data_6JKI
#
_model_server_result.job_id            RYvASA7mydyIuX53fizy3g 
_model_server_result.datetime_utc      '2025-03-11 11:23:44' 
_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          6jki 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":306}' 
#
_entry.id    6JKI 
#
_exptl.entry_id    6JKI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              381.387 
_entity.id                          2 
_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         120 
_cell.entry_id            6JKI 
_cell.length_a            85.67 
_cell.length_b            85.67 
_cell.length_c            147.6 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6JKI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 H 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 C N SFG . A SFG 301 1_555 T MN MN . B MN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? 
metalc ? metalc2 H N SFG . A SFG 306 1_555 I MN MN . A MN 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? 
metalc ? metalc3 B OD2 ASP 180 B ASP 182 1_555 T MN MN . B MN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? 
#
_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 319 n n 
N HN1 SFG sing 320 n n 
N HN2 SFG sing 321 n n 
CA C SFG sing 322 n n 
CA CB SFG sing 323 n n 
CA HA SFG sing 324 n n 
C O SFG doub 325 n n 
C OXT SFG sing 326 n n 
OXT HXT SFG sing 327 n n 
CB CG SFG sing 328 n n 
CB HB1 SFG sing 329 n n 
CB HB2 SFG sing 330 n n 
CG CD SFG sing 331 n n 
CG HG1 SFG sing 332 n n 
CG HG2 SFG sing 333 n n 
CD NE SFG sing 334 n n 
CD C5' SFG sing 335 n n 
CD HD SFG sing 336 n n 
NE HNE1 SFG sing 337 n n 
NE HNE2 SFG sing 338 n n 
C5' C4' SFG sing 339 n n 
C5' "H5'1" SFG sing 340 n n 
C5' "H5'2" SFG sing 341 n n 
C4' O4' SFG sing 342 n n 
C4' C3' SFG sing 343 n n 
C4' H4' SFG sing 344 n n 
O4' C1' SFG sing 345 n n 
C3' O3' SFG sing 346 n n 
C3' C2' SFG sing 347 n n 
C3' H3' SFG sing 348 n n 
O3' HO3' SFG sing 349 n n 
C2' O2' SFG sing 350 n n 
C2' C1' SFG sing 351 n n 
C2' H2' SFG sing 352 n n 
O2' HO2' SFG sing 353 n n 
C1' N9 SFG sing 354 n n 
C1' H1' SFG sing 355 n n 
N9 C8 SFG sing 356 n y 
N9 C4 SFG sing 357 n y 
C8 N7 SFG doub 358 n y 
C8 H8 SFG sing 359 n n 
N7 C5 SFG sing 360 n y 
C5 C6 SFG sing 361 n y 
C5 C4 SFG doub 362 n y 
C6 N6 SFG sing 363 n n 
C6 N1 SFG doub 364 n y 
N6 HN61 SFG sing 365 n n 
N6 HN62 SFG sing 366 n n 
N1 C2 SFG sing 367 n y 
C2 N3 SFG doub 368 n y 
C2 H2 SFG sing 369 n n 
N3 C4 SFG sing 370 n y 
#
_atom_sites.entry_id                     6JKI 
_atom_sites.fract_transf_matrix[1][1]    0.011673 
_atom_sites.fract_transf_matrix[1][2]    0.006739 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013478 
_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]    0.006775 
_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 SFG A 1 301 400 SFG SFG . 
D 3 GOL A 1 302 601 GOL GOL . 
E 3 GOL A 1 303 701 GOL GOL . 
F 3 GOL A 1 304 801 GOL GOL . 
G 3 GOL A 1 305 901 GOL GOL . 
H 2 SFG A 1 306 400 SFG SFG . 
I 4 MN A 1 307 2 MN MN . 
J 4 MN A 1 308 3 MN MN . 
K 5 NA A 1 309 1 NA NA . 
L 6 PEG B 1 501 501 PEG PEG . 
M 3 GOL B 1 502 501 GOL GOL . 
N 3 GOL B 1 503 601 GOL GOL . 
O 3 GOL B 1 504 701 GOL GOL . 
P 6 PEG B 1 505 901 PEG PEG . 
Q 3 GOL B 1 506 1001 GOL GOL . 
R 3 GOL B 1 507 1101 GOL GOL . 
S 3 GOL B 1 508 1201 GOL GOL . 
T 4 MN B 1 509 1 MN MN . 
U 5 NA B 1 510 2 NA NA . 
V 7 HOH A 1 401 152 HOH HOH . 
V 7 HOH A 2 402 142 HOH HOH . 
V 7 HOH A 3 403 138 HOH HOH . 
V 7 HOH A 4 404 4 HOH HOH . 
V 7 HOH A 5 405 135 HOH HOH . 
V 7 HOH A 6 406 125 HOH HOH . 
V 7 HOH A 7 407 140 HOH HOH . 
V 7 HOH A 8 408 137 HOH HOH . 
V 7 HOH A 9 409 2 HOH HOH . 
V 7 HOH A 10 410 86 HOH HOH . 
V 7 HOH A 11 411 139 HOH HOH . 
V 7 HOH A 12 412 5 HOH HOH . 
V 7 HOH A 13 413 126 HOH HOH . 
V 7 HOH A 14 414 27 HOH HOH . 
V 7 HOH A 15 415 115 HOH HOH . 
V 7 HOH A 16 416 129 HOH HOH . 
V 7 HOH A 17 417 68 HOH HOH . 
V 7 HOH A 18 418 79 HOH HOH . 
V 7 HOH A 19 419 124 HOH HOH . 
V 7 HOH A 20 420 134 HOH HOH . 
V 7 HOH A 21 421 74 HOH HOH . 
V 7 HOH A 22 422 150 HOH HOH . 
V 7 HOH A 23 423 42 HOH HOH . 
V 7 HOH A 24 424 80 HOH HOH . 
V 7 HOH A 25 425 17 HOH HOH . 
V 7 HOH A 26 426 106 HOH HOH . 
V 7 HOH A 27 427 82 HOH HOH . 
V 7 HOH A 28 428 143 HOH HOH . 
V 7 HOH A 29 429 48 HOH HOH . 
V 7 HOH A 30 430 9 HOH HOH . 
V 7 HOH A 31 431 123 HOH HOH . 
V 7 HOH A 32 432 100 HOH HOH . 
V 7 HOH A 33 433 63 HOH HOH . 
V 7 HOH A 34 434 45 HOH HOH . 
V 7 HOH A 35 435 92 HOH HOH . 
V 7 HOH A 36 436 47 HOH HOH . 
V 7 HOH A 37 437 28 HOH HOH . 
V 7 HOH A 38 438 180 HOH HOH . 
V 7 HOH A 39 439 12 HOH HOH . 
V 7 HOH A 40 440 14 HOH HOH . 
V 7 HOH A 41 441 81 HOH HOH . 
V 7 HOH A 42 442 11 HOH HOH . 
V 7 HOH A 43 443 175 HOH HOH . 
V 7 HOH A 44 444 93 HOH HOH . 
V 7 HOH A 45 445 149 HOH HOH . 
V 7 HOH A 46 446 76 HOH HOH . 
V 7 HOH A 47 447 24 HOH HOH . 
V 7 HOH A 48 448 57 HOH HOH . 
V 7 HOH A 49 449 31 HOH HOH . 
V 7 HOH A 50 450 67 HOH HOH . 
V 7 HOH A 51 451 71 HOH HOH . 
V 7 HOH A 52 452 102 HOH HOH . 
V 7 HOH A 53 453 170 HOH HOH . 
V 7 HOH A 54 454 75 HOH HOH . 
V 7 HOH A 55 455 34 HOH HOH . 
V 7 HOH A 56 456 53 HOH HOH . 
V 7 HOH A 57 457 26 HOH HOH . 
V 7 HOH A 58 458 136 HOH HOH . 
V 7 HOH A 59 459 133 HOH HOH . 
V 7 HOH A 60 460 46 HOH HOH . 
V 7 HOH A 61 461 111 HOH HOH . 
V 7 HOH A 62 462 172 HOH HOH . 
V 7 HOH A 63 463 122 HOH HOH . 
V 7 HOH A 64 464 128 HOH HOH . 
W 7 HOH B 1 601 70 HOH HOH . 
W 7 HOH B 2 602 178 HOH HOH . 
W 7 HOH B 3 603 163 HOH HOH . 
W 7 HOH B 4 604 131 HOH HOH . 
W 7 HOH B 5 605 164 HOH HOH . 
W 7 HOH B 6 606 41 HOH HOH . 
W 7 HOH B 7 607 145 HOH HOH . 
W 7 HOH B 8 608 155 HOH HOH . 
W 7 HOH B 9 609 179 HOH HOH . 
W 7 HOH B 10 610 30 HOH HOH . 
W 7 HOH B 11 611 69 HOH HOH . 
W 7 HOH B 12 612 89 HOH HOH . 
W 7 HOH B 13 613 15 HOH HOH . 
W 7 HOH B 14 614 22 HOH HOH . 
W 7 HOH B 15 615 25 HOH HOH . 
W 7 HOH B 16 616 88 HOH HOH . 
W 7 HOH B 17 617 23 HOH HOH . 
W 7 HOH B 18 618 58 HOH HOH . 
W 7 HOH B 19 619 160 HOH HOH . 
W 7 HOH B 20 620 19 HOH HOH . 
W 7 HOH B 21 621 177 HOH HOH . 
W 7 HOH B 22 622 6 HOH HOH . 
W 7 HOH B 23 623 166 HOH HOH . 
W 7 HOH B 24 624 1 HOH HOH . 
W 7 HOH B 25 625 7 HOH HOH . 
W 7 HOH B 26 626 114 HOH HOH . 
W 7 HOH B 27 627 85 HOH HOH . 
W 7 HOH B 28 628 50 HOH HOH . 
W 7 HOH B 29 629 13 HOH HOH . 
W 7 HOH B 30 630 60 HOH HOH . 
W 7 HOH B 31 631 65 HOH HOH . 
W 7 HOH B 32 632 29 HOH HOH . 
W 7 HOH B 33 633 8 HOH HOH . 
W 7 HOH B 34 634 84 HOH HOH . 
W 7 HOH B 35 635 21 HOH HOH . 
W 7 HOH B 36 636 94 HOH HOH . 
W 7 HOH B 37 637 32 HOH HOH . 
W 7 HOH B 38 638 95 HOH HOH . 
W 7 HOH B 39 639 116 HOH HOH . 
W 7 HOH B 40 640 3 HOH HOH . 
W 7 HOH B 41 641 101 HOH HOH . 
W 7 HOH B 42 642 36 HOH HOH . 
W 7 HOH B 43 643 20 HOH HOH . 
W 7 HOH B 44 644 56 HOH HOH . 
W 7 HOH B 45 645 66 HOH HOH . 
W 7 HOH B 46 646 33 HOH HOH . 
W 7 HOH B 47 647 49 HOH HOH . 
W 7 HOH B 48 648 130 HOH HOH . 
W 7 HOH B 49 649 96 HOH HOH . 
W 7 HOH B 50 650 77 HOH HOH . 
W 7 HOH B 51 651 16 HOH HOH . 
W 7 HOH B 52 652 173 HOH HOH . 
W 7 HOH B 53 653 44 HOH HOH . 
W 7 HOH B 54 654 55 HOH HOH . 
W 7 HOH B 55 655 18 HOH HOH . 
W 7 HOH B 56 656 119 HOH HOH . 
W 7 HOH B 57 657 72 HOH HOH . 
W 7 HOH B 58 658 103 HOH HOH . 
W 7 HOH B 59 659 127 HOH HOH . 
W 7 HOH B 60 660 38 HOH HOH . 
W 7 HOH B 61 661 105 HOH HOH . 
W 7 HOH B 62 662 78 HOH HOH . 
W 7 HOH B 63 663 39 HOH HOH . 
W 7 HOH B 64 664 73 HOH HOH . 
W 7 HOH B 65 665 107 HOH HOH . 
W 7 HOH B 66 666 109 HOH HOH . 
W 7 HOH B 67 667 171 HOH HOH . 
W 7 HOH B 68 668 91 HOH HOH . 
W 7 HOH B 69 669 54 HOH HOH . 
W 7 HOH B 70 670 99 HOH HOH . 
W 7 HOH B 71 671 83 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 . . . H 2 -38.447 28.869 -5.7 1 78.09 ? N SFG 306 A 1 
HETATM 2 C CA SFG . . . H 2 -37.189 28.37 -6.291 1 78.98 ? CA SFG 306 A 1 
HETATM 3 C C SFG . . . H 2 -36.579 29.376 -7.301 1 83.35 ? C SFG 306 A 1 
HETATM 4 O O SFG . . . H 2 -37.372 30.118 -7.933 1 79.89 ? O SFG 306 A 1 
HETATM 5 O OXT SFG . . . H 2 -35.327 29.367 -7.423 1 87.98 ? OXT SFG 306 A 1 
HETATM 6 C CB SFG . . . H 2 -37.391 27.014 -6.972 1 73.56 ? CB SFG 306 A 1 
HETATM 7 C CG SFG . . . H 2 -37.839 26.007 -5.925 1 71.56 ? CG SFG 306 A 1 
HETATM 8 C CD SFG . . . H 2 -38.233 24.695 -6.577 1 67.05 ? CD SFG 306 A 1 
HETATM 9 N NE SFG . . . H 2 -39.702 24.645 -6.631 1 66.59 ? NE SFG 306 A 1 
HETATM 10 C C5' SFG . . . H 2 -37.693 23.554 -5.705 1 61.75 ? C5' SFG 306 A 1 
HETATM 11 C C4' SFG . . . H 2 -36.4 22.888 -6.236 1 61.56 ? C4' SFG 306 A 1 
HETATM 12 O O4' SFG . . . H 2 -36.514 22.394 -7.6 1 63.88 ? O4' SFG 306 A 1 
HETATM 13 C C3' SFG . . . H 2 -35.198 23.785 -6.286 1 60.71 ? C3' SFG 306 A 1 
HETATM 14 O O3' SFG . . . H 2 -34.657 23.946 -4.974 1 66.03 ? O3' SFG 306 A 1 
HETATM 15 C C2' SFG . . . H 2 -34.278 22.981 -7.192 1 59.44 ? C2' SFG 306 A 1 
HETATM 16 O O2' SFG . . . H 2 -33.701 21.89 -6.474 1 59.93 ? O2' SFG 306 A 1 
HETATM 17 C C1' SFG . . . H 2 -35.22 22.373 -8.208 1 56.6 ? C1' SFG 306 A 1 
HETATM 18 N N9 SFG . . . H 2 -35.303 23.077 -9.504 1 50.23 ? N9 SFG 306 A 1 
HETATM 19 C C8 SFG . . . H 2 -36.342 23.78 -9.987 1 48.83 ? C8 SFG 306 A 1 
HETATM 20 N N7 SFG . . . H 2 -36.058 24.144 -11.251 1 47.85 ? N7 SFG 306 A 1 
HETATM 21 C C5 SFG . . . H 2 -34.843 23.645 -11.575 1 47.94 ? C5 SFG 306 A 1 
HETATM 22 C C6 SFG . . . H 2 -34.058 23.739 -12.67 1 46.22 ? C6 SFG 306 A 1 
HETATM 23 N N6 SFG . . . H 2 -34.509 24.422 -13.733 1 46.33 ? N6 SFG 306 A 1 
HETATM 24 N N1 SFG . . . H 2 -32.878 23.11 -12.755 1 47.47 ? N1 SFG 306 A 1 
HETATM 25 C C2 SFG . . . H 2 -32.382 22.408 -11.661 1 50.27 ? C2 SFG 306 A 1 
HETATM 26 N N3 SFG . . . H 2 -33.19 22.341 -10.53 1 54.68 ? N3 SFG 306 A 1 
HETATM 27 C C4 SFG . . . H 2 -34.4 22.954 -10.5 1 52.48 ? C4 SFG 306 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           27 
#