data_6S6C
#
_model_server_result.job_id            pjl2R_u2mAxNHV2F8qRBXw 
_model_server_result.datetime_utc      '2024-11-17 10:49:23' 
_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          6s6c 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":310}' 
#
_entry.id    6S6C 
#
_exptl.entry_id    6S6C 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              128.255 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            nonane 
_entity.pdbx_number_of_molecules    4 
_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            6S6C 
_cell.length_a            44.669 
_cell.length_b            47.357 
_cell.length_c            104.193 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6S6C 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
? 5 I N N 
? 5 J N N 
? 5 K N N 
? 5 L 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
covale ? covale1 A C PCA 1 A PCA 7 1_555 A N ALA 2 A ALA 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale2 A NZ LYS 220 A LYS 226 1_555 B C15 RET . A RET 300 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.273 ? 
covale ? covale3 A NZ LYS 220 A LYS 226 1_555 B C15 RET . A RET 300 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.17 ? 
metalc ? metalc1 A OD2 ASP 5 A ASP 11 1_555 N CA CA . A CA 713 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? 
metalc ? metalc2 A OD1 ASP 5 A ASP 11 1_555 O NA NA . A NA 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? 
metalc ? metalc3 A OD1 ASP 9 A ASP 15 1_555 O NA NA . A NA 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc4 A OG1 THR 14 A THR 20 1_555 O NA NA . A NA 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? 
metalc ? metalc5 A OD1 ASP 40 A ASP 46 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? 
metalc ? metalc6 A OD2 ASP 40 A ASP 46 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? 
metalc ? metalc7 A OD2 ASP 42 A ASP 48 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? 
metalc ? metalc8 A O LEU 234 A LEU 240 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc9 S O HOH . A HOH 586 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? 
metalc ? metalc10 S O HOH . A HOH 589 1_555 N CA CA . A CA 713 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? 
#
_chem_comp.formula           'C9 H20' 
_chem_comp.formula_weight    128.255 
_chem_comp.id                DD9 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              nonane 
_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
C2 C1 DD9 sing 120 n n 
C1 H1 DD9 sing 121 n n 
C1 H1A DD9 sing 122 n n 
C1 H1B DD9 sing 123 n n 
C3 C2 DD9 sing 124 n n 
C2 H2 DD9 sing 125 n n 
C2 H2A DD9 sing 126 n n 
C4 C3 DD9 sing 127 n n 
C3 H3 DD9 sing 128 n n 
C3 H3A DD9 sing 129 n n 
C5 C4 DD9 sing 130 n n 
C4 H4 DD9 sing 131 n n 
C4 H4A DD9 sing 132 n n 
C6 C5 DD9 sing 133 n n 
C5 H5 DD9 sing 134 n n 
C5 H5A DD9 sing 135 n n 
C7 C6 DD9 sing 136 n n 
C6 H6 DD9 sing 137 n n 
C6 H6A DD9 sing 138 n n 
C8 C7 DD9 sing 139 n n 
C7 H7 DD9 sing 140 n n 
C7 H7A DD9 sing 141 n n 
C9 C8 DD9 sing 142 n n 
C8 H8 DD9 sing 143 n n 
C8 H8A DD9 sing 144 n n 
C9 H9 DD9 sing 145 n n 
C9 H9A DD9 sing 146 n n 
C9 H9B DD9 sing 147 n n 
#
_atom_sites.entry_id                     6S6C 
_atom_sites.fract_transf_matrix[1][1]    0.022387 
_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]    0.021116 
_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]    0.009598 
_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 RET A 1 300 300 RET RET . 
C 3 R16 A 1 302 302 R16 R16 . 
D 3 R16 A 1 303 303 R16 R16 . 
E 3 R16 A 1 304 304 R16 R16 . 
F 3 R16 A 1 305 305 R16 R16 . 
G 4 D12 A 1 307 307 D12 D12 . 
H 3 R16 A 1 308 308 R16 R16 . 
I 5 DD9 A 1 309 309 DD9 DD9 . 
J 5 DD9 A 1 310 310 DD9 DD9 . 
K 5 DD9 A 1 311 311 DD9 DD9 . 
L 5 DD9 A 1 312 312 DD9 DD9 . 
M 3 R16 A 1 314 314 R16 R16 . 
N 6 CA A 1 713 713 CA CA . 
O 7 NA A 1 714 714 NA NA . 
P 8 CL A 1 715 715 CL CL . 
Q 8 CL A 1 716 716 CL CL . 
R 8 CL A 1 717 717 CL CL . 
S 9 HOH A 1 563 563 HOH HOH . 
S 9 HOH A 2 585 585 HOH HOH . 
S 9 HOH A 3 406 406 HOH HOH . 
S 9 HOH A 4 407 407 HOH HOH . 
S 9 HOH A 5 527 527 HOH HOH . 
S 9 HOH A 6 603 603 HOH HOH . 
S 9 HOH A 7 402 402 HOH HOH . 
S 9 HOH A 8 582 582 HOH HOH . 
S 9 HOH A 9 525 525 HOH HOH . 
S 9 HOH A 10 578 578 HOH HOH . 
S 9 HOH A 11 634 634 HOH HOH . 
S 9 HOH A 12 554 554 HOH HOH . 
S 9 HOH A 13 592 592 HOH HOH . 
S 9 HOH A 14 559 559 HOH HOH . 
S 9 HOH A 15 595 595 HOH HOH . 
S 9 HOH A 16 601 601 HOH HOH . 
S 9 HOH A 17 536 536 HOH HOH . 
S 9 HOH A 18 594 594 HOH HOH . 
S 9 HOH A 19 528 528 HOH HOH . 
S 9 HOH A 20 643 643 HOH HOH . 
S 9 HOH A 21 604 604 HOH HOH . 
S 9 HOH A 22 526 526 HOH HOH . 
S 9 HOH A 23 562 562 HOH HOH . 
S 9 HOH A 24 596 596 HOH HOH . 
S 9 HOH A 25 637 637 HOH HOH . 
S 9 HOH A 26 630 630 HOH HOH . 
S 9 HOH A 27 501 501 HOH HOH . 
S 9 HOH A 28 600 600 HOH HOH . 
S 9 HOH A 29 622 622 HOH HOH . 
S 9 HOH A 30 632 632 HOH HOH . 
S 9 HOH A 31 547 547 HOH HOH . 
S 9 HOH A 32 543 543 HOH HOH . 
S 9 HOH A 33 555 555 HOH HOH . 
S 9 HOH A 34 593 593 HOH HOH . 
S 9 HOH A 35 571 571 HOH HOH . 
S 9 HOH A 36 404 404 HOH HOH . 
S 9 HOH A 37 635 635 HOH HOH . 
S 9 HOH A 38 628 628 HOH HOH . 
S 9 HOH A 39 524 524 HOH HOH . 
S 9 HOH A 40 512 512 HOH HOH . 
S 9 HOH A 41 538 538 HOH HOH . 
S 9 HOH A 42 646 646 HOH HOH . 
S 9 HOH A 43 587 587 HOH HOH . 
S 9 HOH A 44 553 553 HOH HOH . 
S 9 HOH A 45 531 531 HOH HOH . 
S 9 HOH A 46 546 546 HOH HOH . 
S 9 HOH A 47 591 591 HOH HOH . 
S 9 HOH A 48 401 401 HOH HOH . 
S 9 HOH A 49 588 588 HOH HOH . 
S 9 HOH A 50 439 539 HOH HOH . 
S 9 HOH A 51 641 641 HOH HOH . 
S 9 HOH A 52 627 627 HOH HOH . 
S 9 HOH A 53 544 544 HOH HOH . 
S 9 HOH A 54 522 522 HOH HOH . 
S 9 HOH A 55 549 549 HOH HOH . 
S 9 HOH A 56 599 599 HOH HOH . 
S 9 HOH A 57 645 645 HOH HOH . 
S 9 HOH A 58 568 568 HOH HOH . 
S 9 HOH A 59 590 590 HOH HOH . 
S 9 HOH A 60 586 586 HOH HOH . 
S 9 HOH A 61 633 633 HOH HOH . 
S 9 HOH A 62 625 625 HOH HOH . 
S 9 HOH A 63 589 589 HOH HOH . 
S 9 HOH A 64 561 561 HOH HOH . 
S 9 HOH A 65 598 598 HOH HOH . 
S 9 HOH A 66 602 602 HOH HOH . 
S 9 HOH A 67 523 523 HOH HOH . 
S 9 HOH A 68 636 636 HOH HOH . 
S 9 HOH A 69 534 534 HOH HOH . 
S 9 HOH A 70 583 583 HOH HOH . 
S 9 HOH A 71 566 566 HOH HOH . 
S 9 HOH A 72 558 558 HOH HOH . 
S 9 HOH A 73 513 513 HOH HOH . 
S 9 HOH A 74 576 576 HOH HOH . 
S 9 HOH A 75 575 575 HOH HOH . 
S 9 HOH A 76 560 560 HOH HOH . 
S 9 HOH A 77 532 532 HOH HOH . 
S 9 HOH A 78 638 638 HOH HOH . 
S 9 HOH A 79 639 639 HOH HOH . 
S 9 HOH A 80 541 541 HOH HOH . 
S 9 HOH A 81 548 548 HOH HOH . 
S 9 HOH A 82 644 644 HOH HOH . 
S 9 HOH A 83 629 629 HOH HOH . 
S 9 HOH A 84 552 552 HOH HOH . 
S 9 HOH A 85 530 530 HOH HOH . 
S 9 HOH A 86 520 520 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 C C1 DD9 . . . J 5 13.179 11.227 -23.821 1 45.32 ? C1 DD9 310 A 1 
HETATM 2 C C2 DD9 . . . J 5 13.753 10.226 -22.845 1 44.94 ? C2 DD9 310 A 1 
HETATM 3 C C3 DD9 . . . J 5 12.996 10.158 -21.544 1 43.44 ? C3 DD9 310 A 1 
HETATM 4 C C4 DD9 . . . J 5 13.731 9.526 -20.385 1 39.12 ? C4 DD9 310 A 1 
HETATM 5 C C5 DD9 . . . J 5 14.832 10.38 -19.799 1 44.19 ? C5 DD9 310 A 1 
HETATM 6 C C6 DD9 . . . J 5 15.46 9.819 -18.541 1 44.97 ? C6 DD9 310 A 1 
HETATM 7 C C7 DD9 . . . J 5 15.839 10.861 -17.511 1 45.97 ? C7 DD9 310 A 1 
HETATM 8 C C8 DD9 . . . J 5 16.866 10.409 -16.497 1 47.42 ? C8 DD9 310 A 1 
HETATM 9 C C9 DD9 . . . J 5 16.296 10.087 -15.135 1 45.86 ? C9 DD9 310 A 1 
HETATM 10 H H1 DD9 . . . J 5 13.585 11.098 -24.696 1 44.95 ? H1 DD9 310 A 1 
HETATM 11 H H1A DD9 . . . J 5 13.364 12.129 -23.509 1 44.81 ? H1A DD9 310 A 1 
HETATM 12 H H1B DD9 . . . J 5 12.217 11.099 -23.89 1 41.84 ? H1B DD9 310 A 1 
HETATM 13 H H2 DD9 . . . J 5 14.687 10.464 -22.657 1 45.11 ? H2 DD9 310 A 1 
HETATM 14 H H2A DD9 . . . J 5 13.749 9.336 -23.26 1 44.64 ? H2A DD9 310 A 1 
HETATM 15 H H3 DD9 . . . J 5 12.169 9.653 -21.696 1 42.96 ? H3 DD9 310 A 1 
HETATM 16 H H3A DD9 . . . J 5 12.741 11.069 -21.288 1 43.3 ? H3A DD9 310 A 1 
HETATM 17 H H4 DD9 . . . J 5 14.118 8.677 -20.685 1 37.01 ? H4 DD9 310 A 1 
HETATM 18 H H4A DD9 . . . J 5 13.083 9.322 -19.678 1 40 ? H4A DD9 310 A 1 
HETATM 19 H H5 DD9 . . . J 5 14.467 11.268 -19.598 1 44.06 ? H5 DD9 310 A 1 
HETATM 20 H H5A DD9 . . . J 5 15.534 10.494 -20.474 1 43.66 ? H5A DD9 310 A 1 
HETATM 21 H H6 DD9 . . . J 5 16.264 9.316 -18.791 1 45.18 ? H6 DD9 310 A 1 
HETATM 22 H H6A DD9 . . . J 5 14.832 9.187 -18.13 1 44.68 ? H6A DD9 310 A 1 
HETATM 23 H H7 DD9 . . . J 5 15.028 11.137 -17.033 1 43.97 ? H7 DD9 310 A 1 
HETATM 24 H H7A DD9 . . . J 5 16.189 11.649 -17.978 1 46 ? H7A DD9 310 A 1 
HETATM 25 H H8 DD9 . . . J 5 17.539 11.118 -16.397 1 47.29 ? H8 DD9 310 A 1 
HETATM 26 H H8A DD9 . . . J 5 17.324 9.613 -16.843 1 47.44 ? H8A DD9 310 A 1 
HETATM 27 H H9 DD9 . . . J 5 15.683 9.335 -15.208 1 45.76 ? H9 DD9 310 A 1 
HETATM 28 H H9A DD9 . . . J 5 15.817 10.861 -14.791 1 45.96 ? H9A DD9 310 A 1 
HETATM 29 H H9B DD9 . . . J 5 17.019 9.857 -14.525 1 46.39 ? H9B DD9 310 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           29 
#