data_1S3S
#
_model_server_result.job_id            mw4Un1mcVpn5Ze-sOTrgLw 
_model_server_result.datetime_utc      '2024-11-16 10:04:58' 
_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          1s3s 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":800}' 
#
_entry.id    1S3S 
#
_exptl.entry_id    1S3S 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    6 
_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         120 
_cell.entry_id            1S3S 
_cell.length_a            157.719 
_cell.length_b            157.719 
_cell.length_c            243.195 
_cell.Z_PDB               36 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1S3S 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    nonameric 
_pdbx_struct_assembly.oligomeric_count      9 
_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 
_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 J N N 
? 3 K N N 
? 3 L N N 
? 3 M N N 
? 3 N N N 
? 3 O N N 
#
_chem_comp.formula           'C10 H15 N5 O10 P2' 
_chem_comp.formula_weight    427.201 
_chem_comp.id                ADP 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              "ADENOSINE-5'-DIPHOSPHATE" 
_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
PB O1B ADP doub 1 n n 
PB O2B ADP sing 2 n n 
PB O3B ADP sing 3 n n 
PB O3A ADP sing 4 n n 
O2B HOB2 ADP sing 5 n n 
O3B HOB3 ADP sing 6 n n 
PA O1A ADP doub 7 n n 
PA O2A ADP sing 8 n n 
PA O3A ADP sing 9 n n 
PA O5' ADP sing 10 n n 
O2A HOA2 ADP sing 11 n n 
O5' C5' ADP sing 12 n n 
C5' C4' ADP sing 13 n n 
C5' "H5'1" ADP sing 14 n n 
C5' "H5'2" ADP sing 15 n n 
C4' O4' ADP sing 16 n n 
C4' C3' ADP sing 17 n n 
C4' H4' ADP sing 18 n n 
O4' C1' ADP sing 19 n n 
C3' O3' ADP sing 20 n n 
C3' C2' ADP sing 21 n n 
C3' H3' ADP sing 22 n n 
O3' HO3' ADP sing 23 n n 
C2' O2' ADP sing 24 n n 
C2' C1' ADP sing 25 n n 
C2' H2' ADP sing 26 n n 
O2' HO2' ADP sing 27 n n 
C1' N9 ADP sing 28 n n 
C1' H1' ADP sing 29 n n 
N9 C8 ADP sing 30 n y 
N9 C4 ADP sing 31 n y 
C8 N7 ADP doub 32 n y 
C8 H8 ADP sing 33 n n 
N7 C5 ADP sing 34 n y 
C5 C6 ADP sing 35 n y 
C5 C4 ADP doub 36 n y 
C6 N6 ADP sing 37 n n 
C6 N1 ADP doub 38 n y 
N6 HN61 ADP sing 39 n n 
N6 HN62 ADP sing 40 n n 
N1 C2 ADP sing 41 n y 
C2 N3 ADP doub 42 n y 
C2 H2 ADP sing 43 n n 
N3 C4 ADP sing 44 n y 
#
_atom_sites.entry_id                     1S3S 
_atom_sites.fract_transf_matrix[1][1]    0.00634 
_atom_sites.fract_transf_matrix[1][2]    0.003661 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007321 
_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]    0.004112 
_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
J 3 ADP A 1 800 800 ADP ADP . 
K 3 ADP B 1 801 801 ADP ADP . 
L 3 ADP C 1 802 802 ADP ADP . 
M 3 ADP D 1 803 803 ADP ADP . 
N 3 ADP E 1 804 804 ADP ADP . 
O 3 ADP F 1 805 805 ADP ADP . 
P 4 HOH A 1 801 1 HOH WAT . 
P 4 HOH A 2 802 13 HOH WAT . 
P 4 HOH A 3 803 17 HOH WAT . 
P 4 HOH A 4 804 19 HOH WAT . 
P 4 HOH A 5 805 22 HOH WAT . 
P 4 HOH A 6 806 32 HOH WAT . 
P 4 HOH A 7 807 33 HOH WAT . 
P 4 HOH A 8 808 36 HOH WAT . 
P 4 HOH A 9 809 39 HOH WAT . 
P 4 HOH A 10 810 40 HOH WAT . 
P 4 HOH A 11 811 45 HOH WAT . 
P 4 HOH A 12 812 48 HOH WAT . 
P 4 HOH A 13 813 49 HOH WAT . 
P 4 HOH A 14 814 63 HOH WAT . 
Q 4 HOH B 1 802 5 HOH WAT . 
Q 4 HOH B 2 803 12 HOH WAT . 
Q 4 HOH B 3 804 16 HOH WAT . 
Q 4 HOH B 4 805 18 HOH WAT . 
Q 4 HOH B 5 806 20 HOH WAT . 
Q 4 HOH B 6 807 21 HOH WAT . 
Q 4 HOH B 7 808 42 HOH WAT . 
Q 4 HOH B 8 809 43 HOH WAT . 
Q 4 HOH B 9 810 46 HOH WAT . 
Q 4 HOH B 10 811 51 HOH WAT . 
R 4 HOH C 1 803 14 HOH WAT . 
R 4 HOH C 2 804 37 HOH WAT . 
R 4 HOH C 3 805 41 HOH WAT . 
R 4 HOH C 4 806 57 HOH WAT . 
R 4 HOH C 5 807 58 HOH WAT . 
R 4 HOH C 6 808 59 HOH WAT . 
S 4 HOH D 1 804 15 HOH WAT . 
S 4 HOH D 2 805 23 HOH WAT . 
S 4 HOH D 3 806 25 HOH WAT . 
S 4 HOH D 4 807 28 HOH WAT . 
S 4 HOH D 5 808 38 HOH WAT . 
S 4 HOH D 6 809 47 HOH WAT . 
S 4 HOH D 7 810 67 HOH WAT . 
T 4 HOH E 1 805 2 HOH WAT . 
T 4 HOH E 2 806 29 HOH WAT . 
T 4 HOH E 3 807 30 HOH WAT . 
T 4 HOH E 4 808 34 HOH WAT . 
T 4 HOH E 5 809 35 HOH WAT . 
T 4 HOH E 6 810 56 HOH WAT . 
U 4 HOH F 1 806 3 HOH WAT . 
U 4 HOH F 2 807 7 HOH WAT . 
U 4 HOH F 3 808 10 HOH WAT . 
U 4 HOH F 4 809 26 HOH WAT . 
U 4 HOH F 5 810 27 HOH WAT . 
U 4 HOH F 6 811 31 HOH WAT . 
U 4 HOH F 7 812 44 HOH WAT . 
U 4 HOH F 8 813 50 HOH WAT . 
U 4 HOH F 9 814 53 HOH WAT . 
U 4 HOH F 10 815 54 HOH WAT . 
U 4 HOH F 11 816 60 HOH WAT . 
U 4 HOH F 12 817 61 HOH WAT . 
U 4 HOH F 13 818 62 HOH WAT . 
U 4 HOH F 14 819 64 HOH WAT . 
V 4 HOH G 1 52 52 HOH WAT . 
V 4 HOH G 2 65 65 HOH WAT . 
W 4 HOH H 1 4 4 HOH WAT . 
W 4 HOH H 2 68 68 HOH WAT . 
W 4 HOH H 3 69 69 HOH WAT . 
X 4 HOH I 1 8 8 HOH WAT . 
#
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 P PB ADP . . . J 3 37.438 -32.727 17.674 1 61.18 ? PB ADP 800 A 1 
HETATM 2 O O1B ADP . . . J 3 37.089 -31.717 18.698 1 61.18 ? O1B ADP 800 A 1 
HETATM 3 O O2B ADP . . . J 3 37.625 -32.019 16.259 1 61.18 ? O2B ADP 800 A 1 
HETATM 4 O O3B ADP . . . J 3 36.412 -33.792 17.633 1 61.18 ? O3B ADP 800 A 1 
HETATM 5 P PA ADP . . . J 3 39.869 -33.158 19.105 1 61.18 ? PA ADP 800 A 1 
HETATM 6 O O1A ADP . . . J 3 40.318 -31.78 19.188 1 61.18 ? O1A ADP 800 A 1 
HETATM 7 O O2A ADP . . . J 3 39.278 -33.55 20.37 1 61.18 ? O2A ADP 800 A 1 
HETATM 8 O O3A ADP . . . J 3 38.845 -33.34 17.953 1 61.18 ? O3A ADP 800 A 1 
HETATM 9 O O5' ADP . . . J 3 41.062 -34.101 18.874 1 61.18 ? O5' ADP 800 A 1 
HETATM 10 C C5' ADP . . . J 3 41.33 -35.042 17.863 1 61.18 ? C5' ADP 800 A 1 
HETATM 11 C C4' ADP . . . J 3 42.736 -35.575 18.275 1 61.18 ? C4' ADP 800 A 1 
HETATM 12 O O4' ADP . . . J 3 43.439 -35.819 17.054 1 61.18 ? O4' ADP 800 A 1 
HETATM 13 C C3' ADP . . . J 3 43.632 -34.561 19.034 1 61.18 ? C3' ADP 800 A 1 
HETATM 14 O O3' ADP . . . J 3 43.614 -34.697 20.461 1 61.18 ? O3' ADP 800 A 1 
HETATM 15 C C2' ADP . . . J 3 45.005 -34.733 18.451 1 61.18 ? C2' ADP 800 A 1 
HETATM 16 O O2' ADP . . . J 3 45.831 -35.662 19.169 1 61.18 ? O2' ADP 800 A 1 
HETATM 17 C C1' ADP . . . J 3 44.688 -35.088 17.009 1 61.18 ? C1' ADP 800 A 1 
HETATM 18 N N9 ADP . . . J 3 44.555 -33.859 16.14 1 61.18 ? N9 ADP 800 A 1 
HETATM 19 C C8 ADP . . . J 3 43.396 -33.317 15.692 1 61.18 ? C8 ADP 800 A 1 
HETATM 20 N N7 ADP . . . J 3 43.644 -32.251 14.969 1 61.18 ? N7 ADP 800 A 1 
HETATM 21 C C5 ADP . . . J 3 44.934 -32.076 14.926 1 61.18 ? C5 ADP 800 A 1 
HETATM 22 C C6 ADP . . . J 3 45.778 -31.147 14.34 1 61.18 ? C6 ADP 800 A 1 
HETATM 23 N N6 ADP . . . J 3 45.257 -30.153 13.625 1 61.18 ? N6 ADP 800 A 1 
HETATM 24 N N1 ADP . . . J 3 47.146 -31.255 14.496 1 61.18 ? N1 ADP 800 A 1 
HETATM 25 C C2 ADP . . . J 3 47.713 -32.258 15.222 1 61.18 ? C2 ADP 800 A 1 
HETATM 26 N N3 ADP . . . J 3 46.899 -33.166 15.802 1 61.18 ? N3 ADP 800 A 1 
HETATM 27 C C4 ADP . . . J 3 45.536 -33.115 15.684 1 61.18 ? C4 ADP 800 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           27 
#