data_6OBN
#
_model_server_result.job_id            SLwdh3TtHepvPf7J23eo6w 
_model_server_result.datetime_utc      '2024-10-19 03:49:04' 
_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          6obn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":405}' 
#
_entry.id    6OBN 
#
_exptl.entry_id    6OBN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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         120 
_cell.entry_id            6OBN 
_cell.length_a            94.147 
_cell.length_b            94.147 
_cell.length_c            545.819 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6OBN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,C,E,F,G,H,I,J,K,O,P,Q,R,S,V,X 1 1 
B,D,L,M,N,T,U,W,Y 2 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
? 6 J N N 
? 6 K N N 
? 6 R N N 
? 6 S 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 OD2 ASP 97 A ASP 92 1_555 G FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc2 A OD1 ASN 129 A ASN 124 1_555 G FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? 
metalc ? metalc3 A NE2 HIS 178 A HIS 173 1_555 G FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc4 A ND1 HIS 253 A HIS 248 1_555 G FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? 
metalc ? metalc5 E O4 PO4 . A PO4 401 1_555 G FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? 
metalc ? metalc6 G FE FE . A FE 403 1_555 V O HOH . A HOH 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? 
metalc ? metalc7 B OD2 ASP 97 B ASP 92 1_555 M FE FE . B FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.862 ? 
metalc ? metalc8 B OD1 ASN 129 B ASN 124 1_555 M FE FE . B FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? 
metalc ? metalc9 B NE2 HIS 178 B HIS 173 1_555 M FE FE . B FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? 
metalc ? metalc10 B ND1 HIS 253 B HIS 248 1_555 M FE FE . B FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc11 L O3 PO4 . B PO4 401 1_555 M FE FE . B FE 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? 
metalc ? metalc12 M FE FE . B FE 402 1_555 W O HOH . B HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
#
_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 237 n n 
C1 H11 MPD sing 238 n n 
C1 H12 MPD sing 239 n n 
C1 H13 MPD sing 240 n n 
C2 O2 MPD sing 241 n n 
C2 CM MPD sing 242 n n 
C2 C3 MPD sing 243 n n 
O2 HO2 MPD sing 244 n n 
CM HM1 MPD sing 245 n n 
CM HM2 MPD sing 246 n n 
CM HM3 MPD sing 247 n n 
C3 C4 MPD sing 248 n n 
C3 H31 MPD sing 249 n n 
C3 H32 MPD sing 250 n n 
C4 O4 MPD sing 251 n n 
C4 C5 MPD sing 252 n n 
C4 H4 MPD sing 253 n n 
O4 HO4 MPD sing 254 n n 
C5 H51 MPD sing 255 n n 
C5 H52 MPD sing 256 n n 
C5 H53 MPD sing 257 n n 
#
_atom_sites.entry_id                     6OBN 
_atom_sites.fract_transf_matrix[1][1]    0.010622 
_atom_sites.fract_transf_matrix[1][2]    0.006132 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012265 
_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]    0.001832 
_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 3 PO4 A 1 401 6 PO4 PO4 . 
F 3 PO4 A 1 402 8 PO4 PO4 . 
G 4 FE A 1 403 4 FE FE . 
H 5 CL A 1 404 1 CL CL . 
I 5 CL A 1 405 3 CL CL . 
J 6 MPD A 1 406 1 MPD MPD . 
K 6 MPD A 1 407 2 MPD MPD . 
L 3 PO4 B 1 401 7 PO4 PO4 . 
M 4 FE B 1 402 3 FE FE . 
N 5 CL B 1 403 2 CL CL . 
O 3 PO4 C 1 401 1 PO4 PO4 . 
P 3 PO4 C 1 402 4 PO4 PO4 . 
Q 3 PO4 C 1 403 5 PO4 PO4 . 
R 6 MPD C 1 404 4 MPD MPD . 
S 6 MPD C 1 405 5 MPD MPD . 
T 3 PO4 D 1 401 2 PO4 PO4 . 
U 3 PO4 D 1 402 3 PO4 PO4 . 
V 7 HOH A 1 501 6 HOH HOH . 
V 7 HOH A 2 502 88 HOH HOH . 
V 7 HOH A 3 503 29 HOH HOH . 
V 7 HOH A 4 504 25 HOH HOH . 
V 7 HOH A 5 505 22 HOH HOH . 
V 7 HOH A 6 506 68 HOH HOH . 
V 7 HOH A 7 507 13 HOH HOH . 
V 7 HOH A 8 508 16 HOH HOH . 
V 7 HOH A 9 509 57 HOH HOH . 
V 7 HOH A 10 510 8 HOH HOH . 
V 7 HOH A 11 511 10 HOH HOH . 
V 7 HOH A 12 512 38 HOH HOH . 
V 7 HOH A 13 513 84 HOH HOH . 
V 7 HOH A 14 514 85 HOH HOH . 
V 7 HOH A 15 515 41 HOH HOH . 
V 7 HOH A 16 516 15 HOH HOH . 
V 7 HOH A 17 517 20 HOH HOH . 
V 7 HOH A 18 518 43 HOH HOH . 
V 7 HOH A 19 519 90 HOH HOH . 
V 7 HOH A 20 520 89 HOH HOH . 
W 7 HOH B 1 501 72 HOH HOH . 
W 7 HOH B 2 502 59 HOH HOH . 
W 7 HOH B 3 503 73 HOH HOH . 
W 7 HOH B 4 504 51 HOH HOH . 
W 7 HOH B 5 505 12 HOH HOH . 
W 7 HOH B 6 506 23 HOH HOH . 
W 7 HOH B 7 507 86 HOH HOH . 
W 7 HOH B 8 508 56 HOH HOH . 
W 7 HOH B 9 509 21 HOH HOH . 
W 7 HOH B 10 510 76 HOH HOH . 
W 7 HOH B 11 511 58 HOH HOH . 
W 7 HOH B 12 512 87 HOH HOH . 
X 7 HOH C 1 501 53 HOH HOH . 
X 7 HOH C 2 502 33 HOH HOH . 
X 7 HOH C 3 503 27 HOH HOH . 
X 7 HOH C 4 504 79 HOH HOH . 
X 7 HOH C 5 505 82 HOH HOH . 
X 7 HOH C 6 506 60 HOH HOH . 
X 7 HOH C 7 507 44 HOH HOH . 
X 7 HOH C 8 508 74 HOH HOH . 
X 7 HOH C 9 509 83 HOH HOH . 
X 7 HOH C 10 510 78 HOH HOH . 
X 7 HOH C 11 511 80 HOH HOH . 
X 7 HOH C 12 512 40 HOH HOH . 
X 7 HOH C 13 513 39 HOH HOH . 
Y 7 HOH D 1 501 31 HOH HOH . 
Y 7 HOH D 2 502 19 HOH HOH . 
Y 7 HOH D 3 503 42 HOH HOH . 
Y 7 HOH D 4 504 77 HOH HOH . 
Y 7 HOH D 5 505 3 HOH HOH . 
Y 7 HOH D 6 506 81 HOH HOH . 
Y 7 HOH D 7 507 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 MPD . . . S 6 12.301 6.484 -12.563 1 71.48 ? C1 MPD 405 C 1 
HETATM 2 C C2 MPD . . . S 6 13.787 6.122 -12.477 1 89.01 ? C2 MPD 405 C 1 
HETATM 3 O O2 MPD . . . S 6 13.976 5.193 -11.441 1 79.48 ? O2 MPD 405 C 1 
HETATM 4 C CM MPD . . . S 6 14.221 5.519 -13.818 1 74.44 ? CM MPD 405 C 1 
HETATM 5 C C3 MPD . . . S 6 14.624 7.369 -12.176 1 74.58 ? C3 MPD 405 C 1 
HETATM 6 C C4 MPD . . . S 6 15.572 7.087 -11.01 1 75.84 ? C4 MPD 405 C 1 
HETATM 7 O O4 MPD . . . S 6 16.077 5.784 -11.119 1 83 ? O4 MPD 405 C 1 
HETATM 8 C C5 MPD . . . S 6 16.739 8.072 -11.042 1 60.95 ? C5 MPD 405 C 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    27 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           8 
#