data_3LA6
#
_model_server_result.job_id            5c3YYrIQh0EUbU82iDhw0w 
_model_server_result.datetime_utc      '2025-03-01 07:03:21' 
_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          3la6 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"SA","auth_seq_id":1000}' 
#
_entry.id    3LA6 
#
_exptl.entry_id    3LA6 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              427.201 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-DIPHOSPHATE" 
_entity.pdbx_number_of_molecules    16 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          92.99 
_cell.angle_gamma         90 
_cell.entry_id            3LA6 
_cell.length_a            245.165 
_cell.length_b            137.782 
_cell.length_c            158.958 
_cell.Z_PDB               64 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3LA6 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
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 octameric 8 author_and_software_defined_assembly 1 
PISA octameric 8 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA 1 1 
I,J,K,L,M,N,O,P,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA 2 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
? 2 Q N N 
? 2 S N N 
? 2 U N N 
? 2 W N N 
? 2 Y N N 
? 2 AA N N 
? 2 CA N N 
? 2 EA N N 
? 2 GA N N 
? 2 IA N N 
? 2 KA N N 
? 2 MA N N 
? 2 OA N N 
? 2 QA N N 
? 2 SA N N 
? 2 UA 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 OG1 THR 107 A THR 541 1_555 R CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? 
metalc ? metalc2 Q O2B ADP . A ADP 1000 1_555 R CA CA . A CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? 
metalc ? metalc3 B OG1 THR 107 B THR 541 1_555 T CA CA . B CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc4 S O2B ADP . B ADP 1000 1_555 T CA CA . B CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.548 ? 
metalc ? metalc5 C OG1 THR 107 C THR 541 1_555 V CA CA . C CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? 
metalc ? metalc6 U O2B ADP . C ADP 1000 1_555 V CA CA . C CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc7 U O3B ADP . C ADP 1000 1_555 V CA CA . C CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.132 ? 
metalc ? metalc8 D OG1 THR 107 D THR 541 1_555 X CA CA . D CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? 
metalc ? metalc9 W O3B ADP . D ADP 1000 1_555 X CA CA . D CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.45 ? 
metalc ? metalc10 E OG1 THR 107 E THR 541 1_555 Z CA CA . E CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc11 Y O3B ADP . E ADP 1000 1_555 Z CA CA . E CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? 
metalc ? metalc12 F OG1 THR 107 F THR 541 1_555 BA CA CA . F CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? 
metalc ? metalc13 AA O2B ADP . F ADP 1000 1_555 BA CA CA . F CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? 
metalc ? metalc14 G OG1 THR 107 G THR 541 1_555 DA CA CA . G CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc15 CA O3B ADP . G ADP 1000 1_555 DA CA CA . G CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? 
metalc ? metalc16 H OG1 THR 107 H THR 541 1_555 FA CA CA . H CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc17 EA O3B ADP . H ADP 1000 1_555 FA CA CA . H CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? 
metalc ? metalc18 I OG1 THR 107 I THR 541 1_555 HA CA CA . I CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc19 GA O2B ADP . I ADP 1000 1_555 HA CA CA . I CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.55 ? 
metalc ? metalc20 J OG1 THR 107 J THR 541 1_555 JA CA CA . J CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc21 IA O2B ADP . J ADP 1000 1_555 JA CA CA . J CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc22 K OG1 THR 107 K THR 541 1_555 LA CA CA . K CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? 
metalc ? metalc23 KA O2B ADP . K ADP 1000 1_555 LA CA CA . K CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.566 ? 
metalc ? metalc24 L OG1 THR 107 L THR 541 1_555 NA CA CA . L CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc25 MA O3B ADP . L ADP 1000 1_555 NA CA CA . L CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? 
metalc ? metalc26 M OG1 THR 107 M THR 541 1_555 PA CA CA . M CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc27 OA O3B ADP . M ADP 1000 1_555 PA CA CA . M CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? 
metalc ? metalc28 N OG1 THR 107 N THR 541 1_555 RA CA CA . N CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? 
metalc ? metalc29 QA O3B ADP . N ADP 1000 1_555 RA CA CA . N CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? 
metalc ? metalc30 O OG1 THR 107 O THR 541 1_555 TA CA CA . O CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? 
metalc ? metalc31 SA O3B ADP . O ADP 1000 1_555 TA CA CA . O CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? 
metalc ? metalc32 P OG1 THR 107 P THR 541 1_555 VA CA CA . P CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? 
metalc ? metalc33 UA O2B ADP . P ADP 1000 1_555 VA CA CA . P CA 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? 
#
_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                     3LA6 
_atom_sites.fract_transf_matrix[1][1]    0.004079 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000213 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007258 
_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]    0.0063 
_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
Q 2 ADP A 1 1000 1000 ADP ADP . 
R 3 CA A 1 1001 1001 CA CA . 
S 2 ADP B 1 1000 1000 ADP ADP . 
T 3 CA B 1 1001 1001 CA CA . 
U 2 ADP C 1 1000 1000 ADP ADP . 
V 3 CA C 1 1001 1001 CA CA . 
W 2 ADP D 1 1000 1000 ADP ADP . 
X 3 CA D 1 1001 1001 CA CA . 
Y 2 ADP E 1 1000 1000 ADP ADP . 
Z 3 CA E 1 1001 1001 CA CA . 
AA 2 ADP F 1 1000 1000 ADP ADP . 
BA 3 CA F 1 1001 1001 CA CA . 
CA 2 ADP G 1 1000 1000 ADP ADP . 
DA 3 CA G 1 1001 1001 CA CA . 
EA 2 ADP H 1 1000 1000 ADP ADP . 
FA 3 CA H 1 1001 1001 CA CA . 
GA 2 ADP I 1 1000 1000 ADP ADP . 
HA 3 CA I 1 1001 1001 CA CA . 
IA 2 ADP J 1 1000 1000 ADP ADP . 
JA 3 CA J 1 1001 1001 CA CA . 
KA 2 ADP K 1 1000 1000 ADP ADP . 
LA 3 CA K 1 1001 1001 CA CA . 
MA 2 ADP L 1 1000 1000 ADP ADP . 
NA 3 CA L 1 1001 1001 CA CA . 
OA 2 ADP M 1 1000 1000 ADP ADP . 
PA 3 CA M 1 1001 1001 CA CA . 
QA 2 ADP N 1 1000 1000 ADP ADP . 
RA 3 CA N 1 1001 1001 CA CA . 
SA 2 ADP O 1 1000 1000 ADP ADP . 
TA 3 CA O 1 1001 1001 CA CA . 
UA 2 ADP P 1 1000 1000 ADP ADP . 
VA 3 CA P 1 1001 1001 CA CA . 
#
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 . . . SA 2 16.664 33.349 -42.963 1 60.27 ? PB ADP 1000 O 1 
HETATM 2 O O1B ADP . . . SA 2 16.721 33.997 -44.383 1 60.82 ? O1B ADP 1000 O 1 
HETATM 3 O O2B ADP . . . SA 2 18.032 32.842 -42.578 1 62.25 ? O2B ADP 1000 O 1 
HETATM 4 O O3B ADP . . . SA 2 16.254 34.523 -42.03 1 61.13 ? O3B ADP 1000 O 1 
HETATM 5 P PA ADP . . . SA 2 14.324 31.846 -42.425 1 58.99 ? PA ADP 1000 O 1 
HETATM 6 O O1A ADP . . . SA 2 13.276 32.733 -43.162 1 57.73 ? O1A ADP 1000 O 1 
HETATM 7 O O2A ADP . . . SA 2 14.201 31.971 -40.922 1 60.19 ? O2A ADP 1000 O 1 
HETATM 8 O O3A ADP . . . SA 2 15.775 32.067 -42.932 1 60.78 ? O3A ADP 1000 O 1 
HETATM 9 O O5' ADP . . . SA 2 14.021 30.318 -42.75 1 60.8 ? O5' ADP 1000 O 1 
HETATM 10 C C5' ADP . . . SA 2 13.783 30.059 -44.111 1 58.62 ? C5' ADP 1000 O 1 
HETATM 11 C C4' ADP . . . SA 2 12.899 28.858 -44.22 1 58.24 ? C4' ADP 1000 O 1 
HETATM 12 O O4' ADP . . . SA 2 13.519 27.751 -43.578 1 58.46 ? O4' ADP 1000 O 1 
HETATM 13 C C3' ADP . . . SA 2 11.537 29.035 -43.605 1 59.05 ? C3' ADP 1000 O 1 
HETATM 14 O O3' ADP . . . SA 2 10.485 28.558 -44.463 1 60.64 ? O3' ADP 1000 O 1 
HETATM 15 C C2' ADP . . . SA 2 11.685 28.325 -42.265 1 59.07 ? C2' ADP 1000 O 1 
HETATM 16 O O2' ADP . . . SA 2 10.368 27.886 -41.815 1 61.53 ? O2' ADP 1000 O 1 
HETATM 17 C C1' ADP . . . SA 2 12.587 27.163 -42.679 1 58.32 ? C1' ADP 1000 O 1 
HETATM 18 N N9 ADP . . . SA 2 13.357 26.59 -41.598 1 57.26 ? N9 ADP 1000 O 1 
HETATM 19 C C8 ADP . . . SA 2 14.408 27.172 -40.923 1 57.34 ? C8 ADP 1000 O 1 
HETATM 20 N N7 ADP . . . SA 2 14.912 26.387 -39.995 1 55.86 ? N7 ADP 1000 O 1 
HETATM 21 C C5 ADP . . . SA 2 14.148 25.224 -40.037 1 55.79 ? C5 ADP 1000 O 1 
HETATM 22 C C6 ADP . . . SA 2 14.171 23.99 -39.268 1 55.65 ? C6 ADP 1000 O 1 
HETATM 23 N N6 ADP . . . SA 2 15.043 23.727 -38.26 1 55.38 ? N6 ADP 1000 O 1 
HETATM 24 N N1 ADP . . . SA 2 13.249 23.02 -39.574 1 55.92 ? N1 ADP 1000 O 1 
HETATM 25 C C2 ADP . . . SA 2 12.322 23.259 -40.626 1 56.69 ? C2 ADP 1000 O 1 
HETATM 26 N N3 ADP . . . SA 2 12.182 24.381 -41.428 1 56.34 ? N3 ADP 1000 O 1 
HETATM 27 C C4 ADP . . . SA 2 13.142 25.328 -41.065 1 56.09 ? C4 ADP 1000 O 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    47 
_model_server_stats.query_time_ms           268 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           27 
#