data_8HMQ
#
_model_server_result.job_id            yii-Wqrnet7UpgQ4dnOF5g 
_model_server_result.datetime_utc      '2024-11-15 06:32:38' 
_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          8hmq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":602}' 
#
_entry.id    8HMQ 
#
_exptl.entry_id    8HMQ 
_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    7 
_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            8HMQ 
_cell.length_a            99.829 
_cell.length_b            136.839 
_cell.length_c            149.16 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8HMQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    'P 2ac 2ab' 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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 
_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
? 3 F N N 
? 3 G N N 
? 3 P N N 
? 3 Q N N 
? 3 W N N 
? 3 BA N N 
? 3 DA 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 ASN 95 A ASN 75 1_555 L MG MG . A MG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? 
metalc ? metalc2 A OG SER 97 A SER 77 1_555 L MG MG . A MG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.882 ? 
metalc ? metalc3 A OD1 ASP 133 A ASP 113 1_555 L MG MG . A MG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc4 A O THR 134 A THR 114 1_555 L MG MG . A MG 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? 
metalc ? metalc5 A O ASP 256 A ASP 236 1_555 M MG MG . A MG 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.838 ? 
metalc ? metalc6 A OD1 ASP 258 A ASP 238 1_555 M MG MG . A MG 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.659 ? 
metalc ? metalc7 A OE1 GLU 292 A GLU 272 1_555 K MG MG . A MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.906 ? 
metalc ? metalc8 A OD2 ASP 316 A ASP 296 1_555 K MG MG . A MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc9 E O1 OXL . A OXL 601 1_555 K MG MG . A MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? 
metalc ? metalc10 E O2 OXL . A OXL 601 1_555 K MG MG . A MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? 
metalc ? metalc11 K MG MG . A MG 607 1_555 GA O HOH . A HOH 710 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? 
metalc ? metalc12 K MG MG . A MG 607 1_555 GA O HOH . A HOH 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc13 B OD1 ASN 95 B ASN 75 1_555 S MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.827 ? 
metalc ? metalc14 B OG SER 97 B SER 77 1_555 S MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? 
metalc ? metalc15 B OD1 ASP 133 B ASP 113 1_555 S MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? 
metalc ? metalc16 B O THR 134 B THR 114 1_555 S MG MG . B MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.989 ? 
metalc ? metalc17 B O ILE 265 B ILE 245 1_555 T MG MG . B MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? 
metalc ? metalc18 B OE1 GLU 292 B GLU 272 1_555 R MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc19 B OE2 GLU 292 B GLU 272 1_555 R MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.923 ? 
metalc ? metalc20 B OD2 ASP 316 B ASP 296 1_555 R MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? 
metalc ? metalc21 N O3 OXL . B OXL 601 1_555 R MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.897 ? 
metalc ? metalc22 N O4 OXL . B OXL 601 1_555 R MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
metalc ? metalc23 C OE1 GLU 292 C GLU 272 1_555 Y MG MG . C MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc24 C OD2 ASP 316 C ASP 296 1_555 Y MG MG . C MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? 
metalc ? metalc25 U O1 OXL . C OXL 601 1_555 Y MG MG . C MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? 
metalc ? metalc26 U O2 OXL . C OXL 601 1_555 Y MG MG . C MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
metalc ? metalc27 Y MG MG . C MG 605 1_555 IA O HOH . C HOH 709 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? 
metalc ? metalc28 D OD1 ASN 95 D ASN 75 1_555 FA MG MG . D MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? 
metalc ? metalc29 D OD1 ASP 133 D ASP 113 1_555 FA MG MG . D MG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? 
metalc ? metalc30 D OE1 GLU 292 D GLU 272 1_555 EA MG MG . D MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? 
metalc ? metalc31 D OD2 ASP 316 D ASP 296 1_555 EA MG MG . D MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
metalc ? metalc32 Z O3 OXL . D OXL 601 1_555 EA MG MG . D MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc33 Z O4 OXL . D OXL 601 1_555 EA MG MG . D MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc34 EA MG MG . D MG 606 1_555 JA O HOH . D HOH 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? 
metalc ? metalc35 FA MG MG . D MG 607 1_555 JA O HOH . D HOH 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.989 ? 
#
_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 172 n n 
C1 C2 GOL sing 173 n n 
C1 H11 GOL sing 174 n n 
C1 H12 GOL sing 175 n n 
O1 HO1 GOL sing 176 n n 
C2 O2 GOL sing 177 n n 
C2 C3 GOL sing 178 n n 
C2 H2 GOL sing 179 n n 
O2 HO2 GOL sing 180 n n 
C3 O3 GOL sing 181 n n 
C3 H31 GOL sing 182 n n 
C3 H32 GOL sing 183 n n 
O3 HO3 GOL sing 184 n n 
#
_atom_sites.entry_id                     8HMQ 
_atom_sites.fract_transf_matrix[1][1]    0.010017 
_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]    0.007308 
_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]    0.006704 
_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
E 2 OXL A 1 601 601 OXL OXL . 
F 3 GOL A 1 602 605 GOL GOL . 
G 3 GOL A 1 603 606 GOL GOL . 
H 4 EDO A 1 604 608 EDO EDO . 
I 4 EDO A 1 605 609 EDO EDO . 
J 4 EDO A 1 606 610 EDO EDO . 
K 5 MG A 1 607 4 MG MG . 
L 5 MG A 1 608 7 MG MG . 
M 5 MG A 1 609 8 MG MG . 
N 2 OXL B 1 601 601 OXL OXL . 
O 6 FBP B 1 602 602 FBP FBP . 
P 3 GOL B 1 603 605 GOL GOL . 
Q 3 GOL B 1 604 606 GOL GOL . 
R 5 MG B 1 605 3 MG MG . 
S 5 MG B 1 606 5 MG MG . 
T 5 MG B 1 607 9 MG MG . 
U 2 OXL C 1 601 601 OXL OXL . 
V 6 FBP C 1 602 602 FBP FBP . 
W 3 GOL C 1 603 606 GOL GOL . 
X 4 EDO C 1 604 604 EDO EDO . 
Y 5 MG C 1 605 1 MG MG . 
Z 2 OXL D 1 601 601 OXL OXL . 
AA 6 FBP D 1 602 602 FBP FBP . 
BA 3 GOL D 1 603 606 GOL GOL . 
CA 4 EDO D 1 604 607 EDO EDO . 
DA 3 GOL D 1 605 608 GOL GOL . 
EA 5 MG D 1 606 2 MG MG . 
FA 5 MG D 1 607 6 MG MG . 
GA 7 HOH A 1 701 62 HOH HOH . 
GA 7 HOH A 2 702 105 HOH HOH . 
GA 7 HOH A 3 703 23 HOH HOH . 
GA 7 HOH A 4 704 32 HOH HOH . 
GA 7 HOH A 5 705 15 HOH HOH . 
GA 7 HOH A 6 706 73 HOH HOH . 
GA 7 HOH A 7 707 20 HOH HOH . 
GA 7 HOH A 8 708 11 HOH HOH . 
GA 7 HOH A 9 709 89 HOH HOH . 
GA 7 HOH A 10 710 1 HOH HOH . 
GA 7 HOH A 11 711 107 HOH HOH . 
GA 7 HOH A 12 712 106 HOH HOH . 
GA 7 HOH A 13 713 43 HOH HOH . 
GA 7 HOH A 14 714 101 HOH HOH . 
GA 7 HOH A 15 715 61 HOH HOH . 
GA 7 HOH A 16 716 25 HOH HOH . 
GA 7 HOH A 17 717 75 HOH HOH . 
GA 7 HOH A 18 718 34 HOH HOH . 
GA 7 HOH A 19 719 77 HOH HOH . 
GA 7 HOH A 20 720 94 HOH HOH . 
GA 7 HOH A 21 721 16 HOH HOH . 
GA 7 HOH A 22 722 47 HOH HOH . 
GA 7 HOH A 23 723 42 HOH HOH . 
GA 7 HOH A 24 724 71 HOH HOH . 
GA 7 HOH A 25 725 7 HOH HOH . 
GA 7 HOH A 26 726 48 HOH HOH . 
GA 7 HOH A 27 727 97 HOH HOH . 
GA 7 HOH A 28 728 13 HOH HOH . 
GA 7 HOH A 29 729 56 HOH HOH . 
GA 7 HOH A 30 730 6 HOH HOH . 
GA 7 HOH A 31 731 68 HOH HOH . 
GA 7 HOH A 32 732 67 HOH HOH . 
GA 7 HOH A 33 733 74 HOH HOH . 
GA 7 HOH A 34 734 24 HOH HOH . 
GA 7 HOH A 35 735 78 HOH HOH . 
GA 7 HOH A 36 736 51 HOH HOH . 
GA 7 HOH A 37 737 2 HOH HOH . 
GA 7 HOH A 38 738 39 HOH HOH . 
GA 7 HOH A 39 739 82 HOH HOH . 
GA 7 HOH A 40 740 79 HOH HOH . 
GA 7 HOH A 41 741 85 HOH HOH . 
GA 7 HOH A 42 742 57 HOH HOH . 
GA 7 HOH A 43 743 27 HOH HOH . 
GA 7 HOH A 44 744 55 HOH HOH . 
GA 7 HOH A 45 745 90 HOH HOH . 
GA 7 HOH A 46 746 54 HOH HOH . 
GA 7 HOH A 47 747 86 HOH HOH . 
GA 7 HOH A 48 748 83 HOH HOH . 
GA 7 HOH A 49 749 28 HOH HOH . 
HA 7 HOH B 1 701 100 HOH HOH . 
HA 7 HOH B 2 702 10 HOH HOH . 
HA 7 HOH B 3 703 33 HOH HOH . 
HA 7 HOH B 4 704 21 HOH HOH . 
HA 7 HOH B 5 705 30 HOH HOH . 
HA 7 HOH B 6 706 70 HOH HOH . 
HA 7 HOH B 7 707 92 HOH HOH . 
HA 7 HOH B 8 708 80 HOH HOH . 
HA 7 HOH B 9 709 9 HOH HOH . 
HA 7 HOH B 10 710 104 HOH HOH . 
HA 7 HOH B 11 711 49 HOH HOH . 
HA 7 HOH B 12 712 29 HOH HOH . 
HA 7 HOH B 13 713 65 HOH HOH . 
HA 7 HOH B 14 714 109 HOH HOH . 
HA 7 HOH B 15 715 72 HOH HOH . 
HA 7 HOH B 16 716 26 HOH HOH . 
HA 7 HOH B 17 717 41 HOH HOH . 
HA 7 HOH B 18 718 50 HOH HOH . 
HA 7 HOH B 19 719 37 HOH HOH . 
HA 7 HOH B 20 720 5 HOH HOH . 
HA 7 HOH B 21 721 110 HOH HOH . 
HA 7 HOH B 22 722 108 HOH HOH . 
HA 7 HOH B 23 723 84 HOH HOH . 
HA 7 HOH B 24 724 60 HOH HOH . 
HA 7 HOH B 25 725 31 HOH HOH . 
HA 7 HOH B 26 726 40 HOH HOH . 
HA 7 HOH B 27 727 66 HOH HOH . 
HA 7 HOH B 28 728 59 HOH HOH . 
HA 7 HOH B 29 729 19 HOH HOH . 
HA 7 HOH B 30 730 36 HOH HOH . 
HA 7 HOH B 31 731 52 HOH HOH . 
HA 7 HOH B 32 732 58 HOH HOH . 
IA 7 HOH C 1 701 63 HOH HOH . 
IA 7 HOH C 2 702 99 HOH HOH . 
IA 7 HOH C 3 703 76 HOH HOH . 
IA 7 HOH C 4 704 95 HOH HOH . 
IA 7 HOH C 5 705 88 HOH HOH . 
IA 7 HOH C 6 706 91 HOH HOH . 
IA 7 HOH C 7 707 44 HOH HOH . 
IA 7 HOH C 8 708 35 HOH HOH . 
IA 7 HOH C 9 709 45 HOH HOH . 
IA 7 HOH C 10 710 8 HOH HOH . 
IA 7 HOH C 11 711 38 HOH HOH . 
IA 7 HOH C 12 712 87 HOH HOH . 
IA 7 HOH C 13 713 22 HOH HOH . 
IA 7 HOH C 14 714 69 HOH HOH . 
IA 7 HOH C 15 715 102 HOH HOH . 
JA 7 HOH D 1 701 64 HOH HOH . 
JA 7 HOH D 2 702 18 HOH HOH . 
JA 7 HOH D 3 703 3 HOH HOH . 
JA 7 HOH D 4 704 93 HOH HOH . 
JA 7 HOH D 5 705 53 HOH HOH . 
JA 7 HOH D 6 706 17 HOH HOH . 
JA 7 HOH D 7 707 14 HOH HOH . 
JA 7 HOH D 8 708 96 HOH HOH . 
JA 7 HOH D 9 709 98 HOH HOH . 
JA 7 HOH D 10 710 46 HOH HOH . 
JA 7 HOH D 11 711 81 HOH HOH . 
JA 7 HOH D 12 712 4 HOH HOH . 
JA 7 HOH D 13 713 12 HOH HOH . 
JA 7 HOH D 14 714 103 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 . . . F 3 -17.601 11.981 -59.452 1 52.41 ? C1 GOL 602 A 1 
HETATM 2 O O1 GOL . . . F 3 -16.608 11.012 -59.446 1 58.7 ? O1 GOL 602 A 1 
HETATM 3 C C2 GOL . . . F 3 -17.639 12.566 -58.036 1 65.86 ? C2 GOL 602 A 1 
HETATM 4 O O2 GOL . . . F 3 -16.482 13.274 -57.74 1 67.46 ? O2 GOL 602 A 1 
HETATM 5 C C3 GOL . . . F 3 -18.906 13.451 -57.998 1 65.31 ? C3 GOL 602 A 1 
HETATM 6 O O3 GOL . . . F 3 -18.5 14.739 -58.34 1 64.94 ? O3 GOL 602 A 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           28 
_model_server_stats.create_model_time_ms    48 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           6 
#