data_8SRH
#
_model_server_result.job_id            n4nlFg-IjI1krRElYA4u7w 
_model_server_result.datetime_utc      '2024-12-27 14:50:37' 
_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          8srh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":1706}' 
#
_entry.id    8SRH 
#
_exptl.entry_id    8SRH 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ADENOSINE-5-DIPHOSPHORIBOSE 
_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            8SRH 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8SRH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_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,KA,LA,MA,NA 
_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    ? 
_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
? 2 E N N 
? 2 J N N 
? 2 N N N 
? 2 S N N 
? 2 W N N 
? 2 BA N N 
? 2 IA N N 
? 2 NA 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 997 A CYS 997 1_555 A SG CYS 1006 A CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 B SG CYS 997 B CYS 997 1_555 B SG CYS 1006 B CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf3 C SG CYS 997 C CYS 997 1_555 C SG CYS 1006 C CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf4 D SG CYS 997 D CYS 997 1_555 D SG CYS 1006 D CYS 1006 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc1 A OE2 GLU 850 A GLU 850 1_555 F MG MG . A MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? 
metalc ? metalc2 A OE1 GLN 853 A GLN 853 1_555 F MG MG . A MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc3 G MG MG . A MG 1703 1_555 J O1A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc4 G MG MG . A MG 1703 1_555 J O2B APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc5 H MG MG . A MG 1704 1_555 J O1A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc6 I MG MG . A MG 1705 1_555 J O2A APR . A APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc7 B OE2 GLU 850 B GLU 850 1_555 O MG MG . B MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? 
metalc ? metalc8 B OE1 GLN 853 B GLN 853 1_555 O MG MG . B MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc9 P MG MG . B MG 1703 1_555 S O1A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc10 P MG MG . B MG 1703 1_555 S O2B APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? 
metalc ? metalc11 Q MG MG . B MG 1704 1_555 S O1A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc12 R MG MG . B MG 1705 1_555 S O2A APR . B APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc13 C OE2 GLU 850 C GLU 850 1_555 X MG MG . C MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? 
metalc ? metalc14 C OE1 GLN 853 C GLN 853 1_555 X MG MG . C MG 1702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc15 Y MG MG . C MG 1703 1_555 BA O2B APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc16 Y MG MG . C MG 1703 1_555 BA O1A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc17 Z MG MG . C MG 1704 1_555 BA O1A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc18 AA MG MG . C MG 1705 1_555 BA O2A APR . C APR 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc19 D OE2 GLU 850 D GLU 850 1_555 JA MG MG . D MG 6005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.702 ? 
metalc ? metalc20 D OE1 GLN 853 D GLN 853 1_555 JA MG MG . D MG 6005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.547 ? 
metalc ? metalc21 KA MG MG . D MG 6006 1_555 NA O2B APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc22 KA MG MG . D MG 6006 1_555 NA O1A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? 
metalc ? metalc23 LA MG MG . D MG 6007 1_555 NA O1A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc24 MA MG MG . D MG 6008 1_555 NA O2A APR . D APR 6009 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                APR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ADENOSINE-5-DIPHOSPHORIBOSE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
N1 C2 APR sing 13 n y 
N1 C6 APR doub 14 n y 
C2 N3 APR doub 15 n y 
C2 H2 APR sing 16 n n 
N3 C4 APR sing 17 n y 
C4 C5 APR doub 18 n y 
C4 N9 APR sing 19 n y 
C5 C6 APR sing 20 n y 
C5 N7 APR sing 21 n y 
C6 N6 APR sing 22 n n 
N6 H61 APR sing 23 n n 
N6 H62 APR sing 24 n n 
N7 C8 APR doub 25 n y 
C8 N9 APR sing 26 n y 
C8 H8 APR sing 27 n n 
N9 C1' APR sing 28 n n 
C1' C2' APR sing 29 n n 
C1' O4' APR sing 30 n n 
C1' "H'1" APR sing 31 n n 
C2' O2' APR sing 32 n n 
C2' C3' APR sing 33 n n 
C2' "H'2" APR sing 34 n n 
O2' "HO'2" APR sing 35 n n 
C3' O3' APR sing 36 n n 
C3' C4' APR sing 37 n n 
C3' "H'3" APR sing 38 n n 
O3' "HO'3" APR sing 39 n n 
O4' C4' APR sing 40 n n 
C4' C5' APR sing 41 n n 
C4' "H'4" APR sing 42 n n 
C5' O5' APR sing 43 n n 
C5' "H5'1" APR sing 44 n n 
C5' "H5'2" APR sing 45 n n 
O5' PA APR sing 46 n n 
PA O1A APR doub 47 n n 
PA O2A APR sing 48 n n 
PA O3A APR sing 49 n n 
O2A HOA2 APR sing 50 n n 
O3A PB APR sing 51 n n 
PB O1B APR doub 52 n n 
PB O2B APR sing 53 n n 
PB O5D APR sing 54 n n 
O2B HOB2 APR sing 55 n n 
O5D C5D APR sing 56 n n 
C5D C4D APR sing 57 n n 
C5D H5R1 APR sing 58 n n 
C5D H5R2 APR sing 59 n n 
O4D C1D APR sing 60 n n 
O4D C4D APR sing 61 n n 
O1D C1D APR sing 62 n n 
O1D HOR1 APR sing 63 n n 
C1D C2D APR sing 64 n n 
C1D "HR'1" APR sing 65 n n 
O2D C2D APR sing 66 n n 
O2D HOR2 APR sing 67 n n 
C2D C3D APR sing 68 n n 
C2D "HR'2" APR sing 69 n n 
O3D C3D APR sing 70 n n 
O3D HOR3 APR sing 71 n n 
C3D C4D APR sing 72 n n 
C3D "HR'3" APR sing 73 n n 
C4D "HR'4" APR sing 74 n n 
#
_atom_sites.entry_id                     8SRH 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 APR A 1 1701 1701 APR APR . 
F 3 MG A 1 1702 3001 MG MG . 
G 3 MG A 1 1703 3101 MG MG . 
H 3 MG A 1 1704 3102 MG MG . 
I 3 MG A 1 1705 3103 MG MG . 
J 2 APR A 1 1706 1702 APR APR . 
K 4 CLR A 1 1707 6001 CLR CLR . 
L 4 CLR A 1 1708 6002 CLR CLR . 
M 4 CLR A 1 1709 6003 CLR CLR . 
N 2 APR B 1 1701 1701 APR APR . 
O 3 MG B 1 1702 3001 MG MG . 
P 3 MG B 1 1703 3101 MG MG . 
Q 3 MG B 1 1704 3102 MG MG . 
R 3 MG B 1 1705 3103 MG MG . 
S 2 APR B 1 1706 1702 APR APR . 
T 4 CLR B 1 1707 6001 CLR CLR . 
U 4 CLR B 1 1708 6002 CLR CLR . 
V 4 CLR B 1 1709 6003 CLR CLR . 
W 2 APR C 1 1701 1701 APR APR . 
X 3 MG C 1 1702 3001 MG MG . 
Y 3 MG C 1 1703 3101 MG MG . 
Z 3 MG C 1 1704 3102 MG MG . 
AA 3 MG C 1 1705 3103 MG MG . 
BA 2 APR C 1 1706 1702 APR APR . 
CA 4 CLR C 1 1707 6001 CLR CLR . 
DA 4 CLR C 1 1708 6002 CLR CLR . 
EA 4 CLR C 1 1709 6003 CLR CLR . 
FA 4 CLR D 1 6001 6001 CLR CLR . 
GA 4 CLR D 1 6002 6002 CLR CLR . 
HA 4 CLR D 1 6003 6003 CLR CLR . 
IA 2 APR D 1 6004 1701 APR APR . 
JA 3 MG D 1 6005 3001 MG MG . 
KA 3 MG D 1 6006 3101 MG MG . 
LA 3 MG D 1 6007 3102 MG MG . 
MA 3 MG D 1 6008 3103 MG MG . 
NA 2 APR D 1 6009 1702 APR APR . 
#
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 N N1 APR . . . S 2 203.933 223.411 265.409 1 166.8 ? N1 APR 1706 B 1 
HETATM 2 C C2 APR . . . S 2 204.476 223.949 264.306 1 166.8 ? C2 APR 1706 B 1 
HETATM 3 N N3 APR . . . S 2 203.804 224.736 263.452 1 166.8 ? N3 APR 1706 B 1 
HETATM 4 C C4 APR . . . S 2 202.5 225.046 263.646 1 166.8 ? C4 APR 1706 B 1 
HETATM 5 C C5 APR . . . S 2 201.841 224.493 264.84 1 166.8 ? C5 APR 1706 B 1 
HETATM 6 C C6 APR . . . S 2 202.646 223.636 265.735 1 166.8 ? C6 APR 1706 B 1 
HETATM 7 N N6 APR . . . S 2 202.099 223.093 266.845 1 166.8 ? N6 APR 1706 B 1 
HETATM 8 N N7 APR . . . S 2 200.574 224.929 264.831 1 166.8 ? N7 APR 1706 B 1 
HETATM 9 C C8 APR . . . S 2 200.429 225.697 263.729 1 166.8 ? C8 APR 1706 B 1 
HETATM 10 N N9 APR . . . S 2 201.568 225.78 263.021 1 166.8 ? N9 APR 1706 B 1 
HETATM 11 C C1' APR . . . S 2 201.661 226.571 261.764 1 166.8 ? C1' APR 1706 B 1 
HETATM 12 C C2' APR . . . S 2 202.961 226.394 260.997 1 166.8 ? C2' APR 1706 B 1 
HETATM 13 O O2' APR . . . S 2 203.566 227.665 260.763 1 166.8 ? O2' APR 1706 B 1 
HETATM 14 C C3' APR . . . S 2 202.586 225.756 259.68 1 166.8 ? C3' APR 1706 B 1 
HETATM 15 O O3' APR . . . S 2 202.77 226.7 258.624 1 166.8 ? O3' APR 1706 B 1 
HETATM 16 O O4' APR . . . S 2 200.606 226.14 260.906 1 166.8 ? O4' APR 1706 B 1 
HETATM 17 C C4' APR . . . S 2 201.119 225.4 259.8 1 166.8 ? C4' APR 1706 B 1 
HETATM 18 C C5' APR . . . S 2 200.948 223.914 260.063 1 166.8 ? C5' APR 1706 B 1 
HETATM 19 O O5' APR . . . S 2 200.04 223.352 259.121 1 166.8 ? O5' APR 1706 B 1 
HETATM 20 P PA APR . . . S 2 199.24 222.022 259.523 1 166.8 ? PA APR 1706 B 1 
HETATM 21 O O1A APR . . . S 2 198.368 221.606 258.364 1 166.8 ? O1A APR 1706 B 1 
HETATM 22 O O2A APR . . . S 2 198.619 222.253 260.879 1 166.8 ? O2A APR 1706 B 1 
HETATM 23 O O3A APR . . . S 2 200.422 220.951 259.72 1 166.8 ? O3A APR 1706 B 1 
HETATM 24 P PB APR . . . S 2 201.394 220.476 258.53 1 166.8 ? PB APR 1706 B 1 
HETATM 25 O O1B APR . . . S 2 202.799 220.897 258.877 1 166.8 ? O1B APR 1706 B 1 
HETATM 26 O O2B APR . . . S 2 200.812 220.865 257.195 1 166.8 ? O2B APR 1706 B 1 
HETATM 27 O O5D APR . . . S 2 201.314 218.879 258.674 1 166.8 ? O5D APR 1706 B 1 
HETATM 28 C C5D APR . . . S 2 201.959 218.228 259.764 1 166.8 ? C5D APR 1706 B 1 
HETATM 29 O O4D APR . . . S 2 202.937 216.04 259.44 1 166.8 ? O4D APR 1706 B 1 
HETATM 30 O O1D APR . . . S 2 204.359 215.011 260.992 1 166.8 ? O1D APR 1706 B 1 
HETATM 31 C C1D APR . . . S 2 203.095 214.932 260.331 1 166.8 ? C1D APR 1706 B 1 
HETATM 32 O O2D APR . . . S 2 201.236 213.803 261.378 1 166.8 ? O2D APR 1706 B 1 
HETATM 33 C C2D APR . . . S 2 201.995 215.014 261.369 1 166.8 ? C2D APR 1706 B 1 
HETATM 34 O O3D APR . . . S 2 199.794 215.693 260.746 1 166.8 ? O3D APR 1706 B 1 
HETATM 35 C C3D APR . . . S 2 201.12 216.176 260.959 1 166.8 ? C3D APR 1706 B 1 
HETATM 36 C C4D APR . . . S 2 201.707 216.73 259.672 1 166.8 ? C4D APR 1706 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    69 
_model_server_stats.query_time_ms           239 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           36 
#