data_6XA9
#
_model_server_result.job_id            TJ4VtRAoqJ2ksiFneNpKWA 
_model_server_result.datetime_utc      '2024-11-05 08:29:33' 
_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          6xa9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":402}' 
#
_entry.id    6XA9 
#
_exptl.entry_id    6XA9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    8 
_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            6XA9 
_cell.length_a            124.172 
_cell.length_b            124.172 
_cell.length_c            238.169 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XA9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    'P 4abw 2nw' 
_symmetry.space_group_name_H-M     'P 41 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
PISA dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 author_and_software_defined_assembly 2 
PISA dimeric 2 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,G,H,I,J,R,S 1 1 
C,D,K,L,M,N,T 2 1 
E,F,O,P,Q,U 3 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
? 3 G N N 
? 3 H N N 
? 3 I N N 
? 3 K N N 
? 3 L N N 
? 3 M N N 
? 3 P N N 
? 3 Q 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 SG CYS 114 A CYS 111 1_555 B C2 AYE 80 B AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.669 ? 
covale ? covale2 B C GLY 79 B GLY 156 1_555 B N1 AYE 80 B AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? 
covale ? covale3 C SG CYS 114 C CYS 111 1_555 D C2 AYE 80 D AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.661 ? 
covale ? covale4 D C GLY 79 D GLY 156 1_555 D N1 AYE 80 D AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale5 E SG CYS 114 E CYS 111 1_555 F C2 AYE 80 F AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.668 ? 
covale ? covale6 F C GLY 79 F GLY 156 1_555 F N1 AYE 80 F AYE 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? 
metalc ? metalc1 A SG CYS 192 A CYS 189 1_555 J ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc2 A SG CYS 195 A CYS 192 1_555 J ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? 
metalc ? metalc3 A SG CYS 227 A CYS 224 1_555 J ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? 
metalc ? metalc4 A SG CYS 229 A CYS 226 1_555 J ZN ZN . A ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? 
metalc ? metalc5 C SG CYS 192 C CYS 189 1_555 N ZN ZN . C ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? 
metalc ? metalc6 C SG CYS 195 C CYS 192 1_555 N ZN ZN . C ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
metalc ? metalc7 C SG CYS 227 C CYS 224 1_555 N ZN ZN . C ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc8 C SG CYS 229 C CYS 226 1_555 N ZN ZN . C ZN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? 
metalc ? metalc9 E SG CYS 192 E CYS 189 1_555 O ZN ZN . E ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
metalc ? metalc10 E SG CYS 195 E CYS 192 1_555 O ZN ZN . E ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.57 ? 
metalc ? metalc11 E SG CYS 227 E CYS 224 1_555 O ZN ZN . E ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? 
metalc ? metalc12 E SG CYS 229 E CYS 226 1_555 O ZN ZN . E ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? 
#
_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 139 n n 
C1 C2 GOL sing 140 n n 
C1 H11 GOL sing 141 n n 
C1 H12 GOL sing 142 n n 
O1 HO1 GOL sing 143 n n 
C2 O2 GOL sing 144 n n 
C2 C3 GOL sing 145 n n 
C2 H2 GOL sing 146 n n 
O2 HO2 GOL sing 147 n n 
C3 O3 GOL sing 148 n n 
C3 H31 GOL sing 149 n n 
C3 H32 GOL sing 150 n n 
O3 HO3 GOL sing 151 n n 
#
_atom_sites.entry_id                     6XA9 
_atom_sites.fract_transf_matrix[1][1]    0.008053 
_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]    0.008053 
_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]    0.004199 
_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 3 GOL A 1 401 502 GOL GOL . 
H 3 GOL A 1 402 503 GOL GOL . 
I 3 GOL A 1 403 504 GOL GOL . 
J 4 ZN A 1 404 501 ZN ZN . 
K 3 GOL C 1 401 502 GOL GOL . 
L 3 GOL C 1 402 503 GOL GOL . 
M 3 GOL C 1 403 504 GOL GOL . 
N 4 ZN C 1 404 501 ZN ZN . 
O 4 ZN E 1 501 501 ZN ZN . 
P 3 GOL E 1 502 502 GOL GOL . 
Q 3 GOL E 1 503 503 GOL GOL . 
R 5 HOH A 1 501 508 HOH HOH . 
R 5 HOH A 2 502 511 HOH HOH . 
R 5 HOH A 3 503 507 HOH HOH . 
R 5 HOH A 4 504 505 HOH HOH . 
R 5 HOH A 5 505 510 HOH HOH . 
R 5 HOH A 6 506 506 HOH HOH . 
R 5 HOH A 7 507 509 HOH HOH . 
R 5 HOH A 8 508 512 HOH HOH . 
S 5 HOH B 1 201 158 HOH HOH . 
T 5 HOH C 1 501 520 HOH HOH . 
T 5 HOH C 2 502 508 HOH HOH . 
T 5 HOH C 3 503 518 HOH HOH . 
T 5 HOH C 4 504 506 HOH HOH . 
T 5 HOH C 5 505 510 HOH HOH . 
T 5 HOH C 6 506 509 HOH HOH . 
T 5 HOH C 7 507 511 HOH HOH . 
T 5 HOH C 8 508 512 HOH HOH . 
T 5 HOH C 9 509 507 HOH HOH . 
T 5 HOH C 10 510 519 HOH HOH . 
T 5 HOH C 11 511 516 HOH HOH . 
T 5 HOH C 12 512 505 HOH HOH . 
T 5 HOH C 13 513 514 HOH HOH . 
T 5 HOH C 14 514 517 HOH HOH . 
T 5 HOH C 15 515 513 HOH HOH . 
T 5 HOH C 16 516 515 HOH HOH . 
U 5 HOH E 1 601 507 HOH HOH . 
U 5 HOH E 2 602 508 HOH HOH . 
U 5 HOH E 3 603 506 HOH HOH . 
U 5 HOH E 4 604 505 HOH HOH . 
U 5 HOH E 5 605 504 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 3 -25.484 34.596 -13.984 1 112.73 ? C1 GOL 402 A 1 
HETATM 2 O O1 GOL . . . H 3 -25.29 34.085 -12.713 1 113.09 ? O1 GOL 402 A 1 
HETATM 3 C C2 GOL . . . H 3 -26.996 34.668 -14.189 1 113.69 ? C2 GOL 402 A 1 
HETATM 4 O O2 GOL . . . H 3 -27.449 33.586 -14.92 1 117.07 ? O2 GOL 402 A 1 
HETATM 5 C C3 GOL . . . H 3 -27.207 36.01 -14.95 1 110.4 ? C3 GOL 402 A 1 
HETATM 6 O O3 GOL . . . H 3 -26.565 37 -14.212 1 108.48 ? O3 GOL 402 A 1 
#
_model_server_stats.io_time_ms              35 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#