data_5CVB
#
_model_server_result.job_id            cN0619w-qICwsIQomj1FtA 
_model_server_result.datetime_utc      '2024-12-27 16:42:57' 
_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          5cvb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":101}' 
#
_entry.id    5CVB 
#
_exptl.entry_id    5CVB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          112.72 
_cell.angle_gamma         90 
_cell.entry_id            5CVB 
_cell.length_a            51.77 
_cell.length_b            64.46 
_cell.length_c            65.39 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5CVB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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 trimeric 3 author_and_software_defined_assembly 1 
PISA 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,C,G,H,L,M,N 1 1 
D,E,F,I,J,K,O,P,Q 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
? 4 G N N 
? 4 H N N 
? 4 I N N 
? 4 J N N 
? 4 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
disulf ? disulf1 A SG CYS 48 A CYS 48 1_555 C SG CYS 48 C CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf2 D SG CYS 48 D CYS 48 1_555 F SG CYS 48 F CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 A C VAL 22 A VAL 22 1_555 A N MSE 23 A MSE 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale2 A C MSE 23 A MSE 23 1_555 A N GLY 24 A GLY 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale3 A C CYS 48 A CYS 48 1_555 A N MSE 49 A MSE 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale4 A C MSE 49 A MSE 49 1_555 A N ARG 50 A ARG 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale5 A C GLU 58 A GLU 58 1_555 A N MSE 59 A MSE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale6 A C MSE 59 A MSE 59 1_555 A N ALA 60 A ALA 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale7 D C VAL 22 D VAL 22 1_555 D N MSE 23 D MSE 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale8 D C MSE 23 D MSE 23 1_555 D N GLY 24 D GLY 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale9 D C CYS 48 D CYS 48 1_555 D N MSE 49 D MSE 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale10 D C MSE 49 D MSE 49 1_555 D N ARG 50 D ARG 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale11 D C GLU 58 D GLU 58 1_555 D N MSE 59 D MSE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale12 D C MSE 59 D MSE 59 1_555 D N ALA 60 D ALA 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
#
_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 113 n n 
C1 C2 GOL sing 114 n n 
C1 H11 GOL sing 115 n n 
C1 H12 GOL sing 116 n n 
O1 HO1 GOL sing 117 n n 
C2 O2 GOL sing 118 n n 
C2 C3 GOL sing 119 n n 
C2 H2 GOL sing 120 n n 
O2 HO2 GOL sing 121 n n 
C3 O3 GOL sing 122 n n 
C3 H31 GOL sing 123 n n 
C3 H32 GOL sing 124 n n 
O3 HO3 GOL sing 125 n n 
#
_atom_sites.entry_id                     5CVB 
_atom_sites.fract_transf_matrix[1][1]    0.019316 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.008088 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015513 
_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]    0.016579 
_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 GOL A 1 101 2 GOL GOL . 
H 4 GOL C 1 101 1 GOL GOL . 
I 4 GOL F 1 101 3 GOL GOL . 
J 4 GOL F 1 102 4 GOL GOL . 
K 4 GOL F 1 103 5 GOL GOL . 
L 5 HOH A 1 201 31 HOH HOH . 
L 5 HOH A 2 202 79 HOH HOH . 
L 5 HOH A 3 203 50 HOH HOH . 
L 5 HOH A 4 204 48 HOH HOH . 
L 5 HOH A 5 205 43 HOH HOH . 
L 5 HOH A 6 206 26 HOH HOH . 
L 5 HOH A 7 207 8 HOH HOH . 
L 5 HOH A 8 208 54 HOH HOH . 
L 5 HOH A 9 209 86 HOH HOH . 
L 5 HOH A 10 210 95 HOH HOH . 
L 5 HOH A 11 211 85 HOH HOH . 
L 5 HOH A 12 212 84 HOH HOH . 
L 5 HOH A 13 213 96 HOH HOH . 
M 5 HOH B 1 101 83 HOH HOH . 
M 5 HOH B 2 102 6 HOH HOH . 
M 5 HOH B 3 103 27 HOH HOH . 
M 5 HOH B 4 104 1 HOH HOH . 
M 5 HOH B 5 105 13 HOH HOH . 
M 5 HOH B 6 106 36 HOH HOH . 
M 5 HOH B 7 107 37 HOH HOH . 
M 5 HOH B 8 108 11 HOH HOH . 
M 5 HOH B 9 109 32 HOH HOH . 
M 5 HOH B 10 110 58 HOH HOH . 
M 5 HOH B 11 111 15 HOH HOH . 
M 5 HOH B 12 112 4 HOH HOH . 
M 5 HOH B 13 113 52 HOH HOH . 
M 5 HOH B 14 114 87 HOH HOH . 
M 5 HOH B 15 115 51 HOH HOH . 
N 5 HOH C 1 201 64 HOH HOH . 
N 5 HOH C 2 202 44 HOH HOH . 
N 5 HOH C 3 203 10 HOH HOH . 
N 5 HOH C 4 204 68 HOH HOH . 
N 5 HOH C 5 205 34 HOH HOH . 
N 5 HOH C 6 206 9 HOH HOH . 
N 5 HOH C 7 207 70 HOH HOH . 
N 5 HOH C 8 208 19 HOH HOH . 
N 5 HOH C 9 209 14 HOH HOH . 
N 5 HOH C 10 210 22 HOH HOH . 
N 5 HOH C 11 211 5 HOH HOH . 
N 5 HOH C 12 212 59 HOH HOH . 
N 5 HOH C 13 213 28 HOH HOH . 
N 5 HOH C 14 214 23 HOH HOH . 
N 5 HOH C 15 215 62 HOH HOH . 
N 5 HOH C 16 216 49 HOH HOH . 
N 5 HOH C 17 217 55 HOH HOH . 
N 5 HOH C 18 218 29 HOH HOH . 
N 5 HOH C 19 219 18 HOH HOH . 
N 5 HOH C 20 220 69 HOH HOH . 
N 5 HOH C 21 221 88 HOH HOH . 
N 5 HOH C 22 222 97 HOH HOH . 
N 5 HOH C 23 223 17 HOH HOH . 
N 5 HOH C 24 224 63 HOH HOH . 
N 5 HOH C 25 225 77 HOH HOH . 
O 5 HOH D 1 101 57 HOH HOH . 
O 5 HOH D 2 102 94 HOH HOH . 
O 5 HOH D 3 103 72 HOH HOH . 
O 5 HOH D 4 104 65 HOH HOH . 
O 5 HOH D 5 105 41 HOH HOH . 
O 5 HOH D 6 106 81 HOH HOH . 
O 5 HOH D 7 107 3 HOH HOH . 
O 5 HOH D 8 108 53 HOH HOH . 
O 5 HOH D 9 109 74 HOH HOH . 
O 5 HOH D 10 110 16 HOH HOH . 
O 5 HOH D 11 111 75 HOH HOH . 
O 5 HOH D 12 112 76 HOH HOH . 
O 5 HOH D 13 113 73 HOH HOH . 
O 5 HOH D 14 114 80 HOH HOH . 
O 5 HOH D 15 115 89 HOH HOH . 
O 5 HOH D 16 116 78 HOH HOH . 
P 5 HOH E 1 101 33 HOH HOH . 
P 5 HOH E 2 102 61 HOH HOH . 
P 5 HOH E 3 103 7 HOH HOH . 
P 5 HOH E 4 104 42 HOH HOH . 
P 5 HOH E 5 105 40 HOH HOH . 
P 5 HOH E 6 106 71 HOH HOH . 
P 5 HOH E 7 107 47 HOH HOH . 
P 5 HOH E 8 108 90 HOH HOH . 
Q 5 HOH F 1 201 46 HOH HOH . 
Q 5 HOH F 2 202 25 HOH HOH . 
Q 5 HOH F 3 203 56 HOH HOH . 
Q 5 HOH F 4 204 66 HOH HOH . 
Q 5 HOH F 5 205 92 HOH HOH . 
Q 5 HOH F 6 206 82 HOH HOH . 
Q 5 HOH F 7 207 12 HOH HOH . 
Q 5 HOH F 8 208 2 HOH HOH . 
Q 5 HOH F 9 209 20 HOH HOH . 
Q 5 HOH F 10 210 24 HOH HOH . 
Q 5 HOH F 11 211 30 HOH HOH . 
Q 5 HOH F 12 212 45 HOH HOH . 
Q 5 HOH F 13 213 35 HOH HOH . 
Q 5 HOH F 14 214 98 HOH HOH . 
Q 5 HOH F 15 215 60 HOH HOH . 
Q 5 HOH F 16 216 38 HOH HOH . 
Q 5 HOH F 17 217 67 HOH HOH . 
Q 5 HOH F 18 218 91 HOH HOH . 
Q 5 HOH F 19 219 93 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 . . . H 4 17.844 6.794 39.3 1 37.38 ? C1 GOL 101 C 1 
HETATM 2 O O1 GOL . . . H 4 16.552 7.333 39.121 1 49.45 ? O1 GOL 101 C 1 
HETATM 3 C C2 GOL . . . H 4 17.728 5.38 39.855 1 46.23 ? C2 GOL 101 C 1 
HETATM 4 O O2 GOL . . . H 4 16.367 5.056 40.039 1 51.22 ? O2 GOL 101 C 1 
HETATM 5 C C3 GOL . . . H 4 18.357 4.403 38.869 1 40.44 ? C3 GOL 101 C 1 
HETATM 6 O O3 GOL . . . H 4 18.13 3.081 39.306 1 44.11 ? O3 GOL 101 C 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           213 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           6 
#