data_3N5T
#
_model_server_result.job_id            mRzjxVA0kh-5yTOZ7CTJqg 
_model_server_result.datetime_utc      '2024-11-13 15:21:51' 
_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          3n5t 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":880}' 
#
_entry.id    3N5T 
#
_exptl.entry_id    3N5T 
_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    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            3N5T 
_cell.length_a            58.12 
_cell.length_b            106.744 
_cell.length_c            157.382 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3N5T 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_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,P,Q 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 E N N 
? 4 L 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 SG CYS 58 A CYS 96 1_555 I ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? 
metalc ? metalc2 A SG CYS 63 A CYS 101 1_555 I ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? 
metalc ? metalc3 A SG CYS 148 A CYS 186 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? 
metalc ? metalc4 I ZN ZN . A ZN 900 1_555 B SG CYS 58 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? 
metalc ? metalc5 I ZN ZN . A ZN 900 1_555 B SG CYS 63 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc6 B SG CYS 148 B CYS 186 1_555 J FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? 
#
_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 146 n n 
C1 C2 GOL sing 147 n n 
C1 H11 GOL sing 148 n n 
C1 H12 GOL sing 149 n n 
O1 HO1 GOL sing 150 n n 
C2 O2 GOL sing 151 n n 
C2 C3 GOL sing 152 n n 
C2 H2 GOL sing 153 n n 
O2 HO2 GOL sing 154 n n 
C3 O3 GOL sing 155 n n 
C3 H31 GOL sing 156 n n 
C3 H32 GOL sing 157 n n 
O3 HO3 GOL sing 158 n n 
#
_atom_sites.entry_id                     3N5T 
_atom_sites.fract_transf_matrix[1][1]    0.017206 
_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]    0.009368 
_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]    0.006354 
_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
C 2 HEM A 1 500 500 HEM HEM . 
D 3 ACT A 1 860 860 ACT ACT . 
E 4 GOL A 1 880 880 GOL GOL . 
F 5 XFJ A 1 800 800 XFJ XFJ . 
G 6 H4B A 1 600 600 H4B H4B . 
H 7 CAD A 1 950 950 CAD CAD . 
I 8 ZN A 1 900 900 ZN ZN . 
J 2 HEM B 1 500 500 HEM HEM . 
K 3 ACT B 1 860 860 ACT ACT . 
L 4 GOL B 1 880 880 GOL GOL . 
M 5 XFJ B 1 800 800 XFJ XFJ . 
N 6 H4B B 1 600 600 H4B H4B . 
O 7 CAD B 1 950 950 CAD CAD . 
P 9 HOH A 1 1001 1001 HOH HOH . 
P 9 HOH A 2 1002 1002 HOH HOH . 
P 9 HOH A 3 1003 1003 HOH HOH . 
P 9 HOH A 4 1004 1004 HOH HOH . 
P 9 HOH A 5 1005 1005 HOH HOH . 
P 9 HOH A 6 1006 1006 HOH HOH . 
P 9 HOH A 7 1007 1007 HOH HOH . 
P 9 HOH A 8 1008 1008 HOH HOH . 
P 9 HOH A 9 1009 1009 HOH HOH . 
P 9 HOH A 10 1010 1010 HOH HOH . 
P 9 HOH A 11 1011 1011 HOH HOH . 
P 9 HOH A 12 1012 1012 HOH HOH . 
P 9 HOH A 13 1013 1013 HOH HOH . 
P 9 HOH A 14 1014 1014 HOH HOH . 
P 9 HOH A 15 1015 1015 HOH HOH . 
P 9 HOH A 16 1016 1016 HOH HOH . 
P 9 HOH A 17 1017 1017 HOH HOH . 
P 9 HOH A 18 1018 1018 HOH HOH . 
P 9 HOH A 19 1019 1019 HOH HOH . 
P 9 HOH A 20 1020 1020 HOH HOH . 
P 9 HOH A 21 1021 1021 HOH HOH . 
P 9 HOH A 22 1022 1022 HOH HOH . 
P 9 HOH A 23 1023 1023 HOH HOH . 
P 9 HOH A 24 1024 1024 HOH HOH . 
P 9 HOH A 25 1025 1025 HOH HOH . 
P 9 HOH A 26 1026 1026 HOH HOH . 
P 9 HOH A 27 1027 1027 HOH HOH . 
P 9 HOH A 28 1028 1028 HOH HOH . 
P 9 HOH A 29 1029 1029 HOH HOH . 
P 9 HOH A 30 1030 1030 HOH HOH . 
P 9 HOH A 31 1031 1031 HOH HOH . 
P 9 HOH A 32 1032 1032 HOH HOH . 
P 9 HOH A 33 1033 1033 HOH HOH . 
P 9 HOH A 34 1034 1034 HOH HOH . 
P 9 HOH A 35 1035 1035 HOH HOH . 
P 9 HOH A 36 1036 1036 HOH HOH . 
P 9 HOH A 37 1037 1037 HOH HOH . 
P 9 HOH A 38 1038 1038 HOH HOH . 
P 9 HOH A 39 1039 1039 HOH HOH . 
P 9 HOH A 40 1040 1040 HOH HOH . 
P 9 HOH A 41 1041 1041 HOH HOH . 
P 9 HOH A 42 1042 1042 HOH HOH . 
P 9 HOH A 43 1043 1043 HOH HOH . 
P 9 HOH A 44 1044 1044 HOH HOH . 
P 9 HOH A 45 1045 1045 HOH HOH . 
P 9 HOH A 46 1046 1046 HOH HOH . 
P 9 HOH A 47 1047 1047 HOH HOH . 
P 9 HOH A 48 1048 1048 HOH HOH . 
P 9 HOH A 49 1049 1049 HOH HOH . 
P 9 HOH A 50 1050 1050 HOH HOH . 
P 9 HOH A 51 1051 1051 HOH HOH . 
P 9 HOH A 52 1052 1052 HOH HOH . 
P 9 HOH A 53 1053 1053 HOH HOH . 
P 9 HOH A 54 1054 1054 HOH HOH . 
P 9 HOH A 55 1055 1055 HOH HOH . 
P 9 HOH A 56 1056 1056 HOH HOH . 
P 9 HOH A 57 1057 1057 HOH HOH . 
P 9 HOH A 58 1058 1058 HOH HOH . 
P 9 HOH A 59 1059 1059 HOH HOH . 
P 9 HOH A 60 1060 1060 HOH HOH . 
P 9 HOH A 61 1061 1061 HOH HOH . 
P 9 HOH A 62 1062 1062 HOH HOH . 
P 9 HOH A 63 1063 1063 HOH HOH . 
P 9 HOH A 64 1064 1064 HOH HOH . 
Q 9 HOH B 1 1065 1065 HOH HOH . 
Q 9 HOH B 2 1066 1066 HOH HOH . 
Q 9 HOH B 3 1067 1067 HOH HOH . 
Q 9 HOH B 4 1068 1068 HOH HOH . 
Q 9 HOH B 5 1069 1069 HOH HOH . 
Q 9 HOH B 6 1070 1070 HOH HOH . 
Q 9 HOH B 7 1071 1071 HOH HOH . 
Q 9 HOH B 8 1072 1072 HOH HOH . 
Q 9 HOH B 9 1073 1073 HOH HOH . 
Q 9 HOH B 10 1074 1074 HOH HOH . 
Q 9 HOH B 11 1075 1075 HOH HOH . 
Q 9 HOH B 12 1076 1076 HOH HOH . 
Q 9 HOH B 13 1077 1077 HOH HOH . 
Q 9 HOH B 14 1078 1078 HOH HOH . 
Q 9 HOH B 15 1079 1079 HOH HOH . 
Q 9 HOH B 16 1080 1080 HOH HOH . 
Q 9 HOH B 17 1081 1081 HOH HOH . 
Q 9 HOH B 18 1082 1082 HOH HOH . 
Q 9 HOH B 19 1083 1083 HOH HOH . 
Q 9 HOH B 20 1084 1084 HOH HOH . 
Q 9 HOH B 21 1085 1085 HOH HOH . 
Q 9 HOH B 22 1086 1086 HOH HOH . 
Q 9 HOH B 23 1087 1087 HOH HOH . 
Q 9 HOH B 24 1088 1088 HOH HOH . 
Q 9 HOH B 25 1089 1089 HOH HOH . 
Q 9 HOH B 26 1090 1090 HOH HOH . 
Q 9 HOH B 27 1091 1091 HOH HOH . 
Q 9 HOH B 28 1092 1092 HOH HOH . 
Q 9 HOH B 29 1093 1093 HOH HOH . 
Q 9 HOH B 30 1094 1094 HOH HOH . 
Q 9 HOH B 31 1095 1095 HOH HOH . 
Q 9 HOH B 32 1096 1096 HOH HOH . 
Q 9 HOH B 33 1097 1097 HOH HOH . 
Q 9 HOH B 34 1098 1098 HOH HOH . 
Q 9 HOH B 35 1099 1099 HOH HOH . 
Q 9 HOH B 36 1100 1100 HOH HOH . 
Q 9 HOH B 37 1101 1101 HOH HOH . 
Q 9 HOH B 38 1102 1102 HOH HOH . 
Q 9 HOH B 39 1103 1103 HOH HOH . 
Q 9 HOH B 40 1104 1104 HOH HOH . 
Q 9 HOH B 41 1105 1105 HOH HOH . 
Q 9 HOH B 42 1106 1106 HOH HOH . 
Q 9 HOH B 43 1107 1107 HOH HOH . 
Q 9 HOH B 44 1108 1108 HOH HOH . 
Q 9 HOH B 45 1109 1109 HOH HOH . 
Q 9 HOH B 46 1110 1110 HOH HOH . 
Q 9 HOH B 47 1111 1111 HOH HOH . 
Q 9 HOH B 48 1112 1112 HOH HOH . 
Q 9 HOH B 49 1113 1113 HOH HOH . 
Q 9 HOH B 50 1114 1114 HOH HOH . 
Q 9 HOH B 51 1115 1115 HOH HOH . 
Q 9 HOH B 52 1116 1116 HOH HOH . 
Q 9 HOH B 53 1117 1117 HOH HOH . 
Q 9 HOH B 54 1118 1118 HOH HOH . 
Q 9 HOH B 55 1119 1119 HOH HOH . 
Q 9 HOH B 56 1120 1120 HOH HOH . 
Q 9 HOH B 57 1121 1121 HOH HOH . 
Q 9 HOH B 58 1122 1122 HOH HOH . 
Q 9 HOH B 59 1123 1123 HOH HOH . 
Q 9 HOH B 60 1124 1124 HOH HOH . 
Q 9 HOH B 61 1125 1125 HOH HOH . 
Q 9 HOH B 62 1126 1126 HOH HOH . 
Q 9 HOH B 63 1127 1127 HOH HOH . 
Q 9 HOH B 64 1128 1128 HOH HOH . 
Q 9 HOH B 65 1129 1129 HOH HOH . 
Q 9 HOH B 66 1130 1130 HOH HOH . 
Q 9 HOH B 67 1131 1131 HOH HOH . 
Q 9 HOH B 68 1132 1132 HOH HOH . 
Q 9 HOH B 69 1133 1133 HOH HOH . 
Q 9 HOH B 70 1134 1134 HOH HOH . 
Q 9 HOH B 71 1135 1135 HOH HOH . 
Q 9 HOH B 72 1136 1136 HOH HOH . 
Q 9 HOH B 73 1137 1137 HOH HOH . 
Q 9 HOH B 74 1138 1138 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 . . . E 4 14.045 16.953 40.633 1 70.62 ? C1 GOL 880 A 1 
HETATM 2 O O1 GOL . . . E 4 13.124 16.766 39.571 1 68.51 ? O1 GOL 880 A 1 
HETATM 3 C C2 GOL . . . E 4 13.365 17.282 41.974 1 71.15 ? C2 GOL 880 A 1 
HETATM 4 O O2 GOL . . . E 4 12.543 16.227 42.411 1 71.34 ? O2 GOL 880 A 1 
HETATM 5 C C3 GOL . . . E 4 12.572 18.591 41.941 1 70.96 ? C3 GOL 880 A 1 
HETATM 6 O O3 GOL . . . E 4 12.623 19.185 43.227 1 69.82 ? O3 GOL 880 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    20 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#