data_2V5H
#
_model_server_result.job_id            cKs9-T36mcK5cNYngzQRbQ 
_model_server_result.datetime_utc      '2024-11-04 22:57:48' 
_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          2v5h 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"V","auth_seq_id":1295}' 
#
_entry.id    2V5H 
#
_exptl.entry_id    2V5H 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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          106.53 
_cell.angle_gamma         90 
_cell.entry_id            2V5H 
_cell.length_a            90.379 
_cell.length_b            161.027 
_cell.length_c            91.562 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2V5H 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_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,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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             V 
_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 B O THR 300 B THR 280 1_555 P NA NA . B NA 1298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? 
metalc ? metalc2 R NA NA . C NA 1293 1_555 HA O HOH . C HOH 2015 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? 
metalc ? metalc3 D O GLU 297 D GLU 277 1_555 T NA NA . D NA 1295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.566 ? 
metalc ? metalc4 D O THR 300 D THR 280 1_555 T NA NA . D NA 1295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? 
metalc ? metalc5 E O GLU 297 E GLU 277 1_555 W NA NA . E NA 1296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? 
metalc ? metalc6 E O THR 300 E THR 280 1_555 W NA NA . E NA 1296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? 
metalc ? metalc7 Y NA NA . F NA 1294 1_555 KA O HOH . F HOH 2022 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.479 ? 
metalc ? metalc8 Y NA NA . F NA 1294 1_555 KA O HOH . F HOH 2023 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? 
#
_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 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     2V5H 
_atom_sites.fract_transf_matrix[1][1]    0.011065 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003284 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.00621 
_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]    0.011392 
_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
M 3 NLG A 1 1292 1292 NLG NLG . 
N 4 NA A 1 1293 1293 NA NA . 
O 3 NLG B 1 1297 1297 NLG NLG . 
P 4 NA B 1 1298 1298 NA NA . 
Q 3 NLG C 1 1292 1292 NLG NLG . 
R 4 NA C 1 1293 1293 NA NA . 
S 3 NLG D 1 1294 1294 NLG NLG . 
T 4 NA D 1 1295 1295 NA NA . 
U 3 NLG E 1 1294 1294 NLG NLG . 
V 5 GOL E 1 1295 1295 GOL GOL . 
W 4 NA E 1 1296 1296 NA NA . 
X 3 NLG F 1 1293 1293 NLG NLG . 
Y 4 NA F 1 1294 1294 NA NA . 
Z 6 CL G 1 1112 1112 CL CL . 
AA 6 CL H 1 1109 1109 CL CL . 
BA 6 CL H 1 1110 1110 CL CL . 
CA 6 CL J 1 1111 1111 CL CL . 
DA 6 CL J 1 1112 1112 CL CL . 
EA 6 CL K 1 1109 1109 CL CL . 
FA 7 HOH A 1 2001 2001 HOH HOH . 
FA 7 HOH A 2 2002 2002 HOH HOH . 
FA 7 HOH A 3 2003 2003 HOH HOH . 
FA 7 HOH A 4 2004 2004 HOH HOH . 
FA 7 HOH A 5 2005 2005 HOH HOH . 
FA 7 HOH A 6 2006 2006 HOH HOH . 
FA 7 HOH A 7 2007 2007 HOH HOH . 
FA 7 HOH A 8 2008 2008 HOH HOH . 
FA 7 HOH A 9 2009 2009 HOH HOH . 
FA 7 HOH A 10 2010 2010 HOH HOH . 
FA 7 HOH A 11 2011 2011 HOH HOH . 
FA 7 HOH A 12 2012 2012 HOH HOH . 
FA 7 HOH A 13 2013 2013 HOH HOH . 
FA 7 HOH A 14 2014 2014 HOH HOH . 
FA 7 HOH A 15 2015 2015 HOH HOH . 
FA 7 HOH A 16 2016 2016 HOH HOH . 
FA 7 HOH A 17 2017 2017 HOH HOH . 
FA 7 HOH A 18 2018 2018 HOH HOH . 
FA 7 HOH A 19 2019 2019 HOH HOH . 
FA 7 HOH A 20 2020 2020 HOH HOH . 
FA 7 HOH A 21 2021 2021 HOH HOH . 
FA 7 HOH A 22 2022 2022 HOH HOH . 
FA 7 HOH A 23 2023 2023 HOH HOH . 
FA 7 HOH A 24 2024 2024 HOH HOH . 
FA 7 HOH A 25 2025 2025 HOH HOH . 
FA 7 HOH A 26 2026 2026 HOH HOH . 
FA 7 HOH A 27 2027 2027 HOH HOH . 
FA 7 HOH A 28 2028 2028 HOH HOH . 
FA 7 HOH A 29 2029 2029 HOH HOH . 
GA 7 HOH B 1 2001 2001 HOH HOH . 
GA 7 HOH B 2 2002 2002 HOH HOH . 
GA 7 HOH B 3 2003 2003 HOH HOH . 
GA 7 HOH B 4 2004 2004 HOH HOH . 
GA 7 HOH B 5 2005 2005 HOH HOH . 
GA 7 HOH B 6 2006 2006 HOH HOH . 
GA 7 HOH B 7 2007 2007 HOH HOH . 
GA 7 HOH B 8 2008 2008 HOH HOH . 
GA 7 HOH B 9 2009 2009 HOH HOH . 
GA 7 HOH B 10 2010 2010 HOH HOH . 
GA 7 HOH B 11 2011 2011 HOH HOH . 
GA 7 HOH B 12 2012 2012 HOH HOH . 
GA 7 HOH B 13 2013 2013 HOH HOH . 
GA 7 HOH B 14 2014 2014 HOH HOH . 
GA 7 HOH B 15 2015 2015 HOH HOH . 
GA 7 HOH B 16 2016 2016 HOH HOH . 
GA 7 HOH B 17 2017 2017 HOH HOH . 
GA 7 HOH B 18 2018 2018 HOH HOH . 
GA 7 HOH B 19 2019 2019 HOH HOH . 
GA 7 HOH B 20 2020 2020 HOH HOH . 
GA 7 HOH B 21 2021 2021 HOH HOH . 
GA 7 HOH B 22 2022 2022 HOH HOH . 
HA 7 HOH C 1 2001 2001 HOH HOH . 
HA 7 HOH C 2 2002 2002 HOH HOH . 
HA 7 HOH C 3 2003 2003 HOH HOH . 
HA 7 HOH C 4 2004 2004 HOH HOH . 
HA 7 HOH C 5 2005 2005 HOH HOH . 
HA 7 HOH C 6 2006 2006 HOH HOH . 
HA 7 HOH C 7 2007 2007 HOH HOH . 
HA 7 HOH C 8 2008 2008 HOH HOH . 
HA 7 HOH C 9 2009 2009 HOH HOH . 
HA 7 HOH C 10 2010 2010 HOH HOH . 
HA 7 HOH C 11 2011 2011 HOH HOH . 
HA 7 HOH C 12 2012 2012 HOH HOH . 
HA 7 HOH C 13 2013 2013 HOH HOH . 
HA 7 HOH C 14 2014 2014 HOH HOH . 
HA 7 HOH C 15 2015 2015 HOH HOH . 
HA 7 HOH C 16 2016 2016 HOH HOH . 
IA 7 HOH D 1 2001 2001 HOH HOH . 
IA 7 HOH D 2 2002 2002 HOH HOH . 
IA 7 HOH D 3 2003 2003 HOH HOH . 
IA 7 HOH D 4 2004 2004 HOH HOH . 
IA 7 HOH D 5 2005 2005 HOH HOH . 
IA 7 HOH D 6 2006 2006 HOH HOH . 
IA 7 HOH D 7 2007 2007 HOH HOH . 
IA 7 HOH D 8 2008 2008 HOH HOH . 
IA 7 HOH D 9 2009 2009 HOH HOH . 
IA 7 HOH D 10 2010 2010 HOH HOH . 
IA 7 HOH D 11 2011 2011 HOH HOH . 
IA 7 HOH D 12 2012 2012 HOH HOH . 
IA 7 HOH D 13 2013 2013 HOH HOH . 
IA 7 HOH D 14 2014 2014 HOH HOH . 
IA 7 HOH D 15 2015 2015 HOH HOH . 
IA 7 HOH D 16 2016 2016 HOH HOH . 
JA 7 HOH E 1 2001 2001 HOH HOH . 
JA 7 HOH E 2 2002 2002 HOH HOH . 
JA 7 HOH E 3 2003 2003 HOH HOH . 
JA 7 HOH E 4 2004 2004 HOH HOH . 
JA 7 HOH E 5 2005 2005 HOH HOH . 
JA 7 HOH E 6 2006 2006 HOH HOH . 
JA 7 HOH E 7 2007 2007 HOH HOH . 
JA 7 HOH E 8 2008 2008 HOH HOH . 
JA 7 HOH E 9 2009 2009 HOH HOH . 
JA 7 HOH E 10 2010 2010 HOH HOH . 
JA 7 HOH E 11 2011 2011 HOH HOH . 
JA 7 HOH E 12 2012 2012 HOH HOH . 
JA 7 HOH E 13 2013 2013 HOH HOH . 
JA 7 HOH E 14 2014 2014 HOH HOH . 
JA 7 HOH E 15 2015 2015 HOH HOH . 
JA 7 HOH E 16 2016 2016 HOH HOH . 
JA 7 HOH E 17 2017 2017 HOH HOH . 
JA 7 HOH E 18 2018 2018 HOH HOH . 
JA 7 HOH E 19 2019 2019 HOH HOH . 
JA 7 HOH E 20 2020 2020 HOH HOH . 
JA 7 HOH E 21 2021 2021 HOH HOH . 
JA 7 HOH E 22 2022 2022 HOH HOH . 
KA 7 HOH F 1 2001 2001 HOH HOH . 
KA 7 HOH F 2 2002 2002 HOH HOH . 
KA 7 HOH F 3 2003 2003 HOH HOH . 
KA 7 HOH F 4 2004 2004 HOH HOH . 
KA 7 HOH F 5 2005 2005 HOH HOH . 
KA 7 HOH F 6 2006 2006 HOH HOH . 
KA 7 HOH F 7 2007 2007 HOH HOH . 
KA 7 HOH F 8 2008 2008 HOH HOH . 
KA 7 HOH F 9 2009 2009 HOH HOH . 
KA 7 HOH F 10 2010 2010 HOH HOH . 
KA 7 HOH F 11 2011 2011 HOH HOH . 
KA 7 HOH F 12 2012 2012 HOH HOH . 
KA 7 HOH F 13 2013 2013 HOH HOH . 
KA 7 HOH F 14 2014 2014 HOH HOH . 
KA 7 HOH F 15 2015 2015 HOH HOH . 
KA 7 HOH F 16 2016 2016 HOH HOH . 
KA 7 HOH F 17 2017 2017 HOH HOH . 
KA 7 HOH F 18 2018 2018 HOH HOH . 
KA 7 HOH F 19 2019 2019 HOH HOH . 
KA 7 HOH F 20 2020 2020 HOH HOH . 
KA 7 HOH F 21 2021 2021 HOH HOH . 
KA 7 HOH F 22 2022 2022 HOH HOH . 
KA 7 HOH F 23 2023 2023 HOH HOH . 
LA 7 HOH G 1 2001 2001 HOH HOH . 
LA 7 HOH G 2 2002 2002 HOH HOH . 
LA 7 HOH G 3 2003 2003 HOH HOH . 
LA 7 HOH G 4 2004 2004 HOH HOH . 
LA 7 HOH G 5 2005 2005 HOH HOH . 
LA 7 HOH G 6 2006 2006 HOH HOH . 
LA 7 HOH G 7 2007 2007 HOH HOH . 
LA 7 HOH G 8 2008 2008 HOH HOH . 
LA 7 HOH G 9 2009 2009 HOH HOH . 
MA 7 HOH H 1 2001 2001 HOH HOH . 
MA 7 HOH H 2 2002 2002 HOH HOH . 
MA 7 HOH H 3 2003 2003 HOH HOH . 
MA 7 HOH H 4 2004 2004 HOH HOH . 
MA 7 HOH H 5 2005 2005 HOH HOH . 
MA 7 HOH H 6 2006 2006 HOH HOH . 
MA 7 HOH H 7 2007 2007 HOH HOH . 
MA 7 HOH H 8 2008 2008 HOH HOH . 
MA 7 HOH H 9 2009 2009 HOH HOH . 
MA 7 HOH H 10 2010 2010 HOH HOH . 
MA 7 HOH H 11 2011 2011 HOH HOH . 
NA 7 HOH I 1 2001 2001 HOH HOH . 
NA 7 HOH I 2 2002 2002 HOH HOH . 
NA 7 HOH I 3 2003 2003 HOH HOH . 
NA 7 HOH I 4 2004 2004 HOH HOH . 
NA 7 HOH I 5 2005 2005 HOH HOH . 
NA 7 HOH I 6 2006 2006 HOH HOH . 
NA 7 HOH I 7 2007 2007 HOH HOH . 
NA 7 HOH I 8 2008 2008 HOH HOH . 
OA 7 HOH J 1 2001 2001 HOH HOH . 
OA 7 HOH J 2 2002 2002 HOH HOH . 
OA 7 HOH J 3 2003 2003 HOH HOH . 
OA 7 HOH J 4 2004 2004 HOH HOH . 
OA 7 HOH J 5 2005 2005 HOH HOH . 
OA 7 HOH J 6 2006 2006 HOH HOH . 
OA 7 HOH J 7 2007 2007 HOH HOH . 
OA 7 HOH J 8 2008 2008 HOH HOH . 
OA 7 HOH J 9 2009 2009 HOH HOH . 
OA 7 HOH J 10 2010 2010 HOH HOH . 
PA 7 HOH K 1 2001 2001 HOH HOH . 
PA 7 HOH K 2 2002 2002 HOH HOH . 
PA 7 HOH K 3 2003 2003 HOH HOH . 
PA 7 HOH K 4 2004 2004 HOH HOH . 
PA 7 HOH K 5 2005 2005 HOH HOH . 
PA 7 HOH K 6 2006 2006 HOH HOH . 
PA 7 HOH K 7 2007 2007 HOH HOH . 
QA 7 HOH L 1 2001 2001 HOH HOH . 
QA 7 HOH L 2 2002 2002 HOH HOH . 
QA 7 HOH L 3 2003 2003 HOH HOH . 
QA 7 HOH L 4 2004 2004 HOH HOH . 
QA 7 HOH L 5 2005 2005 HOH HOH . 
QA 7 HOH L 6 2006 2006 HOH HOH . 
QA 7 HOH L 7 2007 2007 HOH HOH . 
QA 7 HOH L 8 2008 2008 HOH HOH . 
QA 7 HOH L 9 2009 2009 HOH HOH . 
QA 7 HOH L 10 2010 2010 HOH HOH . 
QA 7 HOH L 11 2011 2011 HOH HOH . 
QA 7 HOH L 12 2012 2012 HOH HOH . 
QA 7 HOH L 13 2013 2013 HOH HOH . 
QA 7 HOH L 14 2014 2014 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 . . . V 5 34.454 -34.225 20.643 1 57.51 ? C1 GOL 1295 E 1 
HETATM 2 O O1 GOL . . . V 5 34.699 -33.003 21.327 1 56.7 ? O1 GOL 1295 E 1 
HETATM 3 C C2 GOL . . . V 5 34.306 -33.964 19.142 1 56.99 ? C2 GOL 1295 E 1 
HETATM 4 O O2 GOL . . . V 5 35.078 -34.887 18.41 1 56.05 ? O2 GOL 1295 E 1 
HETATM 5 C C3 GOL . . . V 5 32.845 -34.027 18.685 1 58.3 ? C3 GOL 1295 E 1 
HETATM 6 O O3 GOL . . . V 5 32.374 -32.792 18.164 1 57.86 ? O3 GOL 1295 E 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           251 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#