data_5Z4P
#
_model_server_result.job_id            0bijYeVsj9YxQEhllzQpQw 
_model_server_result.datetime_utc      '2024-12-22 06:29:06' 
_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          5z4p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":506}' 
#
_entry.id    5Z4P 
#
_exptl.entry_id    5Z4P 
_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    11 
_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            5Z4P 
_cell.length_a            103.832 
_cell.length_b            154.843 
_cell.length_c            181.024 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5Z4P 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_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 
_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
? 7 I N N 
? 7 J N N 
? 7 L N N 
? 7 O N N 
? 7 S N N 
? 7 T N N 
? 7 W N N 
? 7 X N N 
? 7 Y N N 
? 7 FA N N 
? 7 GA 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 OD1 ASP 39 A ASP 39 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? 
metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? 
metalc ? metalc3 A O THR 41 A THR 41 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? 
metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.39 ? 
metalc ? metalc5 A O GLY 44 A GLY 44 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? 
metalc ? metalc6 A OE1 GLU 55 A GLU 55 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc7 A OE2 GLU 55 A GLU 55 1_555 K CA CA . A CA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? 
metalc ? metalc8 G O3G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
metalc ? metalc9 G O2B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc10 B OE1 GLN 11 B GLN 11 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? 
metalc ? metalc11 B OE2 GLU 108 B GLU 110 1_555 P CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.198 ? 
metalc ? metalc12 B OE1 GLU 111 B GLU 113 1_555 P CA CA . B CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? 
metalc ? metalc13 B OE1 GLU 111 B GLU 113 1_555 Z CA CA . C CA 508 4_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.821 ? 
metalc ? metalc14 B OD2 ASP 177 B ASP 179 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? 
metalc ? metalc15 M O2A GDP . B GDP 501 1_555 N MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? 
metalc ? metalc16 N MG MG . B MG 502 1_555 JA O HOH . B HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.704 ? 
metalc ? metalc17 C OE1 GLU 71 C GLU 71 1_555 V MG MG . C MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.938 ? 
metalc ? metalc18 U O3G GTP . C GTP 503 1_555 V MG MG . C MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? 
metalc ? metalc19 U O2B GTP . C GTP 503 1_555 V MG MG . C MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc20 V MG MG . C MG 504 1_555 KA O HOH . C HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.882 ? 
metalc ? metalc21 DA O2B GDP . D GDP 501 1_555 EA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? 
#
_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 277 n n 
C1 C2 GOL sing 278 n n 
C1 H11 GOL sing 279 n n 
C1 H12 GOL sing 280 n n 
O1 HO1 GOL sing 281 n n 
C2 O2 GOL sing 282 n n 
C2 C3 GOL sing 283 n n 
C2 H2 GOL sing 284 n n 
O2 HO2 GOL sing 285 n n 
C3 O3 GOL sing 286 n n 
C3 H31 GOL sing 287 n n 
C3 H32 GOL sing 288 n n 
O3 HO3 GOL sing 289 n n 
#
_atom_sites.entry_id                     5Z4P 
_atom_sites.fract_transf_matrix[1][1]    0.009631 
_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]    0.006458 
_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]    0.005524 
_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 5 GTP A 1 501 501 GTP GTP . 
H 6 MG A 1 502 502 MG MG . 
I 7 GOL A 1 503 504 GOL GOL . 
J 7 GOL A 1 504 505 GOL GOL . 
K 8 CA A 1 505 506 CA CA . 
L 7 GOL A 1 506 201 GOL GOL . 
M 9 GDP B 1 501 501 GDP GDP . 
N 6 MG B 1 502 502 MG MG . 
O 7 GOL B 1 503 506 GOL GOL . 
P 8 CA B 1 504 508 CA CA . 
Q 10 MES B 1 505 509 MES MES . 
R 11 97O B 1 506 999 97O UNK . 
S 7 GOL C 1 501 504 GOL GOL . 
T 7 GOL C 1 502 505 GOL GOL . 
U 5 GTP C 1 503 501 GTP GTP . 
V 6 MG C 1 504 502 MG MG . 
W 7 GOL C 1 505 503 GOL GOL . 
X 7 GOL C 1 506 504 GOL GOL . 
Y 7 GOL C 1 507 505 GOL GOL . 
Z 8 CA C 1 508 508 CA CA . 
AA 12 IMD C 1 509 509 IMD IMD . 
BA 12 IMD C 1 510 510 IMD IMD . 
CA 12 IMD C 1 511 511 IMD IMD . 
DA 9 GDP D 1 501 501 GDP GDP . 
EA 6 MG D 1 502 502 MG MG . 
FA 7 GOL D 1 503 504 GOL GOL . 
GA 7 GOL D 1 504 505 GOL GOL . 
HA 13 ACP F 1 401 402 ACP ACP . 
IA 14 HOH A 1 601 32 HOH HOH . 
IA 14 HOH A 2 602 46 HOH HOH . 
IA 14 HOH A 3 603 34 HOH HOH . 
IA 14 HOH A 4 604 28 HOH HOH . 
IA 14 HOH A 5 605 16 HOH HOH . 
IA 14 HOH A 6 606 30 HOH HOH . 
IA 14 HOH A 7 607 36 HOH HOH . 
IA 14 HOH A 8 608 31 HOH HOH . 
IA 14 HOH A 9 609 10 HOH HOH . 
IA 14 HOH A 10 610 6 HOH HOH . 
IA 14 HOH A 11 611 21 HOH HOH . 
JA 14 HOH B 1 601 17 HOH HOH . 
JA 14 HOH B 2 602 37 HOH HOH . 
JA 14 HOH B 3 603 41 HOH HOH . 
JA 14 HOH B 4 604 40 HOH HOH . 
JA 14 HOH B 5 605 19 HOH HOH . 
JA 14 HOH B 6 606 38 HOH HOH . 
JA 14 HOH B 7 607 42 HOH HOH . 
JA 14 HOH B 8 608 39 HOH HOH . 
JA 14 HOH B 9 609 3 HOH HOH . 
JA 14 HOH B 10 610 7 HOH HOH . 
JA 14 HOH B 11 611 20 HOH HOH . 
JA 14 HOH B 12 612 18 HOH HOH . 
JA 14 HOH B 13 613 44 HOH HOH . 
KA 14 HOH C 1 601 8 HOH HOH . 
KA 14 HOH C 2 602 49 HOH HOH . 
KA 14 HOH C 3 603 14 HOH HOH . 
KA 14 HOH C 4 604 50 HOH HOH . 
KA 14 HOH C 5 605 11 HOH HOH . 
KA 14 HOH C 6 606 45 HOH HOH . 
KA 14 HOH C 7 607 48 HOH HOH . 
KA 14 HOH C 8 608 47 HOH HOH . 
KA 14 HOH C 9 609 4 HOH HOH . 
KA 14 HOH C 10 610 51 HOH HOH . 
KA 14 HOH C 11 611 15 HOH HOH . 
KA 14 HOH C 12 612 1 HOH HOH . 
KA 14 HOH C 13 613 2 HOH HOH . 
KA 14 HOH C 14 614 9 HOH HOH . 
KA 14 HOH C 15 615 5 HOH HOH . 
KA 14 HOH C 16 616 12 HOH HOH . 
KA 14 HOH C 17 617 43 HOH HOH . 
LA 14 HOH D 1 601 52 HOH HOH . 
LA 14 HOH D 2 602 23 HOH HOH . 
LA 14 HOH D 3 603 22 HOH HOH . 
LA 14 HOH D 4 604 25 HOH HOH . 
MA 14 HOH F 1 501 13 HOH HOH . 
MA 14 HOH F 2 502 26 HOH HOH . 
MA 14 HOH F 3 503 27 HOH HOH . 
MA 14 HOH F 4 504 35 HOH HOH . 
MA 14 HOH F 5 505 33 HOH HOH . 
MA 14 HOH F 6 506 24 HOH HOH . 
MA 14 HOH F 7 507 29 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 . . . L 7 44.255 -78.855 -66.962 1 73.22 ? C1 GOL 506 A 1 
HETATM 2 O O1 GOL . . . L 7 43.669 -78.208 -68.072 1 72.43 ? O1 GOL 506 A 1 
HETATM 3 C C2 GOL . . . L 7 43.246 -78.824 -65.741 1 71.33 ? C2 GOL 506 A 1 
HETATM 4 O O2 GOL . . . L 7 42.732 -77.545 -65.501 1 68.48 ? O2 GOL 506 A 1 
HETATM 5 C C3 GOL . . . L 7 42.134 -79.879 -66.082 1 76.23 ? C3 GOL 506 A 1 
HETATM 6 O O3 GOL . . . L 7 41.208 -79.944 -64.996 1 68.98 ? O3 GOL 506 A 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    45 
_model_server_stats.query_time_ms           285 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#