data_4NKW
#
_model_server_result.job_id            gdxtAafL6Oy6Da_5iZivuA 
_model_server_result.datetime_utc      '2024-10-12 04:22:36' 
_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          4nkw 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":601}' 
#
_entry.id    4NKW 
#
_exptl.entry_id    4NKW 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              316.478 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (3BETA)-3-HYDROXYPREGN-5-EN-20-ONE 
_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            4NKW 
_cell.length_a            86.066 
_cell.length_b            152.627 
_cell.length_c            173.761 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NKW 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 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
? 3 F N N 
? 3 H N N 
? 3 J N N 
? 3 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
metalc ? metalc1 A SG CYS 424 A CYS 442 1_555 E FE HEM . A HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? 
metalc ? metalc2 B SG CYS 424 B CYS 442 1_555 G FE HEM . B HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? 
metalc ? metalc3 C SG CYS 424 C CYS 442 1_555 I FE HEM . C HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? 
metalc ? metalc4 D SG CYS 424 D CYS 442 1_555 K FE HEM . D HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? 
#
_chem_comp.formula           'C21 H32 O2' 
_chem_comp.formula_weight    316.478 
_chem_comp.id                PLO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (3BETA)-3-HYDROXYPREGN-5-EN-20-ONE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     PREGNENOLONE 
#
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
C1 C2 PLO sing 342 n n 
C1 C10 PLO sing 343 n n 
C1 H11 PLO sing 344 n n 
C1 H12 PLO sing 345 n n 
C2 C3 PLO sing 346 n n 
C2 H21 PLO sing 347 n n 
C2 H22 PLO sing 348 n n 
C3 O3 PLO sing 349 n n 
C3 C4 PLO sing 350 n n 
C3 H3 PLO sing 351 n n 
O3 HO3 PLO sing 352 n n 
C4 C5 PLO sing 353 n n 
C4 H41 PLO sing 354 n n 
C4 H42 PLO sing 355 n n 
C5 C6 PLO doub 356 n n 
C5 C10 PLO sing 357 n n 
C6 C7 PLO sing 358 n n 
C6 H6 PLO sing 359 n n 
C7 C8 PLO sing 360 n n 
C7 H71 PLO sing 361 n n 
C7 H72 PLO sing 362 n n 
C8 C9 PLO sing 363 n n 
C8 C14 PLO sing 364 n n 
C8 H8 PLO sing 365 n n 
C9 C10 PLO sing 366 n n 
C9 C11 PLO sing 367 n n 
C9 H9 PLO sing 368 n n 
C10 C19 PLO sing 369 n n 
C11 C12 PLO sing 370 n n 
C11 H111 PLO sing 371 n n 
C11 H112 PLO sing 372 n n 
C12 C13 PLO sing 373 n n 
C12 H121 PLO sing 374 n n 
C12 H122 PLO sing 375 n n 
C13 C14 PLO sing 376 n n 
C13 C17 PLO sing 377 n n 
C13 C18 PLO sing 378 n n 
C14 C15 PLO sing 379 n n 
C14 H14 PLO sing 380 n n 
C15 C16 PLO sing 381 n n 
C15 H151 PLO sing 382 n n 
C15 H152 PLO sing 383 n n 
C16 C17 PLO sing 384 n n 
C16 H161 PLO sing 385 n n 
C16 H162 PLO sing 386 n n 
C17 C20 PLO sing 387 n n 
C17 H17 PLO sing 388 n n 
C18 H181 PLO sing 389 n n 
C18 H182 PLO sing 390 n n 
C18 H183 PLO sing 391 n n 
C19 H191 PLO sing 392 n n 
C19 H192 PLO sing 393 n n 
C19 H193 PLO sing 394 n n 
C20 C21 PLO sing 395 n n 
C20 O20 PLO doub 396 n n 
C21 H211 PLO sing 397 n n 
C21 H212 PLO sing 398 n n 
C21 H213 PLO sing 399 n n 
#
_atom_sites.entry_id                     4NKW 
_atom_sites.fract_transf_matrix[1][1]    0.011619 
_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]    0.006552 
_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]    0.005755 
_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
E 2 HEM A 1 600 600 HEM HEM . 
F 3 PLO A 1 601 601 PLO PLO . 
G 2 HEM B 1 600 600 HEM HEM . 
H 3 PLO B 1 601 601 PLO PLO . 
I 2 HEM C 1 600 600 HEM HEM . 
J 3 PLO C 1 601 601 PLO PLO . 
K 2 HEM D 1 600 600 HEM HEM . 
L 3 PLO D 1 601 601 PLO PLO . 
M 4 HOH A 1 701 1 HOH HOH . 
M 4 HOH A 2 702 3 HOH HOH . 
M 4 HOH A 3 703 4 HOH HOH . 
M 4 HOH A 4 704 5 HOH HOH . 
M 4 HOH A 5 705 6 HOH HOH . 
M 4 HOH A 6 706 7 HOH HOH . 
M 4 HOH A 7 707 24 HOH HOH . 
M 4 HOH A 8 708 27 HOH HOH . 
M 4 HOH A 9 709 28 HOH HOH . 
M 4 HOH A 10 710 30 HOH HOH . 
M 4 HOH A 11 711 31 HOH HOH . 
M 4 HOH A 12 712 32 HOH HOH . 
M 4 HOH A 13 713 33 HOH HOH . 
M 4 HOH A 14 714 36 HOH HOH . 
M 4 HOH A 15 715 40 HOH HOH . 
M 4 HOH A 16 716 41 HOH HOH . 
M 4 HOH A 17 717 48 HOH HOH . 
M 4 HOH A 18 718 52 HOH HOH . 
M 4 HOH A 19 719 53 HOH HOH . 
M 4 HOH A 20 720 54 HOH HOH . 
M 4 HOH A 21 721 60 HOH HOH . 
M 4 HOH A 22 722 61 HOH HOH . 
M 4 HOH A 23 723 62 HOH HOH . 
M 4 HOH A 24 724 63 HOH HOH . 
M 4 HOH A 25 725 64 HOH HOH . 
M 4 HOH A 26 726 65 HOH HOH . 
M 4 HOH A 27 727 77 HOH HOH . 
M 4 HOH A 28 728 86 HOH HOH . 
M 4 HOH A 29 729 88 HOH HOH . 
N 4 HOH B 1 701 8 HOH HOH . 
N 4 HOH B 2 702 9 HOH HOH . 
N 4 HOH B 3 703 10 HOH HOH . 
N 4 HOH B 4 704 20 HOH HOH . 
N 4 HOH B 5 705 21 HOH HOH . 
N 4 HOH B 6 706 26 HOH HOH . 
N 4 HOH B 7 707 29 HOH HOH . 
N 4 HOH B 8 708 35 HOH HOH . 
N 4 HOH B 9 709 38 HOH HOH . 
N 4 HOH B 10 710 42 HOH HOH . 
N 4 HOH B 11 711 51 HOH HOH . 
N 4 HOH B 12 712 58 HOH HOH . 
N 4 HOH B 13 713 67 HOH HOH . 
N 4 HOH B 14 714 81 HOH HOH . 
N 4 HOH B 15 715 82 HOH HOH . 
N 4 HOH B 16 716 83 HOH HOH . 
N 4 HOH B 17 717 89 HOH HOH . 
N 4 HOH B 18 718 90 HOH HOH . 
N 4 HOH B 19 719 92 HOH HOH . 
N 4 HOH B 20 720 93 HOH HOH . 
O 4 HOH C 1 701 11 HOH HOH . 
O 4 HOH C 2 702 12 HOH HOH . 
O 4 HOH C 3 703 13 HOH HOH . 
O 4 HOH C 4 704 19 HOH HOH . 
O 4 HOH C 5 705 22 HOH HOH . 
O 4 HOH C 6 706 25 HOH HOH . 
O 4 HOH C 7 707 43 HOH HOH . 
O 4 HOH C 8 708 44 HOH HOH . 
O 4 HOH C 9 709 50 HOH HOH . 
O 4 HOH C 10 710 56 HOH HOH . 
O 4 HOH C 11 711 68 HOH HOH . 
O 4 HOH C 12 712 69 HOH HOH . 
O 4 HOH C 13 713 70 HOH HOH . 
O 4 HOH C 14 714 71 HOH HOH . 
O 4 HOH C 15 715 72 HOH HOH . 
O 4 HOH C 16 716 79 HOH HOH . 
O 4 HOH C 17 717 94 HOH HOH . 
P 4 HOH D 1 701 14 HOH HOH . 
P 4 HOH D 2 702 15 HOH HOH . 
P 4 HOH D 3 703 16 HOH HOH . 
P 4 HOH D 4 704 17 HOH HOH . 
P 4 HOH D 5 705 18 HOH HOH . 
P 4 HOH D 6 706 23 HOH HOH . 
P 4 HOH D 7 707 34 HOH HOH . 
P 4 HOH D 8 708 45 HOH HOH . 
P 4 HOH D 9 709 46 HOH HOH . 
P 4 HOH D 10 710 47 HOH HOH . 
P 4 HOH D 11 711 49 HOH HOH . 
P 4 HOH D 12 712 55 HOH HOH . 
P 4 HOH D 13 713 57 HOH HOH . 
P 4 HOH D 14 714 73 HOH HOH . 
P 4 HOH D 15 715 74 HOH HOH . 
P 4 HOH D 16 716 75 HOH HOH . 
P 4 HOH D 17 717 76 HOH HOH . 
P 4 HOH D 18 718 80 HOH HOH . 
P 4 HOH D 19 719 84 HOH HOH . 
P 4 HOH D 20 720 85 HOH HOH . 
P 4 HOH D 21 721 91 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 PLO . . . H 3 15.276 -0.168 53.378 1 44.78 ? C1 PLO 601 B 1 
HETATM 2 C C2 PLO . . . H 3 14.999 1.183 53.947 1 47.67 ? C2 PLO 601 B 1 
HETATM 3 C C3 PLO . . . H 3 13.796 1.158 54.826 1 47.91 ? C3 PLO 601 B 1 
HETATM 4 O O3 PLO . . . H 3 13.488 2.461 55.224 1 61.57 ? O3 PLO 601 B 1 
HETATM 5 C C4 PLO . . . H 3 14.03 0.333 56.127 1 47.01 ? C4 PLO 601 B 1 
HETATM 6 C C5 PLO . . . H 3 14.453 -1.075 55.516 1 52.95 ? C5 PLO 601 B 1 
HETATM 7 C C6 PLO . . . H 3 13.866 -2.226 56.031 1 51.54 ? C6 PLO 601 B 1 
HETATM 8 C C7 PLO . . . H 3 14.147 -3.589 55.574 1 49.48 ? C7 PLO 601 B 1 
HETATM 9 C C8 PLO . . . H 3 15.377 -3.65 54.775 1 46.73 ? C8 PLO 601 B 1 
HETATM 10 C C9 PLO . . . H 3 15.513 -2.563 53.753 1 55.09 ? C9 PLO 601 B 1 
HETATM 11 C C10 PLO . . . H 3 15.55 -1.138 54.391 1 50.83 ? C10 PLO 601 B 1 
HETATM 12 C C11 PLO . . . H 3 16.759 -2.828 52.966 1 51.85 ? C11 PLO 601 B 1 
HETATM 13 C C12 PLO . . . H 3 16.647 -4.093 52.127 1 51.45 ? C12 PLO 601 B 1 
HETATM 14 C C13 PLO . . . H 3 16.496 -5.255 53.078 1 52.11 ? C13 PLO 601 B 1 
HETATM 15 C C14 PLO . . . H 3 15.295 -4.981 53.912 1 43.87 ? C14 PLO 601 B 1 
HETATM 16 C C15 PLO . . . H 3 15.152 -6.231 54.697 1 55.99 ? C15 PLO 601 B 1 
HETATM 17 C C16 PLO . . . H 3 15.504 -7.303 53.587 1 46.25 ? C16 PLO 601 B 1 
HETATM 18 C C17 PLO . . . H 3 16.091 -6.534 52.371 1 50.82 ? C17 PLO 601 B 1 
HETATM 19 C C18 PLO . . . H 3 17.796 -5.488 53.902 1 47.92 ? C18 PLO 601 B 1 
HETATM 20 C C19 PLO . . . H 3 16.9 -0.873 55.086 1 54.45 ? C19 PLO 601 B 1 
HETATM 21 C C20 PLO . . . H 3 17.177 -7.301 51.608 1 51.39 ? C20 PLO 601 B 1 
HETATM 22 C C21 PLO . . . H 3 17.539 -6.965 50.16 1 60.09 ? C21 PLO 601 B 1 
HETATM 23 O O20 PLO . . . H 3 17.768 -8.207 52.137 1 59.89 ? O20 PLO 601 B 1 
HETATM 24 H H11 PLO . . . H 3 14.492 -0.462 52.876 1 53.74 ? H11 PLO 601 B 1 
HETATM 25 H H12 PLO . . . H 3 16.041 -0.111 52.774 1 53.74 ? H12 PLO 601 B 1 
HETATM 26 H H21 PLO . . . H 3 15.767 1.467 54.479 1 57.2 ? H21 PLO 601 B 1 
HETATM 27 H H22 PLO . . . H 3 14.857 1.818 53.219 1 57.2 ? H22 PLO 601 B 1 
HETATM 28 H H3 PLO . . . H 3 13.042 0.781 54.334 1 57.49 ? H3 PLO 601 B 1 
HETATM 29 H HO3 PLO . . . H 3 12.869 2.797 54.683 1 73.88 ? HO3 PLO 601 B 1 
HETATM 30 H H41 PLO . . . H 3 13.263 0.218 56.719 1 56.41 ? H41 PLO 601 B 1 
HETATM 31 H H42 PLO . . . H 3 14.8 0.747 56.562 1 56.41 ? H42 PLO 601 B 1 
HETATM 32 H H6 PLO . . . H 3 13.196 -2.115 56.732 1 61.85 ? H6 PLO 601 B 1 
HETATM 33 H H71 PLO . . . H 3 13.368 -3.961 55.119 1 59.38 ? H71 PLO 601 B 1 
HETATM 34 H H72 PLO . . . H 3 14.214 -4.208 56.326 1 59.38 ? H72 PLO 601 B 1 
HETATM 35 H H8 PLO . . . H 3 16.161 -3.67 55.356 1 56.08 ? H8 PLO 601 B 1 
HETATM 36 H H9 PLO . . . H 3 14.748 -2.611 53.147 1 66.11 ? H9 PLO 601 B 1 
HETATM 37 H H111 PLO . . . H 3 16.934 -2.068 52.38 1 62.22 ? H111 PLO 601 B 1 
HETATM 38 H H112 PLO . . . H 3 17.501 -2.931 53.592 1 62.22 ? H112 PLO 601 B 1 
HETATM 39 H H121 PLO . . . H 3 17.449 -4.208 51.584 1 61.74 ? H121 PLO 601 B 1 
HETATM 40 H H122 PLO . . . H 3 15.857 -4.041 51.555 1 61.74 ? H122 PLO 601 B 1 
HETATM 41 H H14 PLO . . . H 3 14.524 -4.906 53.319 1 52.64 ? H14 PLO 601 B 1 
HETATM 42 H H151 PLO . . . H 3 14.237 -6.348 55.018 1 67.19 ? H151 PLO 601 B 1 
HETATM 43 H H152 PLO . . . H 3 15.788 -6.268 55.436 1 67.19 ? H152 PLO 601 B 1 
HETATM 44 H H161 PLO . . . H 3 16.162 -7.934 53.935 1 55.5 ? H161 PLO 601 B 1 
HETATM 45 H H162 PLO . . . H 3 14.698 -7.787 53.326 1 55.5 ? H162 PLO 601 B 1 
HETATM 46 H H17 PLO . . . H 3 15.426 -6.379 51.673 1 60.99 ? H17 PLO 601 B 1 
HETATM 47 H H181 PLO . . . H 3 17.886 -6.438 54.106 1 57.5 ? H181 PLO 601 B 1 
HETATM 48 H H182 PLO . . . H 3 17.75 -4.979 54.734 1 57.5 ? H182 PLO 601 B 1 
HETATM 49 H H183 PLO . . . H 3 18.568 -5.192 53.382 1 57.5 ? H183 PLO 601 B 1 
HETATM 50 H H191 PLO . . . H 3 17.56 -0.599 54.421 1 65.34 ? H191 PLO 601 B 1 
HETATM 51 H H192 PLO . . . H 3 16.792 -0.164 55.748 1 65.34 ? H192 PLO 601 B 1 
HETATM 52 H H193 PLO . . . H 3 17.204 -1.688 55.529 1 65.34 ? H193 PLO 601 B 1 
HETATM 53 H H211 PLO . . . H 3 17.791 -6.024 50.097 1 72.11 ? H211 PLO 601 B 1 
HETATM 54 H H212 PLO . . . H 3 18.288 -7.522 49.874 1 72.11 ? H212 PLO 601 B 1 
HETATM 55 H H213 PLO . . . H 3 16.769 -7.135 49.584 1 72.11 ? H213 PLO 601 B 1 
#
_model_server_stats.io_time_ms              133 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           55 
#