data_1V1F
#
_model_server_result.job_id            N0q7B9EhATkEpGhGzUan_g 
_model_server_result.datetime_utc      '2024-11-05 01:54:40' 
_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          1v1f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1212}' 
#
_entry.id    1V1F 
#
_exptl.entry_id    1V1F 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              118.174 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (4S)-2-METHYL-2,4-PENTANEDIOL 
_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            1V1F 
_cell.length_a            91.9 
_cell.length_b            91.9 
_cell.length_c            85.6 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1V1F 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        80 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 41' 
#
_pdbx_struct_assembly.method_details        PQS 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 6_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 91.9 91.9 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 J N N 
? 5 K 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 O SER 47 A SER 47 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
metalc ? metalc2 A O ILE 51 A ILE 51 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.91 ? 
metalc ? metalc3 A OD1 ASP 53 A ASP 53 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc4 A O LEU 55 A LEU 55 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.425 ? 
metalc ? metalc5 A OE1 GLU 60 A GLU 60 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? 
metalc ? metalc6 A OE2 GLU 60 A GLU 60 1_555 F CA CA . A CA 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.03 ? 
metalc ? metalc7 A OD2 ASP 84 A ASP 84 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? 
metalc ? metalc8 A O LYS 86 A LYS 86 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.982 ? 
metalc ? metalc9 A OD1 ASN 88 A ASN 88 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? 
metalc ? metalc10 A O VAL 90 A VAL 90 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? 
metalc ? metalc11 A OE2 GLU 95 A GLU 95 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? 
metalc ? metalc12 A OE1 GLU 95 A GLU 95 1_555 G CA CA . A CA 1208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc13 A OD1 ASP 121 A ASP 121 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? 
metalc ? metalc14 A O ARG 123 A ARG 123 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? 
metalc ? metalc15 A OG1 THR 125 A THR 125 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.217 ? 
metalc ? metalc16 A O PHE 127 A PHE 127 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? 
metalc ? metalc17 A OE2 GLU 129 A GLU 129 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? 
metalc ? metalc18 A OE1 GLU 132 A GLU 132 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? 
metalc ? metalc19 A OE2 GLU 132 A GLU 132 1_555 H CA CA . A CA 1209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.945 ? 
metalc ? metalc20 A OD1 ASP 165 A ASP 165 1_555 I MN MN . A MN 1210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? 
metalc ? metalc21 A O LYS 171 A LYS 171 1_555 I MN MN . A MN 1210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? 
metalc ? metalc22 A OE1 GLU 176 A GLU 176 1_555 I MN MN . A MN 1210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc23 A OE2 GLU 176 A GLU 176 1_555 I MN MN . A MN 1210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? 
metalc ? metalc24 I MN MN . A MN 1210 1_555 O O HOH . A HOH 2039 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? 
#
_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                     1V1F 
_atom_sites.fract_transf_matrix[1][1]    0.010881 
_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]    0.010881 
_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]    0.011682 
_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 IOD A 1 1203 1203 IOD IOD . 
C 2 IOD A 1 1204 1204 IOD IOD . 
D 2 IOD A 1 1205 1205 IOD IOD . 
E 2 IOD A 1 1206 1206 IOD IOD . 
F 3 CA A 1 1207 1207 CA CA . 
G 3 CA A 1 1208 1208 CA CA . 
H 3 CA A 1 1209 1209 CA CA . 
I 4 MN A 1 1210 1210 MN MN . 
J 5 MPD A 1 1211 1211 MPD MPD . 
K 5 MPD A 1 1212 1212 MPD MPD . 
L 2 IOD A 1 1213 1213 IOD IOD . 
M 2 IOD A 1 1214 1214 IOD IOD . 
N 2 IOD A 1 1215 1215 IOD IOD . 
O 6 HOH A 1 2001 2001 HOH HOH . 
O 6 HOH A 2 2002 2002 HOH HOH . 
O 6 HOH A 3 2003 2003 HOH HOH . 
O 6 HOH A 4 2004 2004 HOH HOH . 
O 6 HOH A 5 2005 2005 HOH HOH . 
O 6 HOH A 6 2006 2006 HOH HOH . 
O 6 HOH A 7 2007 2007 HOH HOH . 
O 6 HOH A 8 2008 2008 HOH HOH . 
O 6 HOH A 9 2009 2009 HOH HOH . 
O 6 HOH A 10 2010 2010 HOH HOH . 
O 6 HOH A 11 2011 2011 HOH HOH . 
O 6 HOH A 12 2012 2012 HOH HOH . 
O 6 HOH A 13 2013 2013 HOH HOH . 
O 6 HOH A 14 2014 2014 HOH HOH . 
O 6 HOH A 15 2015 2015 HOH HOH . 
O 6 HOH A 16 2016 2016 HOH HOH . 
O 6 HOH A 17 2017 2017 HOH HOH . 
O 6 HOH A 18 2018 2018 HOH HOH . 
O 6 HOH A 19 2019 2019 HOH HOH . 
O 6 HOH A 20 2020 2020 HOH HOH . 
O 6 HOH A 21 2021 2021 HOH HOH . 
O 6 HOH A 22 2022 2022 HOH HOH . 
O 6 HOH A 23 2023 2023 HOH HOH . 
O 6 HOH A 24 2024 2024 HOH HOH . 
O 6 HOH A 25 2025 2025 HOH HOH . 
O 6 HOH A 26 2026 2026 HOH HOH . 
O 6 HOH A 27 2027 2027 HOH HOH . 
O 6 HOH A 28 2028 2028 HOH HOH . 
O 6 HOH A 29 2029 2029 HOH HOH . 
O 6 HOH A 30 2030 2030 HOH HOH . 
O 6 HOH A 31 2031 2031 HOH HOH . 
O 6 HOH A 32 2032 2032 HOH HOH . 
O 6 HOH A 33 2033 2033 HOH HOH . 
O 6 HOH A 34 2034 2034 HOH HOH . 
O 6 HOH A 35 2035 2035 HOH HOH . 
O 6 HOH A 36 2036 2036 HOH HOH . 
O 6 HOH A 37 2037 2037 HOH HOH . 
O 6 HOH A 38 2038 2038 HOH HOH . 
O 6 HOH A 39 2039 2039 HOH HOH . 
O 6 HOH A 40 2040 2040 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 . . . K 5 40.776 50.566 11.471 1 79.84 ? C1 MPD 1212 A 1 
HETATM 2 C C2 MPD . . . K 5 40.291 51.636 12.461 1 79.71 ? C2 MPD 1212 A 1 
HETATM 3 O O2 MPD . . . K 5 41.165 52.789 12.369 1 80.19 ? O2 MPD 1212 A 1 
HETATM 4 C CM MPD . . . K 5 38.903 52.134 12.046 1 77.88 ? CM MPD 1212 A 1 
HETATM 5 C C3 MPD . . . K 5 40.256 51.082 13.905 1 80.43 ? C3 MPD 1212 A 1 
HETATM 6 C C4 MPD . . . K 5 41.521 51.061 14.811 1 81.25 ? C4 MPD 1212 A 1 
HETATM 7 O O4 MPD . . . K 5 42.636 51.754 14.274 1 81.84 ? O4 MPD 1212 A 1 
HETATM 8 C C5 MPD . . . K 5 41.23 51.669 16.193 1 79.62 ? C5 MPD 1212 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           218 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           8 
#