data_1W57
#
_model_server_result.job_id            8I_rGlmzWfbvgyeO_U5xsg 
_model_server_result.datetime_utc      '2024-11-22 23:37:44' 
_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          1w57 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1374}' 
#
_entry.id    1W57 
#
_exptl.entry_id    1W57 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              314.209 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'GERANYL DIPHOSPHATE' 
_entity.pdbx_number_of_molecules    1 
_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            1W57 
_cell.length_a            107.76 
_cell.length_b            107.76 
_cell.length_c            161.004 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1W57 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        182 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 63 2 2' 
#
_pdbx_struct_assembly.method_details        PQS 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4,5,6 
#
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' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 53.88 93.322898 0 
3 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 107.76 0 0 
4 'crystal symmetry operation' 12_554 x,x-y,-z-1/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 -80.502 
5 'crystal symmetry operation' 11_654 -x+y+1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 107.76 0 -80.502 
6 'crystal symmetry operation' 10_664 -y+1,-x+1,-z-1/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 53.88 93.322898 -80.502 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             E 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 217 A ASP 217 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc2 A NE2 HIS 219 A HIS 219 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? 
metalc ? metalc3 A ND1 HIS 251 A HIS 251 1_555 B ZN ZN . A ZN 1371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? 
metalc ? metalc4 B ZN ZN . A ZN 1371 1_555 F O HOH . A HOH 2057 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
#
_chem_comp.formula           'C10 H20 O7 P2' 
_chem_comp.formula_weight    314.209 
_chem_comp.id                GPP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'GERANYL DIPHOSPHATE' 
_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 O1 GPP sing 165 n n 
C1 C2 GPP sing 166 n n 
C1 H11 GPP sing 167 n n 
C1 H12 GPP sing 168 n n 
O1 PA GPP sing 169 n n 
C2 C3 GPP doub 170 e n 
C2 H2 GPP sing 171 n n 
C3 C4 GPP sing 172 n n 
C3 C5 GPP sing 173 n n 
C4 H41 GPP sing 174 n n 
C4 H42 GPP sing 175 n n 
C4 H43 GPP sing 176 n n 
C5 C6 GPP sing 177 n n 
C5 H51 GPP sing 178 n n 
C5 H52 GPP sing 179 n n 
C6 C7 GPP sing 180 n n 
C6 H61 GPP sing 181 n n 
C6 H62 GPP sing 182 n n 
C7 C8 GPP doub 183 n n 
C7 H7 GPP sing 184 n n 
C8 C9 GPP sing 185 n n 
C8 C10 GPP sing 186 n n 
C9 H91 GPP sing 187 n n 
C9 H92 GPP sing 188 n n 
C9 H93 GPP sing 189 n n 
C10 H101 GPP sing 190 n n 
C10 H102 GPP sing 191 n n 
C10 H103 GPP sing 192 n n 
PA O1A GPP doub 193 n n 
PA O2A GPP sing 194 n n 
PA O3A GPP sing 195 n n 
O2A HOA2 GPP sing 196 n n 
O3A PB GPP sing 197 n n 
PB O1B GPP doub 198 n n 
PB O2B GPP sing 199 n n 
PB O3B GPP sing 200 n n 
O2B HOB2 GPP sing 201 n n 
O3B HOB3 GPP sing 202 n n 
#
_atom_sites.entry_id                     1W57 
_atom_sites.fract_transf_matrix[1][1]    0.00928 
_atom_sites.fract_transf_matrix[1][2]    0.005358 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010715 
_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]    0.006211 
_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 ZN A 1 1371 1371 ZN ZN . 
C 3 C5P A 1 1372 1372 C5P C5P . 
D 3 C5P A 1 1373 1373 C5P C5P . 
E 4 GPP A 1 1374 1374 GPP GPP . 
F 5 HOH A 1 2001 2001 HOH HOH . 
F 5 HOH A 2 2002 2002 HOH HOH . 
F 5 HOH A 3 2003 2003 HOH HOH . 
F 5 HOH A 4 2004 2004 HOH HOH . 
F 5 HOH A 5 2005 2005 HOH HOH . 
F 5 HOH A 6 2006 2006 HOH HOH . 
F 5 HOH A 7 2007 2007 HOH HOH . 
F 5 HOH A 8 2008 2008 HOH HOH . 
F 5 HOH A 9 2009 2009 HOH HOH . 
F 5 HOH A 10 2010 2010 HOH HOH . 
F 5 HOH A 11 2011 2011 HOH HOH . 
F 5 HOH A 12 2012 2012 HOH HOH . 
F 5 HOH A 13 2013 2013 HOH HOH . 
F 5 HOH A 14 2014 2014 HOH HOH . 
F 5 HOH A 15 2015 2015 HOH HOH . 
F 5 HOH A 16 2016 2016 HOH HOH . 
F 5 HOH A 17 2017 2017 HOH HOH . 
F 5 HOH A 18 2018 2018 HOH HOH . 
F 5 HOH A 19 2019 2019 HOH HOH . 
F 5 HOH A 20 2020 2020 HOH HOH . 
F 5 HOH A 21 2021 2021 HOH HOH . 
F 5 HOH A 22 2022 2022 HOH HOH . 
F 5 HOH A 23 2023 2023 HOH HOH . 
F 5 HOH A 24 2024 2024 HOH HOH . 
F 5 HOH A 25 2025 2025 HOH HOH . 
F 5 HOH A 26 2026 2026 HOH HOH . 
F 5 HOH A 27 2027 2027 HOH HOH . 
F 5 HOH A 28 2028 2028 HOH HOH . 
F 5 HOH A 29 2029 2029 HOH HOH . 
F 5 HOH A 30 2030 2030 HOH HOH . 
F 5 HOH A 31 2031 2031 HOH HOH . 
F 5 HOH A 32 2032 2032 HOH HOH . 
F 5 HOH A 33 2033 2033 HOH HOH . 
F 5 HOH A 34 2034 2034 HOH HOH . 
F 5 HOH A 35 2035 2035 HOH HOH . 
F 5 HOH A 36 2036 2036 HOH HOH . 
F 5 HOH A 37 2037 2037 HOH HOH . 
F 5 HOH A 38 2038 2038 HOH HOH . 
F 5 HOH A 39 2039 2039 HOH HOH . 
F 5 HOH A 40 2040 2040 HOH HOH . 
F 5 HOH A 41 2041 2041 HOH HOH . 
F 5 HOH A 42 2042 2042 HOH HOH . 
F 5 HOH A 43 2043 2043 HOH HOH . 
F 5 HOH A 44 2044 2044 HOH HOH . 
F 5 HOH A 45 2045 2045 HOH HOH . 
F 5 HOH A 46 2046 2046 HOH HOH . 
F 5 HOH A 47 2047 2047 HOH HOH . 
F 5 HOH A 48 2048 2048 HOH HOH . 
F 5 HOH A 49 2049 2049 HOH HOH . 
F 5 HOH A 50 2050 2050 HOH HOH . 
F 5 HOH A 51 2051 2051 HOH HOH . 
F 5 HOH A 52 2052 2052 HOH HOH . 
F 5 HOH A 53 2053 2053 HOH HOH . 
F 5 HOH A 54 2054 2054 HOH HOH . 
F 5 HOH A 55 2055 2055 HOH HOH . 
F 5 HOH A 56 2056 2056 HOH HOH . 
F 5 HOH A 57 2057 2057 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 GPP . . . E 4 54.993 31.233 16.821 0.33 30.81 ? C1 GPP 1374 A 1 
HETATM 2 O O1 GPP . . . E 4 54.764 30.458 17.995 0.33 31.38 ? O1 GPP 1374 A 1 
HETATM 3 C C2 GPP . . . E 4 54.779 30.404 15.576 0.33 30.7 ? C2 GPP 1374 A 1 
HETATM 4 C C3 GPP . . . E 4 55.484 30.597 14.445 0.33 30.5 ? C3 GPP 1374 A 1 
HETATM 5 C C4 GPP . . . E 4 56.551 31.654 14.353 0.33 30.15 ? C4 GPP 1374 A 1 
HETATM 6 C C5 GPP . . . E 4 55.193 29.728 13.243 0.33 30.7 ? C5 GPP 1374 A 1 
HETATM 7 C C6 GPP . . . E 4 54.398 30.502 12.19 0.33 30.84 ? C6 GPP 1374 A 1 
HETATM 8 C C7 GPP . . . E 4 55.129 30.477 10.861 0.33 30.83 ? C7 GPP 1374 A 1 
HETATM 9 C C8 GPP . . . E 4 54.775 31.197 9.775 0.33 31.17 ? C8 GPP 1374 A 1 
HETATM 10 C C9 GPP . . . E 4 55.581 31.087 8.512 0.33 30.83 ? C9 GPP 1374 A 1 
HETATM 11 C C10 GPP . . . E 4 53.583 32.113 9.781 0.33 31.25 ? C10 GPP 1374 A 1 
HETATM 12 P PA GPP . . . E 4 53.825 31.024 19.176 0.33 31.82 ? PA GPP 1374 A 1 
HETATM 13 O O1A GPP . . . E 4 53.56 32.576 18.983 0.33 31.94 ? O1A GPP 1374 A 1 
HETATM 14 O O2A GPP . . . E 4 52.456 30.228 19.173 0.33 31.93 ? O2A GPP 1374 A 1 
HETATM 15 O O3A GPP . . . E 4 54.618 30.753 20.554 0.33 32.49 ? O3A GPP 1374 A 1 
HETATM 16 P PB GPP . . . E 4 54.104 31.367 21.96 0.33 33.69 ? PB GPP 1374 A 1 
HETATM 17 O O1B GPP . . . E 4 54.192 30.302 23.139 0.33 33.18 ? O1B GPP 1374 A 1 
HETATM 18 O O2B GPP . . . E 4 54.994 32.62 22.371 0.33 33.93 ? O2B GPP 1374 A 1 
HETATM 19 O O3B GPP . . . E 4 52.59 31.825 21.828 0.33 33.81 ? O3B GPP 1374 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           19 
#