data_3L75
#
_model_server_result.job_id            PjjfRCkDhWGx9vsn7Tt_Xg 
_model_server_result.datetime_utc      '2024-11-27 13:24:12' 
_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          3l75 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Y","auth_seq_id":2001}' 
#
_entry.id    3L75 
#
_exptl.entry_id    3L75 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              311.401 
_entity.id                          14 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (5S)-5-methyl-2-(methylsulfanyl)-5-phenyl-3-(phenylamino)-3,5-dihydro-4H-imidazol-4-one 
_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         90 
_cell.entry_id            3L75 
_cell.length_a            172.285 
_cell.length_b            182.141 
_cell.length_c            241.198 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3L75 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    eicosameric 
_pdbx_struct_assembly.oligomeric_count      20 
_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,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB 
_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
? 14 Y N N 
? 14 SA 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
disulf ? disulf1 E SG CYS 144 E CYS 144 1_555 E SG CYS 160 E CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 H SG CYS 23 H CYS 24 1_555 H SG CYS 67 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf3 H SG CYS 39 H CYS 40 1_555 H SG CYS 53 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? 
disulf ? disulf4 O SG CYS 144 R CYS 144 1_555 O SG CYS 160 R CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? 
disulf ? disulf5 R SG CYS 23 U CYS 24 1_555 R SG CYS 67 U CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
disulf ? disulf6 R SG CYS 39 U CYS 40 1_555 R SG CYS 53 U CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc1 C NE2 HIS 84 C HIS 84 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? 
metalc ? metalc2 C NE2 HIS 98 C HIS 98 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? 
metalc ? metalc3 C NE2 HIS 183 C HIS 183 1_555 W FE HEM . C HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? 
metalc ? metalc4 C NE2 HIS 197 C HIS 197 1_555 X FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 HA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? 
metalc ? metalc6 D SD MET 160 D MET 160 1_555 HA FE HEC . D HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? 
metalc ? metalc7 E SG CYS 139 E CYS 139 1_555 MA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? 
metalc ? metalc8 E ND1 HIS 141 E HIS 141 1_555 MA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? 
metalc ? metalc9 E SG CYS 158 E CYS 158 1_555 MA FE1 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? 
metalc ? metalc10 E ND1 HIS 161 E HIS 161 1_555 MA FE2 FES . E FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? 
metalc ? metalc11 M NE2 HIS 84 P HIS 84 1_555 PA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? 
metalc ? metalc12 M NE2 HIS 98 P HIS 98 1_555 QA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc13 M NE2 HIS 183 P HIS 183 1_555 PA FE HEM . P HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc14 M NE2 HIS 197 P HIS 197 1_555 QA FE HEM . P HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc15 N NE2 HIS 41 Q HIS 41 1_555 CB FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc16 N SD MET 160 Q MET 160 1_555 CB FE HEC . Q HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? 
metalc ? metalc17 O SG CYS 139 R CYS 139 1_555 GB FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
metalc ? metalc18 O ND1 HIS 141 R HIS 141 1_555 GB FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc19 O SG CYS 158 R CYS 158 1_555 GB FE1 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? 
metalc ? metalc20 O ND1 HIS 161 R HIS 161 1_555 GB FE2 FES . R FES 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? 
#
_chem_comp.formula           'C17 H17 N3 O S' 
_chem_comp.formula_weight    311.401 
_chem_comp.id                FNM 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (5S)-5-methyl-2-(methylsulfanyl)-5-phenyl-3-(phenylamino)-3,5-dihydro-4H-imidazol-4-one 
_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 N2 FNM sing 392 n n 
N1 C21 FNM sing 393 n n 
N2 C3 FNM sing 394 n n 
N2 C6 FNM sing 395 n n 
C3 S3 FNM sing 396 n n 
C3 N4 FNM doub 397 n n 
S3 C27 FNM sing 398 n n 
N4 C5 FNM sing 399 n n 
C5 C6 FNM sing 400 n n 
C5 C7 FNM sing 401 n n 
C5 C8 FNM sing 402 n n 
C6 O6 FNM doub 403 n n 
C8 C9 FNM doub 404 n y 
C8 C13 FNM sing 405 n y 
C9 C10 FNM sing 406 n y 
C10 C11 FNM doub 407 n y 
C11 C12 FNM sing 408 n y 
C12 C13 FNM doub 409 n y 
C21 C22 FNM doub 410 n y 
C21 C26 FNM sing 411 n y 
C22 C23 FNM sing 412 n y 
C23 C24 FNM doub 413 n y 
C24 C25 FNM sing 414 n y 
C25 C26 FNM doub 415 n y 
N1 HN1 FNM sing 416 n n 
C7 H7 FNM sing 417 n n 
C7 H7A FNM sing 418 n n 
C7 H7B FNM sing 419 n n 
C9 H9 FNM sing 420 n n 
C10 H10 FNM sing 421 n n 
C11 H11 FNM sing 422 n n 
C12 H12 FNM sing 423 n n 
C13 H13 FNM sing 424 n n 
C22 H22 FNM sing 425 n n 
C23 H23 FNM sing 426 n n 
C24 H24 FNM sing 427 n n 
C25 H25 FNM sing 428 n n 
C26 H26 FNM sing 429 n n 
C27 H27 FNM sing 430 n n 
C27 H27A FNM sing 431 n n 
C27 H27B FNM sing 432 n n 
#
_atom_sites.entry_id                     3L75 
_atom_sites.fract_transf_matrix[1][1]    0.005804 
_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]    0.00549 
_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]    0.004146 
_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
U 11 PEE A 1 2008 2008 PEE PEE . 
V 12 UNL A 1 3015 3015 UNL UNL . 
W 13 HEM C 1 501 501 HEM HEM . 
X 13 HEM C 1 502 502 HEM HEM . 
Y 14 FNM C 1 2001 2001 FNM FNM . 
Z 15 UQ C 1 2002 2002 UQ UQ . 
AA 11 PEE C 1 2005 2005 PEE PEE . 
BA 11 PEE C 1 2007 2007 PEE PEE . 
CA 16 AZI C 1 2011 2011 AZI AZI . 
DA 12 UNL C 1 2047 2047 UNL UNL . 
EA 12 UNL C 1 2046 2046 UNL UNL . 
FA 12 UNL C 1 2048 2048 UNL UNL . 
GA 17 BOG C 1 3010 3010 BOG BOG . 
HA 18 HEC D 1 501 501 HEC HEC . 
IA 19 CDL D 1 2003 2003 CDL CDL . 
JA 17 BOG D 1 2009 2009 BOG BOG . 
KA 17 BOG D 1 2091 2091 BOG BOG . 
LA 12 UNL D 1 2012 2012 UNL UNL . 
MA 20 FES E 1 501 501 FES FES . 
NA 19 CDL G 1 2004 2004 CDL CDL . 
OA 11 PEE N 1 3008 3008 PEE PEE . 
PA 13 HEM P 1 501 501 HEM HEM . 
QA 13 HEM P 1 502 502 HEM HEM . 
RA 17 BOG P 1 2010 2010 BOG BOG . 
SA 14 FNM P 1 3001 3001 FNM FNM . 
TA 15 UQ P 1 3002 3002 UQ UQ . 
UA 11 PEE P 1 3005 3005 PEE PEE . 
VA 11 PEE P 1 3007 3007 PEE PEE . 
WA 16 AZI P 1 3011 3011 AZI AZI . 
XA 12 UNL P 1 3013 3013 UNL UNL . 
YA 12 UNL P 1 3014 3014 UNL UNL . 
ZA 12 UNL P 1 3047 3047 UNL UNL . 
AB 12 UNL P 1 3046 3046 UNL UNL . 
BB 12 UNL P 1 3048 3048 UNL UNL . 
CB 18 HEC Q 1 501 501 HEC HEC . 
DB 19 CDL Q 1 3003 3003 CDL CDL . 
EB 17 BOG Q 1 3009 3009 BOG BOG . 
FB 17 BOG Q 1 3091 3091 BOG BOG . 
GB 20 FES R 1 501 501 FES FES . 
HB 12 UNL R 1 3012 3012 UNL UNL . 
IB 19 CDL T 1 3004 3004 CDL CDL . 
JB 21 HOH A 1 1231 1231 HOH HOH . 
JB 21 HOH A 2 1284 1284 HOH HOH . 
KB 21 HOH C 1 381 2 HOH HOH . 
KB 21 HOH C 2 382 45 HOH HOH . 
KB 21 HOH C 3 383 47 HOH HOH . 
KB 21 HOH C 4 384 108 HOH HOH . 
KB 21 HOH C 5 385 119 HOH HOH . 
KB 21 HOH C 6 386 168 HOH HOH . 
KB 21 HOH C 7 387 222 HOH HOH . 
KB 21 HOH C 8 1008 1008 HOH HOH . 
KB 21 HOH C 9 1288 1288 HOH HOH . 
LB 21 HOH E 1 197 5 HOH HOH . 
LB 21 HOH E 2 198 6 HOH HOH . 
LB 21 HOH E 3 1289 1289 HOH HOH . 
MB 21 HOH P 1 381 1 HOH HOH . 
MB 21 HOH P 2 382 28 HOH HOH . 
MB 21 HOH P 3 383 35 HOH HOH . 
MB 21 HOH P 4 384 55 HOH HOH . 
MB 21 HOH P 5 385 57 HOH HOH . 
MB 21 HOH P 6 386 109 HOH HOH . 
MB 21 HOH P 7 387 214 HOH HOH . 
MB 21 HOH P 8 959 959 HOH HOH . 
MB 21 HOH P 9 1285 1285 HOH HOH . 
MB 21 HOH P 10 1286 1286 HOH HOH . 
NB 21 HOH R 1 197 3 HOH HOH . 
NB 21 HOH R 2 198 4 HOH HOH . 
NB 21 HOH R 3 1230 1230 HOH HOH . 
NB 21 HOH R 4 1287 1287 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 FNM . . . Y 14 9.341 135.644 78.799 1 41.07 ? N1 FNM 2001 C 1 
HETATM 2 N N2 FNM . . . Y 14 10.491 134.883 79.085 1 42.86 ? N2 FNM 2001 C 1 
HETATM 3 C C3 FNM . . . Y 14 11.426 135.258 79.956 1 41.95 ? C3 FNM 2001 C 1 
HETATM 4 S S3 FNM . . . Y 14 11.318 136.745 80.834 1 40.44 ? S3 FNM 2001 C 1 
HETATM 5 N N4 FNM . . . Y 14 12.427 134.378 80.064 1 40.56 ? N4 FNM 2001 C 1 
HETATM 6 C C5 FNM . . . Y 14 12.135 133.27 79.14 1 40.45 ? C5 FNM 2001 C 1 
HETATM 7 C C6 FNM . . . Y 14 10.789 133.697 78.522 1 42.16 ? C6 FNM 2001 C 1 
HETATM 8 O O6 FNM . . . Y 14 10.122 133.115 77.698 1 44.33 ? O6 FNM 2001 C 1 
HETATM 9 C C7 FNM . . . Y 14 13.219 133.226 78.05 1 39.39 ? C7 FNM 2001 C 1 
HETATM 10 C C8 FNM . . . Y 14 12.024 131.945 79.901 1 39.75 ? C8 FNM 2001 C 1 
HETATM 11 C C9 FNM . . . Y 14 10.989 131.754 80.803 1 41.79 ? C9 FNM 2001 C 1 
HETATM 12 C C10 FNM . . . Y 14 10.861 130.561 81.5 1 40.51 ? C10 FNM 2001 C 1 
HETATM 13 C C11 FNM . . . Y 14 11.779 129.539 81.296 1 40.81 ? C11 FNM 2001 C 1 
HETATM 14 C C12 FNM . . . Y 14 12.824 129.714 80.395 1 39.69 ? C12 FNM 2001 C 1 
HETATM 15 C C13 FNM . . . Y 14 12.946 130.928 79.694 1 38.55 ? C13 FNM 2001 C 1 
HETATM 16 C C21 FNM . . . Y 14 8.109 135.447 79.44 1 39.29 ? C21 FNM 2001 C 1 
HETATM 17 C C22 FNM . . . Y 14 6.999 136.224 79.036 1 38.88 ? C22 FNM 2001 C 1 
HETATM 18 C C23 FNM . . . Y 14 5.749 136.039 79.649 1 38.45 ? C23 FNM 2001 C 1 
HETATM 19 C C24 FNM . . . Y 14 5.592 135.085 80.668 1 38.81 ? C24 FNM 2001 C 1 
HETATM 20 C C25 FNM . . . Y 14 6.693 134.309 81.08 1 40.48 ? C25 FNM 2001 C 1 
HETATM 21 C C26 FNM . . . Y 14 7.95 134.484 80.471 1 39.36 ? C26 FNM 2001 C 1 
HETATM 22 C C27 FNM . . . Y 14 12.752 136.977 81.851 1 39.99 ? C27 FNM 2001 C 1 
#
_model_server_stats.io_time_ms              75 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    47 
_model_server_stats.query_time_ms           251 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           22 
#