data_4R7C
#
_model_server_result.job_id            oi7gzOje0ngG6bVOxejhmg 
_model_server_result.datetime_utc      '2025-07-13 01:17:34' 
_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          4r7c 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":209}' 
#
_entry.id    4R7C 
#
_exptl.entry_id    4R7C 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_entity.pdbx_number_of_molecules    9 
_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            4R7C 
_cell.length_a            89.891 
_cell.length_b            67.68 
_cell.length_c            67.621 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4R7C 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        17 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 2 2 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
PISA tetrameric 4 author_and_software_defined_assembly 1 
PISA tetrameric 4 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,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,PB,QB 1 1,2 
C,D,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,RB,SB 2 1,3 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 4_556 x,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 67.621 
3 'crystal symmetry operation' 4_567 x,-y+1,-z+2 1 0 0 0 -1 0 0 0 -1 0 67.68 135.242 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 L N N 
? 3 M N N 
? 3 N N N 
? 3 AA N N 
? 3 BA N N 
? 3 CA N N 
? 3 DA N N 
? 3 BB N N 
? 3 CB N N 
#
_chem_comp.formula           'C6 H14 O2' 
_chem_comp.formula_weight    118.174 
_chem_comp.id                MPD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (4S)-2-METHYL-2,4-PENTANEDIOL 
_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
C1 C2 MPD sing 233 n n 
C1 H11 MPD sing 234 n n 
C1 H12 MPD sing 235 n n 
C1 H13 MPD sing 236 n n 
C2 O2 MPD sing 237 n n 
C2 CM MPD sing 238 n n 
C2 C3 MPD sing 239 n n 
O2 HO2 MPD sing 240 n n 
CM HM1 MPD sing 241 n n 
CM HM2 MPD sing 242 n n 
CM HM3 MPD sing 243 n n 
C3 C4 MPD sing 244 n n 
C3 H31 MPD sing 245 n n 
C3 H32 MPD sing 246 n n 
C4 O4 MPD sing 247 n n 
C4 C5 MPD sing 248 n n 
C4 H4 MPD sing 249 n n 
O4 HO4 MPD sing 250 n n 
C5 H51 MPD sing 251 n n 
C5 H52 MPD sing 252 n n 
C5 H53 MPD sing 253 n n 
#
_atom_sites.entry_id                     4R7C 
_atom_sites.fract_transf_matrix[1][1]    0.011125 
_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]    0.014775 
_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]    0.014788 
_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 GLY A 1 201 11 GLY GLY . 
F 2 GLY A 1 202 12 GLY GLY . 
G 2 GLY A 1 203 17 GLY GLY . 
H 2 GLY A 1 204 21 GLY GLY . 
I 2 GLY A 1 205 24 GLY GLY . 
J 2 GLY A 1 206 26 GLY GLY . 
K 2 GLY A 1 207 29 GLY GLY . 
L 3 MPD A 1 208 5 MPD MPD . 
M 3 MPD A 1 209 7 MPD MPD . 
N 3 MPD A 1 210 8 MPD MPD . 
O 4 DMN A 1 211 3 DMN DMN . 
P 4 DMN A 1 212 8 DMN DMN . 
Q 4 DMN B 1 201 2 DMN DMN . 
R 2 GLY B 1 202 2 GLY GLY . 
S 2 GLY B 1 203 7 GLY GLY . 
T 2 GLY B 1 204 8 GLY GLY . 
U 2 GLY B 1 205 10 GLY GLY . 
V 2 GLY B 1 206 14 GLY GLY . 
W 2 GLY B 1 207 16 GLY GLY . 
X 2 GLY B 1 208 22 GLY GLY . 
Y 2 GLY B 1 209 23 GLY GLY . 
Z 2 GLY B 1 210 28 GLY GLY . 
AA 3 MPD B 1 211 1 MPD MPD . 
BA 3 MPD B 1 212 2 MPD MPD . 
CA 3 MPD B 1 213 4 MPD MPD . 
DA 3 MPD B 1 214 10 MPD MPD . 
EA 4 DMN B 1 215 1 DMN DMN . 
FA 4 DMN B 1 216 2 DMN DMN . 
GA 4 DMN B 1 217 4 DMN DMN . 
HA 4 DMN B 1 218 6 DMN DMN . 
IA 4 DMN B 1 219 7 DMN DMN . 
JA 4 DMN B 1 220 11 DMN DMN . 
KA 4 DMN B 1 221 12 DMN DMN . 
LA 4 DMN B 1 222 14 DMN DMN . 
MA 4 DMN B 1 223 15 DMN DMN . 
NA 4 DMN B 1 224 18 DMN DMN . 
OA 4 DMN B 1 225 20 DMN DMN . 
PA 4 DMN B 1 226 21 DMN DMN . 
QA 4 DMN B 1 227 23 DMN DMN . 
RA 4 DMN C 1 201 1 DMN DMN . 
SA 2 GLY C 1 202 1 GLY GLY . 
TA 2 GLY C 1 203 3 GLY GLY . 
UA 2 GLY C 1 204 4 GLY GLY . 
VA 2 GLY C 1 205 5 GLY GLY . 
WA 2 GLY C 1 206 6 GLY GLY . 
XA 2 GLY C 1 207 9 GLY GLY . 
YA 2 GLY C 1 208 13 GLY GLY . 
ZA 2 GLY C 1 209 20 GLY GLY . 
AB 2 GLY C 1 210 27 GLY GLY . 
BB 3 MPD C 1 211 6 MPD MPD . 
CB 3 MPD C 1 212 9 MPD MPD . 
DB 4 DMN C 1 213 5 DMN DMN . 
EB 4 DMN C 1 214 10 DMN DMN . 
FB 4 DMN C 1 215 16 DMN DMN . 
GB 4 DMN C 1 216 17 DMN DMN . 
HB 2 GLY D 1 201 15 GLY GLY . 
IB 2 GLY D 1 202 18 GLY GLY . 
JB 2 GLY D 1 203 19 GLY GLY . 
KB 2 GLY D 1 204 25 GLY GLY . 
LB 4 DMN D 1 205 9 DMN DMN . 
MB 4 DMN D 1 206 13 DMN DMN . 
NB 4 DMN D 1 207 19 DMN DMN . 
OB 4 DMN D 1 208 22 DMN DMN . 
PB 5 HOH A 1 301 5 HOH HOH . 
PB 5 HOH A 2 302 9 HOH HOH . 
PB 5 HOH A 3 303 18 HOH HOH . 
PB 5 HOH A 4 304 22 HOH HOH . 
PB 5 HOH A 5 305 44 HOH HOH . 
PB 5 HOH A 6 306 47 HOH HOH . 
PB 5 HOH A 7 307 48 HOH HOH . 
PB 5 HOH A 8 308 51 HOH HOH . 
PB 5 HOH A 9 309 55 HOH HOH . 
PB 5 HOH A 10 310 57 HOH HOH . 
PB 5 HOH A 11 311 58 HOH HOH . 
PB 5 HOH A 12 312 67 HOH HOH . 
PB 5 HOH A 13 313 71 HOH HOH . 
PB 5 HOH A 14 314 72 HOH HOH . 
PB 5 HOH A 15 315 75 HOH HOH . 
PB 5 HOH A 16 316 78 HOH HOH . 
PB 5 HOH A 17 317 80 HOH HOH . 
QB 5 HOH B 1 301 6 HOH HOH . 
QB 5 HOH B 2 302 10 HOH HOH . 
QB 5 HOH B 3 303 14 HOH HOH . 
QB 5 HOH B 4 304 17 HOH HOH . 
QB 5 HOH B 5 305 23 HOH HOH . 
QB 5 HOH B 6 306 24 HOH HOH . 
QB 5 HOH B 7 307 30 HOH HOH . 
QB 5 HOH B 8 308 41 HOH HOH . 
QB 5 HOH B 9 309 43 HOH HOH . 
QB 5 HOH B 10 310 50 HOH HOH . 
QB 5 HOH B 11 311 53 HOH HOH . 
QB 5 HOH B 12 312 56 HOH HOH . 
QB 5 HOH B 13 313 66 HOH HOH . 
QB 5 HOH B 14 314 74 HOH HOH . 
QB 5 HOH B 15 315 76 HOH HOH . 
QB 5 HOH B 16 316 79 HOH HOH . 
QB 5 HOH B 17 317 81 HOH HOH . 
QB 5 HOH B 18 318 84 HOH HOH . 
RB 5 HOH C 1 301 1 HOH HOH . 
RB 5 HOH C 2 302 2 HOH HOH . 
RB 5 HOH C 3 303 3 HOH HOH . 
RB 5 HOH C 4 304 7 HOH HOH . 
RB 5 HOH C 5 305 12 HOH HOH . 
RB 5 HOH C 6 306 19 HOH HOH . 
RB 5 HOH C 7 307 20 HOH HOH . 
RB 5 HOH C 8 308 21 HOH HOH . 
RB 5 HOH C 9 309 25 HOH HOH . 
RB 5 HOH C 10 310 26 HOH HOH . 
RB 5 HOH C 11 311 27 HOH HOH . 
RB 5 HOH C 12 312 28 HOH HOH . 
RB 5 HOH C 13 313 32 HOH HOH . 
RB 5 HOH C 14 314 34 HOH HOH . 
RB 5 HOH C 15 315 35 HOH HOH . 
RB 5 HOH C 16 316 36 HOH HOH . 
RB 5 HOH C 17 317 37 HOH HOH . 
RB 5 HOH C 18 318 45 HOH HOH . 
RB 5 HOH C 19 319 59 HOH HOH . 
RB 5 HOH C 20 320 60 HOH HOH . 
RB 5 HOH C 21 321 61 HOH HOH . 
RB 5 HOH C 22 322 63 HOH HOH . 
RB 5 HOH C 23 323 64 HOH HOH . 
RB 5 HOH C 24 324 65 HOH HOH . 
RB 5 HOH C 25 325 69 HOH HOH . 
RB 5 HOH C 26 326 70 HOH HOH . 
SB 5 HOH D 1 301 11 HOH HOH . 
SB 5 HOH D 2 302 29 HOH HOH . 
SB 5 HOH D 3 303 31 HOH HOH . 
SB 5 HOH D 4 304 46 HOH HOH . 
SB 5 HOH D 5 305 73 HOH HOH . 
SB 5 HOH D 6 306 77 HOH HOH . 
SB 5 HOH D 7 307 82 HOH HOH . 
SB 5 HOH D 8 308 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 C C1 MPD . . . M 3 14.202 4.856 7.19 1 65.86 ? C1 MPD 209 A 1 
HETATM 2 C C2 MPD . . . M 3 14.869 5.156 8.526 1 67.21 ? C2 MPD 209 A 1 
HETATM 3 O O2 MPD . . . M 3 15.698 4.05 8.891 1 68.13 ? O2 MPD 209 A 1 
HETATM 4 C CM MPD . . . M 3 15.767 6.384 8.399 1 67.13 ? CM MPD 209 A 1 
HETATM 5 C C3 MPD . . . M 3 13.81 5.32 9.616 1 64.77 ? C3 MPD 209 A 1 
HETATM 6 C C4 MPD . . . M 3 12.967 6.589 9.458 1 65.11 ? C4 MPD 209 A 1 
HETATM 7 O O4 MPD . . . M 3 11.588 6.233 9.388 1 67.59 ? O4 MPD 209 A 1 
HETATM 8 C C5 MPD . . . M 3 13.188 7.564 10.608 1 64.73 ? C5 MPD 209 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           219 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           8 
#