data_1GY3
#
_model_server_result.job_id            pCB3kGRt8GdQqcwYB3cRQA 
_model_server_result.datetime_utc      '2024-10-24 04:22:33' 
_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          1gy3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":1297}' 
#
_entry.id    1GY3 
#
_exptl.entry_id    1GY3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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            1GY3 
_cell.length_a            150.71 
_cell.length_b            164.1 
_cell.length_c            72.43 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1GY3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 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
PQS trimeric 3 author_and_software_defined_assembly 1 
PQS trimeric 3 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,G,H,I,J,O,P 1 1 
C,D,F,K,L,M,N,Q,R,S 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
? 7 J N N 
? 7 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
covale ? covale1 A C TYR 160 A TYR 159 1_555 A N TPO 161 A TPO 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? 
covale ? covale2 A C TPO 161 A TPO 160 1_555 A N HIS 162 A HIS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale3 C C TYR 160 C TYR 159 1_555 C N TPO 161 C TPO 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale4 C C TPO 161 C TPO 160 1_555 C N HIS 162 C HIS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
metalc ? metalc1 A OD1 ASN 133 A ASN 132 1_555 H MG MG . A MG 1298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
metalc ? metalc2 A OD2 ASP 146 A ASP 145 1_555 H MG MG . A MG 1298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? 
metalc ? metalc3 G O2A ATP . A ATP 1297 1_555 H MG MG . A MG 1298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? 
metalc ? metalc4 G O3B ATP . A ATP 1297 1_555 H MG MG . A MG 1298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? 
metalc ? metalc5 H MG MG . A MG 1298 1_555 I O3 NO3 . A NO3 1299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc6 C OD1 ASN 133 C ASN 132 1_555 M MG MG . C MG 1299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? 
metalc ? metalc7 C OD2 ASP 146 C ASP 145 1_555 M MG MG . C MG 1299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? 
metalc ? metalc8 L O2A ATP . C ATP 1298 1_555 M MG MG . C MG 1299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 GOL sing 178 n n 
C1 C2 GOL sing 179 n n 
C1 H11 GOL sing 180 n n 
C1 H12 GOL sing 181 n n 
O1 HO1 GOL sing 182 n n 
C2 O2 GOL sing 183 n n 
C2 C3 GOL sing 184 n n 
C2 H2 GOL sing 185 n n 
O2 HO2 GOL sing 186 n n 
C3 O3 GOL sing 187 n n 
C3 H31 GOL sing 188 n n 
C3 H32 GOL sing 189 n n 
O3 HO3 GOL sing 190 n n 
#
_atom_sites.entry_id                     1GY3 
_atom_sites.fract_transf_matrix[1][1]    0.006635 
_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]    0.006094 
_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]    0.013806 
_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
G 4 ATP A 1 1297 1297 ATP ATP . 
H 5 MG A 1 1298 1298 MG MG . 
I 6 NO3 A 1 1299 1299 NO3 NO3 . 
J 7 GOL B 1 1433 1433 GOL GOL . 
K 7 GOL C 1 1297 1297 GOL GOL . 
L 4 ATP C 1 1298 1298 ATP ATP . 
M 5 MG C 1 1299 1299 MG MG . 
N 6 NO3 C 1 1300 1300 NO3 NO3 . 
O 8 HOH A 1 2001 2001 HOH HOH . 
O 8 HOH A 2 2002 2002 HOH HOH . 
O 8 HOH A 3 2003 2003 HOH HOH . 
O 8 HOH A 4 2004 2004 HOH HOH . 
O 8 HOH A 5 2005 2005 HOH HOH . 
O 8 HOH A 6 2006 2006 HOH HOH . 
O 8 HOH A 7 2007 2007 HOH HOH . 
O 8 HOH A 8 2008 2008 HOH HOH . 
O 8 HOH A 9 2009 2009 HOH HOH . 
O 8 HOH A 10 2010 2010 HOH HOH . 
O 8 HOH A 11 2011 2011 HOH HOH . 
O 8 HOH A 12 2012 2012 HOH HOH . 
O 8 HOH A 13 2013 2013 HOH HOH . 
O 8 HOH A 14 2014 2014 HOH HOH . 
O 8 HOH A 15 2015 2015 HOH HOH . 
O 8 HOH A 16 2016 2016 HOH HOH . 
O 8 HOH A 17 2017 2017 HOH HOH . 
O 8 HOH A 18 2018 2018 HOH HOH . 
O 8 HOH A 19 2019 2019 HOH HOH . 
O 8 HOH A 20 2020 2020 HOH HOH . 
O 8 HOH A 21 2021 2021 HOH HOH . 
O 8 HOH A 22 2022 2022 HOH HOH . 
O 8 HOH A 23 2023 2023 HOH HOH . 
O 8 HOH A 24 2024 2024 HOH HOH . 
O 8 HOH A 25 2025 2025 HOH HOH . 
O 8 HOH A 26 2026 2026 HOH HOH . 
O 8 HOH A 27 2027 2027 HOH HOH . 
O 8 HOH A 28 2028 2028 HOH HOH . 
O 8 HOH A 29 2029 2029 HOH HOH . 
O 8 HOH A 30 2030 2030 HOH HOH . 
O 8 HOH A 31 2031 2031 HOH HOH . 
O 8 HOH A 32 2032 2032 HOH HOH . 
O 8 HOH A 33 2033 2033 HOH HOH . 
O 8 HOH A 34 2034 2034 HOH HOH . 
O 8 HOH A 35 2035 2035 HOH HOH . 
O 8 HOH A 36 2036 2036 HOH HOH . 
O 8 HOH A 37 2037 2037 HOH HOH . 
P 8 HOH B 1 2001 2001 HOH HOH . 
P 8 HOH B 2 2002 2002 HOH HOH . 
P 8 HOH B 3 2003 2003 HOH HOH . 
P 8 HOH B 4 2004 2004 HOH HOH . 
P 8 HOH B 5 2005 2005 HOH HOH . 
P 8 HOH B 6 2006 2006 HOH HOH . 
P 8 HOH B 7 2007 2007 HOH HOH . 
P 8 HOH B 8 2008 2008 HOH HOH . 
P 8 HOH B 9 2009 2009 HOH HOH . 
P 8 HOH B 10 2010 2010 HOH HOH . 
P 8 HOH B 11 2011 2011 HOH HOH . 
P 8 HOH B 12 2012 2012 HOH HOH . 
P 8 HOH B 13 2013 2013 HOH HOH . 
P 8 HOH B 14 2014 2014 HOH HOH . 
P 8 HOH B 15 2015 2015 HOH HOH . 
P 8 HOH B 16 2016 2016 HOH HOH . 
P 8 HOH B 17 2017 2017 HOH HOH . 
P 8 HOH B 18 2018 2018 HOH HOH . 
P 8 HOH B 19 2019 2019 HOH HOH . 
P 8 HOH B 20 2020 2020 HOH HOH . 
P 8 HOH B 21 2021 2021 HOH HOH . 
P 8 HOH B 22 2022 2022 HOH HOH . 
P 8 HOH B 23 2023 2023 HOH HOH . 
P 8 HOH B 24 2024 2024 HOH HOH . 
P 8 HOH B 25 2025 2025 HOH HOH . 
P 8 HOH B 26 2026 2026 HOH HOH . 
P 8 HOH B 27 2027 2027 HOH HOH . 
P 8 HOH B 28 2028 2028 HOH HOH . 
P 8 HOH B 29 2029 2029 HOH HOH . 
P 8 HOH B 30 2030 2030 HOH HOH . 
Q 8 HOH C 1 2001 2001 HOH HOH . 
Q 8 HOH C 2 2002 2002 HOH HOH . 
Q 8 HOH C 3 2003 2003 HOH HOH . 
Q 8 HOH C 4 2004 2004 HOH HOH . 
Q 8 HOH C 5 2005 2005 HOH HOH . 
Q 8 HOH C 6 2006 2006 HOH HOH . 
Q 8 HOH C 7 2007 2007 HOH HOH . 
Q 8 HOH C 8 2008 2008 HOH HOH . 
Q 8 HOH C 9 2009 2009 HOH HOH . 
Q 8 HOH C 10 2010 2010 HOH HOH . 
Q 8 HOH C 11 2011 2011 HOH HOH . 
Q 8 HOH C 12 2012 2012 HOH HOH . 
Q 8 HOH C 13 2013 2013 HOH HOH . 
Q 8 HOH C 14 2014 2014 HOH HOH . 
Q 8 HOH C 15 2015 2015 HOH HOH . 
Q 8 HOH C 16 2016 2016 HOH HOH . 
Q 8 HOH C 17 2017 2017 HOH HOH . 
Q 8 HOH C 18 2018 2018 HOH HOH . 
Q 8 HOH C 19 2019 2019 HOH HOH . 
Q 8 HOH C 20 2020 2020 HOH HOH . 
Q 8 HOH C 21 2021 2021 HOH HOH . 
Q 8 HOH C 22 2022 2022 HOH HOH . 
Q 8 HOH C 23 2023 2023 HOH HOH . 
Q 8 HOH C 24 2024 2024 HOH HOH . 
Q 8 HOH C 25 2025 2025 HOH HOH . 
Q 8 HOH C 26 2026 2026 HOH HOH . 
Q 8 HOH C 27 2027 2027 HOH HOH . 
Q 8 HOH C 28 2028 2028 HOH HOH . 
Q 8 HOH C 29 2029 2029 HOH HOH . 
Q 8 HOH C 30 2030 2030 HOH HOH . 
Q 8 HOH C 31 2031 2031 HOH HOH . 
Q 8 HOH C 32 2032 2032 HOH HOH . 
Q 8 HOH C 33 2033 2033 HOH HOH . 
Q 8 HOH C 34 2034 2034 HOH HOH . 
Q 8 HOH C 35 2035 2035 HOH HOH . 
Q 8 HOH C 36 2036 2036 HOH HOH . 
Q 8 HOH C 37 2037 2037 HOH HOH . 
Q 8 HOH C 38 2038 2038 HOH HOH . 
Q 8 HOH C 39 2039 2039 HOH HOH . 
Q 8 HOH C 40 2040 2040 HOH HOH . 
Q 8 HOH C 41 2041 2041 HOH HOH . 
Q 8 HOH C 42 2042 2042 HOH HOH . 
Q 8 HOH C 43 2043 2043 HOH HOH . 
Q 8 HOH C 44 2044 2044 HOH HOH . 
Q 8 HOH C 45 2045 2045 HOH HOH . 
Q 8 HOH C 46 2046 2046 HOH HOH . 
Q 8 HOH C 47 2047 2047 HOH HOH . 
Q 8 HOH C 48 2048 2048 HOH HOH . 
R 8 HOH D 1 2001 2001 HOH HOH . 
R 8 HOH D 2 2002 2002 HOH HOH . 
R 8 HOH D 3 2003 2003 HOH HOH . 
R 8 HOH D 4 2004 2004 HOH HOH . 
R 8 HOH D 5 2005 2005 HOH HOH . 
R 8 HOH D 6 2006 2006 HOH HOH . 
R 8 HOH D 7 2007 2007 HOH HOH . 
R 8 HOH D 8 2008 2008 HOH HOH . 
R 8 HOH D 9 2009 2009 HOH HOH . 
R 8 HOH D 10 2010 2010 HOH HOH . 
R 8 HOH D 11 2011 2011 HOH HOH . 
R 8 HOH D 12 2012 2012 HOH HOH . 
R 8 HOH D 13 2013 2013 HOH HOH . 
R 8 HOH D 14 2014 2014 HOH HOH . 
R 8 HOH D 15 2015 2015 HOH HOH . 
R 8 HOH D 16 2016 2016 HOH HOH . 
R 8 HOH D 17 2017 2017 HOH HOH . 
R 8 HOH D 18 2018 2018 HOH HOH . 
R 8 HOH D 19 2019 2019 HOH HOH . 
R 8 HOH D 20 2020 2020 HOH HOH . 
R 8 HOH D 21 2021 2021 HOH HOH . 
R 8 HOH D 22 2022 2022 HOH HOH . 
R 8 HOH D 23 2023 2023 HOH HOH . 
R 8 HOH D 24 2024 2024 HOH HOH . 
R 8 HOH D 25 2025 2025 HOH HOH . 
R 8 HOH D 26 2026 2026 HOH HOH . 
R 8 HOH D 27 2027 2027 HOH HOH . 
R 8 HOH D 28 2028 2028 HOH HOH . 
R 8 HOH D 29 2029 2029 HOH HOH . 
R 8 HOH D 30 2030 2030 HOH HOH . 
R 8 HOH D 31 2031 2031 HOH HOH . 
R 8 HOH D 32 2032 2032 HOH HOH . 
R 8 HOH D 33 2033 2033 HOH HOH . 
R 8 HOH D 34 2034 2034 HOH HOH . 
R 8 HOH D 35 2035 2035 HOH HOH . 
R 8 HOH D 36 2036 2036 HOH HOH . 
R 8 HOH D 37 2037 2037 HOH HOH . 
R 8 HOH D 38 2038 2038 HOH HOH . 
R 8 HOH D 39 2039 2039 HOH HOH . 
R 8 HOH D 40 2040 2040 HOH HOH . 
R 8 HOH D 41 2041 2041 HOH HOH . 
R 8 HOH D 42 2042 2042 HOH HOH . 
R 8 HOH D 43 2043 2043 HOH HOH . 
R 8 HOH D 44 2044 2044 HOH HOH . 
R 8 HOH D 45 2045 2045 HOH HOH . 
S 8 HOH F 1 2001 2001 HOH HOH . 
S 8 HOH F 2 2002 2002 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 GOL . . . K 7 38.951 80.116 28.932 1 25.45 ? C1 GOL 1297 C 1 
HETATM 2 O O1 GOL . . . K 7 39.667 79.355 27.985 1 29.12 ? O1 GOL 1297 C 1 
HETATM 3 C C2 GOL . . . K 7 39.587 80.09 30.338 1 27.62 ? C2 GOL 1297 C 1 
HETATM 4 O O2 GOL . . . K 7 38.768 79.609 31.431 1 20.09 ? O2 GOL 1297 C 1 
HETATM 5 C C3 GOL . . . K 7 41.069 79.666 30.38 1 28.35 ? C3 GOL 1297 C 1 
HETATM 6 O O3 GOL . . . K 7 41.516 79.905 31.712 1 33.36 ? O3 GOL 1297 C 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    25 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#