SPM 1203 A 1 
HETATM 9 C C9 SPM . . . D 4 143.535 169.569 136.502 1 46.62 ? C9 SPM 1203 A 1 
HETATM 10 N N10 SPM . . . D 4 143.358 170.887 135.889 1 46.62 ? N10 SPM 1203 A 1 
HETATM 11 C C11 SPM . . . D 4 141.895 171.041 135.894 1 46.62 ? C11 SPM 1203 A 1 
HETATM 12 C C12 SPM . . . D 4 141.429 172.152 134.955 1 46.62 ? C12 SPM 1203 A 1 
HETATM 13 C C13 SPM . . . D 4 139.974 172.487 135.293 1 46.62 ? C13 SPM 1203 A 1 
HETATM 14 N N14 SPM . . . D 4 139.318 173.148 134.157 1 46.62 ? N14 SPM 1203 A 1 
HETATM 15 H HN11 SPM . . . D 4 148.874 163.913 142.619 1 46.62 ? HN11 SPM 1203 A 1 
HETATM 16 H HN12 SPM . . . D 4 149.817 163.738 141.323 1 46.62 ? HN12 SPM 1203 A 1 
HETATM 17 H H21 SPM . . . D 4 148.851 166.225 142.466 1 46.62 ? H21 SPM 1203 A 1 
HETATM 18 H H22 SPM . . . D 4 150.036 166.136 141.151 1 46.62 ? H22 SPM 1203 A 1 
HETATM 19 H H31 SPM . . . D 4 148.401 164.84 139.793 1 46.62 ? H31 SPM 1203 A 1 
HETATM 20 H H32 SPM . . . D 4 147.218 164.994 141.111 1 46.62 ? H32 SPM 1203 A 1 
HETATM 21 H H41 SPM . . . D 4 147.665 167.536 140.953 1 46.62 ? H41 SPM 1203 A 1 
HETATM 22 H H42 SPM . . . D 4 148.397 167.181 139.377 1 46.62 ? H42 SPM 1203 A 1 
HETATM 23 H HN5 SPM . . . D 4 146.28 165.913 139.009 1 46.62 ? HN5 SPM 1203 A 1 
HETATM 24 H H61 SPM . . . D 4 146.595 168.799 138.975 1 46.62 ? H61 SPM 1203 A 1 
HETATM 25 H H62 SPM . . . D 4 146.984 167.623 137.708 1 46.62 ? H62 SPM 1203 A 1 
HETATM 26 H H71 SPM . . . D 4 144.61 167.161 137.354 1 46.62 ? H71 SPM 1203 A 1 
HETATM 27 H H72 SPM . . . D 4 144.176 168.206 138.721 1 46.62 ? H72 SPM 1203 A 1 
HETATM 28 H H81 SPM . . . D 4 145.304 170.097 137.602 1 46.62 ? H81 SPM 1203 A 1 
HETATM 29 H H82 SPM . . . D 4 145.611 169.08 136.173 1 46.62 ? H82 SPM 1203 A 1 
HETATM 30 H H91 SPM . . . D 4 143.273 168.813 135.765 1 46.62 ? H91 SPM 1203 A 1 
HETATM 31 H H92 SPM . . . D 4 142.86 169.511 137.352 1 46.62 ? H92 SPM 1203 A 1 
HETATM 32 H HN0 SPM . . . D 4 143.634 170.798 134.925 1 46.62 ? HN0 SPM 1203 A 1 
HETATM 33 H H111 SPM . . . D 4 141.437 170.106 135.578 1 46.62 ? H111 SPM 1203 A 1 
HETATM 34 H H112 SPM . . . D 4 141.565 171.269 136.907 1 46.62 ? H112 SPM 1203 A 1 
HETATM 35 H H121 SPM . . . D 4 142.05 173.034 135.1 1 46.62 ? H121 SPM 1203 A 1 
HETATM 36 H H122 SPM . . . D 4 141.503 171.816 133.919 1 46.62 ? H122 SPM 1203 A 1 
HETATM 37 H H131 SPM . . . D 4 139.442 171.569 135.531 1 46.62 ? H131 SPM 1203 A 1 
HETATM 38 H H132 SPM . . . D 4 139.947 173.15 136.158 1 46.62 ? H132 SPM 1203 A 1 
HETATM 39 H HN41 SPM . . . D 4 139.379 172.523 133.369 1 46.62 ? HN41 SPM 1203 A 1 
HETATM 40 H HN42 SPM . . . D 4 139.866 173.964 133.936 1 46.62 ? HN42 SPM 1203 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           40 
#