data_7CI1
#
_model_server_result.job_id            5OnIs_1-1cdDD8t7pNRRiw 
_model_server_result.datetime_utc      '2024-10-10 07:23:01' 
_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          7ci1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":401}' 
#
_entry.id    7CI1 
#
_exptl.entry_id    7CI1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              145.246 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            SPERMIDINE 
_entity.pdbx_number_of_molecules    3 
_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         120 
_cell.entry_id            7CI1 
_cell.length_a            84.287 
_cell.length_b            84.287 
_cell.length_c            264.171 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7CI1 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    'P 65' 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,N,O,P 
_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 C N N 
? 2 K N N 
? 2 L N N 
#
_chem_comp.formula           'C7 H19 N3' 
_chem_comp.formula_weight    145.246 
_chem_comp.id                SPD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              SPERMIDINE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     N-(2-AMINO-PROPYL)-1,4-DIAMINOBUTANE;PA(34) 
#
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 SPD sing 299 n n 
N1 HN11 SPD sing 300 n n 
N1 HN12 SPD sing 301 n n 
C2 C3 SPD sing 302 n n 
C2 H21 SPD sing 303 n n 
C2 H22 SPD sing 304 n n 
C3 C4 SPD sing 305 n n 
C3 H31 SPD sing 306 n n 
C3 H32 SPD sing 307 n n 
C4 C5 SPD sing 308 n n 
C4 H41 SPD sing 309 n n 
C4 H42 SPD sing 310 n n 
C5 N6 SPD sing 311 n n 
C5 H51 SPD sing 312 n n 
C5 H52 SPD sing 313 n n 
N6 C7 SPD sing 314 n n 
N6 HN6 SPD sing 315 n n 
C7 C8 SPD sing 316 n n 
C7 H71 SPD sing 317 n n 
C7 H72 SPD sing 318 n n 
C8 C9 SPD sing 319 n n 
C8 H81 SPD sing 320 n n 
C8 H82 SPD sing 321 n n 
C9 N10 SPD sing 322 n n 
C9 H91 SPD sing 323 n n 
C9 H92 SPD sing 324 n n 
N10 H101 SPD sing 325 n n 
N10 H102 SPD sing 326 n n 
#
_atom_sites.entry_id                     7CI1 
_atom_sites.fract_transf_matrix[1][1]    0.011864 
_atom_sites.fract_transf_matrix[1][2]    0.00685 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.0137 
_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]    0.003785 
_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 SPD A 1 401 352 SPD SPD . 
D 3 EDO A 1 402 351 EDO EDO . 
E 3 EDO A 1 403 352 EDO EDO . 
F 3 EDO A 1 404 353 EDO EDO . 
G 3 EDO A 1 405 354 EDO EDO . 
H 3 EDO A 1 406 355 EDO EDO . 
I 3 EDO A 1 407 357 EDO EDO . 
J 3 EDO A 1 408 359 EDO EDO . 
K 2 SPD A 1 409 360 SPD SPD . 
L 2 SPD B 1 401 351 SPD SPD . 
M 3 EDO B 1 402 356 EDO EDO . 
N 3 EDO B 1 403 358 EDO EDO . 
O 4 HOH A 1 501 160 HOH HOH . 
O 4 HOH A 2 502 22 HOH HOH . 
O 4 HOH A 3 503 171 HOH HOH . 
O 4 HOH A 4 504 67 HOH HOH . 
O 4 HOH A 5 505 161 HOH HOH . 
O 4 HOH A 6 506 165 HOH HOH . 
O 4 HOH A 7 507 181 HOH HOH . 
O 4 HOH A 8 508 197 HOH HOH . 
O 4 HOH A 9 509 121 HOH HOH . 
O 4 HOH A 10 510 7 HOH HOH . 
O 4 HOH A 11 511 3 HOH HOH . 
O 4 HOH A 12 512 164 HOH HOH . 
O 4 HOH A 13 513 33 HOH HOH . 
O 4 HOH A 14 514 187 HOH HOH . 
O 4 HOH A 15 515 6 HOH HOH . 
O 4 HOH A 16 516 56 HOH HOH . 
O 4 HOH A 17 517 52 HOH HOH . 
O 4 HOH A 18 518 59 HOH HOH . 
O 4 HOH A 19 519 170 HOH HOH . 
O 4 HOH A 20 520 104 HOH HOH . 
O 4 HOH A 21 521 37 HOH HOH . 
O 4 HOH A 22 522 180 HOH HOH . 
O 4 HOH A 23 523 2 HOH HOH . 
O 4 HOH A 24 524 48 HOH HOH . 
O 4 HOH A 25 525 66 HOH HOH . 
O 4 HOH A 26 526 110 HOH HOH . 
O 4 HOH A 27 527 19 HOH HOH . 
O 4 HOH A 28 528 73 HOH HOH . 
O 4 HOH A 29 529 29 HOH HOH . 
O 4 HOH A 30 530 18 HOH HOH . 
O 4 HOH A 31 531 65 HOH HOH . 
O 4 HOH A 32 532 47 HOH HOH . 
O 4 HOH A 33 533 178 HOH HOH . 
O 4 HOH A 34 534 114 HOH HOH . 
O 4 HOH A 35 535 58 HOH HOH . 
O 4 HOH A 36 536 60 HOH HOH . 
O 4 HOH A 37 537 119 HOH HOH . 
O 4 HOH A 38 538 25 HOH HOH . 
O 4 HOH A 39 539 51 HOH HOH . 
O 4 HOH A 40 540 64 HOH HOH . 
O 4 HOH A 41 541 167 HOH HOH . 
O 4 HOH A 42 542 63 HOH HOH . 
O 4 HOH A 43 543 46 HOH HOH . 
O 4 HOH A 44 544 49 HOH HOH . 
O 4 HOH A 45 545 123 HOH HOH . 
O 4 HOH A 46 546 36 HOH HOH . 
O 4 HOH A 47 547 148 HOH HOH . 
O 4 HOH A 48 548 78 HOH HOH . 
O 4 HOH A 49 549 21 HOH HOH . 
O 4 HOH A 50 550 125 HOH HOH . 
O 4 HOH A 51 551 153 HOH HOH . 
O 4 HOH A 52 552 195 HOH HOH . 
O 4 HOH A 53 553 132 HOH HOH . 
O 4 HOH A 54 554 26 HOH HOH . 
O 4 HOH A 55 555 172 HOH HOH . 
O 4 HOH A 56 556 166 HOH HOH . 
O 4 HOH A 57 557 74 HOH HOH . 
O 4 HOH A 58 558 174 HOH HOH . 
O 4 HOH A 59 559 179 HOH HOH . 
O 4 HOH A 60 560 168 HOH HOH . 
O 4 HOH A 61 561 45 HOH HOH . 
O 4 HOH A 62 562 196 HOH HOH . 
O 4 HOH A 63 563 136 HOH HOH . 
O 4 HOH A 64 564 116 HOH HOH . 
O 4 HOH A 65 565 76 HOH HOH . 
O 4 HOH A 66 566 70 HOH HOH . 
O 4 HOH A 67 567 150 HOH HOH . 
O 4 HOH A 68 568 149 HOH HOH . 
O 4 HOH A 69 569 50 HOH HOH . 
O 4 HOH A 70 570 112 HOH HOH . 
P 4 HOH B 1 501 146 HOH HOH . 
P 4 HOH B 2 502 134 HOH HOH . 
P 4 HOH B 3 503 157 HOH HOH . 
P 4 HOH B 4 504 24 HOH HOH . 
P 4 HOH B 5 505 43 HOH HOH . 
P 4 HOH B 6 506 87 HOH HOH . 
P 4 HOH B 7 507 156 HOH HOH . 
P 4 HOH B 8 508 188 HOH HOH . 
P 4 HOH B 9 509 182 HOH HOH . 
P 4 HOH B 10 510 54 HOH HOH . 
P 4 HOH B 11 511 144 HOH HOH . 
P 4 HOH B 12 512 162 HOH HOH . 
P 4 HOH B 13 513 192 HOH HOH . 
P 4 HOH B 14 514 8 HOH HOH . 
P 4 HOH B 15 515 85 HOH HOH . 
P 4 HOH B 16 516 38 HOH HOH . 
P 4 HOH B 17 517 16 HOH HOH . 
P 4 HOH B 18 518 90 HOH HOH . 
P 4 HOH B 19 519 158 HOH HOH . 
P 4 HOH B 20 520 105 HOH HOH . 
P 4 HOH B 21 521 81 HOH HOH . 
P 4 HOH B 22 522 186 HOH HOH . 
P 4 HOH B 23 523 111 HOH HOH . 
P 4 HOH B 24 524 98 HOH HOH . 
P 4 HOH B 25 525 142 HOH HOH . 
P 4 HOH B 26 526 97 HOH HOH . 
P 4 HOH B 27 527 80 HOH HOH . 
P 4 HOH B 28 528 127 HOH HOH . 
P 4 HOH B 29 529 15 HOH HOH . 
P 4 HOH B 30 530 96 HOH HOH . 
P 4 HOH B 31 531 44 HOH HOH . 
P 4 HOH B 32 532 14 HOH HOH . 
P 4 HOH B 33 533 82 HOH HOH . 
P 4 HOH B 34 534 75 HOH HOH . 
P 4 HOH B 35 535 100 HOH HOH . 
P 4 HOH B 36 536 194 HOH HOH . 
P 4 HOH B 37 537 131 HOH HOH . 
P 4 HOH B 38 538 92 HOH HOH . 
P 4 HOH B 39 539 91 HOH HOH . 
P 4 HOH B 40 540 99 HOH HOH . 
P 4 HOH B 41 541 185 HOH HOH . 
P 4 HOH B 42 542 106 HOH HOH . 
P 4 HOH B 43 543 23 HOH HOH . 
P 4 HOH B 44 544 138 HOH HOH . 
P 4 HOH B 45 545 27 HOH HOH . 
P 4 HOH B 46 546 126 HOH HOH . 
P 4 HOH B 47 547 107 HOH HOH . 
P 4 HOH B 48 548 135 HOH HOH . 
P 4 HOH B 49 549 88 HOH HOH . 
P 4 HOH B 50 550 159 HOH HOH . 
P 4 HOH B 51 551 101 HOH HOH . 
P 4 HOH B 52 552 93 HOH HOH . 
P 4 HOH B 53 553 39 HOH HOH . 
P 4 HOH B 54 554 124 HOH HOH . 
P 4 HOH B 55 555 193 HOH HOH . 
P 4 HOH B 56 556 102 HOH HOH . 
P 4 HOH B 57 557 169 HOH HOH . 
P 4 HOH B 58 558 137 HOH HOH . 
P 4 HOH B 59 559 189 HOH HOH . 
P 4 HOH B 60 560 42 HOH HOH . 
P 4 HOH B 61 561 173 HOH HOH . 
P 4 HOH B 62 562 163 HOH HOH . 
P 4 HOH B 63 563 77 HOH HOH . 
P 4 HOH B 64 564 83 HOH HOH . 
P 4 HOH B 65 565 84 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 SPD . . . L 2 34.232 37.124 46.658 1 34.34 ? N1 SPD 401 B 1 
HETATM 2 C C2 SPD . . . L 2 34.98 36.002 47.202 1 33.56 ? C2 SPD 401 B 1 
HETATM 3 C C3 SPD . . . L 2 36.442 36.109 46.774 1 36.97 ? C3 SPD 401 B 1 
HETATM 4 C C4 SPD . . . L 2 37.261 36.738 47.9 1 38.92 ? C4 SPD 401 B 1 
HETATM 5 C C5 SPD . . . L 2 38.61 37.238 47.378 1 34.61 ? C5 SPD 401 B 1 
HETATM 6 N N6 SPD . . . L 2 38.405 38.334 46.444 1 39.58 ? N6 SPD 401 B 1 
HETATM 7 C C7 SPD . . . L 2 39.663 39.028 46.229 1 23.24 ? C7 SPD 401 B 1 
HETATM 8 C C8 SPD . . . L 2 39.881 39.339 44.747 1 23.45 ? C8 SPD 401 B 1 
HETATM 9 C C9 SPD . . . L 2 38.985 40.484 44.277 1 27.13 ? C9 SPD 401 B 1 
HETATM 10 N N10 SPD . . . L 2 38.473 40.18 42.95 1 20.36 ? N10 SPD 401 B 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           263 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           10 
#